RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9410
(736 letters)
>gnl|CDD|235424 PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional.
Length = 554
Score = 874 bits (2261), Expect = 0.0
Identities = 286/520 (55%), Positives = 365/520 (70%), Gaps = 22/520 (4%)
Query: 14 NKLPQVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSI 73
K +V TRF PEPNGYLHIGHAKSI +NF LA Y G CNLRFDDTNP KE++EYV+SI
Sbjct: 25 GKHTRVHTRFPPEPNGYLHIGHAKSICLNFGLAQDYGGKCNLRFDDTNPEKEDQEYVDSI 84
Query: 74 IKTIKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHE 133
+ ++WL F+W + YASDYFD LY+ A LI G AYVD + EEI RG L E
Sbjct: 85 KEDVRWLGFDWSG---ELRYASDYFDQLYEYAVELIKKGKAYVDDLSAEEIREYRGTLTE 141
Query: 134 PGRNSPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNH 193
PG+NSP+ +R E+L+LF RMR+GEF +G+ VLR KI+M S NINMRDP++YRIRH +H
Sbjct: 142 PGKNSPYRDRSVEENLDLFERMRAGEFPEGSAVLRAKIDMASPNINMRDPVLYRIRHAHH 201
Query: 194 YRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFP 253
+RT + WCIYPMYD+AH ISDAIE ITHS+CTLEF+DHRP Y+W+L+ + P P
Sbjct: 202 HRTGDKWCIYPMYDFAHCISDAIEGITHSLCTLEFEDHRPLYDWVLDNL-----PIPPHP 256
Query: 254 KQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRI 313
+QYEFSRLNLT+T+ SKRKL +L+E+K VDGWDDPRMPT+ G+RRRGYTPESI+ FC+RI
Sbjct: 257 RQYEFSRLNLTYTVMSKRKLKQLVEEKHVDGWDDPRMPTISGLRRRGYTPESIREFCERI 316
Query: 314 GVSKSDSWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQH 373
GV+K DS I++ +LE +R+DL+ APR MAVL+P+KL+I+N+ + Q E AP H
Sbjct: 317 GVTKQDSVIDMSMLESCIREDLNENAPRAMAVLDPLKLVITNYPEGQVEELEAP----NH 372
Query: 374 TQYKEK-LRYFPISKILWIERDDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGF 432
+ E R P S+ L+IER+DFME P KKYFRL P G VRLR YV++C
Sbjct: 373 PEDPEMGTREVPFSRELYIEREDFMEEPPKKYFRLVP------GKEVRLRNAYVIKCEEV 426
Query: 433 KKNKNNEVVEVYCKYFPDSKSGTKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYP 492
K+ + + E++C Y PD+ SG + KVKG IHW+S +HA+ E RLYDRLF P P
Sbjct: 427 VKDADGNITEIHCTYDPDTLSG-NPADGRKVKGTIHWVSAAHAVPAEVRLYDRLFTVPNP 485
Query: 493 NIVNNKDFKLLINPNSKKVISAYLEPNLKLIFPKKHAQFE 532
KDF +NP+S + ++EP+L P+ QFE
Sbjct: 486 A--AGKDFLDFLNPDSLVIKQGFVEPSLADAKPEDRFQFE 523
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 673 bits (1739), Expect = 0.0
Identities = 262/533 (49%), Positives = 349/533 (65%), Gaps = 23/533 (4%)
Query: 7 FIYDKYGNKL-----PQVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTN 61
FI + L P+V+TRF PEPNGYLHIGHAKSI +NF +A Y G C+LR DDTN
Sbjct: 15 FITEIIEEDLEAGRYPRVVTRFPPEPNGYLHIGHAKSILLNFGIARDYGGRCHLRMDDTN 74
Query: 62 PLKENKEYVNSIIKTIKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNT 121
P E+ EYV +I ++WL F+W + +YYASDYF+ +Y AE LI G AYVDS +
Sbjct: 75 PETEDTEYVEAIKDDVRWLGFDWGE---HLYYASDYFERMYAYAEQLIKMGLAYVDSVSE 131
Query: 122 EEIYINRGNLHEPGRNSPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMR 181
EEI RG + EPG SP+ +R E+L+LFRRMR+GEF DGAHVLR KI+M S N+ +R
Sbjct: 132 EEIRELRGTVTEPGTPSPYRDRSVEENLDLFRRMRAGEFPDGAHVLRAKIDMSSPNMKLR 191
Query: 182 DPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNK 241
DP++YRIRH +HYRT + WCIYPMYD+AHP+ DAIE +THSICTLEF+++R Y+W+L+
Sbjct: 192 DPLLYRIRHAHHYRTGDEWCIYPMYDFAHPLEDAIEGVTHSICTLEFENNRAIYDWVLDH 251
Query: 242 IDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGY 301
+ P P+QYEF+RL L +T+ SKRKL +L+E+ V GWDDPRMPT+ G RRRG
Sbjct: 252 LGP----WPPRPRQYEFARLALGYTVMSKRKLRELVEEGYVSGWDDPRMPTIAGQRRRGV 307
Query: 302 TPESIKLFCKRIGVSKSDSWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQE 361
TPE+I+ F +IGV+K++S ++I +LE A+RDDL+ +APR+MAVL+P+K++I N +
Sbjct: 308 TPEAIRDFADQIGVAKTNSTVDIGVLEFAIRDDLNRRAPRVMAVLDPLKVVIENLPAGKV 367
Query: 362 IECTAPLFSRQHTQYKEKLRYFPISKILWIERDDFMEIPTKKYFRLYPPIGKNSGNRVRL 421
E P + H KE R P ++ L+IERDDF E P K + RL P G VRL
Sbjct: 368 EELDLPYWP--HDVPKEGSRKVPFTRELYIERDDFSEDPPKGFKRLTP------GREVRL 419
Query: 422 RYGYVVECTGFKKNKNNEVVEVYCKYFPDSKSGTKLSSNYKVKGNIHWISKSHALSIEAR 481
R Y++ C ++ + V E+ C Y P+S G K G IHW+S HAL E R
Sbjct: 420 RGAYIIRCDEVVRDADGAVTELRCTYDPESAKGEDTGR--KAAGVIHWVSAKHALPAEVR 477
Query: 482 LYDRLFIDPYPNIVNNKDFKLLINPNSKKVISAYLEPNLKLIFPKKHAQFEQN 534
LYDRLF P P ++DF +NP+S +V +EP ++ QFE+
Sbjct: 478 LYDRLFKVPQPEAA-DEDFLEFLNPDSLRVAQGRVEPAVRDDPADTRYQFERQ 529
>gnl|CDD|232977 TIGR00440, glnS, glutaminyl-tRNA synthetase. This protein is a
relatively rare aminoacyl-tRNA synthetase, found in the
cytosolic compartment of eukaryotes, in E. coli and a
number of other Gram-negative Bacteria, and in
Deinococcus radiodurans. In contrast, the pathway to
Gln-tRNA in mitochondria, Archaea, Gram-positive
Bacteria, and a number of other lineages is by
misacylation with Glu followed by transamidation to
correct the aminoacylation to Gln. This enzyme is a
class I tRNA synthetase (hit by the pfam model
tRNA-synt_1c) and is quite closely related to
glutamyl-tRNA synthetases [Protein synthesis, tRNA
aminoacylation].
Length = 522
Score = 527 bits (1358), Expect = 0.0
Identities = 253/516 (49%), Positives = 326/516 (63%), Gaps = 23/516 (4%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
V TRF PEPNGYLHIGHAKSI +NF A YNG CNLRFDDTNP+KE+ EYV SI + ++
Sbjct: 1 VHTRFPPEPNGYLHIGHAKSICLNFGYAKYYNGTCNLRFDDTNPVKEDPEYVESIKRDVE 60
Query: 79 WLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRNS 138
WL F W+ +I Y+SDYFD LY+ AE LI G AYVD EEI RG L +PG+NS
Sbjct: 61 WLGFKWEG---KIRYSSDYFDELYRYAEELIKKGLAYVDELTPEEIREYRGTLTDPGKNS 117
Query: 139 PFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNN 198
P+ +R E+L LF +MR G+FK+G +LR KI+M S MRDP+ YRI+ H++T
Sbjct: 118 PYRDRSIEENLALFEKMRDGKFKEGKAILRAKIDMASPFPVMRDPVAYRIKFAPHHQTGT 177
Query: 199 NWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEF 258
WCIYPMYD+ H ISDA+ENITHS+CTLEFQD+R Y+W+L+ I I P QYEF
Sbjct: 178 KWCIYPMYDFTHCISDAMENITHSLCTLEFQDNRRLYDWVLDNIH----IFP-RPAQYEF 232
Query: 259 SRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKS 318
SRLNL T+ SKRKL +L++ K V GWDDPRMPT+ G+RRRGYTP SI+ FC RIGV+K
Sbjct: 233 SRLNLEGTVLSKRKLAQLVDDKFVRGWDDPRMPTISGLRRRGYTPASIREFCNRIGVTKQ 292
Query: 319 DSWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKE 378
D+ I + LE +R+DL+ APR MAV++P++++I N D E+ T P H E
Sbjct: 293 DNNIEVVRLESCIREDLNENAPRAMAVIDPVEVVIENLSDEYEL-ATIP----NHPNTPE 347
Query: 379 -KLRYFPISKILWIERDDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKN 437
R P + +I+R DF E K+Y RL G VRLR YV++ +K+
Sbjct: 348 FGERQVPFTNEFYIDRADFREEANKQYKRLVL------GKEVRLRNAYVIKAERVEKDAA 401
Query: 438 NEVVEVYCKYFPDSKSGTKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNN 497
++ ++C Y + G + + KVKG IHW+S S E RLYDRLF P P
Sbjct: 402 GKITTIFCTYDNKTL-GKEPADGRKVKGVIHWVSASSKYPTETRLYDRLFKVPNPG--AP 458
Query: 498 KDFKLLINPNSKKVISAYLEPNLKLIFPKKHAQFEQ 533
DF +INP S + ++E +L K QFE+
Sbjct: 459 DDFLSVINPESLVIKQGFMEHSLGDAVANKRFQFER 494
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 461 bits (1189), Expect = e-152
Identities = 226/525 (43%), Positives = 314/525 (59%), Gaps = 41/525 (7%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTI 77
+V TRF PEPNGYLHIGHAK++F++F LA + G C LRFDDTNP E KEY++ I + +
Sbjct: 264 KVYTRFPPEPNGYLHIGHAKAMFVDFGLAKERGGCCYLRFDDTNPEAEKKEYIDHIEEIV 323
Query: 78 KWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRN 137
+W+ W+ K I Y SDYF LY++A LI G AYVD Q EEI R E N
Sbjct: 324 EWMG--WEPFK--ITYTSDYFQELYELAVELIRRGHAYVDHQTPEEIKEYR----EKKMN 375
Query: 138 SPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTN 197
SP+ +R ESL LF MR G ++G LR+K +M++ N NM D I YRI+ H
Sbjct: 376 SPWRDRPIEESLKLFEDMRRGLIEEGKATLRMKQDMQNDNFNMYDLIAYRIKFTPHPHAG 435
Query: 198 NNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYE 257
+ WCIYP YDYAH I D++ENITHS+CTLEF+ R Y W+L+ + P +E
Sbjct: 436 DKWCIYPSYDYAHCIVDSLENITHSLCTLEFETRRASYYWLLDSLGLY------QPYVWE 489
Query: 258 FSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSK 317
+SRLN+T+T+ SKRKL +L+ +K VDGWDDPR+ TL G+RRRG TP +I FC+ IG+++
Sbjct: 490 YSRLNVTNTVMSKRKLNRLVTEKYVDGWDDPRLLTLAGLRRRGVTPTAINAFCRGIGITR 549
Query: 318 SD-SWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQY 376
SD S I ++ LE +R++L+ APR M VL+P+K++I+N + IE A +
Sbjct: 550 SDNSLIRMDRLEHHIREELNKTAPRTMVVLHPLKVVITNLESGEVIELDAKRWPDAQNDD 609
Query: 377 KEKLRYFPISKILWIERDDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGF-KKN 435
P S++++IER DF +K Y+ L P G V LRY + ++CT +
Sbjct: 610 PSAFYKVPFSRVVYIERSDFRLKDSKDYYGLAP------GKSVLLRYAFPIKCTDVVLAD 663
Query: 436 KNNEVVEVYCKYFPDSKSGTKLSSNYKVKGNIHWISKS----HALSIEARLYDRLFIDPY 491
N VVE+ +Y P+ K+ K KG +HW+++ L +E RL+D+LF+
Sbjct: 664 DNETVVEIRAEYDPEKKT--------KPKGVLHWVAEPSPGVEPLKVEVRLFDKLFLSEN 715
Query: 492 PNIVNN--KDFKLLINPNSKKVIS-AYLEPNLKLIFPKKHAQFEQ 533
P + + +D NP SK+VIS AY P+LK QFE+
Sbjct: 716 PAELEDWLEDL----NPQSKEVISGAYAVPSLKDAKVGDRFQFER 756
>gnl|CDD|240418 PTZ00437, PTZ00437, glutaminyl-tRNA synthetase; Provisional.
Length = 574
Score = 374 bits (962), Expect = e-121
Identities = 195/502 (38%), Positives = 291/502 (57%), Gaps = 37/502 (7%)
Query: 22 RFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIKWLN 81
RF PEPNG+LHIGHAKS+ +NF A + G C LR+DDTNP E + Y+++I++ +KW+
Sbjct: 55 RFPPEPNGFLHIGHAKSMNLNFGSARAHGGKCYLRYDDTNPETEEQVYIDAIMEMVKWMG 114
Query: 82 FNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRNSPFY 141
+ D V ++SDYFD L++ A LI G AYVD +E+ R + SP+
Sbjct: 115 WKPDWVT----FSSDYFDQLHEFAVQLIKDGKAYVDHSTPDELKQQREQRED----SPWR 166
Query: 142 NRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWC 201
NR E+L LF MR G + +G LRVK +MKS N NMRD I YR+++V H + WC
Sbjct: 167 NRSVEENLLLFEHMRQGRYAEGEATLRVKADMKSDNPNMRDFIAYRVKYVEHPHAKDKWC 226
Query: 202 IYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRL 261
IYP YD+ H + D++E+I +S+CTLEF+ R Y W+L +++ + RP +EFSRL
Sbjct: 227 IYPSYDFTHCLIDSLEDIDYSLCTLEFETRRESYFWLLEELN----LWRPH--VWEFSRL 280
Query: 262 NLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSW 321
N+T ++ SKRK+ L+ K IV G+DDPR+ TL GMRRRGYTP +I FC+ +G+++S +
Sbjct: 281 NVTGSLLSKRKINVLVRKGIVRGFDDPRLLTLAGMRRRGYTPAAINRFCELVGITRSMNV 340
Query: 322 INIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEKLR 381
I I +LE LR+DLD + R + V++PIK+++ N+ +E EC P R+ K+
Sbjct: 341 IQISMLENTLREDLDERCERRLMVIDPIKVVVDNWKGEREFEC--PNHPRKPELGSRKVM 398
Query: 382 YFPISKILWIERDDF-MEIPTKKYFRLYPPIGKNSGNR-VRLRYGYVVECTGFKKNKNNE 439
+ + +++R DF E K++ L P G R V L+Y V C GF+ + +
Sbjct: 399 F---TDTFYVDRSDFRTEDNNSKFYGLAP------GPRVVGLKYSGNVVCKGFEVDAAGQ 449
Query: 440 VVEVYCKYFPDSKSGTKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKD 499
++ + K K K NI W+S + +E RLY+ L D I + +
Sbjct: 450 PSVIHVDIDFERKD--------KPKTNISWVSATACTPVEVRLYNALLKDDRAAI--DPE 499
Query: 500 FKLLINPNSKKVISAYLEPNLK 521
F I+ +S+ V Y E ++
Sbjct: 500 FLKFIDEDSEVVSHGYAEKGIE 521
>gnl|CDD|223087 COG0008, GlnS, Glutamyl- and glutaminyl-tRNA synthetases
[Translation, ribosomal structure and biogenesis].
