PDB: 1ubl Compound: periplasmic [nife] hydrogenase small subunit Classification: OXIDOREDUCTASE Entry date in PDB: 2003-04-29 Resolution [Å]: 1.20 R-Factor: 0.123

CHAIN: L SWISS-PROT/TREMBL: P21852    KEYWORD: 3D-structure    Iron    Magnesium    Metal-binding    Nickel    Oxidoreductase    Periplasmic    EC: 1.12.2.1 SCOP: e.18.1.1 Multi-domain proteins (alpha and beta)    Nickel-iron hydrogenase, large subunit    Nickel-iron hydrogenase, large subunit    Nickel-iron hydrogenase, large subunit    Nickel-iron hydrogenase, large subunit    Desulfovibrio vulgaris GO:  ferredoxin hydrogenase activity    nickel ion binding    electron transport    CHAIN: S SWISS-PROT/TREMBL: P21853    KEYWORD: 3D-structure    3Fe-4S    4Fe-4S    Iron-sulfur    Oxidoreductase    Periplasmic    Signal    EC: 1.12.2.1 SCOP: e.19.1.1 Multi-domain proteins (alpha and beta)    Nickel-iron hydrogenase, small subunit    Nickel-iron hydrogenase, small subunit    Nickel-iron hydrogenase, small subunit    Nickel-iron hydrogenase, small subunit    Desulfovibrio vulgaris GO:  ferredoxin hydrogenase complex    ferredoxin hydrogenase activity    iron ion binding    NADH dehydrogenase (ubiquinone) activity    electron transport    mitochondrial electron transport, NADH to ubiquinone

Image Source: PDB

Loops in ArchDB40 clusters

1ubl_S_88 - HA => SUBCLASS : 2.1.1
1ubl_L_469 - HA => SUBCLASS : 2.2.2
1ubl_L_469 - HA => SUBCLASS : 2.2.6
1ubl_L_480 - HA => SUBCLASS : 2.4.1
1ubl_S_130 - EH => SUBCLASS : 1.1.1
1ubl_S_130 - EH => SUBCLASS : 1.1.2
1ubl_L_492 - EH => SUBCLASS : 1.1.3
1ubl_S_107 - EH => SUBCLASS : 1.2.1
1ubl_S_71 - AR => SUBCLASS : 2.3.1
1ubl_L_387 - HH => SUBCLASS : 2.2.3
1ubl_L_61 - HH => SUBCLASS : 4.14.1
1ubl_L_87 - HH => SUBCLASS : 5.1.3

Loops in ArchDB95 clusters

1ubl_S_130 - EH => SUBCLASS : 1.1.1
1ubl_L_492 - EH => SUBCLASS : 1.1.4
1ubl_S_107 - EH => SUBCLASS : 1.3.1
1ubl_S_8 - EH => SUBCLASS : 5.56.1
1ubl_S_145 - EH => SUBCLASS : 6.68.1
1ubl_S_71 - AR => SUBCLASS : 2.7.1
1ubl_S_78 - AR => SUBCLASS : 7.34.1
1ubl_L_387 - HH => SUBCLASS : 2.2.4
1ubl_L_61 - HH => SUBCLASS : 4.9.2
1ubl_L_87 - HH => SUBCLASS : 5.1.2
1ubl_L_400 - HH => SUBCLASS : 9.22.1
1ubl_L_517 - HH => SUBCLASS : 11.9.1
1ubl_S_88 - HA => SUBCLASS : 2.1.1
1ubl_L_480 - HA => SUBCLASS : 2.1.2
1ubl_L_469 - HA => SUBCLASS : 2.2.2
1ubl_L_23 - HA => SUBCLASS : 7.21.1

Loops not clustered in ArchDB

1ubl_L_312 - AR
1ubl_L_375 - EH
1ubl_S_92 - EH
1ubl_S_41 - EH
1ubl_L_47 - EH
1ubl_L_243 - EH
1ubl_L_37 - HA
1ubl_L_335 - HA
1ubl_L_296 - HA
1ubl_L_239 - HA
1ubl_S_133 - HE
1ubl_S_113 - HE
1ubl_S_94 - HE
1ubl_S_53 - HE
1ubl_S_32 - HE
1ubl_L_423 - HE
1ubl_L_273 - HE
1ubl_L_202 - HE
1ubl_S_19 - HH
1ubl_S_154 - HH
1ubl_S_180 - HH
1ubl_S_194 - HH
1ubl_S_209 - HH
1ubl_L_534 - HH
1ubl_L_501 - HH
1ubl_L_252 - HH
1ubl_L_164 - HH
1ubl_L_147 - HH
1ubl_L_106 - HH
1ubl_L_73 - HH
1ubl_S_231 - HH

1e3d C - percentage of sequence identity: 71
1frv A - percentage of sequence identity: 67
1frv C - percentage of sequence identity: 67
1h2a S - percentage of sequence identity: 100
1h2r S - percentage of sequence identity: 100
1ubh S - percentage of sequence identity: 100
1ubj S - percentage of sequence identity: 100
1ubm S - percentage of sequence identity: 100
1ubo S - percentage of sequence identity: 100
1ubr S - percentage of sequence identity: 100
1ubt S - percentage of sequence identity: 100
1ubu S - percentage of sequence identity: 100
1wuh S - percentage of sequence identity: 100
1wui S - percentage of sequence identity: 100
1wuj S - percentage of sequence identity: 100
1wuk S - percentage of sequence identity: 100
1wul S - percentage of sequence identity: 100
1yq9 A - percentage of sequence identity: 67
1yq9 B - percentage of sequence identity: 67
1yqw A - percentage of sequence identity: 64
1yqw B - percentage of sequence identity: 64
1yqw C - percentage of sequence identity: 64
1yrq A - percentage of sequence identity: 64
1yrq B - percentage of sequence identity: 64
1yrq C - percentage of sequence identity: 64
1yrq D - percentage of sequence identity: 64
1yrq F - percentage of sequence identity: 64
1yrq G - percentage of sequence identity: 64
2frv A - percentage of sequence identity: 67
2frv B - percentage of sequence identity: 69
2frv C - percentage of sequence identity: 67
2frv E - percentage of sequence identity: 67
2frv G - percentage of sequence identity: 67
2frv I - percentage of sequence identity: 67
2frv S - percentage of sequence identity: 67