eF-site ID 5d4h-ABC
PDB Code 5d4h
Chain A, B, C

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Title High-resolution nitrite complex of a copper nitrite reductase determined by synchrotron radiation crystallography
Classification OXIDOREDUCTASE
Compound Copper-containing nitrite reductase
Source (NIR_ALCFA)
Sequence A:  ATAAEIAALPRQKVELVDPPFVHAHSQVAEGGPKVVEFTM
VIEEKKIVIDDAGTEVHAMAFNGTVPGPLMVVHQDDYLEL
TLINPETNTLMHNIDFHAATGALGGGGLTEINPGEKTILR
FKATKPGVFVYHCAPPGMVPWHVVSGMNGAIMVLPREGLH
DGKGKALTYDKIYYVGEQDFYVPRDENGKYKKYEAPGDAY
EDTVKVMRTLTPTHVVFNGAVGALTGDKAMTAAVGEKVLI
VHSQANRDTRPHLIGGHGDYVWATGKFNTPPDVDQETWFI
PGGAAGAAFYTFQQPGIYAYVNHNLIEAFELGAAAHFKVT
GEWNDDLMTSVLAPSGT
B:  ATAAEIAALPRQKVELVDPPFVHAHSQVAEGGPKVVEFTM
VIEEKKIVIDDAGTEVHAMAFNGTVPGPLMVVHQDDYLEL
TLINPETNTLMHNIDFHAATGALGGGGLTEINPGEKTILR
FKATKPGVFVYHCAPPGMVPWHVVSGMNGAIMVLPREGLH
DGKGKALTYDKIYYVGEQDFYVPRDENGKYKKYEAPGDAY
EDTVKVMRTLTPTHVVFNGAVGALTGDKAMTAAVGEKVLI
VHSQANRDTRPHLIGGHGDYVWATGKFNTPPDVDQETWFI
PGGAAGAAFYTFQQPGIYAYVNHNLIEAFELGAAAHFKVT
GEWNDDLMTSVLAPSGTLVPR
C:  ATAAEIAALPRQKVELVDPPFVHAHSQVAEGGPKVVEFTM
VIEEKKIVIDDAGTEVHAMAFNGTVPGPLMVVHQDDYLEL
TLINPETNTLMHNIDFHAATGALGGGGLTEINPGEKTILR
FKATKPGVFVYHCAPPGMVPWHVVSGMNGAIMVLPREGLH
DGKGKALTYDKIYYVGEQDFYVPRDENGKYKKYEAPGDAY
EDTVKVMRTLTPTHVVFNGAVGALTGDKAMTAAVGEKVLI
VHSQANRDTRPHLIGGHGDYVWATGKFNTPPDVDQETWFI
PGGAAGAAFYTFQQPGIYAYVNHNLIEAFELGAAAHFKVT
GEWNDDLMTSVLAPSGTLV
Description


Functional site

1) chain A
residue 95
type
sequence H
description binding site for residue CU A 501
source : AC1

2) chain A
residue 136
type
sequence C
description binding site for residue CU A 501
source : AC1

3) chain A
residue 145
type
sequence H
description binding site for residue CU A 501
source : AC1

4) chain A
residue 150
type
sequence M
description binding site for residue CU A 501
source : AC1

5) chain A
residue 98
type
sequence D
description binding site for residue CU A 502
source : AC2

6) chain A
residue 100
type
sequence H
description binding site for residue CU A 502
source : AC2

7) chain A
residue 135
type
sequence H
description binding site for residue CU A 502
source : AC2

8) chain C
residue 306
type
sequence H
description binding site for residue CU A 502
source : AC2

9) chain A
residue 98
type
sequence D
description binding site for residue NO2 A 503
source : AC3

10) chain A
residue 100
type
sequence H
description binding site for residue NO2 A 503
source : AC3

11) chain A
residue 135
type
sequence H
description binding site for residue NO2 A 503
source : AC3

12) chain C
residue 255
type
sequence H
description binding site for residue NO2 A 503
source : AC3

13) chain C
residue 257
type
sequence I
description binding site for residue NO2 A 503
source : AC3

14) chain C
residue 306
type
sequence H
description binding site for residue NO2 A 503
source : AC3

15) chain C
residue 308
type
sequence L
description binding site for residue NO2 A 503
source : AC3

16) chain A
residue 255
type
sequence H
description binding site for residue NO2 A 504
source : AC4

17) chain A
residue 257
type
sequence I
description binding site for residue NO2 A 504
source : AC4

18) chain A
residue 306
type
sequence H
description binding site for residue NO2 A 504
source : AC4

19) chain A
residue 308
type
sequence L
description binding site for residue NO2 A 504
source : AC4

20) chain B
residue 98
type
sequence D
description binding site for residue NO2 A 504
source : AC4