Length = 472
Score = 343 bits (883), Expect = e-111
Identities = 125/393 (31%), Positives = 182/393 (46%), Gaps = 20/393 (5%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
V TRFAP P GYLHIGHA++ +N+ A KY G LR +DT+P +E E ++I++ ++
Sbjct: 10 VRTRFAPSPTGYLHIGHARTALLNYLYARKYGGKFILRIEDTDPERETPEAEDAILEDLE 69
Query: 79 WLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRNS 138
WL +WD+ YY S+ FDI Y+ AE LI G AYV EE+ R G
Sbjct: 70 WLGLDWDEG---PYYQSERFDIYYEYAEKLIEKGKAYVCYCTPEELEEMRELRGALGEPP 126
Query: 139 PFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVN-HYR-T 196
P Y+R +L LF +M + G V+R+KI M RD + RI H
Sbjct: 127 PSYDRD-ERNLTLFEKMADLG-EGGPAVVRLKIPMAHPGPVFRDLVRGRIVFAPKHPDFV 184
Query: 197 NNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQY 256
+ YP Y++A + D + ITH + + D+ P W+ + P P
Sbjct: 185 ILRYDGYPTYNFAVVVDDHLMGITHVLRGEDHLDNTPRQIWLYEALG------WPPPVYA 238
Query: 257 EFSRLNL-THTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGV 315
L SKRK + + V+GW P +P L+ + RGY PE+I++F G+
Sbjct: 239 HLPLLLNEDGKKLSKRKGAVSIGEYRVEGWLPPALPNLLALLGRGYPPEAIEIFSLEEGI 298
Query: 316 SKSDSWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDN-QEIECTAPLFSRQHT 374
D I + R LD PR M V P++++I N + +E T PL
Sbjct: 299 KWFDLTIVSKSPAAFDRKKLDWLNPRYMRVD-PVEVVIENLKPHLEEEGATLPL---NPE 354
Query: 375 QYKEKLRYFPISKILWIERDDFMEIPTKKYFRL 407
+ + ++ IER DF K+ RL
Sbjct: 355 MGERVVPLTK-ETLIEIERLDFFFFEDKEEVRL 386
>gnl|CDD|216096 pfam00749, tRNA-synt_1c, tRNA synthetases class I (E and Q),
catalytic domain. Other tRNA synthetase sub-families
are too dissimilar to be included. This family includes
only glutamyl and glutaminyl tRNA synthetases. In some
organisms, a single glutamyl-tRNA synthetase
aminoacylates both tRNA(Glu) and tRNA(Gln).
Length = 314
Score = 330 bits (849), Expect = e-108
Identities = 130/308 (42%), Positives = 159/308 (51%), Gaps = 15/308 (4%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTI 77
+V TRFAP P GYLHIGHA++ N+ A YNG LRFDDT+P +E EY SI++ +
Sbjct: 1 KVRTRFAPSPTGYLHIGHARTALFNYLFAKNYNGKFILRFDDTDPEREKPEYEESILEDL 60
Query: 78 KWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRN 137
KWL WD ++ YY SD FDI YK AE LI G AYV EE + +
Sbjct: 61 KWLGIKWD---EKPYYQSDRFDIYYKYAEELIEKGLAYVCFCTPEE--LEEEREEQEALG 115
Query: 138 SPFYNRLPSESLNLFRRM-RSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIR---HVNH 193
SP R E L LF R GE + G LR KI M+S MRD + RI+ H
Sbjct: 116 SPERPRYDEECLRLFEEEMRKGEAEGGKATLRFKIPMES-PYVMRDLVRGRIKFEPSALH 174
Query: 194 YRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFP 253
RT W YP YD+A I DAI ITH + E D+ P WI + + P P
Sbjct: 175 DRTGLKWDGYPTYDFAVVIDDAIMGITHVLRGEEHLDNTPKQIWIYQALG----WEVP-P 229
Query: 254 KQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRI 313
+E+ RLNL T SKRKL + V GW DP L +RRRG+TPE I+ F R
Sbjct: 230 FIHEYLRLNLDGTKLSKRKLSLSVFISQVKGWGDPPEALLNFLRRRGWTPEGIREFFTRE 289
Query: 314 GVSKSDSW 321
+ KS
Sbjct: 290 ELIKSFDL 297
>gnl|CDD|235903 PRK06991, PRK06991, ferredoxin; Provisional.
Length = 270
Score = 280 bits (719), Expect = 2e-89
Identities = 100/166 (60%), Positives = 124/166 (74%)
Query: 533 QNLLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLNTIY 592
++LLPQTQCTKCGY GCR YAEAIA +ANYN+CP GG +GI +LA L KP+IPL+
Sbjct: 12 EDLLPQTQCTKCGYDGCRPYAEAIAAGEANYNRCPPGGAEGIARLAALLGKPVIPLDPAN 71
Query: 593 GNEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNC 652
G E+ R A+I E CIGCTLC+Q+CPVDAI+GA K MHT+ + LCTGCDLC+ CPV+C
Sbjct: 72 GVERPRAVAVIDEQLCIGCTLCMQACPVDAIVGAPKQMHTVLADLCTGCDLCVPPCPVDC 131
Query: 653 ISMIEVTPCRTGWDAWSQKKADDARKRYYLRKKRLFHEKKENYAKL 698
I M+ VT RTGWDAWSQ +AD AR R+ R+ RL E++ A+
Sbjct: 132 IDMVPVTGERTGWDAWSQAQADAARARHDARQARLRREREAAEARA 177
>gnl|CDD|235229 PRK04156, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 567
Score = 266 bits (683), Expect = 3e-80
Identities = 139/469 (29%), Positives = 223/469 (47%), Gaps = 60/469 (12%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKEN--KEYVNSIIK 75
+V+ RFAP P+G LH+GHA++ +N E A Y G LRF+DT+P + E + I++
Sbjct: 101 KVVMRFAPNPSGPLHLGHARAAILNDEYAKMYGGKFILRFEDTDPRTKRPDPEAYDMILE 160
Query: 76 TIKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPG 135
+KWL WD+V SD +I Y+ A LI G AYV + + EE L + G
Sbjct: 161 DLKWLGVKWDEV----VIQSDRLEIYYEYARKLIEMGGAYVCTCDPEEF----KELRDAG 212
Query: 136 RNSPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYR 195
+ P ++ P E+L L+ +M GE+K+G V+RVK +++ N ++RD + +RI H R
Sbjct: 213 KPCPHRDKSPEENLELWEKMLDGEYKEGEAVVRVKTDLEHPNPSVRDWVAFRIVKTPHPR 272
Query: 196 TNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF--- 252
+ + ++P Y++A + D + +TH L +DH I N K +I F
Sbjct: 273 VGDKYRVWPTYNFAVAVDDHLLGVTH---VLRGKDH------IDNTE-KQRYIYDYFGWE 322
Query: 253 -PKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCK 311
P+ + RL + + S K+ K +E+ GWDDPR+PTL +RRRG PE+I+
Sbjct: 323 YPETIHYGRLKIEGFVLSTSKIRKGIEEGEYSGWDDPRLPTLRALRRRGILPEAIRELII 382
Query: 312 RIGVSKSDSWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSR 371
+GV ++D+ I+ E L R +D A R V +P++L I + +E PL
Sbjct: 383 EVGVKETDATISWENLYAINRKLIDPIANRYFFVRDPVELEIEGA---EPLEAKIPL--- 436
Query: 372 QHTQYKEK-LRYFPISKILWIERDDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECT 430
H E+ R P+ +++ DD G VRL + VE T
Sbjct: 437 -HPDRPERGEREIPVGGKVYVSSDDLEAE----------------GKMVRLMDLFNVEIT 479
Query: 431 GFKKNKNNEVVEVYCKYFPDSKSGTKLSSNYKVKGNIHWISKSHALSIE 479
V +Y D + + + I W+ + ++ +
Sbjct: 480 --------GVSVDKARYHSDDLEEAR-KNKAPI---IQWVPEDESVPVR 516
>gnl|CDD|232985 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
eukaryotic family. The glutamyl-tRNA synthetases of the
eukaryotic cytosol and of the Archaea are more similar
to glutaminyl-tRNA synthetases than to bacterial
glutamyl-tRNA synthetases. This model models just the
eukaryotic cytosolic and archaeal forms of the enzyme.
In some eukaryotes, the glutamyl-tRNA synthetase is part
of a longer, multifunctional aminoacyl-tRNA ligase. In
many species, the charging of tRNA(gln) proceeds first
through misacylation with Glu and then transamidation.
For this reason, glutamyl-tRNA synthetases, including
all known archaeal enzymes (as of 2010) may act on both
tRNA(gln) and tRNA(glu) [Protein synthesis, tRNA
aminoacylation].
Length = 556
Score = 262 bits (671), Expect = 9e-79
Identities = 117/387 (30%), Positives = 192/387 (49%), Gaps = 18/387 (4%)
Query: 13 GNKLPQVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNS 72
G K+ +V+ RFAP P+G LHIGHA++ +N E A KY+G +RFDDT+P + + E +
Sbjct: 88 GAKMGEVVMRFAPNPSGPLHIGHARAAILNHEYAKKYDGKLIIRFDDTDPRRVDPEAYDM 147
Query: 73 IIKTIKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLH 132
I++ ++WL WD + Y SD + Y LI G AYV EE L
Sbjct: 148 ILEDLEWLGVKWD----EVVYQSDRIETYYDYTRKLIEMGKAYVCDCRPEEFR----ELR 199
Query: 133 EPGRNSPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVN 192
G +R E+L + M G+ + G+ V+RVK ++K KN +RD +I+RI
Sbjct: 200 NRGEACHCRDRSVEENLERWEEMLEGKEEGGSVVVRVKTDLKHKNPAIRDWVIFRIVKTP 259
Query: 193 HYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF 252
H RT + + +YP D++ I D + +TH + + D+R E+I + + P
Sbjct: 260 HPRTGDKYRVYPTMDFSVAIDDHLLGVTHVLRGKDHIDNRRKQEYIY----RYFGWEPPE 315
Query: 253 PKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKR 312
+ +++ +++ +L + GWDDPR+PTL +RRRG PE+I+ F
Sbjct: 316 FIHWGRLKIDDVRALSTSSARKGILRGEYS-GWDDPRLPTLRAIRRRGIRPEAIRKFMLS 374
Query: 313 IGVSKSDSWINIEILEQALRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQ 372
IGV +D ++ + + R +D +A R + NP+K+ I + + +E PL
Sbjct: 375 IGVKINDVTMSWKNIYALNRKIIDEEARRYFFIWNPVKIEIVGLPEPKRVE--RPLHPDH 432
Query: 373 HTQYKEKLRYFPISKILWIERDDFMEI 399
+ L +++ +DD E
Sbjct: 433 PEIGERVLILR---GEIYVPKDDLEEG 456
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 260 bits (665), Expect = 3e-76
Identities = 124/318 (38%), Positives = 179/318 (56%), Gaps = 23/318 (7%)
Query: 13 GNKLPQVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNS 72
G + +V TRF PEP+GYLHIGHAK+ +N A +Y G +RFDDTNP KE+ E+V +
Sbjct: 208 GAEEGKVCTRFPPEPSGYLHIGHAKAALLNQYFARRYKGKLIVRFDDTNPSKESDEFVEN 267
Query: 73 IIKTIKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLH 132
I+K I+ L +D V Y SDYF L ++AE LI G AYVD E++ R +
Sbjct: 268 ILKDIETLGIKYDAVT----YTSDYFPQLMEMAEKLIKEGKAYVDDTPREQMRKERMD-- 321
Query: 133 EPGRNSPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVN 192
G S N E+L L++ M +G + +R K++M+ N ++RDP+ YR
Sbjct: 322 --GIESKCRNNSVEENLRLWKEMIAGSERGLQCCVRGKLDMQDPNKSLRDPVYYRCNPTP 379
Query: 193 HYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF 252
H+R + + +YP YD+A P DA+E +TH++ + E+ D Y IL +
Sbjct: 380 HHRIGSKYKVYPTYDFACPFVDALEGVTHALRSSEYHDRNAQYYRILEDMG--------L 431
Query: 253 PKQ--YEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFC 310
K +EFSRLN +T+ SKRKL ++ V+GWDDPR PT+ G+ RRG E++K F
Sbjct: 432 RKVHIWEFSRLNFVYTLLSKRKLQWFVDNGKVEGWDDPRFPTVQGIVRRGLKIEALKQFI 491
Query: 311 KRIGVSKSDSWINIEILE 328
G SK N+ ++E
Sbjct: 492 LSQGASK-----NLNLME 504
>gnl|CDD|185676 cd00807, GlnRS_core, catalytic core domain of glutaminyl-tRNA
synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic
core domain. These enzymes attach Gln to the appropriate
tRNA. Like other class I tRNA synthetases, they
aminoacylate the 2'-OH of the nucleotide at the 3' end
of the tRNA. The core domain is based on the Rossman
fold and is responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate. GlnRS contains
the characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 238
Score = 242 bits (621), Expect = 2e-75
Identities = 86/149 (57%), Positives = 111/149 (74%), Gaps = 6/149 (4%)
Query: 193 HYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF 252
H+RT + WCIYP YD+AHPI D+IE ITHS+CTLEF+D RP Y W+ + +
Sbjct: 96 HHRTGDKWCIYPTYDFAHPIVDSIEGITHSLCTLEFEDRRPSYYWLCDALRL------YR 149
Query: 253 PKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKR 312
P Q+EFSRLNLT+T+ SKRKLL+L+++ VDGWDDPR+PTL G+RRRG TPE+I+ F R
Sbjct: 150 PHQWEFSRLNLTYTVMSKRKLLQLVDEGYVDGWDDPRLPTLRGLRRRGVTPEAIRQFILR 209
Query: 313 IGVSKSDSWINIEILEQALRDDLDIKAPR 341
GVSK+DS I+ + LE +R DL+ APR
Sbjct: 210 QGVSKADSTIDWDKLEACVRKDLNPTAPR 238
Score = 165 bits (420), Expect = 1e-46
Identities = 62/99 (62%), Positives = 72/99 (72%), Gaps = 4/99 (4%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTI 77
+V+TRF PEPNGYLHIGHAK+I +NF A KY G CNLRFDDTNP KE +EYV+SI + +
Sbjct: 1 KVVTRFPPEPNGYLHIGHAKAILLNFGYAKKYGGRCNLRFDDTNPEKEEEEYVDSIKEDV 60
Query: 78 KWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYV 116
KWL K + YASDYFD LY+ AE LI G AYV
Sbjct: 61 KWLGIKPYK----VTYASDYFDQLYEYAEQLIKKGKAYV 95
>gnl|CDD|178772 PLN03233, PLN03233, putative glutamate-tRNA ligase; Provisional.
Length = 523
Score = 235 bits (601), Expect = 4e-69
Identities = 126/340 (37%), Positives = 191/340 (56%), Gaps = 16/340 (4%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTI 77
Q++TRF PEP+GYLHIGHAK+ +N A +Y G LRFDDTNP KE E+ SII+ +
Sbjct: 11 QIVTRFPPEPSGYLHIGHAKAALLNDYYARRYKGRLILRFDDTNPSKEKAEFEESIIEDL 70
Query: 78 KWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRN 137
+ D V + SDYF+ + A LI G AY+D EE+ R + E
Sbjct: 71 GKIEIKPDSVS----FTSDYFEPIRCYAIILIEEGLAYMDDTPQEEMKKERADRAE---- 122
Query: 138 SPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTN 197
S N+ P E+L +F+ M SG+ + GA LR KI+M+S N +RDP+++R H+R+
Sbjct: 123 SKHRNQSPEEALEMFKEMCSGKEEGGAWCLRAKIDMQSDNGTLRDPVLFRQNTTPHHRSG 182
Query: 198 NNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYE 257
+ YP YD A PI D+IE +TH++ T E+ D + WI + ++R P+ +
Sbjct: 183 TAYKAYPTYDLACPIVDSIEGVTHALRTTEYDDRDAQFFWIQKALG----LRR--PRIHA 236
Query: 258 FSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSK 317
F+R+N +T+ SKRKL ++ V GWDD R PT+ G+ RRG +++K+F G S+
Sbjct: 237 FARMNFMNTVLSKRKLTWFVDNGHVTGWDDARFPTIRGISRRGIDIDALKMFMCSQGASR 296
Query: 318 SDSWINIEILEQALRDDLDIKAPRIMAV--LNPIKLIISN 355
++ + ++D +A R MA+ + L ++N
Sbjct: 297 RVVNLDWAKFWAENKKEIDKRAKRFMAIDKADHTALTVTN 336
>gnl|CDD|240404 PTZ00402, PTZ00402, glutamyl-tRNA synthetase; Provisional.
