RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14128
(393 letters)
>gnl|CDD|239174 cd02773, MopB_Res-Cmplx1_Nad11, MopB_Res_Cmplx1_Nad11: The second
domain of the Nad11/75-kDa subunit of the NADH-quinone
oxidoreductase/respiratory complex I/NADH
dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G
subunit of alphaproteobacteria NDH-1. The NADH-quinone
oxidoreductase is the first energy-transducting complex
in the respiratory chains of many prokaryotes and
eukaryotes. Mitochondrial complex I and its bacterial
counterpart, NDH-1, function as a redox pump that uses
the redox energy to translocate H+ ions across the
membrane, resulting in a significant contribution to
energy production. The nad11 gene codes for the largest
(75 kDa) subunit of the mitochondrial NADH:ubiquinone
oxidoreductase, it constitutes the electron input part
of the enzyme, or the so-called NADH dehydrogenase
fragment. In Paracoccus denitrificans, this subunit is
encoded by the nqo3 gene, and is part of the 14 distinct
subunits constituting the 'minimal' functional enzyme.
The Nad11/Nqo3 subunit is made of two domains: the first
contains three binding sites for FeS clusters (the fer2
domain), the second domain (this CD), is of unknown
function or, as postulated, has lost an ancestral
formate dehydrogenase activity that became redundant
during the evolution of the complex I enzyme. Although
only vestigial sequence evidence remains of a
molybdopterin binding site, this protein domain belongs
to the molybdopterin_binding (MopB) superfamily of
proteins.
Length = 375
Score = 234 bits (599), Expect = 6e-74
Identities = 97/165 (58%), Positives = 117/165 (70%), Gaps = 2/165 (1%)
Query: 111 SDVAGVVGSLADAEAMVALKDLLNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAE 170
++A + G LAD E+MVALKDLLNKLGSE+L E P DLR+NYL N IAG E
Sbjct: 87 DEIAAIAGDLADVESMVALKDLLNKLGSENLACEQDGP--DLPADLRSNYLFNTTIAGIE 144
Query: 171 EADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQL 230
EAD +LL+GTNPRFEAP+ NARIRK +L L V IGP VDL YDY+HLG A ++ +
Sbjct: 145 EADAVLLVGTNPRFEAPVLNARIRKAWLHGGLKVGVIGPPVDLTYDYDHLGTDAKTLQDI 204
Query: 231 ASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKV 275
ASG H FSK L AKKP+I+VG+ L+R DGAA+LA V +LA K
Sbjct: 205 ASGKHPFSKALKDAKKPMIIVGSGALARKDGAAILAAVAKLAKKN 249
Score = 163 bits (416), Expect = 6e-47
Identities = 65/106 (61%), Positives = 79/106 (74%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQ 61
EEAD +LL+GTNPRFEAP+ NARIRK +L L V IGP VDL YDY+HLG A ++
Sbjct: 144 EEADAVLLVGTNPRFEAPVLNARIRKAWLHGGLKVGVIGPPVDLTYDYDHLGTDAKTLQD 203
Query: 62 LASGSHPFSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKV 107
+ASG HPFSK L AKKP+I+VG+ L+R DGAA+LA V +LA K
Sbjct: 204 IASGKHPFSKALKDAKKPMIIVGSGALARKDGAAILAAVAKLAKKN 249
Score = 144 bits (365), Expect = 2e-39
Identities = 62/118 (52%), Positives = 79/118 (66%), Gaps = 4/118 (3%)
Query: 276 TCESDHLGESADLIKQLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAA 335
T + DHLG A ++ +ASG H FSK L AKKP+I+VG+ L+R DGAA+LA V +LA
Sbjct: 188 TYDYDHLGTDAKTLQDIASGKHPFSKALKDAKKPMIIVGSGALARKDGAAILAAVAKLAK 247
Query: 336 KVTCESDVPCDWKVLNILQKAASQVAALDIGYKPGTSAIREK-PPKVLFLLGADEGSI 392
K V W N+L +AAS+V ALD+G+ PG AIR+ PPKVL+LLGADE I
Sbjct: 248 KN---GVVREGWNGFNVLHRAASRVGALDLGFVPGAGAIRKSGPPKVLYLLGADEIDI 302
>gnl|CDD|236387 PRK09130, PRK09130, NADH dehydrogenase subunit G; Validated.
Length = 687
Score = 213 bits (544), Expect = 8e-63
Identities = 108/286 (37%), Positives = 133/286 (46%), Gaps = 79/286 (27%)
Query: 113 VAGVVGSLADAEAMVALKDLLNKLGSEDL---YTEYAFPLEGAGTDLRANYLLNNKIAGA 169
+A + G LAD E+M ALKDL+ KLGS +L LRA+YL N IAG
Sbjct: 308 IAAIAGDLADVESMFALKDLMQKLGSSNLDCRQDGAKLD-----PSLRASYLFNTTIAGI 362
Query: 170 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQ 229
EEAD ILLIG NPRFEAP+ NARIRK + +A I GE ADL
Sbjct: 363 EEADAILLIGANPRFEAPVLNARIRKRWRAGGFKIAVI-------------GEQADL--- 406
Query: 230 LASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDHLGESADLI 289
T ++LG D +
Sbjct: 407 ----------------------------------------------TYPYEYLGAGPDTL 420
Query: 290 KQLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVPCDWKV 349
LASG H F+ L AAK+P+I+VG L+R+DGAAVLAL +LA KV D W
Sbjct: 421 ADLASGKHEFADVLKAAKRPMIIVGQGALARADGAAVLALAAKLAEKVGAVRD---GWNG 477
Query: 350 LNILQKAASQVAALDIGYKPGT------SAIREKPPKVLFLLGADE 389
N+L AAS+V LD+G+ PG + VL+LLGADE
Sbjct: 478 FNVLHTAASRVGGLDLGFVPGEGGKDAAEMLESGALDVLYLLGADE 523
Score = 160 bits (408), Expect = 1e-43
Identities = 62/111 (55%), Positives = 75/111 (67%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQ 61
EEAD ILLIG NPRFEAP+ NARIRK + +A IG + DL Y YE+LG D +
Sbjct: 363 EEADAILLIGANPRFEAPVLNARIRKRWRAGGFKIAVIGEQADLTYPYEYLGAGPDTLAD 422
Query: 62 LASGSHPFSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESD 112
LASG H F+ L AAK+P+I+VG L+R+DGAAVLAL +LA KV D
Sbjct: 423 LASGKHEFADVLKAAKRPMIIVGQGALARADGAAVLALAAKLAEKVGAVRD 473
>gnl|CDD|239169 cd02768, MopB_NADH-Q-OR-NuoG2, MopB_NADH-Q-OR-NuoG2: The
NuoG/Nad11/75-kDa subunit (second domain) of the
NADH-quinone oxidoreductase (NADH-Q-OR)/respiratory
complex I/NADH dehydrogenase-1 (NDH-1). The NADH-Q-OR is
the first energy-transducting complex in the respiratory
chains of many prokaryotes and eukaryotes. Mitochondrial
complex I and its bacterial counterpart, NDH-1, function
as a redox pump that uses the redox energy to
translocate H+ ions across the membrane, resulting in a
significant contribution to energy production. The
atomic structure of complex I is not known and the
mechanisms of electron transfer and proton pumping are
not established. The nad11 gene codes for the largest
(75-kDa) subunit of the mitochondrial NADH:ubiquinone
oxidoreductase, it constitutes the electron input part
of the enzyme, or the so-called NADH dehydrogenase
fragment. In Escherichia coli, this subunit is encoded
by the nuoG gene, and is part of the 14 distinct
subunits constituting the 'minimal' functional enzyme.
