Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

2C5U

T4 RNA Ligase (Rnl1) Crystal Structure

Functional Information from GO Data
ChainGOidnamespacecontents
A0000166molecular_functionnucleotide binding
A0003972molecular_functionRNA ligase (ATP) activity
A0005524molecular_functionATP binding
A0016874molecular_functionligase activity
A0042245biological_processRNA repair
A0046872molecular_functionmetal ion binding
A0098004biological_processvirus tail fiber assembly
B0000166molecular_functionnucleotide binding
B0003972molecular_functionRNA ligase (ATP) activity
B0005524molecular_functionATP binding
B0016874molecular_functionligase activity
B0042245biological_processRNA repair
B0046872molecular_functionmetal ion binding
B0098004biological_processvirus tail fiber assembly
Functional Information from PDB Data
site_idAC1
Number of Residues7
DetailsBINDING SITE FOR RESIDUE CA A 1376
ChainResidue
AAPC1375
AHOH2047
AHOH2147
AHOH2193
AHOH2276
AHOH2277
AHOH2369

site_idAC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG A 1377
ChainResidue
AAPC1375
AHOH2305
AHOH2306
AHOH2309
AGLY269
AASP272

site_idAC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL A 1378
ChainResidue
AARG54
ALEU104
AAPC1375
AHOH2369

site_idAC4
Number of Residues1
DetailsBINDING SITE FOR RESIDUE CL A 1379
ChainResidue
AALA27

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 1376
ChainResidue
BGLY269
BASP272
BAPC1375
BHOH2304
BHOH2355
BHOH2357

site_idAC6
Number of Residues7
DetailsBINDING SITE FOR RESIDUE CA B 1377
ChainResidue
BAPC1375
BHOH2058
BHOH2154
BHOH2197
BHOH2275
BHOH2276
BHOH2354

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CA B 1378
ChainResidue
AASP212
AHOH2250
BILE211
BASP212
BHOH2142
BHOH2254

site_idAC8
Number of Residues7
DetailsBINDING SITE FOR RESIDUE CA B 1379
ChainResidue
AILE211
AASP212
AHOH2135
AHOH2247
AHOH2252
BASP212
BHOH2258

site_idAC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CL B 1380
ChainResidue
BARG54
BLEU104
BAPC1375
BHOH2354

site_idBC1
Number of Residues25
DetailsBINDING SITE FOR RESIDUE APC A 1375
ChainResidue
ATYR37
AARG54
AMSE73
ALYS75
APHE76
ATHR98
ALYS99
AGLU100
ALEU104
ALYS119
AGLU159
ALEU179
AVAL230
ALYS240
ALYS242
AASP272
ACA1376
AMG1377
ACL1378
AHOH2305
AHOH2306
AHOH2309
AHOH2370
AHOH2371
AHOH2372

site_idBC2
Number of Residues25
DetailsBINDING SITE FOR RESIDUE APC B 1375
ChainResidue
BTYR37
BARG54
BMSE73
BLYS75
BPHE76
BLEU97
BTHR98
BLYS99
BGLU100
BLEU104
BLYS119
BGLU159
BLEU179
BVAL230
BLYS240
BLYS242
BASP272
BMG1376
BCA1377
BCL1380
BHOH2119
BHOH2304
BHOH2355
BHOH2356
BHOH2357

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: N6-AMP-lysine intermediate => ECO:0000255|HAMAP-Rule:MF_04149, ECO:0000269|PubMed:3882425
ChainResidueDetails
ALYS99
BLYS99

site_idSWS_FT_FI2
Number of Residues12
DetailsBINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_04149, ECO:0000269|PubMed:28223499
ChainResidueDetails
ATYR37
BGLU159
BLYS240
BLYS242
AARG54
ALYS75
AGLU159
ALYS240
ALYS242
BTYR37
BARG54
BLYS75

site_idSWS_FT_FI3
Number of Residues2
DetailsBINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_04149, ECO:0000269|PubMed:16263720, ECO:0000269|PubMed:28223499
ChainResidueDetails
AASP272
BASP272

site_idSWS_FT_FI4
Number of Residues4
DetailsSITE: Essential for RNA ligase activity => ECO:0000255|HAMAP-Rule:MF_04149, ECO:0000269|PubMed:17068206
ChainResidueDetails
AGLU159
ATYR246
BGLU159
BTYR246

237735

PDB entries from 2025-06-18

PDB statisticsPDBj update infoContact PDBjnumon