Length = 601
Score = 230 bits (587), Expect = 2e-66
Identities = 124/337 (36%), Positives = 189/337 (56%), Gaps = 19/337 (5%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTI 77
+V+TRF PE +G+LHIGHAK+ IN LA KY G RFDDTNP KE + + +I+ +
Sbjct: 52 KVVTRFPPEASGFLHIGHAKAALINSMLADKYKGKLVFRFDDTNPSKEKEHFEQAILDDL 111
Query: 78 KWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGRN 137
L +WD Y+SDY D++Y+ AE LI G AY D EE+ R + G
Sbjct: 112 ATLGVSWDVGPT---YSSDYMDLMYEKAEELIKKGLAYCDKTPREEMQKCRFD----GVP 164
Query: 138 SPFYNRLPSESLNLFRRMRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTN 197
+ + + E+ L+ M+ G + LR KI++ ++N MRDP+IYR+ H R
Sbjct: 165 TKYRDISVEETKRLWNEMKKGSAEGQETCLRAKISVDNENKAMRDPVIYRVNLTPHARQG 224
Query: 198 NNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYE 257
+ YP YD+ PI D++E +TH++ T E+ D Y W + + I++P + +
Sbjct: 225 TKYKAYPTYDFCCPIIDSVEGVTHALRTNEYHDRNDQYYWFCDALG----IRKPIVE--D 278
Query: 258 FSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSK 317
FSRLN+ +++ SKRKL +L++ +VDGWDDPR PT+ + RRG E+++ F + G+SK
Sbjct: 279 FSRLNMEYSVMSKRKLTQLVDTHVVDGWDDPRFPTVRALVRRGLKMEALRQFVQEQGMSK 338
Query: 318 SDS---WINIEILEQALRDDLDIKAPRIMAVLNPIKL 351
+ + W + + LD PR V N +K+
Sbjct: 339 TVNFMEWSKLWYFNTQI---LDPSVPRYTVVSNTLKV 372
>gnl|CDD|235347 PRK05113, PRK05113, electron transport complex protein RnfB;
Provisional.
Length = 191
Score = 202 bits (516), Expect = 7e-61
Identities = 72/135 (53%), Positives = 87/135 (64%), Gaps = 3/135 (2%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLNTIYGN 594
+LPQ+QC +CGYPGCR YAEAIAN N+CP GG ++KLA+ L PL+
Sbjct: 43 ILPQSQCGQCGYPGCRPYAEAIANG-EKINKCPPGGEATMLKLAELLGVEPQPLDGEAQE 101
Query: 595 EK-SRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
+R A I E+ CIGCT CIQ+CPVDAI+GA K MHT+ S LCTGCDLC+ CP +CI
Sbjct: 102 ATPARKVAFIDEDNCIGCTKCIQACPVDAIVGATKAMHTVISDLCTGCDLCVAPCPTDCI 161
Query: 654 SMIEVTPCRTGWDAW 668
MI V W W
Sbjct: 162 EMIPVAETPDNWK-W 175
>gnl|CDD|225433 COG2878, COG2878, Predicted NADH:ubiquinone oxidoreductase, subunit
RnfB [Energy production and conversion].
Length = 198
Score = 194 bits (496), Expect = 6e-58
Identities = 81/156 (51%), Positives = 98/156 (62%), Gaps = 4/156 (2%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNK-PIIPLNTIYG 593
LLPQTQC +CGYPGCR YAEAIA A N+C GG I K+A+ L P + +G
Sbjct: 43 LLPQTQCGQCGYPGCRPYAEAIAEGGAKINRCAPGGEAVIRKIAELLGVEPPPADGSEHG 102
Query: 594 NEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
E++R A+I E CIGCT CIQ+CPVDAI+GA K MHT+ + LCTGCDLC+ CP +CI
Sbjct: 103 EEQARMVALIDEANCIGCTKCIQACPVDAIVGATKAMHTVIADLCTGCDLCVAPCPTDCI 162
Query: 654 SMIEV--TPCRTGWDAWS-QKKADDARKRYYLRKKR 686
M V TP R WD + A AR+R R R
Sbjct: 163 EMQPVAETPDRWKWDLDTIPVIAIPARERAAKRNAR 198
>gnl|CDD|233648 TIGR01944, rnfB, electron transport complex, RnfABCDGE type, B
subunit. The six subunit complex RnfABCDGE in
Rhodobacter capsulatus encodes an apparent NADH
oxidoreductase responsible for electron transport to
nitrogenase, necessary for nitrogen fixation. A closely
related complex in E. coli, RsxABCDGE (Reducer of SoxR),
reduces the 2Fe-2S-containing superoxide sensor SoxR,
active as a transcription factor when oxidized. This
family of putative NADH oxidoreductase complexes exists
in many of the same species as the related NQR, a
Na(+)-translocating NADH-quinone reductase, but is
distinct. This model describes the B subunit [Energy
metabolism, Electron transport].
Length = 165
Score = 187 bits (476), Expect = 2e-55
Identities = 71/126 (56%), Positives = 87/126 (69%), Gaps = 3/126 (2%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLN--KPIIPLNTIY 592
LLPQTQC +CGYPGCR YAEAIA +A N+CP GG I+ LA+ L PL+
Sbjct: 41 LLPQTQCGQCGYPGCRPYAEAIAEGEA-INKCPPGGEAVILALAELLGVEPIPQPLDADA 99
Query: 593 GNEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNC 652
G + A+I E+ CIGCT CIQ+CPVDAI+GAAK MHT+ + CTGCDLC++ CP +C
Sbjct: 100 GTIQPPMVALIDEDNCIGCTKCIQACPVDAIVGAAKAMHTVIADECTGCDLCVEPCPTDC 159
Query: 653 ISMIEV 658
I MI V
Sbjct: 160 IEMIPV 165
>gnl|CDD|181550 PRK08764, PRK08764, ferredoxin; Provisional.
Length = 135
Score = 168 bits (426), Expect = 5e-49
Identities = 65/121 (53%), Positives = 82/121 (67%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLNTIYGN 594
LLPQTQC +CG+ GCR YA+A+A +A ++CP GG G LA+ L P P + G
Sbjct: 14 LLPQTQCGQCGFDGCRPYAQAMARGEATIDRCPPGGDAGARALAQVLGVPARPYDRSRGT 73
Query: 595 EKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 654
K A I E CIGCT CIQ+CPVDAI+G AKHMHT+ + LCTGC+LC+ CPV+CI
Sbjct: 74 HKLPQVAWIVEADCIGCTKCIQACPVDAIVGGAKHMHTVIAPLCTGCELCVPACPVDCIE 133
Query: 655 M 655
+
Sbjct: 134 L 134
>gnl|CDD|217810 pfam03950, tRNA-synt_1c_C, tRNA synthetases class I (E and Q),
anti-codon binding domain. Other tRNA synthetase
sub-families are too dissimilar to be included. This
family includes only glutamyl and glutaminyl tRNA
synthetases. In some organisms, a single glutamyl-tRNA
synthetase aminoacylates both tRNA(Glu) and tRNA(Gln).
Length = 174
Score = 164 bits (417), Expect = 4e-47
Identities = 74/196 (37%), Positives = 101/196 (51%), Gaps = 32/196 (16%)
Query: 339 APRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEK-LRYFPISKILWIERDDFM 397
APR MAVL+P+K++I N+ + +E E P H + E R P S+ ++IER+DF
Sbjct: 1 APRYMAVLDPVKVVIENYPEGEEEEAEVPN----HPKNPELGTRKVPFSREIYIEREDF- 55
Query: 398 EIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKNNEVVEVYCKYFPDSKSGTKL 457
RL P G VRL Y ++ T K+++ V E++C Y DS G
Sbjct: 56 -------KRLKP------GEEVRLMGAYNIKVTEVVKDEDGNVTELHCTYDGDSLGG--- 99
Query: 458 SSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKDFKLLINPNSKKVIS-AYL 516
KVKG IHW+S A+ E RLYDRLF D ++ DF L+NP+S KVI+
Sbjct: 100 --ARKVKGIIHWVSADDAVPAEVRLYDRLFKDE-----DDFDF--LLNPDSLKVITEGLA 150
Query: 517 EPNLKLIFPKKHAQFE 532
EP L + QFE
Sbjct: 151 EPALANLKVGDIVQFE 166
>gnl|CDD|185672 cd00418, GlxRS_core, catalytic core domain of glutamyl-tRNA and
glutaminyl-tRNA synthetase. Glutamyl-tRNA
synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS)
cataytic core domain. These enzymes attach Glu or Gln,
respectively, to the appropriate tRNA. Like other class
I tRNA synthetases, they aminoacylate the 2'-OH of the
nucleotide at the 3' end of the tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding. These enzymes function as monomers. Archaea,
cellular organelles, and some bacteria lack GlnRS. In
these cases, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme. The discriminating form of GluRS
differs from GlnRS and the non-discriminating form of
GluRS in their C-terminal anti-codon binding domains.
Length = 230
Score = 115 bits (290), Expect = 4e-29
Identities = 46/94 (48%), Positives = 58/94 (61%), Gaps = 3/94 (3%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
V+TRFAP P GYLHIGHA++ NF A KY G LR +DT+P + EYV SI++ +K
Sbjct: 2 VVTRFAPSPTGYLHIGHARTALFNFAFARKYGGKFILRIEDTDPERSRPEYVESILEDLK 61
Query: 79 WLNFNWDKVKKRIYYASDYFDILYKIAEYLIISG 112
WL +WD + Y SD FD+ AE LI G
Sbjct: 62 WLGLDWD---EGPYRQSDRFDLYRAYAEELIKKG 92
Score = 109 bits (274), Expect = 6e-27
Identities = 41/136 (30%), Positives = 60/136 (44%), Gaps = 23/136 (16%)
Query: 202 IYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRL 261
YP+Y++ HP+ DA+ ITH + + D+ P +W+ P P+ Y F RL
Sbjct: 93 GYPLYNFVHPVDDALMGITHVLRGEDHLDNTPIQDWLYE-----ALGWEP-PRFYHFPRL 146
Query: 262 NL-THTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDS 320
L T SKRKL TL +RRRGY PE+++ + IG SK D
Sbjct: 147 LLEDGTKLSKRKL----------------NTTLRALRRRGYLPEALRNYLALIGWSKPDG 190
Query: 321 WINIEILEQALRDDLD 336
+ E ++
Sbjct: 191 HELFTLEEMIAAFSVE 206
>gnl|CDD|185682 cd09287, GluRS_non_core, catalytic core domain of
non-discriminating glutamyl-tRNA synthetase.
Non-discriminating Glutamyl-tRNA synthetase (GluRS)
cataytic core domain. These enzymes attach Glu to the
appropriate tRNA. Like other class I tRNA synthetases,
they aminoacylate the 2'-OH of the nucleotide at the 3'
end of the tRNA. The core domain is based on the Rossman
fold and is responsible for the ATP-dependent formation
of the enzyme bound aminoacyl-adenylate. It contains the
characteristic class I HIGH and KMSKS motifs, which are
involved in ATP binding. These enzymes function as
monomers. Archaea and most bacteria lack GlnRS. In these
organisms, the "non-discriminating" form of GluRS
aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu,
which is converted to Gln when appropriate by a
transamidation enzyme.
Length = 240
Score = 101 bits (254), Expect = 4e-24
Identities = 42/101 (41%), Positives = 59/101 (58%), Gaps = 6/101 (5%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNP--LKENKEYVNSIIK 75
+V+ RFAP PNG LH+GHA++ +N E A Y G LRFDDT+P + + E + I +
Sbjct: 1 KVVMRFAPNPNGPLHLGHARAAILNGEYAKMYGGKFILRFDDTDPRTKRPDPEAYDMIPE 60
Query: 76 TIKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYV 116
++WL WD + ASD ++ Y+ A LI G AYV
Sbjct: 61 DLEWLGVKWD----EVVIASDRIELYYEYARKLIEMGGAYV 97
Score = 98.2 bits (245), Expect = 6e-23
Identities = 48/153 (31%), Positives = 79/153 (51%), Gaps = 14/153 (9%)
Query: 193 HYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF 252
H RT + + ++P ++A + D + +TH L +DH ++ +K +I F
Sbjct: 98 HPRTGSKYRVWPTLNFAVAVDDHLLGVTH---VLRGKDH-------IDNTEKQRYIYEYF 147
Query: 253 ----PKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKL 308
P+ + RL + S K+ K +E +GWDDPR+PTL +RRRG PE+I+
Sbjct: 148 GWEYPETIHWGRLKIEGGKLSTSKIRKGIESGEYEGWDDPRLPTLRALRRRGIRPEAIRD 207
Query: 309 FCKRIGVSKSDSWINIEILEQALRDDLDIKAPR 341
F +GV ++D+ I+ E L R +D +A R
Sbjct: 208 FIIEVGVKQTDATISWENLYAINRKLIDPRANR 240
>gnl|CDD|183594 PRK12558, PRK12558, glutamyl-tRNA synthetase; Provisional.
Length = 445
Score = 94.5 bits (236), Expect = 2e-20
Identities = 42/97 (43%), Positives = 59/97 (60%), Gaps = 4/97 (4%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
VITRFAP P GYLH+G+A++ +N+ A K+ G LR DDT+ + +EY ++I + +K
Sbjct: 3 VITRFAPSPTGYLHVGNARTALLNWLYARKHGGKFILRIDDTDLERSKQEYADAIAEDLK 62
Query: 79 WLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAY 115
WL NWD R + SD FD + AE L +G Y
Sbjct: 63 WLGINWD----RTFRQSDRFDRYDEAAEKLKAAGRLY 95
>gnl|CDD|173905 cd00808, GluRS_core, catalytic core domain of discriminating
glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA
synthetase (GluRS) catalytic core domain . The
discriminating form of GluRS is only found in bacteria
and cellular organelles. GluRS is a monomer that
attaches Glu to the appropriate tRNA. Like other class
I tRNA synthetases, GluRS aminoacylates the 2'-OH of the
nucleotide at the 3' end of the tRNA. The core domain is
based on the Rossman fold and is responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in ATP
binding.
Length = 239
Score = 88.8 bits (221), Expect = 8e-20
Identities = 37/102 (36%), Positives = 54/102 (52%), Gaps = 5/102 (4%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
V TRFAP P G+LHIG A++ N+ A K+ G LR +DT+ + E +I++ +K
Sbjct: 2 VRTRFAPSPTGFLHIGGARTALFNYLFARKHGGKFILRIEDTDQERSVPEAEEAILEALK 61
Query: 79 WLNFNWD-----KVKKRIYYASDYFDILYKIAEYLIISGDAY 115
WL +WD Y S+ +I K AE L+ GD +
Sbjct: 62 WLGLDWDEGPDVGGPYGPYRQSERLEIYRKYAEKLLEKGDGF 103
>gnl|CDD|235941 PRK07118, PRK07118, ferredoxin; Validated.