The nad11 gene is nuclear-encoded in animals, plants,
and fungi, but is still encoded in the mitochondrial
genome of some protists. The Nad11/NuoG subunit is made
of two domains: the first contains three binding sites
for FeS clusters (the fer2 domain), the second domain
(this CD), is of unknown function or, as postulated, has
lost an ancestral formate dehydrogenase activity that
became redundant during the evolution of the complex I
enzyme. Although only vestigial sequence evidence
remains of a molybdopterin binding site, this protein
domain family belongs to the molybdopterin_binding
(MopB) superfamily of proteins. Bacterial type II
NADH-quinone oxidoreductases and NQR-type sodium-motive
NADH-quinone oxidoreductases are not homologs of this
domain family.
Length = 386
Score = 174 bits (442), Expect = 1e-50
Identities = 98/264 (37%), Positives = 130/264 (49%), Gaps = 14/264 (5%)
Query: 77 KKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKL 136
+PLI G ++ S A+ + + L K + G+ G AD E++ LK LLNKL
Sbjct: 56 TQPLIKKGGKLVPVSWEEALKTVAEGL--KAVKGDKIGGIAGPRADLESLFLLKKLLNKL 113
Query: 137 GSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNPRFEAPLFNARIRKG 196
GS ++ A LR NYL N IA EEAD +LLIG+N R EAPL NAR+RK
Sbjct: 114 GSNNIDHRLRQSDLPADNRLRGNYLFNTSIAEIEEADAVLLIGSNLRKEAPLLNARLRKA 173
Query: 197 YLTNELDVAYIGPK-----VDLRYDYEHLGESADLIKQLASGSH--AFSKKLAAAKKPLI 249
+A IGPK DL Y LG S + +A G H F+K L AKKPLI
Sbjct: 174 VKKKGAKIAVIGPKDTDLIADLTYPVSPLGASLATLLDIAEGKHLKPFAKSLKKAKKPLI 233
Query: 250 VVGADMLSRSDGAAVLALVQQLAAKVTC-ESDHLGESADLIKQLASGSHAFSKKLAAAKK 308
++G+ L R DGAA+L + LAAK+ G + G LA +
Sbjct: 234 ILGSSAL-RKDGAAILKALANLAAKLGTGAGLWNGLNVLNSVGARLGGAGLDAGLALLEP 292
Query: 309 P---LIVVGADMLSRSDGAAVLAL 329
L+++G D L RS+ A +AL
Sbjct: 293 GKAKLLLLGEDELDRSNPPAAVAL 316
Score = 112 bits (283), Expect = 7e-28
Identities = 55/113 (48%), Positives = 68/113 (60%), Gaps = 8/113 (7%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPK-----VDLRYDYEHLGESA 56
EEAD +LLIG+N R EAPL NAR+RK +A IGPK DL Y LG S
Sbjct: 147 EEADAVLLIGSNLRKEAPLLNARLRKAVKKKGAKIAVIGPKDTDLIADLTYPVSPLGASL 206
Query: 57 DLIKQLASGSH--PFSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKV 107
+ +A G H PF+K L AKKPLI++G+ L R DGAA+L + LAAK+
Sbjct: 207 ATLLDIAEGKHLKPFAKSLKKAKKPLIILGSSAL-RKDGAAILKALANLAAKL 258
>gnl|CDD|215888 pfam00384, Molybdopterin, Molybdopterin oxidoreductase.
Length = 358
Score = 157 bits (400), Expect = 8e-45
Identities = 89/242 (36%), Positives = 117/242 (48%), Gaps = 12/242 (4%)
Query: 113 VAGVVGSLADAEAMVALKDLLNKLGSEDLYTE-----YAFPLEGAGTDLRANYLLNNKIA 167
+ G G L D E++ ALK LLN+LGS++ TE G+DLR+NYL NN IA
Sbjct: 44 INGGSGGLTDVESLYALKKLLNRLGSKNGNTEDHNGDLCTAAAAFGSDLRSNYLFNNSIA 103
Query: 168 GAEEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESAD-L 226
E ADLILLIGTNPR EAP+ NARIRK L + V IGP++D Y EHLG
Sbjct: 104 DIENADLILLIGTNPREEAPILNARIRKAALKGKAKVIVIGPRLDETYADEHLGIKPGTD 163
Query: 227 IKQLASGSHAFSKKLAAAK----KPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDHL 282
+ +G+H F K+L K KP+I+VGA +L R+DG A+ + LA
Sbjct: 164 LALALAGAHVFIKELKKDKDFAPKPIIIVGAGVLQRADGEAIFRAIANLADLTGNIGRPG 223
Query: 283 GESADL-IKQLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCES 341
G L I Q A+ L V + + + + L E+
Sbjct: 224 GGWNGLNILQGAASPVGA-LDLGLVPGIKSVEMINAIKKGGIKVLYLLGNNPFVTHADEN 282
Query: 342 DV 343
V
Sbjct: 283 RV 284
Score = 115 bits (289), Expect = 6e-29
Identities = 65/184 (35%), Positives = 87/184 (47%), Gaps = 14/184 (7%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESAD-LIK 60
E ADLILLIGTNPR EAP+ NARIRK L + V IGP++D Y EHLG +
Sbjct: 106 ENADLILLIGTNPREEAPILNARIRKAALKGKAKVIVIGPRLDETYADEHLGIKPGTDLA 165
Query: 61 QLASGSHPFSKKLSAAK----KPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAG- 115
+G+H F K+L K KP+I+VGA +L R+DG A+ + LA G
Sbjct: 166 LALAGAHVFIKELKKDKDFAPKPIIIVGAGVLQRADGEAIFRAIANLADLTGNIGRPGGG 225
Query: 116 --VVGSLADAEAMVALKDLLNKLGSEDLYTEYAFPLEGAGTDLRANYLL--NNKIAGAEE 171
+ L A + V DL G ++ YLL N + A+E
Sbjct: 226 WNGLNILQGAASPVGALDLGLVPG----IKSVEMINAIKKGGIKVLYLLGNNPFVTHADE 281
Query: 172 ADLI 175
++
Sbjct: 282 NRVV 285
>gnl|CDD|233662 TIGR01973, NuoG, NADH-quinone oxidoreductase, chain G. This model
represents the G subunit (one of 14: A->N) of the
NADH-quinone oxidoreductase complex I which generally
couples NADH and ubiquinone oxidation/reduction in
bacteria and mammalian mitochondria while translocating
protons, but may act on NADPH and/or plastoquinone in
cyanobacteria and plant chloroplasts. This model
excludes related subunits from formate dehydrogenase
complexes [Energy metabolism, Electron transport].