21) chain B
residue 100
type
sequence H
description binding site for residue NO2 A 504
source : AC4

22) chain B
residue 135
type
sequence H
description binding site for residue NO2 A 504
source : AC4

23) chain A
residue 52
type
sequence I
description binding site for residue GOL A 505
source : AC5

24) chain A
residue 53
type
sequence D
description binding site for residue GOL A 505
source : AC5

25) chain A
residue 54
type
sequence D
description binding site for residue GOL A 505
source : AC5

26) chain A
residue 224
type
sequence V
description binding site for residue GOL A 505
source : AC5

27) chain A
residue 193
type
sequence Y
description binding site for residue GOL A 506
source : AC6

28) chain A
residue 216
type
sequence T
description binding site for residue GOL A 506
source : AC6

29) chain A
residue 217
type
sequence H
description binding site for residue GOL A 506
source : AC6

30) chain A
residue 313
type
sequence E
description binding site for residue GOL A 506
source : AC6

31) chain A
residue 314
type
sequence L
description binding site for residue GOL A 506
source : AC6

32) chain B
residue 211
type
sequence R
description binding site for residue GOL A 506
source : AC6

33) chain A
residue 142
type
sequence V
description binding site for residue GOL A 507
source : AC7

34) chain C
residue 302
type
sequence A
description binding site for residue GOL A 507
source : AC7

35) chain A
residue 213
type
sequence L
description binding site for residue GOL A 508
source : AC8

36) chain A
residue 250
type
sequence R
description binding site for residue GOL A 508
source : AC8

37) chain C
residue 253
type
sequence R
description binding site for residue GOL A 508
source : AC8

38) chain C
residue 307
type
sequence N
description binding site for residue GOL A 508
source : AC8

39) chain C
residue 310
type
sequence E
description binding site for residue GOL A 508
source : AC8

40) chain A
residue 230
type
sequence D
description binding site for residue GOL A 509
source : AC9

41) chain A
residue 231
type
sequence K
description binding site for residue GOL A 509
source : AC9

42) chain A
residue 229
type
sequence G
description binding site for residue GOL A 510
source : AD1

43) chain A
residue 230
type
sequence D
description binding site for residue GOL A 510
source : AD1

44) chain A
residue 232
type
sequence A
description binding site for residue GOL A 510
source : AD1

45) chain A
residue 234
type
sequence T
description binding site for residue GOL A 510
source : AD1

46) chain A
residue 321
type
sequence K
description binding site for residue GOL A 510
source : AD1

47) chain A
residue 24
type
sequence F
description binding site for residue GOL A 511
source : AD2

48) chain A
residue 25
type
sequence V
description binding site for residue GOL A 511
source : AD2

49) chain A
residue 174
type
sequence K
description binding site for residue GOL A 511
source : AD2

50) chain A
residue 175
type
sequence I
description binding site for residue GOL A 511
source : AD2

51) chain A
residue 174
type
sequence K
description binding site for residue GOL A 512
source : AD3

52) chain A
residue 234
type
sequence T
description binding site for residue GOL A 512
source : AD3

53) chain A
residue 46
type
sequence E
description binding site for residue GOL A 513
source : AD4

54) chain A
residue 48
type
sequence K
description binding site for residue GOL A 513
source : AD4

55) chain A
residue 326
type
sequence W
description binding site for residue GOL A 514
source : AD5

56) chain A
residue 332
type
sequence T
description binding site for residue GOL A 514
source : AD5

57) chain A
residue 333
type
sequence S
description binding site for residue GOL A 514
source : AD5

58) chain A
residue 140
type
sequence G
description binding site for residue ACY A 516
source : AD7

59) chain A
residue 141
type
sequence M
description binding site for residue ACY A 516
source : AD7

60) chain A
residue 142
type
sequence V
description binding site for residue ACY A 516
source : AD7

61) chain A
residue 143
type
sequence P
description binding site for residue ACY A 516
source : AD7

62) chain A
residue 144
type
sequence W
description binding site for residue ACY A 516
source : AD7

63) chain C
residue 313
type
sequence E
description binding site for residue ACY A 516
source : AD7

64) chain B
residue 95
type
sequence H
description binding site for residue CU B 501
source : AD8

65) chain B
residue 136
type
sequence C
description binding site for residue CU B 501
source : AD8

66) chain B
residue 145
type
sequence H
description binding site for residue CU B 501
source : AD8

67) chain B
residue 150
type
sequence M
description binding site for residue CU B 501
source : AD8

68) chain A
residue 306
type
sequence H
description binding site for residue CU B 502
source : AD9

69) chain B
residue 98
type
sequence D
description binding site for residue CU B 502
source : AD9