Length = 280
Score = 85.4 bits (212), Expect = 3e-18
Identities = 49/150 (32%), Positives = 62/150 (41%), Gaps = 32/150 (21%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNK------PIIPL 588
+LP C CGYPGC YAEA+ N A N CP GG + K+A+ L K P + +
Sbjct: 43 VLPGANCGGCGYPGCDGYAEAVVNGDAPPNLCPVGGAEVAEKVAEILGKEAAESEPKVAV 102
Query: 589 ---NTIYGNEKSRC-------CAIIK---------ENKCIGCTLCIQSCPVDAII---GA 626
K R CA C+G C+ +CP DAI G
Sbjct: 103 VRCQGTCDKAKERYEYQGIKDCAAAALLFGGPKGCSYGCLGLGSCVAACPFDAIHIENGL 162
Query: 627 AKHMHTIFSKLCTGCDLCIKKCPVNCISMI 656
+ CTGC C+K CP N I +I
Sbjct: 163 PV----VDEDKCTGCGACVKACPRNVIELI 188
Score = 59.6 bits (145), Expect = 1e-09
Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 20/98 (20%)
Query: 566 CPTGGRKGIIKLAKYLNKPIIPLNTIYGNEKSRCCAIIK---ENKCIGCTLCIQSCPVDA 622
CP + +I+L + + N+ +K +K E CIGC C+++CP A
Sbjct: 180 CP----RNVIELIPKSARVFVACNS---KDKG---KAVKKVCEVGCIGCGKCVKACPAGA 229
Query: 623 II---GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 657
I A I + CT C C++KCP I ++
Sbjct: 230 ITMENNLAV----IDQEKCTSCGKCVEKCPTKAIRILN 263
>gnl|CDD|232986 TIGR00464, gltX_bact, glutamyl-tRNA synthetase, bacterial family.
The glutamyl-tRNA synthetases of the eukaryotic cytosol
and of the Archaea are more similar to glutaminyl-tRNA
synthetases than to bacterial glutamyl-tRNA synthetases.
This model models just the bacterial and mitochondrial
forms of the enzyme. In many species, the charging of
tRNA(gln) proceeds first through misacylation with Glu
and then transamidation. For this reason, glutamyl-tRNA
synthetases may act on both tRNA(gln) and tRNA(glu).
This model is highly specific. Proteins with positive
scores below the trusted cutoff may be fragments rather
than full-length sequences [Protein synthesis, tRNA
aminoacylation].
Length = 470
Score = 80.1 bits (198), Expect = 1e-15
Identities = 39/97 (40%), Positives = 54/97 (55%), Gaps = 3/97 (3%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
V TRFAP P GYLHIG A++ N+ A G LR +DT+ + +E +I++ +K
Sbjct: 2 VRTRFAPSPTGYLHIGGARTALFNYLFAKHTGGEFLLRIEDTDLERNIEEAEEAILEGLK 61
Query: 79 WLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAY 115
WL +WD + YY S DI K A+ L+ G AY
Sbjct: 62 WLGISWD---EGPYYQSQRLDIYKKYAKELLEEGLAY 95
>gnl|CDD|234953 PRK01406, gltX, glutamyl-tRNA synthetase; Reviewed.
Length = 476
Score = 74.4 bits (184), Expect = 7e-14
Identities = 63/226 (27%), Positives = 96/226 (42%), Gaps = 43/226 (19%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
V TRFAP P GYLHIG A++ N+ A + G LR +DT+ + +E +I++ +K
Sbjct: 5 VRTRFAPSPTGYLHIGGARTALFNWLFARHHGGKFILRIEDTDQERSTEEAEEAILEGLK 64
Query: 79 WLNFNWD----KVKKRIYYASDYFDILYKIAEYLIISGDAY--VDSQNTEEIYINRGNLH 132
WL +WD Y S+ DI + AE L+ G AY + EE+ R
Sbjct: 65 WLGLDWDEGPDGGPYGPYRQSERLDIYKEYAEQLLEEGKAYYCYCTP--EELEAMREEQR 122
Query: 133 EPGRNSPFYNR----LPSESLNLFR--------RMR---SGE--FKDGAHVLRVKINMKS 175
G P Y+ L E + R + GE F D +R +I +
Sbjct: 123 AAGE-PPRYDGRCRDLTKEEVAARLAAGEPPVIRFKVPDEGEVVFDDL---VRGEIEFPN 178
Query: 176 KNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISDAIENITH 221
++ D +I R++ P Y++A + D + ITH
Sbjct: 179 SELD--DFVI--------LRSDG----TPTYNFAVVVDDHLMGITH 210
>gnl|CDD|184889 PRK14895, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 513
Score = 73.2 bits (179), Expect = 2e-13
Identities = 45/132 (34%), Positives = 68/132 (51%), Gaps = 7/132 (5%)
Query: 19 VITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTIK 78
VITRFAP P G+LHIG A++ N+ A +NG LR +DT+ + KE V +I +K
Sbjct: 5 VITRFAPSPTGFLHIGSARTALFNYLFARHHNGKFLLRIEDTDKERSTKEAVEAIFSGLK 64
Query: 79 WLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYVDSQNTEEIYINRGNLHEPGR-- 136
WL +W+ + + S ++ + A L+ +G AY EEI R E +
Sbjct: 65 WLGLDWN---GEVIFQSKRNNLYKEAALKLLQNGKAYYCFTRQEEIERQRQQALENKQHF 121
Query: 137 --NSPFYNRLPS 146
NS + ++ PS
Sbjct: 122 IFNSEWRDKDPS 133
>gnl|CDD|235573 PRK05710, PRK05710, glutamyl-Q tRNA(Asp) synthetase; Reviewed.
Length = 299
Score = 67.6 bits (166), Expect = 3e-12
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 3/99 (3%)
Query: 17 PQVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKT 76
I RFAP P+G LH G + ++ A + G LR +D +P +E ++I+
Sbjct: 4 TPYIGRFAPSPSGPLHFGSLVAALGSWLDARAHGGRWLLRIEDIDPPREVPGAADAILAD 63
Query: 77 IKWLNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAY 115
++WL +WD + Y S D + L G Y
Sbjct: 64 LEWLGLHWD---GPVLYQSQRHDAYRAALDRLRAQGLVY 99
>gnl|CDD|224068 COG1145, NapF, Ferredoxin [Energy production and conversion].
Length = 99
Score = 59.9 bits (144), Expect = 4e-11
Identities = 24/63 (38%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 603 IKENKCIGCTLCIQSCPVDAII----GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEV 658
I KCIGC LC++ CP AI G I LC C C+K CPV+ +S+ E
Sbjct: 26 IDAEKCIGCGLCVKVCPTGAIELIEEGLLLPEVVIDPDLCVLCGACLKVCPVDALSIAEE 85
Query: 659 TPC 661
Sbjct: 86 LVN 88
Score = 35.7 bits (81), Expect = 0.014
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 601 AIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCD 642
+I + C+ C C++ CPVDA+ A + ++ +KL
Sbjct: 58 VVIDPDLCVLCGACLKVCPVDALSIAEELVNAGEAKLREREG 99
>gnl|CDD|112857 pfam04060, FeS, Putative Fe-S cluster. This family includes a
domain with four conserved cysteines that probably form
an Fe-S redox cluster.
Length = 35
Score = 56.9 bits (138), Expect = 8e-11
Identities = 17/35 (48%), Positives = 22/35 (62%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTG 569
LLP T C KCG+PGC +AEA+ +A + CP
Sbjct: 1 LLPGTNCGKCGFPGCMAFAEALLEGEAKIDDCPPL 35
>gnl|CDD|178234 PLN02627, PLN02627, glutamyl-tRNA synthetase.
Length = 535
Score = 64.0 bits (156), Expect = 1e-10
Identities = 34/103 (33%), Positives = 52/103 (50%), Gaps = 5/103 (4%)
Query: 18 QVITRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEYVNSIIKTI 77
V RFAP P G LH+G A++ N+ A G LR +DT+ + KE ++++ +
Sbjct: 45 PVRVRFAPSPTGNLHVGGARTALFNYLFARSKGGKFVLRIEDTDLARSTKESEEAVLRDL 104
Query: 78 KWLNFNWDK-----VKKRIYYASDYFDILYKIAEYLIISGDAY 115
KWL +WD+ + Y S+ I + AE L+ SG Y
Sbjct: 105 KWLGLDWDEGPDVGGEYGPYRQSERNAIYKQYAEKLLESGHVY 147
>gnl|CDD|221966 pfam13187, Fer4_9, 4Fe-4S dicluster domain.
Length = 44
Score = 54.6 bits (131), Expect = 7e-10
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 607 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
KCIGC C++ CP I+ + C GC C++ CPV I
Sbjct: 1 KCIGCGACVKVCPAGVIMRDNGGKVVV---KCIGCGACVEVCPVGAI 44
Score = 34.5 bits (79), Expect = 0.008
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 606 NKCIGCTLCIQSCPVDAI 623
KCIGC C++ CPV AI
Sbjct: 27 VKCIGCGACVEVCPVGAI 44
Score = 29.9 bits (67), Expect = 0.41
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 638 CTGCDLCIKKCPVNCISMIEVTP 660
C GC C+K CP I
Sbjct: 2 CIGCGACVKVCPAGVIMRDNGGK 24
>gnl|CDD|224069 COG1146, COG1146, Ferredoxin [Energy production and conversion].
Length = 68
Score = 54.8 bits (132), Expect = 9e-10
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK---LCTGCDLCIKKCPVNCISMIEV 658
+I +KCIGC +C++ CP C C LC CPV I + +
Sbjct: 4 VIDYDKCIGCGICVEVCPAGVFDLGEDEGGKPVVARPEECIDCGLCELACPVGAIKVDIL 63
Query: 659 TP 660
P
Sbjct: 64 RP 65
>gnl|CDD|235637 PRK05888, PRK05888, NADH dehydrogenase subunit I; Provisional.
Length = 164
Score = 56.4 bits (137), Expect = 3e-09
Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 605 ENKCIGCTLCIQSCPVDAI-IGAAKH--------MHTI-FSKLCTGCDLCIKKCPVNCIS 654
E +CI C LC CP DAI I AA+ + I F + C C C + CP + I
Sbjct: 57 EERCIACKLCAAICPADAITIEAAEREDGRRRTTRYDINFGR-CIFCGFCEEACPTDAIV 115
Query: 655 MIEV 658
Sbjct: 116 ETPD 119
>gnl|CDD|224067 COG1144, COG1144, Pyruvate:ferredoxin oxidoreductase and related
2-oxoacid:ferredoxin oxidoreductases, delta subunit
[Energy production and conversion].
Length = 91
Score = 51.6 bits (124), Expect = 3e-08
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 602 IIKENKCIGCTLCIQSCPVDAII-GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTP 660
++ E+KCI C LC CP AI+ + I C GC +C CPV I M+
Sbjct: 31 VVDEDKCINCKLCWLYCPEPAILEEEGGYKVRIDYDYCKGCGICANVCPVKAIEMVREEK 90
>gnl|CDD|224071 COG1149, COG1149, MinD superfamily P-loop ATPase containing an
inserted ferredoxin domain [Energy production and
conversion].
Length = 284
Score = 54.3 bits (131), Expect = 7e-08
Identities = 18/59 (30%), Positives = 21/59 (35%)
Query: 600 CAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEV 658
I KCI C C + C AI+ + LC GC C CP I V
Sbjct: 63 IPEIDPEKCIRCGKCAEVCRFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPV 121
>gnl|CDD|221801 pfam12838, Fer4_7, 4Fe-4S dicluster domain. Superfamily includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. Structure of the
domain is an alpha-antiparallel beta sandwich. Domain
contains two 4Fe4S clusters.
Length = 48
Score = 48.7 bits (116), Expect = 8e-08
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 608 CIGCTLCIQSCPVDAI----IGAAKHMHTIFSKLCTGCDLCIKKCPVN 651
CIGC C+++CP AI G K I CTGC C+ CP
Sbjct: 1 CIGCGACVRACPYGAITLDEEGGKKGTVEIDPDKCTGCGACVAVCPTG 48
Score = 34.8 bits (80), Expect = 0.007
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 638 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQK 671
C GC C++ CP I++ E + + K
Sbjct: 1 CIGCGACVRACPYGAITLDEEGGKKGTVEIDPDK 34
Score = 32.9 bits (75), Expect = 0.039
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 590 TIYGNEKSRCCAIIKENKCIGCTLCIQSCPVD 621
T+ + I +KC GC C+ CP
Sbjct: 17 TLDEEGGKKGTVEIDPDKCTGCGACVAVCPTG 48
>gnl|CDD|173901 cd00802, class_I_aaRS_core, catalytic core domain of class I
amino acyl-tRNA synthetase. Class I amino acyl-tRNA
synthetase (aaRS) catalytic core domain. These enzymes
are mostly monomers which aminoacylate the 2'-OH of the
nucleotide at the 3' of the appropriate tRNA. The core
domain is based on the Rossman fold and is responsible
for the ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. It contains the characteristic
class I HIGH and KMSKS motifs, which are involved in
ATP binding.
Length = 143
Score = 51.3 bits (123), Expect = 9e-08
Identities = 19/51 (37%), Positives = 21/51 (41%), Gaps = 5/51 (9%)
Query: 20 ITRFAPEPNGYLHIGHAKSIFINFELAYKYNGL-----CNLRFDDTNPLKE 65
T PNGYLHIGH ++I LA Y L C DD L
Sbjct: 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIG 51
Score = 33.2 bits (76), Expect = 0.15
Identities = 13/71 (18%), Positives = 20/71 (28%), Gaps = 9/71 (12%)
Query: 206 YDYAHPISDAIENITH---SICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLN 262
Y + + T + + H + + K RPF F R+
Sbjct: 78 YMFLQAADFLLLYETECDIHLGGSDQLGHIELGLEL---LKKAGGPARPF--GLTFGRVM 132
Query: 263 LT-HTITSKRK 272
T SK K
Sbjct: 133 GADGTKMSKSK 143
>gnl|CDD|131234 TIGR02179, PorD_KorD, 2-oxoacid:acceptor oxidoreductase, delta
subunit, pyruvate/2-ketoisovalerate family. A number of
anaerobic and microaerophilic species lack pyruvate
dehydrogenase and have instead a four subunit,
oxygen-sensitive pyruvate oxidoreductase, with either
ferredoxins or flavodoxins used as the acceptor. Several
related four-subunit enzymes may exist in the same
species. This model describes a subfamily of delta
subunits, representing mostly pyruvate,
2-ketoisovalerate, and 2-oxoglutarate specific enzymes.
The delta subunit is the smallest and resembles
ferredoxins.
Length = 78
Score = 48.9 bits (117), Expect = 1e-07
Identities = 19/56 (33%), Positives = 24/56 (42%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 657
++ + KCI C C CP AI I C GC +C CPV I M+
Sbjct: 21 VVDKEKCIKCKNCWLYCPEGAIQEDEGGFVGIDYDYCKGCGICANVCPVKAIEMVR 76
>gnl|CDD|205417 pfam13237, Fer4_10, 4Fe-4S dicluster domain. This family includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. The structure of
the domain is an alpha-antiparallel beta sandwich.
Length = 51
Score = 47.8 bits (113), Expect = 2e-07
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 602 IIKENKCIGCTLCIQSCPV----DAIIGAAKHMHTIFSKLCTGCDLCIKKCP 649
+I +KCIGC C+ +CP AI + + C GC C++ CP
Sbjct: 1 VIDPDKCIGCGRCVAACPARVGAGAIRDEGGAVEIDPDR-CIGCGACVEVCP 51
Score = 26.6 bits (58), Expect = 6.1
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 636 KLCTGCDLCIKKCPVN 651
C GC C+ CP
Sbjct: 5 DKCIGCGRCVAACPAR 20
>gnl|CDD|233661 TIGR01971, NuoI, NADH-quinone oxidoreductase, chain I. This model
represents the I 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, but may act on
NADPH and/or plastoquinone in cyanobacteria and plant
chloroplasts. This model excludes "I" subunits from the
closely related F420H2 dehydrogenase and formate
hydrogenlyase complexes [Energy metabolism, Electron
transport].