Length = 603
Score = 149 bits (377), Expect = 8e-40
Identities = 83/263 (31%), Positives = 115/263 (43%), Gaps = 19/263 (7%)
Query: 100 VQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKLGSEDLYTEYAFPLEGAGTDLRAN 159
+ A K+ S + G+ G + E + ALK L+ KLGSE+ + DLRAN
Sbjct: 292 LAIAAEKLKASSRIGGIAGPRSSLEELFALKKLVRKLGSENFDLRIRNYEFES-ADLRAN 350
Query: 160 YLLNNKIAGAEEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGP-KVDLRYD-- 216
YL N +A EEADL+LL+G + R EAPL N R+RK VA IG K +L Y
Sbjct: 351 YLFNTTLADIEEADLVLLVGADLRQEAPLLNLRLRKAVKKGGAKVALIGIEKWNLTYPAN 410
Query: 217 ---YEHLGESADLIKQLASGSHA-FSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLA 272
H G S + +ASG+H+ + L AAKKPLI+VG S DGAA+++ +A
Sbjct: 411 TNLVFHPGLSPKKLDDIASGAHSDIAAALKAAKKPLIIVGDSAYSHLDGAALISAAANIA 470
Query: 273 AKV--------TCESDHLGESADLIKQLASGSHAFSKKLAAAKKPLIVV-GADMLSRSDG 323
+ G ++ + L S L + + GAD+ D
Sbjct: 471 KVIKVRRKEWNGLNILSSGANSVGLLDLGGESTGLDAALNLGAADALFLLGADLERALDK 530
Query: 324 AAVLALVQQLAAKVTCESDVPCD 346
A AL A
Sbjct: 531 TARDAL--SKADAFVIYQGHHGT 551
Score = 114 bits (288), Expect = 8e-28
Identities = 65/207 (31%), Positives = 86/207 (41%), Gaps = 26/207 (12%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGP-KVDLRYD-----YEHLGES 55
EEADL+LL+G + R EAPL N R+RK VA IG K +L Y H G S
Sbjct: 361 EEADLVLLVGADLRQEAPLLNLRLRKAVKKGGAKVALIGIEKWNLTYPANTNLVFHPGLS 420
Query: 56 ADLIKQLASGSHP-FSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVA 114
+ +ASG+H + L AAKKPLI+VG S DGAA+++ +A +
Sbjct: 421 PKKLDDIASGAHSDIAAALKAAKKPLIIVGDSAYSHLDGAALISAAANIAKVIKVRRKEW 480
Query: 115 GVVGSLADAEAMVALKDL---------LNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNK 165
+ L+ V L DL LG+ D LE A + L
Sbjct: 481 NGLNILSSGANSVGLLDLGGESTGLDAALNLGAADALFLLGADLERALDKTARDALSKAD 540
Query: 166 I----------AGAEEADLILLIGTNP 182
AE+AD+IL
Sbjct: 541 AFVIYQGHHGTETAEKADVILPGAAFT 567
>gnl|CDD|239175 cd02774, MopB_Res-Cmplx1_Nad11-M, MopB_Res_Cmplx1_Nad11_M:
Mitochondrial-encoded NADH-quinone
oxidoreductase/respiratory complex I, the second domain
of the Nad11/75-kDa subunit of some protists.
NADH-quinone oxidoreductase is the first
energy-transducting complex in the respiratory chain and
functions as a redox pump that uses the redox energy to
translocate H+ ions across the membrane, resulting in a
significant contribution to energy production. The nad11
gene codes for the largest (75-kDa) subunit of the
mitochondrial NADH-quinone oxidoreductase, it
constitutes the electron input part of the enzyme, or
the so-called NADH dehydrogenase fragment. The Nad11
subunit is made of two domains: the first contains three
binding sites for FeS clusters (the fer2 domain), the
second domain (this CD), is of unknown function or, as
postulated, has lost an ancestral formate dehydrogenase
activity that became redundant during the evolution of
the complex I enzyme. Although only vestigial sequence
evidence remains of a molybdopterin binding site, this
protein domain belongs to the molybdopterin_binding
(MopB) superfamily of proteins.
Length = 366
Score = 116 bits (292), Expect = 3e-29
Identities = 52/148 (35%), Positives = 78/148 (52%)
Query: 111 SDVAGVVGSLADAEAMVALKDLLNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAE 170
S + ++GS D E + K LLNKLGS + + NYL NN + +
Sbjct: 88 SKLNFIIGSKIDLETLFYYKKLLNKLGSLNTNSNNFLENNNYFNLDLENYLFNNSLKNLD 147
Query: 171 EADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQL 230
++DL LLIG+N R E+P+ N R+R Y + IG K D Y +H+G S + + ++
Sbjct: 148 KSDLCLLIGSNLRVESPILNIRLRNRYNKGNKKIFVIGNKFDTTYPSKHIGLSLNTLLKI 207
Query: 231 ASGSHAFSKKLAAAKKPLIVVGADMLSR 258
G H F K+L +KKPLI++G+ R
Sbjct: 208 LEGKHLFCKQLKKSKKPLIIIGSSFSLR 235
Score = 86.3 bits (214), Expect = 1e-18
Identities = 34/89 (38%), Positives = 53/89 (59%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQ 61
+++DL LLIG+N R E+P+ N R+R Y + IG K D Y +H+G S + + +
Sbjct: 147 DKSDLCLLIGSNLRVESPILNIRLRNRYNKGNKKIFVIGNKFDTTYPSKHIGLSLNTLLK 206
Query: 62 LASGSHPFSKKLSAAKKPLIVVGADMLSR 90
+ G H F K+L +KKPLI++G+ R
Sbjct: 207 ILEGKHLFCKQLKKSKKPLIIIGSSFSLR 235
>gnl|CDD|223965 COG1034, NuoG, NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75
kD subunit (chain G) [Energy production and conversion].
