6YJ4
Structure of Yarrowia lipolytica complex I at 2.7 A
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | NADH-ubiquinone oxidoreductase chain 3 | polymer | 128 | 14506.3 | 1 | UniProt (S5TMS4) Pfam (PF00507) UniProt (by SIFTS) (Q9B6C7) | Yarrowia lipolytica | |
| 2 | B (B) | Subunit NUKM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 210 | 23455.2 | 1 | UniProt (Q9UUT7) Pfam (PF01058) | Yarrowia lipolytica | |
| 3 | C (C) | NUGM protein | polymer | 293 | 33644.9 | 1 | UniProt (Q9UUU0) Pfam (PF00329) UniProt (by SIFTS) (F2Z6D7) | Yarrowia lipolytica | |
| 4 | D (D) | NUCM protein | polymer | 466 | 52521.9 | 1 | UniProt (Q9UUU1) Pfam (PF00346) UniProt (by SIFTS) (F2Z626) | Yarrowia lipolytica | |
| 5 | E (E) | Subunit NUHM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 243 | 27247.4 | 1 | UniProt (Q9UUT9) Pfam (PF01257) UniProt (by SIFTS) (F2Z6C0) | Yarrowia lipolytica | |
| 6 | F (F) | Subunit NUBM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 488 | 53829.5 | 1 | UniProt (Q9UUU2) Pfam (PF01512) Pfam (PF22461) Pfam (PF10589) UniProt (by SIFTS) (F2Z660) | Yarrowia lipolytica | |
| 7 | G (G) | Subunit NUAM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 728 | 79088.1 | 1 | UniProt (Q9UUU3) Pfam (PF10588) Pfam (PF22117) Pfam (PF22151) Pfam (PF00384) Pfam (PF09326) Pfam (PF13510) UniProt (by SIFTS) (F2Z6F1) | Yarrowia lipolytica | |
| 8 | H (H) | NADH-ubiquinone oxidoreductase chain 1 | polymer | 341 | 38389.3 | 1 | UniProt (S5U3V2) Pfam (PF00146) UniProt (by SIFTS) (Q9B6E8) | Yarrowia lipolytica | |
| 9 | I (I) | Subunit NUIM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 229 | 25682.3 | 1 | UniProt (Q9UUT8) Pfam (PF12838) UniProt (by SIFTS) (F2Z619) | Yarrowia lipolytica | |
| 10 | J (J) | NADH-ubiquinone oxidoreductase chain 6 | polymer | 185 | 20793.1 | 1 | UniProt (Q9B6E9) Pfam (PF00499) | Yarrowia lipolytica (strain CLIB 122 / E 150) | NADH dehydrogenase subunit 6 |
| 11 | K (K) | NADH-ubiquinone oxidoreductase chain 4L | polymer | 89 | 9843.9 | 1 | UniProt (S5U4U1) Pfam (PF00420) UniProt (by SIFTS) (Q9B6D4) | Yarrowia lipolytica | |
| 12 | L (L) | NADH-ubiquinone oxidoreductase chain 5 | polymer | 655 | 73768.7 | 1 | UniProt (S5TF58) Pfam (PF00662) Pfam (PF00361) UniProt (by SIFTS) (Q9B6D3) | Yarrowia lipolytica | |
| 13 | M (M) | NADH-ubiquinone oxidoreductase chain 4 | polymer | 486 | 54534.7 | 1 | UniProt (S5TMP9) Pfam (PF00361) UniProt (by SIFTS) (Q9B6D6) | Yarrowia lipolytica | |
| 14 | N (N) | NADH dehydrogenase subunit 2 | polymer | 469 | 53381.4 | 1 | UniProt (S5U4R9) Pfam (PF00361) UniProt (by SIFTS) (Q9B6C8) | Yarrowia lipolytica | |
| 15 | O (O) | Subunit NUXM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 169 | 18588.2 | 1 | UniProt (A0A1D8NKB4) Pfam (PF10785) Pfam (PF12853) UniProt (by SIFTS) (Q6C4A6) | Yarrowia lipolytica | |
| 16 | P (P) | Subunit NUEM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 375 | 42765.7 | 1 | UniProt (A0A371BY45) Pfam (PF01370) UniProt (by SIFTS) (Q6C7X4) | Yarrowia lipolytica | |
| 17 | Q (Q) | Subunit NUYM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 161 | 18656.1 | 1 | UniProt (A0A1D8N7X0) Pfam (PF04800) UniProt (by SIFTS) (Q6CEK9) | Yarrowia lipolytica | |
| 18 | R (R) | Subunit NUMM of protein NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 136 | 15149.0 | 1 | UniProt (A0A1H6Q8Z5) Pfam (PF10276) UniProt (by SIFTS) (Q6C8J9) | Yarrowia lipolytica | |
| 19 | S (S) | Subunit NI8M of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 87 | 9621.1 | 1 | UniProt (A0A1H6PJS3) Pfam (PF05047) UniProt (by SIFTS) (Q6CD73) | Yarrowia lipolytica | |