Length = 122
Score = 48.6 bits (116), Expect = 6e-07
Identities = 23/60 (38%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 605 ENKCIGCTLCIQSCPVDAI-IGAAKHMH--------TIFSKLCTGCDLCIKKCPVNCISM 655
E KCIGCTLC CP DAI + A+ I C C LC + CP + I +
Sbjct: 42 EEKCIGCTLCAAVCPADAIRVVPAEGEDGKRRLKFYQINFGRCIFCGLCEEACPTDAIVL 101
Score = 33.5 bits (77), Expect = 0.11
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 638 CTGCDLCIKKCPVNCISMI 656
C GC LC CP + I ++
Sbjct: 45 CIGCTLCAAVCPADAIRVV 63
>gnl|CDD|236237 PRK08318, PRK08318, dihydropyrimidine dehydrogenase subunit B;
Validated.
Length = 420
Score = 51.5 bits (124), Expect = 1e-06
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 601 AIIKENKCIGCTLCIQSC------PVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPV-NCI 653
A I ++KCIGC C +C ++ + I + C GC+LC CPV CI
Sbjct: 337 ARIDQDKCIGCGRCYIACEDTSHQAIEWDEDGTRTPEVIEEE-CVGCNLCAHVCPVEGCI 395
Query: 654 SMIEVTP 660
+M EV
Sbjct: 396 TMGEVKF 402
>gnl|CDD|237198 PRK12771, PRK12771, putative glutamate synthase (NADPH) small
subunit; Provisional.
Length = 564
Score = 51.0 bits (123), Expect = 2e-06
Identities = 25/66 (37%), Positives = 30/66 (45%), Gaps = 10/66 (15%)
Query: 595 EKSRC--CAIIKENKCIGCTLCIQSCPVDAII--GAAKHMHTIFSKLCTGCDLCIKKCPV 650
E +RC C C C C +CP DAII G + H + K CTGC +C CP
Sbjct: 502 EAARCLSCGN-----CFECDNCYGACPQDAIIKLGPGRRYHFDYDK-CTGCHICADVCPC 555
Query: 651 NCISMI 656
I M
Sbjct: 556 GAIEMG 561
>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 49.6 bits (119), Expect = 4e-06
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 607 KCIGCTLCIQSCPVDAI-IGAAKHMHTIFSKLCTGCDLCIKKCPV 650
+C+GC +C+ +CP AI I K ++ + C C C + CPV
Sbjct: 582 ECVGCGVCVGACPTGAIRIEEGKRKISVDEEKCIHCGKCTEVCPV 626
Score = 40.7 bits (96), Expect = 0.002
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 635 SKLCTGCDLCIKKCPVNCISMIEVTP 660
+ C GC +C+ CP I + E
Sbjct: 580 AAECVGCGVCVGACPTGAIRIEEGKR 605
Score = 33.8 bits (78), Expect = 0.38
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 587 PLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPV 620
P I E R ++ +E KCI C C + CPV
Sbjct: 594 PTGAIRIEEGKRKISVDEE-KCIHCGKCTEVCPV 626
>gnl|CDD|233903 TIGR02512, FeFe_hydrog_A, [FeFe] hydrogenase, group A. This model
describes iron-only hydrogenases of anaerobic and
microaerophilic bacteria and protozoa. This model is
narrower, and covers a longer stretch of sequence, than
pfam02906. This family represents a division among
families that belong to pfam02906, which also includes
proteins such as nuclear prelamin A recognition factor
in animals. Note that this family shows some
heterogeneity in terms of periplasmic, cytosolic, or
hydrogenosome location, NAD or NADP dependence, and
overal protein protein length.
Length = 374
Score = 49.2 bits (118), Expect = 5e-06
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 13/65 (20%)
Query: 603 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL-------------CTGCDLCIKKCP 649
+KCIGC C+++C I+GA ++ C GC C CP
Sbjct: 4 RDMSKCIGCGRCVRACTNVQIVGALGFLNRGGKTEVAPKFGRLLDESNCIGCGQCSLVCP 63
Query: 650 VNCIS 654
V I+
Sbjct: 64 VGAIT 68
>gnl|CDD|224066 COG1143, NuoI, Formate hydrogenlyase subunit 6/NADH:ubiquinone
oxidoreductase 23 kD subunit (chain I) [Energy
production and conversion].
Length = 172
Score = 47.0 bits (112), Expect = 5e-06
Identities = 29/131 (22%), Positives = 42/131 (32%), Gaps = 32/131 (24%)
Query: 602 IIKENKCIGCTLCIQSCPVDAII---------GAAKHMH-TIFSKLCTGCDLCIKKCPVN 651
++ +KCIGC LC CP +AI G K I C C LC++ CP
Sbjct: 51 VLDRDKCIGCGLCANICPANAITMETAERKVDGRKKPKRPDINLGRCIFCGLCVEVCPTG 110
Query: 652 CISMIEVTPCRTGWDAWSQKKADDARKRYYLRKKRL-----------FHEKKENYAKLKK 700
+ + + A R+ K+RL E A K
Sbjct: 111 ALVLTPEF-----------ELASYKREDLVYDKERLLAPPDKKEEDKPFEIARLLALDAK 159
Query: 701 ATIQFKKNNRE 711
+ + E
Sbjct: 160 YLGKVQAEGAE 170
>gnl|CDD|221963 pfam13183, Fer4_8, 4Fe-4S dicluster domain. Superfamily includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. Structure of the
domain is an alpha-antiparallel beta sandwich. Domain
contains two 4Fe4S clusters.
Length = 54
Score = 43.8 bits (103), Expect = 6e-06
Identities = 15/51 (29%), Positives = 17/51 (33%), Gaps = 5/51 (9%)
Query: 606 NKCIGCTLCIQSCPV-----DAIIGAAKHMHTIFSKLCTGCDLCIKKCPVN 651
+KCI C C CPV CT C C + CPV
Sbjct: 3 SKCIRCGACRAVCPVYRALGRFSGDPRGGALAAELWSCTSCGACTEVCPVG 53
>gnl|CDD|170016 PRK09623, vorD, 2-ketoisovalerate ferredoxin oxidoreductase subunit
delta; Reviewed.
Length = 105
Score = 44.9 bits (106), Expect = 7e-06
Identities = 18/56 (32%), Positives = 29/56 (51%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 657
++ E+KC+ C +C + CP AI I C GC +C +CP I+M++
Sbjct: 47 VVDESKCVKCYICWKFCPEPAIYIKEDGYVAIDYDYCKGCGICANECPTKAITMVK 102
>gnl|CDD|188556 TIGR04041, activase_YjjW, glycine radical enzyme activase, YjjW
family. Members of this family are radical SAM enzymes,
designated YjjW in E. coli, that are paired with and
appear to activate a glycyl radical enzyme of unknown
function, designated YjjI. This activase and its target
are found in Clostridial species as well as E. coli and
cousins. Members of this family may be misannotated as
pyruvate formate lyase activating enzyme [Protein fate,
Protein modification and repair].
Length = 276
Score = 46.5 bits (111), Expect = 2e-05
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 606 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 657
N C C C+ CP A+ + + C GCD CIK CP +
Sbjct: 41 NHCDHCGDCVAGCPAGALSLVDGKVVWD-KERCIGCDTCIKVCPHQSSPKTK 91
>gnl|CDD|182135 PRK09898, PRK09898, hypothetical protein; Provisional.
Length = 208
Score = 44.8 bits (106), Expect = 4e-05
Identities = 21/76 (27%), Positives = 30/76 (39%), Gaps = 14/76 (18%)
Query: 587 PLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTI-----FSKLCTGC 641
P+ I +K C + +CIGC+ C +CP M T+ S C C
Sbjct: 136 PIGAITWQQKEGCITV-DHKRCIGCSACTTACPW--------MMATVNTESKKSSKCVLC 186
Query: 642 DLCIKKCPVNCISMIE 657
C CP + +IE
Sbjct: 187 GECANACPTGALKIIE 202
Score = 31.0 bits (70), Expect = 1.5
Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 614 CIQSCPVDAIIGAAKH-MHTIFSKLCTGCDLCIKKCP 649
C+ CP+ AI K T+ K C GC C CP
Sbjct: 131 CMNVCPIGAITWQQKEGCITVDHKRCIGCSACTTACP 167
>gnl|CDD|222168 pfam13484, Fer4_16, 4Fe-4S double cluster binding domain.
Length = 67
Score = 41.0 bits (96), Expect = 7e-05
Identities = 16/67 (23%), Positives = 20/67 (29%), Gaps = 22/67 (32%)
Query: 607 KCIGCTLCIQSCPVDAI---------IGAAKHMHTIFSK-------------LCTGCDLC 644
C C C +CP AI +TI K GC +C
Sbjct: 1 FCGTCGKCADACPTGAISGEDEPTWDARRCISYNTIGKKGWIIDELKCLLGGRIYGCGIC 60
Query: 645 IKKCPVN 651
+ CP N
Sbjct: 61 QEVCPFN 67
Score = 32.5 bits (74), Expect = 0.085
Identities = 7/18 (38%), Positives = 7/18 (38%)
Query: 638 CTGCDLCIKKCPVNCISM 655
C C C CP IS
Sbjct: 2 CGTCGKCADACPTGAISG 19
Score = 27.9 bits (62), Expect = 4.0
Identities = 17/85 (20%), Positives = 28/85 (32%), Gaps = 26/85 (30%)
Query: 539 TQCTKCGYPGCRQYAEAIANKKANYNQCPTG----GRKGIIKLAKYLNKPIIPLNTIYGN 594
C KC A+A CPTG + + ++ I +
Sbjct: 3 GTCGKC--------ADA----------CPTGAISGEDEPTWDARRCISYNTIGKKGWIID 44
Query: 595 EKSRCCAIIKENKCIGCTLCIQSCP 619
E +C + + GC +C + CP
Sbjct: 45 EL-KC---LLGGRIYGCGICQEVCP 65
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 45.8 bits (109), Expect = 7e-05
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 9/65 (13%)
Query: 601 AIIKENKCIG---CTLCIQSCPV-----DAI-IGAAKHMHTIFSKLCTGCDLCIKKCPVN 651
A++ ++C CI+ CPV + I I I +LC GC +C+KKCP +
Sbjct: 6 AVVDYDRCQPKKCGYECIKYCPVVRTGKETIEIDEDTGKPVISEELCIGCGICVKKCPFD 65
Query: 652 CISMI 656
IS++
Sbjct: 66 AISIV 70
>gnl|CDD|234370 TIGR03838, queuosine_YadB, glutamyl-queuosine tRNA(Asp) synthetase.
This protein resembles a shortened glutamyl-tRNA
ligase, but its purpose is to modify tRNA(Asp) at a
queuosine position in the anticodon rather than to
charge a tRNA with its cognate amino acid [Protein
synthesis, tRNA and rRNA base modification].
Length = 271
Score = 44.8 bits (107), Expect = 8e-05
Identities = 28/108 (25%), Positives = 47/108 (43%), Gaps = 25/108 (23%)
Query: 19 VITRFAPEPNGYLHIG----------HAKSIFINFELAYKYNGLCNLRFDDTNPLKENKE 68
RFAP P+G LH G A++ + G +R +D +P +E
Sbjct: 1 YRGRFAPSPSGPLHFGSLVAALGSYLDARA----------HGGRWLVRIEDLDPPREVPG 50
Query: 69 YVNSIIKTIKWLNFNWDKVKKRIYYASDYFDILYKIA-EYLIISGDAY 115
+ I++T++ +WD + Y S LY+ A + L+ +G AY
Sbjct: 51 AADDILRTLEAYGLHWDGE---VVYQSQRHA-LYQAALDRLLAAGLAY 94
>gnl|CDD|129498 TIGR00403, ndhI, NADH-plastoquinone oxidoreductase subunit I
protein. [Energy metabolism, Electron transport].
Length = 183
Score = 43.4 bits (102), Expect = 1e-04
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 606 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK----------LCTGCDLCIKKCPVNCISM 655
+KCI C +C++ CP++ + + I K +C C C++ CP NC+SM
Sbjct: 62 DKCIACEVCVRVCPINLPVVDWEFNKAIKKKQLKNYSIDFGVCIFCGNCVEYCPTNCLSM 121
Query: 656 IE 657
E
Sbjct: 122 TE 123
>gnl|CDD|181399 PRK08348, PRK08348, NADH-plastoquinone oxidoreductase subunit;
Provisional.
Length = 120
Score = 41.7 bits (98), Expect = 1e-04
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 606 NKCIGCTLCIQSCPVDAI--IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 655
+KC+GC +C+ CP + + + +++ C C C+ CP + M
Sbjct: 42 DKCVGCRMCVTVCPAGVFVYLPEIRKV-ALWTGRCVFCGQCVDVCPTGALQM 92
>gnl|CDD|224373 COG1456, CdhE, CO dehydrogenase/acetyl-CoA synthase gamma subunit
(corrinoid Fe-S protein) [Energy production and
conversion].
Length = 467
Score = 44.8 bits (106), Expect = 1e-04
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 534 NLLPQTQCTKCGYPGCRQYAEAIANKKANYNQCP 567
LLP+T C +CG C +A + +++A + CP
Sbjct: 11 KLLPKTNCGECGEATCMAFATKLIDREATPDDCP 44
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 44.4 bits (106), Expect = 2e-04
Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 14/68 (20%)
Query: 596 KSRCCAIIKENKCIGCTLCIQSCPV-----DAII--GAAKHMHTIFSKLCTGCDLCIKKC 648
RC + KC CI+ CPV + I I +LC GC +C+KKC
Sbjct: 9 YDRC----QPKKC--NYECIKYCPVVRTGEETIEIDEDDGKPV-ISEELCIGCGICVKKC 61
Query: 649 PVNCISMI 656
P + IS++
Sbjct: 62 PFDAISIV 69
>gnl|CDD|215671 pfam00037, Fer4, 4Fe-4S binding domain. Superfamily includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. Structure of the
domain is an alpha-antiparallel beta sandwich.
Length = 24
Score = 38.8 bits (91), Expect = 2e-04
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 601 AIIKENKCIGCTLCIQSCPVDAI 623
+I E KCIGC C++ CPV AI
Sbjct: 1 VVIDEEKCIGCGACVEVCPVGAI 23
Score = 34.1 bits (79), Expect = 0.008
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 632 TIFSKLCTGCDLCIKKCPVNCIS 654
I + C GC C++ CPV I+
Sbjct: 2 VIDEEKCIGCGACVEVCPVGAIT 24
>gnl|CDD|224065 COG1142, HycB, Fe-S-cluster-containing hydrogenase components 2
[Energy production and conversion].
Length = 165
Score = 42.1 bits (99), Expect = 2e-04
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 7/64 (10%)
Query: 602 IIKENKCIGCTLCIQSCPVDAI-IGAAKHMHTIFSKLCTGCD------LCIKKCPVNCIS 654
+ E KCIGC LC+ +CP AI + + + C C C++ CP +
Sbjct: 78 QVDEEKCIGCKLCVVACPFGAITMVSYPVAAKAVAVKCDLCAGREVGPACVEACPTEALE 137
Query: 655 MIEV 658
+++
Sbjct: 138 LVDE 141
Score = 36.3 bits (84), Expect = 0.021
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 1/51 (1%)
Query: 614 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCRTG 664
C + CPV AI + K C GC LC+ CP I+M+
Sbjct: 61 CAEVCPVGAITRDDGAVQVDEEK-CIGCKLCVVACPFGAITMVSYPVAAKA 110
Score = 31.3 bits (71), Expect = 0.88
Identities = 16/74 (21%), Positives = 24/74 (32%), Gaps = 17/74 (22%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL-------------CTGCD--LCIK 646
I KCIGC C +C V + ++ C C+ C +
Sbjct: 6 IADPEKCIGCRTCEVACVV--AHEEIQSQSIFLPRIMVIKNDGESAPVVCHHCEDAPCAE 63
Query: 647 KCPVNCISMIEVTP 660
CPV I+ +
Sbjct: 64 VCPVGAITRDDGAV 77
>gnl|CDD|173912 cd02156, nt_trans, nucleotidyl transferase superfamily. nt_trans
(nucleotidyl transferase) This superfamily includes the
class I amino-acyl tRNA synthetases, pantothenate
synthetase (PanC), ATP sulfurylase, and the
cytidylyltransferases, all of which have a conserved
dinucleotide-binding domain.