Length = 693
Score = 112 bits (281), Expect = 8e-27
Identities = 67/202 (33%), Positives = 92/202 (45%), Gaps = 12/202 (5%)
Query: 77 KKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKL 136
+P I VG L + + Q A + V + A E + ALK+L +L
Sbjct: 273 DRPKIRVGGR-LVEASWLEANEAIAQ-ALALIKPEKVGAIASPRASVEELFALKELAGEL 330
Query: 137 GSEDLYTEYAFPLEGAGTDL---RANYLLNNKIAGAEEADLILLIGTNPRFEAPLFNARI 193
GS + E A D RA YL N IA E AD +L+IG N R EAP+ RI
Sbjct: 331 GSSN----IDHRQEDARLDPKVARAGYLYNPTIAEIESADAVLVIGANLRQEAPVLALRI 386
Query: 194 RKGYLTNELDVAYIGPKVDLRYDY---EHLGESADLIKQLASGSHAFSKKLAAAKKPLIV 250
RK L VA IG + Y LG L+ +LA G+ A + + A++ LI
Sbjct: 387 RKAVKGKGLPVAVIGGVAEWLYALLLSILLGAGIALLDELALGAEAATAAVKKAERELIE 446
Query: 251 VGADMLSRSDGAAVLALVQQLA 272
G L+ + AA+LAL ++LA
Sbjct: 447 KGKGALAGAKKAAILALAEKLA 468
Score = 84.0 bits (208), Expect = 2e-17
Identities = 43/143 (30%), Positives = 66/143 (46%), Gaps = 13/143 (9%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDY---EHLGESADL 58
E AD +L+IG N R EAP+ RIRK L VA IG + Y LG L
Sbjct: 363 ESADAVLVIGANLRQEAPVLALRIRKAVKGKGLPVAVIGGVAEWLYALLLSILLGAGIAL 422
Query: 59 IKQLASGSHPFSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVG 118
+ +LA G+ + + A++ LI G L+ + AA+LAL ++L A +G
Sbjct: 423 LDELALGAEAATAAVKKAERELIEKGKGALAGAKKAAILALAEKL----------ADELG 472
Query: 119 SLADAEAMVALKDLLNKLGSEDL 141
+ V L + +++ + L
Sbjct: 473 AAEARWNGVVLHEAASRVNALGL 495
Score = 61.2 bits (149), Expect = 4e-10
Identities = 37/114 (32%), Positives = 57/114 (50%), Gaps = 10/114 (8%)
Query: 282 LGESADLIKQLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCES 341
LG L+ +LA G+ A + + A++ LI G L+ + AA+LAL ++LA ++
Sbjct: 416 LGAGIALLDELALGAEAATAAVKKAERELIEKGKGALAGAKKAAILALAEKLADEL---G 472
Query: 342 DVPCDWKVLNILQKAASQVAALDIGYKPGTSA------IREKPPKVLFLLGADE 389
W +L +AAS+V AL +G+ PG S + L LLG DE
Sbjct: 473 AAEARWN-GVVLHEAASRVNALGLGFLPGLSGEDAALMLGPADANALLLLGIDE 525
>gnl|CDD|238218 cd00368, Molybdopterin-Binding, Molybdopterin-Binding (MopB) domain
of the MopB superfamily of proteins, a large, diverse,
heterogeneous superfamily of enzymes that, in general,
bind molybdopterin as a cofactor. The MopB domain is
found in a wide variety of molybdenum- and
tungsten-containing enzymes, including formate
dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of
nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide
reductase (DMSOR), thiosulfate reductase,
formylmethanofuran dehydrogenase, and arsenite oxidase.
Molybdenum is present in most of these enzymes in the
form of molybdopterin, a modified pterin ring with a
dithiolene side chain, which is responsible for ligating
the Mo. In many bacterial and archaeal species,
molybdopterin is in the form of a dinucleotide, with two
molybdopterin dinucleotide units per molybdenum. These
proteins can function as monomers, heterodimers, or
heterotrimers, depending on the protein and organism.
Also included in the MopB superfamily is the
eukaryotic/eubacterial protein domain family of the
75-kDa subunit/Nad11/NuoG (second domain) of respiratory
complex 1/NADH-quinone oxidoreductase which is
postulated to have lost an ancestral formate
dehydrogenase activity and only vestigial sequence
evidence remains of a molybdopterin binding site.
Length = 374
Score = 70.4 bits (173), Expect = 3e-13
Identities = 53/225 (23%), Positives = 81/225 (36%), Gaps = 50/225 (22%)
Query: 113 VAGVVGSLADAEAMVALKDLLNKLGSEDLYTEYAFPLEGAGTDLRA--NYLLNNKIAGAE 170
+A G A E L+ LL LGS ++ + A L+A N +A E
Sbjct: 96 IAFYGGGGASNEEAYLLQKLLRALGSNNVDSHARLCHASAVAALKAFGGGAPTNTLADIE 155
Query: 171 EADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQL 230
ADLILL G+NP P+ AR+R+ + I P AD +
Sbjct: 156 NADLILLWGSNPAETHPVLAARLRRAKK-RGAKLIVIDP------RRTETAAKADEWLPI 208
Query: 231 ASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDHLGESADLIK 290
G+ A LA A+ + G A+ I+
Sbjct: 209 RPGTDAA---LALAEWAAEITGV-------------------------------PAETIR 234
Query: 291 QLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAA 335
LA ++ AAAK+ +I+ G + ++G + + LAA
Sbjct: 235 ALA-------REFAAAKRAVILWGMGLTQHTNGTQNVRAIANLAA 272
Score = 46.2 bits (110), Expect = 2e-05
Identities = 24/105 (22%), Positives = 37/105 (35%), Gaps = 17/105 (16%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQ 61
E ADLILL G+NP P+ AR+R+ + I P AD
Sbjct: 155 ENADLILLWGSNPAETHPVLAARLRRAKK-RGAKLIVIDP------RRTETAAKADEWLP 207
Query: 62 LASGSHPFSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAK 106
+ G+ L+ A+ + G A + + + A
Sbjct: 208 IRPGTDAA---LALAEWAAEITGVP-------AETIRALAREFAA 242
>gnl|CDD|239173 cd02772, MopB_NDH-1_NuoG2, MopB_NDH-1_NuoG2: The second domain of
the NuoG subunit of the NADH-quinone oxidoreductase/NADH
dehydrogenase-1 (NDH-1), found in beta- and
gammaproteobacteria. The NDH-1 is the first
energy-transducting complex in the respiratory chain and
functions as a redox pump that uses the redox energy to
translocate H+ ions across the membrane, resulting in a
significant contribution to energy production. In
Escherichia coli NDH-1, the largest subunit is encoded
by the nuoG gene, and is part of the 14 distinct
subunits constituting the functional enzyme. The NuoG
subunit is made of two domains: the first contains three
binding sites for FeS clusters (the fer2 domain), the
second domain (this CD), is of unknown function or, as
postulated, has lost an ancestral formate dehydrogenase
activity that became redundant during the evolution of
the complex I enzyme. Although only vestigial sequence
evidence remains of a molybdopterin binding site, this
protein domain belongs to the molybdopterin_binding
(MopB) superfamily of proteins.