70) chain B
residue 100
type
sequence H
description binding site for residue CU B 502
source : AD9

71) chain B
residue 135
type
sequence H
description binding site for residue CU B 502
source : AD9

72) chain B
residue 255
type
sequence H
description binding site for residue NO2 B 503
source : AE1

73) chain B
residue 257
type
sequence I
description binding site for residue NO2 B 503
source : AE1

74) chain B
residue 306
type
sequence H
description binding site for residue NO2 B 503
source : AE1

75) chain C
residue 98
type
sequence D
description binding site for residue NO2 B 503
source : AE1

76) chain C
residue 100
type
sequence H
description binding site for residue NO2 B 503
source : AE1

77) chain C
residue 135
type
sequence H
description binding site for residue NO2 B 503
source : AE1

78) chain A
residue 302
type
sequence A
description binding site for residue GOL B 504
source : AE2

79) chain B
residue 139
type
sequence P
description binding site for residue GOL B 504
source : AE2

80) chain B
residue 142
type
sequence V
description binding site for residue GOL B 504
source : AE2

81) chain B
residue 59
type
sequence V
description binding site for residue GOL B 505
source : AE3

82) chain B
residue 147
type
sequence V
description binding site for residue GOL B 505
source : AE3

83) chain B
residue 148
type
sequence S
description binding site for residue GOL B 505
source : AE3

84) chain B
residue 183
type
sequence F
description binding site for residue GOL B 505
source : AE3

85) chain B
residue 184
type
sequence Y
description binding site for residue GOL B 505
source : AE3

86) chain B
residue 206
type
sequence T
description binding site for residue GOL B 505
source : AE3

87) chain B
residue 326
type
sequence W
description binding site for residue GOL B 506
source : AE4

88) chain B
residue 332
type
sequence T
description binding site for residue GOL B 506
source : AE4

89) chain B
residue 333
type
sequence S
description binding site for residue GOL B 506
source : AE4

90) chain B
residue 193
type
sequence Y
description binding site for residue GOL B 507
source : AE5

91) chain B
residue 216
type
sequence T
description binding site for residue GOL B 507
source : AE5

92) chain B
residue 217
type
sequence H
description binding site for residue GOL B 507
source : AE5

93) chain B
residue 224
type
sequence V
description binding site for residue GOL B 507
source : AE5

94) chain B
residue 313
type
sequence E
description binding site for residue GOL B 507
source : AE5

95) chain B
residue 314
type
sequence L
description binding site for residue GOL B 507
source : AE5

96) chain C
residue 211
type
sequence R
description binding site for residue GOL B 507
source : AE5

97) chain A
residue 313
type
sequence E
description binding site for residue ACY B 508
source : AE6

98) chain B
residue 140
type
sequence G
description binding site for residue ACY B 508
source : AE6

99) chain B
residue 141
type
sequence M
description binding site for residue ACY B 508
source : AE6

100) chain B
residue 142
type
sequence V
description binding site for residue ACY B 508
source : AE6

101) chain B
residue 143
type
sequence P
description binding site for residue ACY B 508
source : AE6

102) chain B
residue 144
type
sequence W
description binding site for residue ACY B 508
source : AE6

103) chain B
residue 210
type
sequence M
description binding site for residue ACY B 508
source : AE6

104) chain C
residue 95
type
sequence H
description binding site for residue CU C 501
source : AE7

105) chain C
residue 136
type
sequence C
description binding site for residue CU C 501
source : AE7

106) chain C
residue 145
type
sequence H
description binding site for residue CU C 501
source : AE7

107) chain C
residue 150
type
sequence M
description binding site for residue CU C 501
source : AE7

108) chain B
residue 306
type
sequence H
description binding site for residue CU C 502
source : AE8

109) chain C
residue 98
type
sequence D
description binding site for residue CU C 502
source : AE8

110) chain C
residue 100
type
sequence H
description binding site for residue CU C 502
source : AE8

111) chain C
residue 135
type
sequence H
description binding site for residue CU C 502
source : AE8

112) chain A
residue 212
type
sequence T
description binding site for residue GOL C 503
source : AE9

113) chain A
residue 213
type
sequence L
description binding site for residue GOL C 503
source : AE9

114) chain A
residue 214
type
sequence T
description binding site for residue GOL C 503
source : AE9

115) chain B
residue 212
type
sequence T
description binding site for residue GOL C 503
source : AE9

116) chain B
residue 213
type
sequence L
description binding site for residue GOL C 503
source : AE9

117) chain B
residue 214
type
sequence T
description binding site for residue GOL C 503
source : AE9

118) chain C
residue 212
type
sequence T
description binding site for residue GOL C 503
source : AE9

119) chain C
residue 213
type
sequence L
description binding site for residue GOL C 503
source : AE9