| 20 | T (T) | Acyl carrier protein ACPM1 of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 109 | 12053.6 | 1 | UniProt (A0A1H6PXT9) Pfam (PF00550) UniProt (by SIFTS) (Q6C926) | Yarrowia lipolytica | |
| 21 | U (U) | Acyl carrier protein ACPM2 of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 132 | 14444.5 | 1 | UniProt (A0A1D8NG21) Pfam (PF00550) UniProt (by SIFTS) (Q6C7X2) | Yarrowia lipolytica | |
| 22 | V (V) | Subunit NUFM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 144 | 16657.9 | 1 | UniProt (A0A371C5F3) Pfam (PF04716) UniProt (by SIFTS) (Q6C4W9) | Yarrowia lipolytica | |
| 23 | W (W) | Subunit NB4M of protein NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 124 | 14778.8 | 1 | UniProt (A0A1D8N3C8) Pfam (PF13233) UniProt (by SIFTS) (Q6CI60) | Yarrowia lipolytica | |
| 24 | X (X) | Subunit NUPM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 172 | 19355.2 | 1 | UniProt (A0A371C2D0) Pfam (PF06747) UniProt (by SIFTS) (Q6CGB4) | Yarrowia lipolytica | |
| 25 | Y (Y) | Subunit NUJM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 198 | 20849.6 | 1 | UniProt (A0A371CB65) UniProt (by SIFTS) (Q6C674) | Yarrowia lipolytica | |
| 26 | Z (Z) | Subunit NB6M of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 123 | 14112.4 | 1 | UniProt (A0A1H6PPE5) Pfam (PF06212) UniProt (by SIFTS) (B5FVF8) | Yarrowia lipolytica | |
| 27 | AA (a) | Subunit NIMM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 87 | 9806.2 | 1 | UniProt (A0A1D8NC63) Pfam (PF15879) UniProt (by SIFTS) (B5FVD3) | Yarrowia lipolytica | |
| 28 | BA (b) | subunit NI9M of protein NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 78 | 8992.2 | 1 | UniProt (A0A1D8NJR0) UniProt (by SIFTS) (B5FVF3) | Yarrowia lipolytica | |
| 29 | CA (c) | Subunit NUZM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 182 | 19772.5 | 1 | UniProt (A0A1D8N3H5) UniProt (by SIFTS) (Q6CI10) | Yarrowia lipolytica | |
| 30 | DA (d) | Subunit NEBM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 74 | 8059.4 | 1 | UniProt (A0A1D8NGI5) | Yarrowia lipolytica | |
| 31 | EA (e) | Subunit NIPM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 89 | 10035.7 | 1 | UniProt (A0A1D8NNZ0) Pfam (PF10200) UniProt (by SIFTS) (B5RSL7) | Yarrowia lipolytica | |
| 32 | FA (f) | Subunit N7BM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 138 | 16175.1 | 1 | UniProt (A0A1D8N5V2) Pfam (PF05071) UniProt (by SIFTS) (Q6CG53) | Yarrowia lipolytica | |
| 33 | GA (g) | Subunit NESM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 249 | 28479.9 | 1 | UniProt (Q6ZY23) UniProt (by SIFTS) (F2Z673) | Yarrowia lipolytica | |
| 34 | HA (h) | subunit NUNM of protein NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 139 | 15818.8 | 1 | UniProt (A0A371CFV9) UniProt (by SIFTS) (Q6C1R9) | Yarrowia lipolytica | |
| 35 | IA (i) | Subunit NUUM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 90 | 9794.0 | 1 | UniProt (A0A1H6Q311) | Yarrowia lipolytica | |
| 36 | JA (j) | subunit NIGM of protein NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 91 | 10765.4 | 1 | UniProt (A0A1D8NFX6) | Yarrowia lipolytica | |
| 37 | KA (k) | Subunit NB2M of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 60 | 6948.9 | 1 | UniProt (A0A371C0F2) Pfam (PF08122) UniProt (by SIFTS) (B5FVE5) | Yarrowia lipolytica | |
| 38 | LA (l) | Subunit NIAM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 149 | 17328.5 | 1 | UniProt (A0A1D8ND94) Pfam (PF05821) UniProt (by SIFTS) (Q6CA88) | Yarrowia lipolytica | |