Length = 105
Score = 40.6 bits (95), Expect = 2e-04
Identities = 21/49 (42%), Positives = 27/49 (55%), Gaps = 5/49 (10%)
Query: 21 TRFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLKENKEY 69
RF EP GYLHIGHAK I +A + C +R DD P+K ++
Sbjct: 2 ARFPGEP-GYLHIGHAKLICRAKGIADQ----CVVRIDDNPPVKVWQDP 45
Score = 32.5 bits (74), Expect = 0.19
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 9/78 (11%)
Query: 196 TNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKID-KTNFIKRPFPK 254
++ ++IE S+C +FQ +R Y W+ + I + P+
Sbjct: 36 NPPVKVWQDPHELEERK-ESIEED-ISVCGEDFQQNRELYRWVKDNITLPVD------PE 87
Query: 255 QYEFSRLNLTHTITSKRK 272
Q E RLNL T+ SKRK
Sbjct: 88 QVELPRLNLETTVMSKRK 105
>gnl|CDD|214334 CHL00014, ndhI, NADH dehydrogenase subunit I.
Length = 167
Score = 42.1 bits (99), Expect = 2e-04
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 606 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK----------LCTGCDLCIKKCPVNCISM 655
+KCI C +C++ CP+D + K I K +C C C++ CP NC+SM
Sbjct: 59 DKCIACEVCVRVCPIDLPVVDWKLETDIRKKRLLNYSIDFGVCIFCGNCVEYCPTNCLSM 118
Query: 656 IE 657
E
Sbjct: 119 TE 120
>gnl|CDD|226684 COG4231, COG4231, Indolepyruvate ferredoxin oxidoreductase, alpha
and beta subunits [Energy production and conversion].
Length = 640
Score = 44.3 bits (105), Expect = 2e-04
Identities = 23/74 (31%), Positives = 27/74 (36%), Gaps = 11/74 (14%)
Query: 601 AIIKENKCIGCTLCIQ--SCP---VDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 655
+ E KC GC CI CP D A+ I C GC C++ CP I
Sbjct: 572 YFVDEEKCTGCGDCIVLSGCPSIEPDPTFKKAR----IDPSSCNGCGSCVEVCPSFAIKE 627
Query: 656 IEVTPCRTGWDAWS 669
P W AW
Sbjct: 628 GGENP--KRWRAWQ 639
Score = 35.4 bits (82), Expect = 0.13
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 7/39 (17%)
Query: 585 IIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDAI 623
I P T +K A I + C GC C++ CP AI
Sbjct: 594 IEPDPT---FKK----ARIDPSSCNGCGSCVEVCPSFAI 625
>gnl|CDD|223514 COG0437, HybA, Fe-S-cluster-containing hydrogenase components 1
[Energy production and conversion].
Length = 203
Score = 42.4 bits (100), Expect = 3e-04
Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 16/68 (23%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL--CTGC---------DLCIKKCPV 650
++ ++ CIGC CI +CP A + + CT C C++ CP
Sbjct: 96 LVDKDLCIGCGYCIAACPYGAP-----QFNPDKGVVDKCTFCVDRVAVGKLPACVEACPT 150
Query: 651 NCISMIEV 658
+ ++
Sbjct: 151 GALIFGDI 158
Score = 32.8 bits (75), Expect = 0.39
Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 21/71 (29%)
Query: 602 IIKENKCIGCTLCIQSC-------------------PVDAIIGAAKHMHTIFSKLCTGCD 642
+I ++CIGC C+ +C V+ G+ + S C C+
Sbjct: 14 VIDSSRCIGCKACVVACKEENDRLPVGNSVFRRYVNYVEGDWGSGTVEYYYLSISCMHCE 73
Query: 643 --LCIKKCPVN 651
C+K CP
Sbjct: 74 DPPCVKVCPTG 84
Score = 32.4 bits (74), Expect = 0.49
Identities = 13/51 (25%), Positives = 16/51 (31%), Gaps = 9/51 (17%)
Query: 614 CIQSCPVDAII-----GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVT 659
C++ CP A+ G LC GC CI CP
Sbjct: 77 CVKVCPTGALFKREEDGIVLVDK----DLCIGCGYCIAACPYGAPQFNPDK 123
>gnl|CDD|179457 PRK02651, PRK02651, photosystem I subunit VII; Provisional.
Length = 81
Score = 39.6 bits (92), Expect = 3e-04
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 7/57 (12%)
Query: 606 NKCIGCTLCIQSCPVDAI-------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 655
+ CIGCT C+++CP+D + A + + ++ C GC C CP + +S+
Sbjct: 9 DTCIGCTQCVRACPLDVLEMVPWDGCKAGQIASSPRTEDCVGCKRCETACPTDFLSI 65
Score = 33.5 bits (76), Expect = 0.054
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 638 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKAD 674
C GC C++ CP++ + M+ C+ G A S + D
Sbjct: 11 CIGCTQCVRACPLDVLEMVPWDGCKAGQIASSPRTED 47
>gnl|CDD|235235 PRK04165, PRK04165, acetyl-CoA decarbonylase/synthase complex
subunit gamma; Provisional.
Length = 450
Score = 43.7 bits (104), Expect = 3e-04
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 534 NLLPQTQCTKCGYPGCRQYAEAIANKKANYNQCP 567
LLP+T C +CG P C +A +A+ KA + CP
Sbjct: 10 KLLPKTNCGECGEPTCLAFAMKLASGKAELDDCP 43
>gnl|CDD|170017 PRK09624, porD, pyuvate ferredoxin oxidoreductase subunit delta;
Reviewed.
Length = 105
Score = 40.4 bits (94), Expect = 3e-04
Identities = 18/56 (32%), Positives = 24/56 (42%)
Query: 604 KENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVT 659
+KC+ C LC CP AI + C GC +C +CP I M+ T
Sbjct: 49 NRDKCVRCYLCYIYCPEPAIYLDEEGYPVFDYDYCKGCGICANECPTKAIEMVRET 104
>gnl|CDD|234472 TIGR04105, FeFe_hydrog_B1, [FeFe] hydrogenase, group B1/B3. See
PMID:20395274 for descriptions of different groups.
Length = 462
Score = 43.4 bits (103), Expect = 3e-04
Identities = 22/59 (37%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 606 NKCIGCTL--CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCR 662
+ C GC CI+ CP A I I + C C C K CP N I IE PC
Sbjct: 111 DACRGCLAHPCIEVCPKGA-ISMVNGRAYIDQEKCIECGKCKKACPYNAIVEIER-PCE 167
Score = 41.0 bits (97), Expect = 0.002
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 14/55 (25%)
Query: 601 AIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 655
A I + KCI C C ++CP +AI+ + C K CPV IS
Sbjct: 137 AYIDQEKCIECGKCKKACPYNAIV---EIERP-----------CEKACPVGAISS 177
Score = 39.5 bits (93), Expect = 0.006
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 587 PLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDAI 623
P+ I +E R A+I +KCI C C+ +CP AI
Sbjct: 171 PVGAISSDENGR--AVIDYDKCISCGACMVACPFGAI 205
>gnl|CDD|225131 COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin),
alpha and beta subunits [Energy production and
conversion].
Length = 317
Score = 43.1 bits (102), Expect = 3e-04
Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 649
+ E C GC C++ CP AI K + SK C GC CI+ CP
Sbjct: 168 KVDEELCRGCGKCVKVCPTGAITWDGKKLKIDGSK-CIGCGKCIRACP 214
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 43.6 bits (103), Expect = 4e-04
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 601 AIIKENKCIGCTLCIQSCPVDAI-IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 655
A + E+KC GC +C CP AI + A+ + C GC +C CP I +
Sbjct: 556 ATVDEDKCTGCGICA-ECPFGAISVDKAE----VNPLRCKGCGICSAACPSGAIDL 606
Score = 39.0 bits (91), Expect = 0.008
Identities = 24/102 (23%), Positives = 34/102 (33%), Gaps = 33/102 (32%)
Query: 606 NKCIGCTLCIQSCPV-----------------DAIIGAAKHMHTIFSKLCTGCDLCIKKC 648
+KC GC C + CPV A + I K C C LC K C
Sbjct: 224 DKCTGCGACSEVCPVEVPNEFNEGLGKRKAIYIPFPQAVPLNYNIDPKHCIECGLCEKAC 283
Query: 649 PVNCISM--------IEVTP--CRTGWDAWSQKKADDARKRY 680
P + + +EV TG+ + DA ++
Sbjct: 284 PNEAVDLNQEPEEVELEVGAIIVATGYKPF------DATRKE 319
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 43.4 bits (103), Expect = 4e-04
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 670 QKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKN 729
+KKA++A+ R+ R+ RL EK A+ KKA + K + A+ R+K K
Sbjct: 445 KKKAEEAKARFEARQARLEREKAAREARHKKA----AEARAAKDKDAVAAALARVKAKKA 500
Query: 730 KENKKI 735
+ I
Sbjct: 501 AATQPI 506
>gnl|CDD|234170 TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase,
alpha subunit. Indolepyruvate ferredoxin oxidoreductase
(IOR) is an alpha 2/beta 2 tetramer related to ketoacid
oxidoreductases for pyruvate (1.2.7.1, POR),
2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate
(1.2.7.7, VOR). These multi-subunit enzymes typically
are found in anaerobes and are inactiviated by oxygen.
IOR in Pyrococcus acts in fermentation of all three
aromatic amino acids, following removal of the amino
group by transamination. In Methanococcus maripaludis,
by contrast, IOR acts in the opposite direction, in
pathways of amino acid biosynthesis from phenylacetate,
indoleacetate, and p-hydroxyphenylacetate. In M.
maripaludis and many other species, iorA and iorB are
found next to an apparent phenylacetate-CoA ligase.
Length = 595
Score = 42.8 bits (101), Expect = 6e-04
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 602 IIKENKCIGCTLCIQS--CPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
+ ++KCIGC CI+ CP + LCTGC +C + CP + I
Sbjct: 546 KVDQDKCIGCKKCIKELGCPAIEPEDKE----AVIDPLCTGCGVCAQICPFDAI 595
Score = 39.3 bits (92), Expect = 0.007
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 7/32 (21%)
Query: 599 CCAIIKENK-------CIGCTLCIQSCPVDAI 623
C AI E+K C GC +C Q CP DAI
Sbjct: 564 CPAIEPEDKEAVIDPLCTGCGVCAQICPFDAI 595
>gnl|CDD|172522 PRK14028, PRK14028, pyruvate ferredoxin oxidoreductase subunit
gamma/delta; Provisional.
Length = 312
Score = 42.3 bits (99), Expect = 7e-04
Identities = 24/67 (35%), Positives = 31/67 (46%), Gaps = 12/67 (17%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKH----------MHTI-FS-KLCTGCDLCIKKCP 649
+I +KCI C C CP DAII A + M I F + C GC +C + CP
Sbjct: 243 VIDHSKCIMCRKCWLYCPDDAIIEAWREAEGPRGRKFRMKMIDFDYQYCKGCGVCAEVCP 302
Query: 650 VNCISMI 656
I M+
Sbjct: 303 TGAIQMV 309
>gnl|CDD|233754 TIGR02163, napH_, ferredoxin-type protein, NapH/MauN family. Most
members of this family are the NapH protein, found next
to NapG,in operons that encode the periplasmic nitrate
reductase. Some species with this reductase lack NapC
but accomplish electron transfer to NapAB in some other
manner, likely to involve NapH, NapG, and/or some other
protein. A few members of this protein are designated
MauN and are found in methylamine utilization operons in
species that appear to lack a periplasmic nitrate
reductase.
Length = 255
Score = 41.6 bits (98), Expect = 8e-04
Identities = 22/99 (22%), Positives = 29/99 (29%), Gaps = 32/99 (32%)
Query: 566 CPTG------GRKGIIKLAKYLNKPIIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCP 619
CP G GRK +IK+A KC C C CP
Sbjct: 178 CPLGAFYGLIGRKSLIKIA-----------------------ASDREKCTNCMDCFNVCP 214
Query: 620 VDAIIGAAKHM---HTIFSKLCTGCDLCIKKCPVNCISM 655
++ + S CT C CI C + +
Sbjct: 215 EPQVLRMPLKKGGSTLVLSGDCTLCGRCIDVCHEDVLGF 253
>gnl|CDD|131747 TIGR02700, flavo_MJ0208, archaeoflavoprotein, MJ0208 family. This
model describes one of two paralogous families of
archaealflavoprotein. The other, described by TIGR02699
and typified by the partially characterized AF1518 of
Archaeoglobus fulgidus, is a homodimeric FMN-containing
flavoprotein that accepts electrons from ferredoxin and
can transfer them to various oxidoreductases. The
function of this protein family is unknown [Unknown
function, General].
Length = 234
Score = 41.4 bits (97), Expect = 0.001
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 603 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
I +C GC +C+ +CP AI K C GC C + CP N I
Sbjct: 145 IDRKRCKGCGICVDACPRSAIDMVDGKAFIRLLK-CVGCGKCKEACPYNAI 194
Score = 32.5 bits (74), Expect = 0.58
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 601 AIIKENKCIGCTLCIQSCPVDAIIG 625
A I+ KC+GC C ++CP +AI G
Sbjct: 172 AFIRLLKCVGCGKCKEACPYNAIHG 196
>gnl|CDD|132268 TIGR03224, benzo_boxA, benzoyl-CoA oxygenase/reductase, BoxA
protein. Members of this protein family are BoxA, the A
component of the BoxAB benzoyl-CoA oxygenase/reductase.
This oxygen-requiring enzyme acts in an aerobic pathway
of benzoate catabolism via coenzyme A ligation. BoxA is
a homodimeric iron-sulphur-flavoprotein and acts as an
NADPH-dependent reductase for BoxB [Energy metabolism,
Other].
Length = 411
Score = 41.8 bits (98), Expect = 0.001
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 608 CIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
CI C C ++CP+DAI ++ + + + +C GC C+ CP I
Sbjct: 12 CIRCNTCEETCPIDAITHDDRN-YVVKADVCNGCMACVSPCPTGAI 56
>gnl|CDD|233895 TIGR02494, PFLE_PFLC, glycyl-radical enzyme activating protein
family. This subset of the radical-SAM family
(pfam04055) includes a number of probable activating
proteins acting on different enzymes all requiring an
amino-acid-centered radical. The closest relatives to
this family are the pyruvate-formate lyase activating
enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic
ribonucleotide reductase activating enzyme (TIGR02491).
Included within this subfamily are activators of
hydroxyphenyl acetate decarboxylase (HdpA, ),
benzylsuccinate synthase (BssD, ), gycerol dehydratase
(DhaB2,) as well as enzymes annotated in E. coli as
activators of different isozymes of pyruvate-formate
lyase (PFLC and PFLE) however, these appear to lack
characterization and may activate enzymes with
distinctive functions. Most of the sequence-level
variability between these forms is concentrated within
an N-terminal domain which follows a conserved group of
three cysteines and contains a variable pattern of 0 to
8 additional cysteines.
Length = 295
Score = 41.2 bits (97), Expect = 0.001
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 604 KENKCIGCTLCIQSCPVDAI----IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMI 656
KEN+C+GC C++ CP + ++ I + CT C C + CP +S++
Sbjct: 46 KENRCLGCGKCVEVCPAGTARLSELADGRNRIIIRREKCTHCGKCTEACPSGALSIV 102
Score = 31.1 bits (71), Expect = 1.9
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHM 630
II+ KC C C ++CP A+ + M
Sbjct: 78 IIRREKCTHCGKCTEACPSGALSIVGEEM 106
>gnl|CDD|236596 PRK09625, porD, pyruvate flavodoxin oxidoreductase subunit delta;
Reviewed.