Length = 414
Score = 62.4 bits (152), Expect = 1e-10
Identities = 67/323 (20%), Positives = 120/323 (37%), Gaps = 61/323 (18%)
Query: 76 AKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADA----EAMVALKD 131
KP+I A+ + + L+A + A +G+LA E + L+
Sbjct: 55 LTKPMIKKDGQWQEVDWETALEYVAEGLSA--IIKKHGADQIGALASPHSTLEELYLLQK 112
Query: 132 LLNKLGSEDLYT---EYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNPRFEAPL 188
L LGS+++ + F + L IA E D +L+IG+N R E PL
Sbjct: 113 LARGLGSDNIDHRLRQSDFRDDAK---ASGAPWLGMPIAEISELDRVLVIGSNLRKEHPL 169
Query: 189 FNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQLASGSHAFSKKLAAAKKPL 248
R+R+ ++ I P D D + L+
Sbjct: 170 LAQRLRQAV-KKGAKLSAINPADD------------DFLFPLSG--------------KA 202
Query: 249 IVVGADMLSRSDGAAVLALVQQLAAKVTCESDHLGESADLIKQLASGSHAFSKKLAAAKK 308
IV + + + A V + + + D E+++ +++A+ L +A++
Sbjct: 203 IVAPSALANAL--AQVAKALAEEKGLAVPDEDAKVEASEEARKIAA-------SLVSAER 253
Query: 309 PLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVPCDWKVLNILQKAASQVAALDIGYK 368
+ +G + A + AL Q++ AK+T + L +L + A+ V A G
Sbjct: 254 AAVFLGNLAQNHPQAATLRALAQEI-AKLTGAT--------LGVLGEGANSVGAYLAGAL 304
Query: 369 PGTS----AIREKPPKVLFLLGA 387
P A+ E+P K LL
Sbjct: 305 PHGGLNAAAMLEQPRKAYLLLNV 327
Score = 42.3 bits (100), Expect = 3e-04
Identities = 26/130 (20%), Positives = 47/130 (36%), Gaps = 28/130 (21%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGP-KVDLRYDYEH--------- 51
E D +L+IG+N R E PL R+R+ ++ I P D +
Sbjct: 151 SELDRVLVIGSNLRKEHPLLAQRLRQAV-KKGAKLSAINPADDDFLFPLSGKAIVAPSAL 209
Query: 52 ---LGESADLIKQLASGSHPFSKK--------------LSAAKKPLIVVGADMLSRSDGA 94
L + A + + + P L +A++ + +G + A
Sbjct: 210 ANALAQVAKALAEEKGLAVPDEDAKVEASEEARKIAASLVSAERAAVFLGNLAQNHPQAA 269
Query: 95 AVLALVQQLA 104
+ AL Q++A
Sbjct: 270 TLRALAQEIA 279
>gnl|CDD|236386 PRK09129, PRK09129, NADH dehydrogenase subunit G; Validated.
Length = 776
Score = 54.9 bits (133), Expect = 4e-08
Identities = 44/202 (21%), Positives = 75/202 (37%), Gaps = 38/202 (18%)
Query: 106 KVTCESDVAGVVGSLADA----EAMVALKDLLNKLGSEDL---YTEYAFPLEGAGTDLRA 158
K E A +G+LA E + L+ L LGS ++ + F + A
Sbjct: 301 KGIIEDHGADQIGALASPHSTLEELYLLQKLARGLGSGNIDHRLRQQDFRDDAAAPGAPW 360
Query: 159 NYLLNNKIAGAEEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKV-DLRYDY 217
L IA D +L++G+N R E PL AR+R+ N ++ I P D +
Sbjct: 361 ---LGMPIAELSNLDAVLVVGSNLRKEHPLLAARLRQAAK-NGAKLSAINPVDDDFLFPV 416
Query: 218 EH---------LGESADLIKQLASG-----------------SHAFSKKLAAAKKPLIVV 251
A + +A+ + A ++ LA ++ I++
Sbjct: 417 AQRIIVAPSAWADALAGVAAAVAAAKGVALPEALAKVLAAAAARAIAQSLANGERAAILL 476
Query: 252 GADMLSRSDGAAVLALVQQLAA 273
G ++ A + AL Q +A
Sbjct: 477 GNLAVNHPQAATLRALAQWIAK 498
Score = 48.4 bits (116), Expect = 5e-06
Identities = 26/131 (19%), Positives = 49/131 (37%), Gaps = 28/131 (21%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGPKV-DLRYDYEH--------- 51
D +L++G+N R E PL AR+R+ N ++ I P D +
Sbjct: 369 SNLDAVLVVGSNLRKEHPLLAARLRQAAK-NGAKLSAINPVDDDFLFPVAQRIIVAPSAW 427
Query: 52 LGESADLIKQLA---SGSHPFS--------------KKLSAAKKPLIVVGADMLSRSDGA 94
A + +A + P + + L+ ++ I++G ++ A
Sbjct: 428 ADALAGVAAAVAAAKGVALPEALAKVLAAAAARAIAQSLANGERAAILLGNLAVNHPQAA 487
Query: 95 AVLALVQQLAA 105
+ AL Q +A
Sbjct: 488 TLRALAQWIAK 498
>gnl|CDD|239172 cd02771, MopB_NDH-1_NuoG2-N7, MopB_NDH-1_NuoG2-N7: The second
domain of the NuoG subunit (with a [4Fe-4S] cluster, N7)
of the NADH-quinone oxidoreductase/NADH dehydrogenase-1
(NDH-1) found in various bacteria. The NDH-1 is the
first energy-transducting complex in the respiratory
chain and functions as a redox pump that uses the redox
energy to translocate H+ ions across the membrane,
resulting in a significant contribution to energy
production. In Escherichia coli NDH-1, the largest
subunit is encoded by the nuoG gene, and is part of the
14 distinct subunits constituting the functional enzyme.