| 39 | MA (m) | Subunit NB5M of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 93 | 10494.9 | 1 | UniProt (Q6ZY24) UniProt (by SIFTS) (B5RSK9) | Yarrowia lipolytica | |
| 40 | NA (n) | Subunit NI2M of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 109 | 12902.9 | 1 | UniProt (A0A1D8NDL1) UniProt (by SIFTS) (Q6C9Z1) | Yarrowia lipolytica | |
| 41 | OA (o) | Subunit NB8M of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 99 | 11219.0 | 1 | UniProt (A0A1H6PKH9) Pfam (PF05676) UniProt (by SIFTS) (B5FVG1) | Yarrowia lipolytica | |
| 42 | PA (p) | Subunit NIDM of NADH:Ubiquinone Oxidoreductase (Complex I) | polymer | 92 | 11039.3 | 1 | UniProt (A0A1D8N596) Pfam (PF10249) UniProt (by SIFTS) (B5RSK3) | Yarrowia lipolytica | |
| 43 | CB, CC, DB, FC, GC... (H, Y, I, Z, L...) | 1,2-Distearoyl-sn-glycerophosphoethanolamine | non-polymer | 748.1 | 18 | Chemie (3PE) | |||
| 44 | EB, FB, SA, XA, YA... (I, B, F, G) | IRON/SULFUR CLUSTER | non-polymer | 351.6 | 6 | Chemie (SF4) | |||
| 45 | AC, BC, DC, PB, TA (Y, M, B) | DODECYL-BETA-D-MALTOSIDE | non-polymer | 510.6 | 5 | Chemie (LMT) | |||
| 46 | BB, GB, HB, MB, MC... (H, L, d, N, D...) | DIUNDECYL PHOSPHATIDYL CHOLINE | non-polymer | 622.8 | 8 | Chemie (PLC) | |||
| 47 | AB, VA (G, E) | FE2/S2 (INORGANIC) CLUSTER | non-polymer | 175.8 | 2 | Chemie (FES) | |||
| 48 | WA (F) | FLAVIN MONONUCLEOTIDE | non-polymer | 456.3 | 1 | Chemie (FMN) | |||
| 49 | EC, HC, IC, NB, TB... (Z, a, b, M, O...) | CARDIOLIPIN | non-polymer | 1464.0 | 6 | Chemie (CDL) | |||
| 50 | VB (P) | NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE | non-polymer | 745.4 | 1 | Chemie (NDP) | |||
| 51 | XB (R) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
| 52 | YB, ZB (T, U) | ~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate | non-polymer | 584.7 | 2 | Chemie (EHZ) | |||
| 53 | AD, BD, CD, DD, ED... (M, N, O, P, Q...) | water | water | 18.0 | 275 | Chemie (HOH) |
Sequence modifications
C: 1 - 281 (UniProt: Q9UUU0)
j: 1 - 67 (UniProt: A0A1D8NFX6)
| PDB | External Database | Details |
|---|---|---|
| Ala 282 | - | expression tag |
| Ala 283 | - | expression tag |
| Ala 284 | - | expression tag |
| Ala 285 | - | expression tag |
| Ala 286 | - | expression tag |
| Ala 287 | - | expression tag |
| His 288 | - | expression tag |
| His 289 | - | expression tag |
| His 290 | - | expression tag |
| His 291 | - | expression tag |
| His 292 | - | expression tag |
| His 293 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met -23 | - | initiating methionine |
| His -22 | - | expression tag |
| Asn -21 | - | expression tag |
| Ser -20 | - | expression tag |
| Ser -19 | - | expression tag |
| Ser -18 | - | expression tag |
| Val -17 | - | expression tag |
| His -16 | - | expression tag |
| His -15 | - | expression tag |
| His -14 | - | expression tag |
| Tyr -13 | - | expression tag |
| Ile -12 | - | expression tag |
| Ser -11 | - | expression tag |
| Lys -10 | - | expression tag |
| Thr -9 | - | expression tag |
| Thr -8 | - | expression tag |
| Gly -7 | - | expression tag |
| Phe -6 | - | expression tag |
| Phe -5 | - | expression tag |
| Arg -4 | - | expression tag |
| Phe -3 | - | expression tag |
| Arg -2 | - | expression tag |
| Tyr -1 | - | expression tag |
| Lys 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 42 |
| Total formula weight | 985351.4 | |
| Non-Polymers* | Number of molecules | 50 |
| Total formula weight | 34683.2 | |
| All* | Total formula weight | 1020034.6 |