Length = 133
Score = 39.3 bits (92), Expect = 0.001
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 608 CIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVN 651
CI C C CP AI+ K + + C GC +C++ CP N
Sbjct: 61 CINCFNCWVYCPDAAILSRDKKLKGVDYSHCKGCGVCVEVCPTN 104
>gnl|CDD|132092 TIGR03048, PS_I_psaC, photosystem I iron-sulfur protein PsaC.
Members of this family are PsaC, an essential component
of photosystem I (PS-I) reaction center in Cyanobacteria
and chloroplasts. This small protein, about 80 amino
acids in length, contains two copies of the
ferredoxin-like 4Fe-4S binding site (pfam00037) and
therefore eight conserved Cys residues. This protein is
also called photosystem I subunit VII [Energy
metabolism, Photosynthesis].
Length = 80
Score = 37.6 bits (87), Expect = 0.002
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 17/62 (27%)
Query: 606 NKCIGCTLCIQSCPVDAI------------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
+ CIGCT C+++CP D + I +A ++ C GC C CP + +
Sbjct: 8 DTCIGCTQCVRACPTDVLEMVPWDGCKAGQIASAPR-----TEDCVGCKRCESACPTDFL 62
Query: 654 SM 655
S+
Sbjct: 63 SV 64
Score = 31.8 bits (72), Expect = 0.19
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 638 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKAD 674
C GC C++ CP + + M+ C+ G A + + D
Sbjct: 10 CIGCTQCVRACPTDVLEMVPWDGCKAGQIASAPRTED 46
>gnl|CDD|177700 PLN00071, PLN00071, photosystem I subunit VII; Provisional.
Length = 81
Score = 37.6 bits (87), Expect = 0.002
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 608 CIGCTLCIQSCPVDA---IIGAAKHMHTIFS----KLCTGCDLCIKKCPVNCISM 655
CIGCT C+++CP D I I S + C GC C CP + +S+
Sbjct: 11 CIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTEDCVGCKRCESACPTDFLSV 65
Score = 28.4 bits (63), Expect = 3.2
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 638 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKAD 674
C GC C++ CP + + MI C+ A + + D
Sbjct: 11 CIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTED 47
>gnl|CDD|211993 TIGR04270, Rama_corrin_act, methylamine methyltransferase corrinoid
protein reductive activase. Members of this family
occur as paralogs in species capable of generating
methane from mono-, di-, and tri-methylamine. Members
include RamA (Reductive Activation of Methyltransfer,
Amines) from Methanosarcina barkeri MS (DSM 800). Member
proteins have two C-terminal motifs with four Cys each,
likely to bind one 4Fe-4S cluster per motif.
Length = 535
Score = 41.3 bits (97), Expect = 0.002
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 607 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTG--CDLCIKKCPVNCIS 654
CI C C++ CP A+ I + C G C C + CP
Sbjct: 480 GCIACQKCVKECPGKALSILESEPPRIDTDRCLGTACRRCERVCPEKVFD 529
Score = 34.7 bits (80), Expect = 0.19
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 630 MHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCRT 663
+ C C C+K+CP +S++E P R
Sbjct: 474 LEAQVEG-CIACQKCVKECPGKALSILESEPPRI 506
>gnl|CDD|233481 TIGR01582, FDH-beta, formate dehydrogenase, beta subunit, Fe-S
containing. This model represents the beta subunit of
the gamma-proteobacterial formate dehydrogenase. This
subunit contains four 4Fe-4S clusters and is involved in
transmitting electrons from the alpha subunit
(TIGR01553) at the periplasmic space to the gamma
subunit which spans the cytoplasmic membrane. In
addition to the gamma proteobacteria, a sequence from
Aquifex aolicus falls within the scope of this model.
This appears to be the case for the alpha, gamma and
epsilon (accessory protein TIGR01562) chains as well
[Energy metabolism, Anaerobic, Energy metabolism,
Electron transport].
Length = 283
Score = 39.9 bits (93), Expect = 0.003
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 12/58 (20%)
Query: 606 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGC---------DLCIKKCPVNCIS 654
+KCIGC CI CP + I K + + CT C C+K CP N IS
Sbjct: 124 SKCIGCGYCIVGCPFN-IPRYDKVDNRPYK--CTLCIDRVSVGQEPACVKTCPTNAIS 178
>gnl|CDD|205098 pfam12837, Fer4_6, 4Fe-4S binding domain. This superfamily
includes proteins containing domains which bind to
iron-sulfur clusters. Members include bacterial
ferredoxins, various dehydrogenases, and various
reductases. Structure of the domain is an
alpha-antiparallel beta sandwich.
Length = 24
Score = 35.3 bits (82), Expect = 0.003
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 601 AIIKENKCIGCTLCIQSCPVDAI 623
I +KCIGC C+ CP AI
Sbjct: 2 VEIDPDKCIGCGRCVAVCPEGAI 24
Score = 28.0 bits (63), Expect = 1.0
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 636 KLCTGCDLCIKKCPVNCI 653
C GC C+ CP I
Sbjct: 7 DKCIGCGRCVAVCPEGAI 24
>gnl|CDD|177005 CHL00065, psaC, photosystem I subunit VII.
Length = 81
Score = 36.3 bits (84), Expect = 0.005
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 17/61 (27%)
Query: 606 NKCIGCTLCIQSCPVDAI------------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
+ CIGCT C+++CP D + I +A C GC C CP + +
Sbjct: 9 DTCIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTED-----CVGCKRCESACPTDFL 63
Query: 654 S 654
S
Sbjct: 64 S 64
Score = 30.5 bits (69), Expect = 0.57
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 638 CTGCDLCIKKCPVNCISMIEVTPCRTG 664
C GC C++ CP + + MI C+
Sbjct: 11 CIGCTQCVRACPTDVLEMIPWDGCKAK 37
>gnl|CDD|237094 PRK12410, PRK12410, glutamylglutaminyl-tRNA synthetase;
Provisional.
Length = 433
Score = 39.2 bits (92), Expect = 0.006
Identities = 27/97 (27%), Positives = 49/97 (50%), Gaps = 8/97 (8%)
Query: 22 RFAPEPNGYLHIGHAKSIFINFELAYKYNGLCNLRFDDTNPLK--ENKEYVNSIIKTIKW 79
RFAP P G +HIG+ ++ N+ +A + N +R +DT+ + E K+ I++ +
Sbjct: 3 RFAPSPTGDMHIGNLRAAIFNYIVAKQQNEDFLIRIEDTDKERNIEGKD--KEILEILNL 60
Query: 80 LNFNWDKVKKRIYYASDYFDILYKIAEYLIISGDAYV 116
+WDK+ Y S+ ++AE L+ A+
Sbjct: 61 FGISWDKL----VYQSENLKFHRQMAEKLLSEKKAFA 93
>gnl|CDD|227003 COG4656, RnfC, Predicted NADH:ubiquinone oxidoreductase, subunit
RnfC [Energy production and conversion].
Length = 529
Score = 39.3 bits (92), Expect = 0.006
Identities = 44/168 (26%), Positives = 68/168 (40%), Gaps = 28/168 (16%)
Query: 581 LNKPIIPLNTIYG------NEKSRCCAIIKENKCIGCTLCIQSCPVDAI---IGAAKHMH 631
L+ P+ T G E IKE CI C+LC +CPV+ + +
Sbjct: 339 LDAPVT--KTTNGLLALTKKELLEP---IKEQSCIRCSLCADACPVNLLPQQLYWFAKGE 393
Query: 632 TI------FSKLCTGCDLCIKKCPVNCISMIEVTPCRTGW-DAWSQK----KADDARKRY 680
C C C CP N I +++ R + +Q+ KA++A+ R+
Sbjct: 394 QHDEEEEHNLLDCIECGACAYVCPSN-IPLVQYF--RQEKAEILAQRQELKKAEEAKTRF 450
Query: 681 YLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELK 728
R RL EK E ++KKA ++ I A++R+KE K
Sbjct: 451 EARTARLEREKAERIPRMKKAAVKRLSFVTAALIDAIAAALERVKEKK 498
>gnl|CDD|222205 pfam13534, Fer4_17, 4Fe-4S dicluster domain. This family includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. The structure of
the domain is an alpha-antiparallel beta sandwich.
Length = 61
Score = 34.8 bits (80), Expect = 0.009
Identities = 14/59 (23%), Positives = 18/59 (30%), Gaps = 18/59 (30%)
Query: 607 KCIGCTLCIQSCPVDAIIGAAKH----------------MHTIFSKLCTGCDLCIKKCP 649
+CI C C+ CP + G S C+ C LC CP
Sbjct: 1 RCIQCGYCVPVCPSYLLNGDEPKKLMRAAYNGDLEELLANEAADS--CSECGLCEYVCP 57
>gnl|CDD|183762 PRK12809, PRK12809, putative oxidoreductase Fe-S binding subunit;
Reviewed.
Length = 639
Score = 38.9 bits (90), Expect = 0.010
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 614 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 657
C+ +CPV+A+ + + + + C GC C CP + M++
Sbjct: 64 CVTACPVNALTFQSDSVQ-LDEQKCIGCKRCAIACPFGVVEMVD 106
Score = 37.7 bits (87), Expect = 0.021
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 603 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK--LC----TGCDLCIKKCPVNCISMI 656
+ E KCIGC C +CP G + + TI K LC +G CI+ CP + ++
Sbjct: 82 LDEQKCIGCKRCAIACP----FGVVEMVDTIAQKCDLCNQRSSGTQACIEVCPTQALRLM 137
Query: 657 E 657
+
Sbjct: 138 D 138
>gnl|CDD|184955 PRK14993, PRK14993, tetrathionate reductase subunit B; Provisional.
Length = 244
Score = 37.9 bits (88), Expect = 0.011
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 19/77 (24%)
Query: 593 GNEKSRCCAIIKENKCIGCTLCIQSCPVD-----------------AIIGAAKHMHTIFS 635
G+ + R +I +CIGC C SC ++ G+ + + +
Sbjct: 38 GSPRHRYAMLIDLRRCIGCQSCTVSCTIENQTPQGAFRTTVNQYQVQREGSQEVTNVLLP 97
Query: 636 KLCTGCD--LCIKKCPV 650
+LC CD C+ CPV
Sbjct: 98 RLCNHCDNPPCVPVCPV 114
Score = 36.4 bits (84), Expect = 0.035
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 584 PIIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDA 622
P+ P+ + ++ ++ +C+GC C+Q+CP DA
Sbjct: 110 PVCPVQATF--QREDGIVVVDNKRCVGCAYCVQACPYDA 146
Score = 33.7 bits (77), Expect = 0.29
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 614 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 649
C+ CPV A + + +K C GC C++ CP
Sbjct: 108 CVPVCPVQATFQREDGIVVVDNKRCVGCAYCVQACP 143
>gnl|CDD|179174 PRK00941, PRK00941, acetyl-CoA decarbonylase/synthase complex
subunit alpha; Validated.
Length = 781
Score = 38.4 bits (90), Expect = 0.013
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 606 NKCIGCTLCIQSCP-----VDAIIGAAKHMHTIFSKL---CTGCDLCIKKCPVN--CISM 655
KC C C++ CP +A+ AAK + L C GC C + CP N +SM
Sbjct: 404 KKCTECGWCVRVCPNELPIPEAMEAAAKGDLSKLEDLYDKCIGCGRCEQVCPKNIPIVSM 463
Query: 656 IE 657
IE
Sbjct: 464 IE 465
>gnl|CDD|225358 COG2768, COG2768, Uncharacterized Fe-S center protein [General
function prediction only].
Length = 354
Score = 37.9 bits (88), Expect = 0.016
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 16/59 (27%)
Query: 603 IKENKCIGCTLCIQSCPVDAI-------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 654
+ E KC C LC++ CPV AI I K C GC C++ CP +
Sbjct: 190 VVEEKCYDCGLCVKICPVGAITLTKVVKIDYEK---------CIGCGQCMEACPYGAVD 239
Score = 30.5 bits (69), Expect = 3.0
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 638 CTGCDLCIKKCPVNCISMIEV 658
C C LC+K CPV I++ +V
Sbjct: 195 CYDCGLCVKICPVGAITLTKV 215
>gnl|CDD|183733 PRK12769, PRK12769, putative oxidoreductase Fe-S binding subunit;
Reviewed.
Length = 654
Score = 38.2 bits (89), Expect = 0.017
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 614 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKA 673
C +SCP AI + K C GC C+ CP + + +TP G + K
Sbjct: 64 CARSCPNGAISHVDDSIQVNQQK-CIGCKSCVVACPFGTMQI-VLTPVAAGKVKATAHKC 121
Query: 674 D 674
D
Sbjct: 122 D 122
Score = 33.6 bits (77), Expect = 0.43
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 14/56 (25%)
Query: 607 KCIGCTLCIQSCPVDAI-----IGAAKHMHTIFSKLCTGCDLCIKK-----CPVNC 652
KCIGC C+ +CP + AA + K CDLC + C NC
Sbjct: 86 KCIGCKSCVVACPFGTMQIVLTPVAAGKVKATAHK----CDLCAGRENGPACVENC 137
>gnl|CDD|235745 PRK06214, PRK06214, sulfite reductase; Provisional.
Length = 530
Score = 38.1 bits (89), Expect = 0.018
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 538 QTQCTKCGYPGCRQYAEAIANKK-ANYNQCPTGGR 571
Q C +CGY C+ YAEAIA+ + N C GG+
Sbjct: 89 QQDCGQCGY-NCQDYAEAIASGEEKRLNLCAPGGK 122
>gnl|CDD|131996 TIGR02951, DMSO_dmsB, DMSO reductase, iron-sulfur subunit. This
family consists of the iron-sulfur subunit, or chain B,
of an enzyme called the anaerobic dimethyl sulfoxide
reductase. Chains A and B are catalytic, while chain C
is a membrane anchor.
Length = 161
Score = 36.2 bits (84), Expect = 0.020
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 16/56 (28%)
Query: 605 ENKCIGCTLCIQSCPVDA--IIGAAKHMHTIFSKLCTGC-DL--------CIKKCP 649
++KCIGC C+ +CP A M C GC D C+ CP
Sbjct: 94 QDKCIGCRYCVWACPYGAPQYDPQQGVMGK-----CDGCYDRVEKGLRPACVDACP 144
>gnl|CDD|234064 TIGR02936, fdxN_nitrog, ferredoxin III, nif-specific. Members of
this family are homodimeric ferredoxins from nitrogen
fixation regions of many nitrogen-fixing bacteria. As
characterized in Rhodobacter capsulatus, these proteins
are homodimeric, with two 4Fe-4S clusters bound per
monomer. Although nif-specific, this protein family is
not usiveral, as other nitrogenase systems may
substitute flavodoxins, or different types of ferredoxin
[Central intermediary metabolism, Nitrogen fixation].
Length = 91
Score = 34.3 bits (79), Expect = 0.027
Identities = 18/69 (26%), Positives = 22/69 (31%), Gaps = 19/69 (27%)
Query: 603 IKENKCIGCTLCIQSCPVDAII-------------------GAAKHMHTIFSKLCTGCDL 643
I + KCIGC C + C D + K M C GC
Sbjct: 18 IDQEKCIGCGRCYKVCGRDVLTLKGINEEGELVASDDDDDEIERKVMVVANPGNCIGCGA 77
Query: 644 CIKKCPVNC 652
C + CP C
Sbjct: 78 CARVCPKKC 86
Score = 27.7 bits (62), Expect = 5.8
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 601 AIIKENKCIGCTLCIQSCPVDA 622
+ CIGC C + CP
Sbjct: 65 VVANPGNCIGCGACARVCPKKC 86
>gnl|CDD|234157 TIGR03287, methan_mark_16, putative methanogenesis marker 16
metalloprotein. Members of this protein family, to
date, are found in a completed prokaryotic genome if and
only if the species is one of the archaeal methanogens.