120) chain C
residue 214
type
sequence T
description binding site for residue GOL C 503
source : AE9

121) chain C
residue 139
type
sequence P
description binding site for residue GOL C 504
source : AF1

122) chain C
residue 142
type
sequence V
description binding site for residue GOL C 504
source : AF1

123) chain C
residue 326
type
sequence W
description binding site for residue GOL C 505
source : AF2

124) chain C
residue 332
type
sequence T
description binding site for residue GOL C 505
source : AF2

125) chain C
residue 333
type
sequence S
description binding site for residue GOL C 505
source : AF2

126) chain C
residue 27
type
sequence A
description binding site for residue GOL C 506
source : AF3

127) chain C
residue 28
type
sequence H
description binding site for residue GOL C 506
source : AF3

128) chain C
residue 30
type
sequence Q
description binding site for residue GOL C 506
source : AF3

129) chain C
residue 15
type
sequence Q
description binding site for residue GOL C 507
source : AF4

130) chain C
residue 26
type
sequence H
description binding site for residue GOL C 507
source : AF4

131) chain C
residue 28
type
sequence H
description binding site for residue GOL C 507
source : AF4

132) chain C
residue 37
type
sequence K
description binding site for residue GOL C 507
source : AF4

133) chain C
residue 39
type
sequence V
description binding site for residue GOL C 507
source : AF4

134) chain C
residue 74
type
sequence V
description binding site for residue GOL C 507
source : AF4

135) chain C
residue 75
type
sequence V
description binding site for residue GOL C 507
source : AF4

136) chain A
residue 211
type
sequence R
description binding site for residue GOL C 508
source : AF5

137) chain C
residue 216
type
sequence T
description binding site for residue GOL C 508
source : AF5

138) chain C
residue 217
type
sequence H
description binding site for residue GOL C 508
source : AF5

139) chain C
residue 224
type
sequence V
description binding site for residue GOL C 508
source : AF5

140) chain C
residue 313
type
sequence E
description binding site for residue GOL C 508
source : AF5

141) chain C
residue 314
type
sequence L
description binding site for residue GOL C 508
source : AF5

142) chain A
residue 105
type
sequence A
description binding site for residue GOL C 509
source : AF6

143) chain C
residue 326
type
sequence W
description binding site for residue GOL C 509
source : AF6

144) chain A
residue 136
type BINDING
sequence C
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

145) chain A
residue 145
type BINDING
sequence H
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

146) chain A
residue 150
type BINDING
sequence M
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

147) chain B
residue 136
type BINDING
sequence C
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

148) chain B
residue 145
type BINDING
sequence H
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

149) chain B
residue 150
type BINDING
sequence M
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

150) chain C
residue 136
type BINDING
sequence C
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

151) chain C
residue 145
type BINDING
sequence H
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

152) chain C
residue 150
type BINDING
sequence M
description type 1 copper site
source Swiss-Prot : SWS_FT_FI3

153) chain A
residue 306
type BINDING
sequence H
description type 2 copper site => ECO:0000269|PubMed:8172899
source Swiss-Prot : SWS_FT_FI4

154) chain B
residue 306
type BINDING
sequence H
description type 2 copper site => ECO:0000269|PubMed:8172899
source Swiss-Prot : SWS_FT_FI4

155) chain C
residue 306
type BINDING
sequence H
description type 2 copper site => ECO:0000269|PubMed:8172899
source Swiss-Prot : SWS_FT_FI4

156) chain A
residue 95
type BINDING
sequence H
description type 1 copper site => ECO:0000269|PubMed:8172899
source Swiss-Prot : SWS_FT_FI1

157) chain B
residue 95
type BINDING
sequence H
description type 1 copper site => ECO:0000269|PubMed:8172899
source Swiss-Prot : SWS_FT_FI1

158) chain C
residue 95
type BINDING
sequence H
description type 1 copper site => ECO:0000269|PubMed:8172899
source Swiss-Prot : SWS_FT_FI1

159) chain A
residue 100
type BINDING
sequence H
description type 2 copper site
source Swiss-Prot : SWS_FT_FI2

160) chain A
residue 135
type BINDING
sequence H
description type 2 copper site
source Swiss-Prot : SWS_FT_FI2

161) chain B
residue 100
type BINDING
sequence H
description type 2 copper site
source Swiss-Prot : SWS_FT_FI2

162) chain B
residue 135
type BINDING
sequence H
description type 2 copper site
source Swiss-Prot : SWS_FT_FI2

163) chain C
residue 100
type BINDING
sequence H
description type 2 copper site
source Swiss-Prot : SWS_FT_FI2

164) chain C
residue 135
type BINDING
sequence H
description type 2 copper site
source Swiss-Prot : SWS_FT_FI2


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