The NuoG subunit is made of two domains: the first
contains three binding sites for FeS clusters (the fer2
domain), the second domain (this CD), is of unknown
function or, as postulated, has lost an ancestral
formate dehydrogenase activity that became redundant
during the evolution of the complex I enzyme. Unique to
this group, compared to the other prokaryotic and
eukaryotic groups in this domain protein family
(NADH-Q-OR-NuoG2), is an N-terminal [4Fe-4S] cluster
(N7/N1c) present in the second domain. Although only
vestigial sequence evidence remains of a molybdopterin
binding site, this protein domain belongs to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 472
Score = 43.1 bits (102), Expect = 2e-04
Identities = 61/273 (22%), Positives = 91/273 (33%), Gaps = 46/273 (16%)
Query: 77 KKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNK- 135
+PLI G ++ S A+ +L V G+ A E+ AL+ L+
Sbjct: 56 TQPLIRRGGTLVPVSWNEALDVAAARLKEAKD---KVGGIGSPRASNESNYALQKLVGAV 112
Query: 136 LGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNPRFEAPLFNARIRK 195
LG+ ++ LR + + E AD +L++G + AP +R+
Sbjct: 113 LGTNNVDHR---ARRLIAEILRNGPIYIPSLRDIESADAVLVLGEDLTQTAPRIALALRQ 169
Query: 196 GYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQLASGSHAFSKKLAAAKKPLIVVGADM 255
R E S Q A+ + AK PL +V A
Sbjct: 170 --------------AAR-RKAVELAALSGIPKWQDAAVRNIAQG----AKSPLFIVNALA 210
Query: 256 LSRSDGAA--VLALVQQLAAKVTCESDHLGES-ADLIKQLASGSHAFSKK---------L 303
D AA + A A LG + A + A+G + K L
Sbjct: 211 TRLDDIAAESIRASPGGQAR--------LGAALARAVDASAAGVSGLAPKEKAARIAARL 262
Query: 304 AAAKKPLIVVGADMLSRSDGAAVLALVQQLAAK 336
AKKPLIV G S A L + L +
Sbjct: 263 TGAKKPLIVSGTLSGSLELIKAAANLAKALKRR 295
>gnl|CDD|236170 PRK08166, PRK08166, NADH dehydrogenase subunit G; Validated.
Length = 791
Score = 40.3 bits (95), Expect = 0.001
Identities = 63/300 (21%), Positives = 107/300 (35%), Gaps = 51/300 (17%)
Query: 77 KKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKL 136
++PL G D ++ + A+ L V G+ A E+ AL++L+
Sbjct: 280 RQPLQRRGDDFITLNADQALQGAADILRQAKK----VIGIGSPRASLESNFALRELV--- 332
Query: 137 GSEDLYTEYAFPLEGAGTDLRANYLLNNKI-----AGAEEADLILLIGTNPRFEAPLFNA 191
G+E+ YT A E L L I E D +L++G + A
Sbjct: 333 GAENFYTGIAAG-EQERLQLALKVLREGGIYTPSLREIESYDAVLVLGEDLTQTAARVAL 391
Query: 192 RIRKGYLTNELDVAYIGPKVDLRYD--YEHLGESADLIKQLASGSHAFSKKLAAAKKPLI 249
+R+ ++A KV ++G+ A S F LA AKKPLI
Sbjct: 392 AVRQAVKGKAREMA-AAQKVADWQIAAVRNIGQRAK--------SPLFITNLAGAKKPLI 442
Query: 250 VVGADMLSRSDGAAVLALVQQLAAK--------VTCESDHLGESADLIKQLA-----SGS 296
+ G S + A + + L + V E++ +G LA S
Sbjct: 443 ISGTSAGSPAIIEAAANVAKALKGRGADVGITLVAPEANSMG--------LALLGGGSLE 494
Query: 297 HAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVPCDWKVLNILQKA 356
A + + +IV+ D+ + A V A + + + D + ++KA
Sbjct: 495 EALEELESGRADAVIVLENDLYRHAPAARVDAALAKAPLVIV------LDHQRTATMEKA 548
>gnl|CDD|223107 COG0028, IlvB, Thiamine pyrophosphate-requiring enzymes
[acetolactate synthase, pyruvate dehydrogenase
(cytochrome), glyoxylate carboligase, phosphonopyruvate
decarboxylase] [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 550
Score = 34.9 bits (81), Expect = 0.061
Identities = 28/146 (19%), Positives = 48/146 (32%), Gaps = 36/146 (24%)
Query: 35 DVAYIGPKVDLRYDYEHLGESADLIKQLASGSHPFSKKLSAAKKPLIVVGADMLSRSDGA 94
+ GP+ + Y + I++ A + L+ AK+P+I+ G +
Sbjct: 166 EAEEPGPEPAILPPYRPAPPPPEAIRKAA-------ELLAEAKRPVILAGGGVRRAGASE 218
Query: 95 AVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKLGSEDLYTEYAFPLEGAGT 154
+ L ++L A V L G+ + + G
Sbjct: 219 ELRELAEKLGAPVVTT----------------------LMGKGAVPEDHPLSLGMLGMHG 256
Query: 155 DLRANYLLNNKIAGAEEADLILLIGT 180
AN L EEADL+L +G
Sbjct: 257 TKAANEAL-------EEADLLLAVGA 275
Score = 32.6 bits (75), Expect = 0.33
Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 7/81 (8%)
Query: 203 DVAYIGPKVDLRYDYEHLGESADLIKQLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGA 262
+ GP+ + Y + I++ A + LA AK+P+I+ G +
Sbjct: 166 EAEEPGPEPAILPPYRPAPPPPEAIRKAA-------ELLAEAKRPVILAGGGVRRAGASE 218
Query: 263 AVLALVQQLAAKVTCESDHLG 283
+ L ++L A V G
Sbjct: 219 ELRELAEKLGAPVVTTLMGKG 239
Score = 30.3 bits (69), Expect = 2.0
Identities = 11/40 (27%), Positives = 19/40 (47%)
Query: 301 KKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCE 340
+ LA AK+P+I+ G + + L ++L A V
Sbjct: 195 ELLAEAKRPVILAGGGVRRAGASEELRELAEKLGAPVVTT 234
>gnl|CDD|225918 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 33.2 bits (76), Expect = 0.26
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 164 NKIAGAEEADLILLIGTNPRFEAPLFNARIRK 195
I E ADL+L+IG NP P+ +R+++
Sbjct: 413 GSIEDVEGADLVLIIGANPTEGHPVLASRLKR 444
Score = 32.8 bits (75), Expect = 0.39
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRK 27
E ADL+L+IG NP P+ +R+++
Sbjct: 419 EGADLVLIIGANPTEGHPVLASRLKR 444
>gnl|CDD|239154 cd02753, MopB_Formate-Dh-H, Formate dehydrogenase H (Formate-Dh-H)
catalyzes the reversible oxidation of formate to CO2
with the release of a proton and two electrons. It is a
component of the anaerobic formate hydrogen lyase
complex. The E. coli formate dehydrogenase H (Fdh-H) is
a monomer composed of a single polypeptide chain with a
Mo active site region and a [4Fe-4S] center. Members of
the MopB_Formate-Dh-H CD belong to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 512
Score = 33.0 bits (76), Expect = 0.28
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 9/46 (19%)
Query: 150 EGAGTDLRANYLLNNKIAGAEEADLILLIGTNPRFEAPLFNARIRK 195
GA T N IA EEAD+IL+IG+N P+ RI++
Sbjct: 144 SGAMT---------NSIADIEEADVILVIGSNTTEAHPVIARRIKR 180
Score = 29.9 bits (68), Expect = 2.6
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRK 27
EEAD+IL+IG+N P+ RI++
Sbjct: 155 EEADVILVIGSNTTEAHPVIARRIKR 180
>gnl|CDD|182227 PRK10079, PRK10079, phosphonate metabolism transcriptional
regulator PhnF; Provisional.
Length = 241
Score = 31.7 bits (72), Expect = 0.56
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 7/65 (10%)
Query: 39 IGPKVDLR-YDYEHLGE---SADLIKQLASGSHPFSKKLSAAKKPLIVVGADMLSRSDGA 94
+G V +R YDY + S +L+ Q GSHP S+KL + +P AD L ++G
Sbjct: 71 VGVLVLMRPYDYPLNAQARFSQNLLDQ---GSHPTSEKLLSVLRPASGHVADALGITEGE 127
Query: 95 AVLAL 99
V+ L
Sbjct: 128 NVIHL 132
>gnl|CDD|235931 PRK07092, PRK07092, benzoylformate decarboxylase; Reviewed.
Length = 530
Score = 30.3 bits (69), Expect = 2.1
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 241 LAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAK 274
L AA++P +VVG + D A +LA +
Sbjct: 203 LDAARRPALVVGPAV----DRAGAWDDAVRLAER 232
Score = 30.3 bits (69), Expect = 2.1
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 303 LAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAK 336
L AA++P +VVG + D A +LA +
Sbjct: 203 LDAARRPALVVGPAV----DRAGAWDDAVRLAER 232
Score = 28.8 bits (65), Expect = 5.1
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 73 LSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAK 106
L AA++P +VVG + D A +LA +
Sbjct: 203 LDAARRPALVVGPAV----DRAGAWDDAVRLAER 232
>gnl|CDD|236118 PRK07860, PRK07860, NADH dehydrogenase subunit G; Validated.
Length = 797
Score = 30.3 bits (69), Expect = 2.4
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGP 41
E+A +LL+G P E+P+ R+RK + L V I P
Sbjct: 375 EKAPAVLLVGFEPEEESPIVFLRLRKAARKHGLKVYSIAP 414
Score = 30.3 bits (69), Expect = 2.4
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 170 EEADLILLIGTNPRFEAPLFNARIRKGYLTNELDVAYIGP 209
E+A +LL+G P E+P+ R+RK + L V I P
Sbjct: 375 EKAPAVLLVGFEPEEESPIVFLRLRKAARKHGLKVYSIAP 414
>gnl|CDD|215786 pfam00205, TPP_enzyme_M, Thiamine pyrophosphate enzyme, central
domain. The central domain of TPP enzymes contains a
2-fold Rossman fold.
Length = 136
Score = 28.7 bits (65), Expect = 2.7
Identities = 25/110 (22%), Positives = 36/110 (32%), Gaps = 29/110 (26%)
Query: 71 KKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALK 130
+ L++AK+P+I+ G + + AL ++L V G
Sbjct: 6 ELLASAKRPVILAGGGVRRSGASEELRALAEKLGIPVVTTLMGKGAFPE----------- 54
Query: 131 DLLNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGT 180
LY G AN L EEADL+L IG
Sbjct: 55 -------DHPLYLGML----GMHGTPAANEAL-------EEADLVLAIGA 86
Score = 28.3 bits (64), Expect = 4.0
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 239 KKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVT 276
+ LA+AK+P+I+ G + + AL ++L V
Sbjct: 6 ELLASAKRPVILAGGGVRRSGASEELRALAEKLGIPVV 43
>gnl|CDD|220654 pfam10254, Pacs-1, PACS-1 cytosolic sorting protein. PACS-1 is a
cytosolic sorting protein that directs the localisation
of membrane proteins in the trans-Golgi network
(TGN)/endosomal system. PACS-1 connects the clathrin
adaptor AP-1 to acidic cluster sorting motifs contained
in the cytoplasmic domain of cargo proteins such as
furin, the cation-independent mannose-6-phosphate
receptor and in viral proteins such as human
immunodeficiency virus type 1 Nef.
Length = 413
Score = 29.4 bits (66), Expect = 3.3
Identities = 27/107 (25%), Positives = 41/107 (38%), Gaps = 14/107 (13%)
Query: 45 LRYDYEHLG-ESADLIKQL-----ASGSHPFSKKLSAAKKPLIVVGADMLSRS--DGAAV 96
LR+ E L ++ D + + GSHP +K L + + D R D A
Sbjct: 92 LRFFVEQLAHKTPDWLNHMRFLIIPLGSHPVAKYLGSIDSRYSSMFLDSAWRDLFDRAEA 151
Query: 97 LALVQ---QLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKLGSED 140
Q + +++ + AG L AEAM+ K K ED
Sbjct: 152 PTSAQKALDVVSRIQQYINGAGPTHQLPIAEAMLTYK---AKSRDED 195
>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau;
Validated.
Length = 709
Score = 29.7 bits (66), Expect = 3.5
Identities = 17/38 (44%), Positives = 24/38 (63%)
Query: 256 LSRSDGAAVLALVQQLAAKVTCESDHLGESADLIKQLA 293
+ DGAA+LA Q++AA + LGE A L++QLA
Sbjct: 256 IINQDGAALLAKAQEMAACAVGFDNALGELAILLQQLA 293
>gnl|CDD|177972 PLN02338, PLN02338, 3-phosphoshikimate 1-carboxyvinyltransferase.
Length = 443
Score = 29.3 bits (66), Expect = 3.6
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 74 SAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLL 133
+ K L + +M D A LA+V A T DVA + + E M+A+ L
Sbjct: 312 AFGGKHLKAIDVNMNKMPDVAMTLAVVALFADGPTAIRDVAS--WRVKETERMIAICTEL 369
Query: 134 NKLGSE 139
KLG+
Sbjct: 370 RKLGAT 375
>gnl|CDD|236138 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau;
Validated.
Length = 647
Score = 29.4 bits (67), Expect = 3.9
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 88 LSRSDGAAVLALVQQLAAK 106
L DG V+AL+ QLA +
Sbjct: 256 LVEGDGERVMALINQLAER 274
Score = 29.4 bits (67), Expect = 3.9
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 256 LSRSDGAAVLALVQQLAAK 274
L DG V+AL+ QLA +
Sbjct: 256 LVEGDGERVMALINQLAER 274
Score = 29.4 bits (67), Expect = 3.9
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 318 LSRSDGAAVLALVQQLAAK 336
L DG V+AL+ QLA +
Sbjct: 256 LVEGDGERVMALINQLAER 274
>gnl|CDD|181337 PRK08266, PRK08266, hypothetical protein; Provisional.
Length = 542
Score = 29.2 bits (66), Expect = 4.0
Identities = 27/132 (20%), Positives = 40/132 (30%), Gaps = 45/132 (34%)
Query: 71 KKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALK 130
++AAK P+I VG + G + L + L A V G+V
Sbjct: 200 ALIAAAKNPMIFVGGG--AAGAGEEIRELAEMLQAPVVAFRSGRGIVSD----------- 246
Query: 131 DLLNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAE---EADLILLIGTNPRFEAP 187
+ L N A E + D+++ IG+ R E P
Sbjct: 247 ---------------------------RHPLGLNFAAAYELWPQTDVVIGIGS--RLELP 277
Query: 188 LFNARIRKGYLT 199
F R L
Sbjct: 278 TFRWPWRPDGLK 289
Score = 28.8 bits (65), Expect = 6.2
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 236 AFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVT 276
A + +AAAK P+I VG + G + L + L A V
Sbjct: 197 AAAALIAAAKNPMIFVGGG--AAGAGEEIRELAEMLQAPVV 235
Score = 28.8 bits (65), Expect = 6.2
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 298 AFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVT 338
A + +AAAK P+I VG + G + L + L A V
Sbjct: 197 AAAALIAAAKNPMIFVGGG--AAGAGEEIRELAEMLQAPVV 235
>gnl|CDD|232855 TIGR00173, menD,
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylic-acid synthase. MenD was thought until
recently to act as SHCHC synthase, but has recently been
shown to act instead as SEPHCHC synthase. Conversion of
SEPHCHC into SHCHC and pyruvate may occur spontaneously
but is catalyzed efficiently, at least in some
organisms, by MenH (see TIGR03695). 2-oxoglutarate
decarboxylase/SHCHC synthase (menD) is a thiamine
pyrophosphate enzyme involved in menaquinone
biosynthesis [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 430
Score = 29.1 bits (66), Expect = 4.4
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 66 SHPFSKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCE 110
+L AK+ LI+ G + D A+ AL + L + +
Sbjct: 200 LDDLWDRLRQAKRGLIIAG-PLAGAEDAEALAALAEALGWPLLAD 243
Score = 28.0 bits (63), Expect = 9.7
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 234 SHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCE 278
+L AK+ LI+ G + D A+ AL + L + +
Sbjct: 200 LDDLWDRLRQAKRGLIIAG-PLAGAEDAEALAALAEALGWPLLAD 243
Score = 28.0 bits (63), Expect = 9.7
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 296 SHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCE 340
+L AK+ LI+ G + D A+ AL + L + +
Sbjct: 200 LDDLWDRLRQAKRGLIIAG-PLAGAEDAEALAALAEALGWPLLAD 243
>gnl|CDD|237097 PRK12420, PRK12420, histidyl-tRNA synthetase; Provisional.
Length = 423
Score = 28.9 bits (65), Expect = 4.7
Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 109 CESDVAGVVGSLADAEAMVALKDLLNKLGSEDLYTEY 145
C+ D+ GV +A+AE M +L +L ++ +Y
Sbjct: 125 CDVDIVGVESVMAEAELMSMAFELFRRLNL-EVTIQY 160
>gnl|CDD|181185 PRK07979, PRK07979, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 574
Score = 28.7 bits (64), Expect = 6.6
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 239 KKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDHLG 283
+ L AAKKP++ VG ++ + + LV++L V LG
Sbjct: 201 QTLVAAKKPVVYVGGGAINAACHQQLKELVEKLNLPVVSSLMGLG 245
Score = 28.3 bits (63), Expect = 8.9
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 301 KKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTC 339
+ L AAKKP++ VG ++ + + LV++L V
Sbjct: 201 QTLVAAKKPVVYVGGGAINAACHQQLKELVEKLNLPVVS 239
>gnl|CDD|226471 COG3962, COG3962, Acetolactate synthase [Amino acid transport and
metabolism].
Length = 617
Score = 28.1 bits (63), Expect = 8.5
Identities = 30/108 (27%), Positives = 39/108 (36%), Gaps = 29/108 (26%)
Query: 73 LSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDL 132
+ +AKKPLIV G +L A+ A + V E+ +LA
Sbjct: 226 IKSAKKPLIVAGGGVLYSGAREALRAFAETHGIPV-VETQAGK--SALAWDHP------- 275
Query: 133 LNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGT 180
LG G L AN AEEADL++ IGT
Sbjct: 276 -LNLGG-----------VGVTGTLAANRA-------AEEADLVIGIGT 304
>gnl|CDD|239157 cd02756, MopB_Arsenite-Ox, Arsenite oxidase (Arsenite-Ox) oxidizes
arsenite to the less toxic arsenate; it transfers the
electrons obtained from the oxidation of arsenite
towards the soluble periplasmic electron carriers
cytochrome c and/or amicyanin. Arsenite oxidase is a
heterodimeric enzyme containing a large and a small
subunit. The large catalytic subunit harbors the
molybdopterin cofactor and the [3Fe-4S] cluster; and the
small subunit belongs to the structural class of the
Rieske proteins. The small subunit is not included in
this alignment. Members of MopB_Arsenite-Ox CD belong to
the molybdopterin_binding (MopB) superfamily of
proteins.
Length = 676
Score = 28.2 bits (63), Expect = 9.9
Identities = 14/37 (37%), Positives = 16/37 (43%)
Query: 146 AFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNP 182
A+ E T LNN A AD I+L G NP
Sbjct: 198 AYNSEVHATREMGVGELNNSYEDARLADTIVLWGNNP 234
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.133 0.368
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,141,080
Number of extensions: 2013444
Number of successful extensions: 2354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2310
Number of HSP's successfully gapped: 113
Length of query: 393
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 294
Effective length of database: 6,546,556
Effective search space: 1924687464
Effective search space used: 1924687464
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (27.0 bits)