The exact function is unknown, but likely is linked to
methanogenesis or a process closely connected to it.
This protein is a predicted to bind FeS clusters, based
on the presence of two copies of the Fer4 domain
(pfam00037), with each copy having four Cys residues
invariant across all members [Energy metabolism,
Methanogenesis].
Length = 391
Score = 36.7 bits (85), Expect = 0.040
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 607 KCIGCTLCI--QSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 649
+C C C+ ++CPV AI K T+ ++ C GC C + CP
Sbjct: 303 RCENCDPCLVEEACPVPAI----KKDGTLNTEDCFGCGYCAEICP 343
>gnl|CDD|181037 PRK07569, PRK07569, bidirectional hydrogenase complex protein HoxU;
Validated.
Length = 234
Score = 35.8 bits (83), Expect = 0.050
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 26/72 (36%)
Query: 603 IKENKCIGCTLCIQSCPVDAIIGAAKHMHT-----------IFSKL---------CTGCD 642
I N+C+ CT C++ C D I GA HT + + L CT C
Sbjct: 143 IDHNRCVLCTRCVRVC--DEIEGA----HTWDVAGRGAKSRVITDLNQPWGTSETCTSCG 196
Query: 643 LCIKKCPVNCIS 654
C++ CP I
Sbjct: 197 KCVQACPTGAIF 208
>gnl|CDD|224516 COG1600, COG1600, Uncharacterized Fe-S protein [Energy production
and conversion].
Length = 337
Score = 36.2 bits (84), Expect = 0.050
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 19/69 (27%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAK-------HMHTIF---------SKLCT---GCD 642
+E+ C CT C+ +CP A++ TI + GCD
Sbjct: 181 PEEEDHCGSCTRCLDACPTGALVAPYTVDARRCISYLTIEKGGAPEEFRPLIGNRIYGCD 240
Query: 643 LCIKKCPVN 651
+C K CP N
Sbjct: 241 ICQKVCPWN 249
>gnl|CDD|205078 pfam12798, Fer4_3, 4Fe-4S binding domain. This superfamily
includes proteins containing domains which bind to
iron-sulfur clusters. Members include bacterial
ferredoxins, various dehydrogenases, and various
reductases. Structure of the domain is an
alpha-antiparallel beta sandwich.
Length = 15
Score = 31.5 bits (72), Expect = 0.054
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 608 CIGCTLCIQSCPVDA 622
C GC C++ CPV A
Sbjct: 1 CTGCGACVEVCPVGA 15
Score = 29.2 bits (66), Expect = 0.42
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 638 CTGCDLCIKKCPVNC 652
CTGC C++ CPV
Sbjct: 1 CTGCGACVEVCPVGA 15
>gnl|CDD|238897 cd01916, ACS_1, Acetyl-CoA synthase (ACS), also known as acetyl-CoA
decarbonylase, is found in acetogenic and methanogenic
organisms and is responsible for the synthesis and
breakdown of acetyl-CoA. ACS forms a heterotetramer
with carbon monoxide dehydrogenase (CODH) consisting of
two ACS and two CODH subunits. CODH reduces carbon
dioxide to carbon monoxide and ACS then synthesizes
acetyl-CoA from carbon monoxide, CoA, and a methyl group
donated by another protein (CoFeSP). ACS has three
structural domains, an N-terminal rossman fold domain
with a helical region at its N-terminus which interacts
with CODH, and two alpha + beta fold domains. A Ni-Fe-S
center referred to as the A-cluster is located in the
C-terminal domain. A large cavity exists between the
three domains which may bind CoA.
Length = 731
Score = 36.2 bits (84), Expect = 0.065
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 606 NKCIGCTLCIQSCP-----VDAIIGAAKHMHTIFSKL---CTGCDLCIKKCPVN--CISM 655
KC C C ++CP +A+ A + + + L C GC C ++CP I+M
Sbjct: 365 AKCTDCGWCTRACPNSLRIKEAMEAAKEGDFSGLADLFDQCVGCGRCEQECPKEIPIINM 424
Query: 656 IE 657
IE
Sbjct: 425 IE 426
>gnl|CDD|224911 COG2000, COG2000, Predicted Fe-S protein [General function
prediction only].
Length = 226
Score = 35.6 bits (82), Expect = 0.066
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 535 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCP 567
LLP C CGY C ++AEA+ K + CP
Sbjct: 14 LLPGFNCGACGYSRCDEFAEALLKKLVKIDDCP 46
>gnl|CDD|233993 TIGR02745, ccoG_rdxA_fixG, cytochrome c oxidase accessory protein
FixG. Member of this ferredoxin-like protein family are
found exclusively in species with an operon encoding the
cbb3 type of cytochrome c oxidase (cco-cbb3), and near
the cco-cbb3 operon in about half the cases. The
cco-cbb3 is found in a variety of proteobacteria and
almost nowhere else, and is associated with oxygen use
under microaerobic conditions. Some (but not all) of
these proteobacteria are also nitrogen-fixing, hence the
gene symbol fixG. FixG was shown essential for
functional cco-cbb3 expression in Bradyrhizobium
japonicum.
Length = 434
Score = 35.7 bits (83), Expect = 0.073
Identities = 15/45 (33%), Positives = 17/45 (37%), Gaps = 6/45 (13%)
Query: 604 KENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKC 648
CI C LC+Q CP I + C C LCI C
Sbjct: 229 PLGDCIDCNLCVQVCPTGIDIRDGLQLE------CINCGLCIDAC 267
>gnl|CDD|132337 TIGR03294, FrhG, coenzyme F420 hydrogenase, subunit gamma. This
model represents that clade of F420-dependent
hydrogenases (FRH) beta subunits found exclusively and
universally in methanogenic archaea. This protein
contains two 4Fe-4S cluster binding domains (pfam00037)
and scores above the trusted cutoff to model pfam01058
for the "NADH ubiquinone oxidoreductase, 20 Kd subunit"
family.
Length = 228
Score = 35.2 bits (81), Expect = 0.088
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 592 YGNEKSRC---CAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKC 648
G E C ++ + C+GC C +CP A I + C C C +C
Sbjct: 157 EGTEACGCDLMTKVVNQGLCMGCGTCAAACPTRA-IEMEDGRPNVNRDRCIKCGACYVQC 215
Query: 649 P 649
P
Sbjct: 216 P 216
Score = 32.1 bits (73), Expect = 0.68
Identities = 10/30 (33%), Positives = 12/30 (40%)
Query: 631 HTIFSKLCTGCDLCIKKCPVNCISMIEVTP 660
+ LC GC C CP I M + P
Sbjct: 169 KVVNQGLCMGCGTCAAACPTRAIEMEDGRP 198
>gnl|CDD|129492 TIGR00397, mauM_napG, MauM/NapG family ferredoxin-type protein.
MauM is involved in methylamine utilization. NapG is
associated with nitrate reductase activity. The two
proteins are highly similar [Energy metabolism, Electron
transport].
Length = 213
Score = 34.9 bits (80), Expect = 0.089
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 9/51 (17%)
Query: 607 KCIGCTLCIQSCPV--DAII-------GAAKHMHTIFSKLCTGCDLCIKKC 648
K + C++C++ CP+ +AI + T+ S CTGC C K C
Sbjct: 137 KGLNCSICVRVCPIRGEAISLKPIENERGRLQIPTVDSAKCTGCGTCEKHC 187
Score = 29.5 bits (66), Expect = 5.5
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 608 CIGCTLCIQSCPVDAIIGAA----KHMHTIF----SKLCTGC-DL-CIKKCPVNCIS 654
C+ C LC+++CP D + A+ + T F C C D+ C + CP +
Sbjct: 55 CVRCGLCVEACPYDILSLASWSDPAPLGTPFFTPREVPCRMCKDIPCARACPTGALD 111
>gnl|CDD|205077 pfam12797, Fer4_2, 4Fe-4S binding domain. This superfamily
includes proteins containing domains which bind to
iron-sulfur clusters. Members include bacterial
ferredoxins, various dehydrogenases, and various
reductases. Structure of the domain is an
alpha-antiparallel beta sandwich.
Length = 22
Score = 30.9 bits (70), Expect = 0.10
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 602 IIKENKCIGCTLCIQSCPV 620
+I E+KCIGC C+ +CP
Sbjct: 4 LIDEDKCIGCGACVSACPA 22
Score = 26.3 bits (58), Expect = 5.2
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 630 MHTIFSKLCTGCDLCIKKCPV 650
I C GC C+ CP
Sbjct: 2 KPLIDEDKCIGCGACVSACPA 22
>gnl|CDD|236535 PRK09477, napH, quinol dehydrogenase membrane component;
Provisional.
Length = 271
Score = 34.5 bits (80), Expect = 0.13
Identities = 18/94 (19%), Positives = 27/94 (28%), Gaps = 33/94 (35%)
Query: 566 CPTG------GRKGIIKLAKYLNKPIIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCP 619
CP G G+K +I++ + KC C C CP
Sbjct: 185 CPLGAFYGLIGKKSLIRVKAH-----------------------DRQKCTRCMDCFHVCP 221
Query: 620 ----VDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 649
+ + + + S C C CI C
Sbjct: 222 EPQVLRPPLKGKQSPSQVTSGDCITCGRCIDVCS 255
>gnl|CDD|235764 PRK06273, PRK06273, ferredoxin; Provisional.
Length = 165
Score = 33.9 bits (78), Expect = 0.14
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 632 TIFSKLCTGCDLCIKKCPVNCISMIEVTP 660
+F +LC GC C CP I MI V P
Sbjct: 45 KVFEELCIGCGGCANVCPTKAIEMIPVEP 73
>gnl|CDD|213520 TIGR00276, TIGR00276, epoxyqueuosine reductase. This model was
rebuilt to exclude archaeal homologs, now that there is
new information that bacterial members are
epoxyqueuosine reductase, QueG, involved in queuosine
biosynthesis for tRNA maturation [Protein synthesis,
tRNA and rRNA base modification].
Length = 337
Score = 34.4 bits (80), Expect = 0.17
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 28/71 (39%)
Query: 605 ENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLC----T--------------------G 640
+ C CT C+ +CP AI+ + + ++ C T G
Sbjct: 178 TDHCGSCTACLDACPTGAIVAP----YQLDARRCISYLTIELKGPIPEEFRPLIGNRIYG 233
Query: 641 CDLCIKKCPVN 651
CD C CP N
Sbjct: 234 CDDCQLVCPWN 244
>gnl|CDD|233023 TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase.
This model represents PdxA, an NAD+-dependent
4-hydroxythreonine 4-phosphate dehydrogenase (EC
1.1.1.262) active in pyridoxal phosphate biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pyridoxine].
Length = 320
Score = 34.0 bits (79), Expect = 0.22
Identities = 14/27 (51%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 324 IEILEQALRDDLDIKAPRIMAV--LNP 348
+ IL LR D I PRI AV LNP
Sbjct: 180 LRILHADLRRDFGIARPRI-AVAGLNP 205
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 34.3 bits (79), Expect = 0.22
Identities = 14/61 (22%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 672 KADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKNKE 731
+A+ A ++ L E++ AKL + + KK + L K+++EL+ E
Sbjct: 177 RAEIAAEQAELTTLLS--EQRAQQAKLAQLLEERKKTLAQLNSELSADQ-KKLEELRANE 233
Query: 732 N 732
+
Sbjct: 234 S 234
>gnl|CDD|205920 pfam13746, Fer4_18, 4Fe-4S dicluster domain. This family includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. The structure of
the domain is an alpha-antiparallel beta sandwich.
Length = 69
Score = 31.2 bits (71), Expect = 0.25
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 608 CIGCTLCIQSCPVD 621
C+GC C++ CP
Sbjct: 52 CVGCGRCVEVCPTG 65
>gnl|CDD|172486 PRK13984, PRK13984, putative oxidoreductase; Provisional.
Length = 604
Score = 34.0 bits (78), Expect = 0.33
Identities = 19/61 (31%), Positives = 23/61 (37%), Gaps = 11/61 (18%)
Query: 606 NKCIGCTLCIQSCPVDAII-----------GAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 654
KCIGC C + CP DAI G I C+ C LC+ C +
Sbjct: 45 EKCIGCGTCSKICPTDAITMVEVPDLPQEYGKKPQRPVIDYGRCSFCALCVDICTTGSLK 104
Query: 655 M 655
M
Sbjct: 105 M 105
Score = 33.6 bits (77), Expect = 0.46
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 638 CTGCDLCIKKCPVNCISMIEV 658
C GC C K CP + I+M+EV
Sbjct: 47 CIGCGTCSKICPTDAITMVEV 67
>gnl|CDD|224852 COG1941, FrhG, Coenzyme F420-reducing hydrogenase, gamma subunit
[Energy production and conversion].
Length = 247
Score = 33.1 bits (76), Expect = 0.35
Identities = 20/65 (30%), Positives = 24/65 (36%), Gaps = 19/65 (29%)
Query: 599 CCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGC----DLCIK--KCPVNC 652
CC + + C+GC C SCP AI C GC CIK C V+C
Sbjct: 183 CCLLEQGLPCMGCGTCAASCPSRAIP-------------CRGCRGNIPRCIKCGACFVSC 229
Query: 653 ISMIE 657
Sbjct: 230 PRSKG 234
>gnl|CDD|224062 COG1139, COG1139, Uncharacterized conserved protein containing a
ferredoxin-like domain [Energy production and
conversion].
Length = 459
Score = 33.8 bits (78), Expect = 0.35
Identities = 17/66 (25%), Positives = 23/66 (34%), Gaps = 24/66 (36%)
Query: 608 CIGCTLCIQSCPVDAIIGAAKH---------MHTIFS-------------KLCTGCDLCI 645
CI C C+ CPV IG H + ++S C+ C C
Sbjct: 310 CIRCGACLNHCPVYRHIG--GHAYGSIYPGPIGVVWSPILGGYDAAGDLPYACSLCGACT 367
Query: 646 KKCPVN 651
+ CPV
Sbjct: 368 EVCPVK 373
>gnl|CDD|236597 PRK09626, oorD, 2-oxoglutarate-acceptor oxidoreductase subunit
OorD; Reviewed.
Length = 103
Score = 31.6 bits (72), Expect = 0.39
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 9/63 (14%)
Query: 603 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL--------CTGCDLCIKKCPVNCIS 654
+ E++C C +C+ CP ++ H + K+ C GC C CP I
Sbjct: 13 VDESRCKACDICVSVCPA-GVLAMRIDPHAVLGKMIKVVHPESCIGCRECELHCPDFAIY 71
Query: 655 MIE 657
+ +
Sbjct: 72 VAD 74
>gnl|CDD|223325 COG0247, GlpC, Fe-S oxidoreductase [Energy production and
conversion].
Length = 388
Score = 33.4 bits (76), Expect = 0.47
Identities = 13/63 (20%), Positives = 18/63 (28%), Gaps = 19/63 (30%)
Query: 607 KCIGCTLCIQSCPV-----------------DAIIGAAKHMHTIFS--KLCTGCDLCIKK 647
KC+ C C CP + + G A ++ C C C
Sbjct: 10 KCVHCGFCTNVCPSYRATEALSPRGRIVLVREVLRGKAPGDEEVYEALDTCLACGACATA 69
Query: 648 CPV 650
CP
Sbjct: 70 CPS 72
Score = 29.1 bits (65), Expect = 8.9
Identities = 10/50 (20%), Positives = 15/50 (30%), Gaps = 4/50 (8%)
Query: 608 CIGCTLCIQSCPVDA----IIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
C+ C C +CP +I A+ L + VN
Sbjct: 60 CLACGACATACPSGIDIGDLIREARRKLAKGLLLDGLLAEAEELLGVNLG 109
>gnl|CDD|236534 PRK09476, napG, quinol dehydrogenase periplasmic component;
Provisional.
Length = 254
Score = 32.7 bits (75), Expect = 0.57
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 607 KCIGCTLCIQSCPVD----AIIGAAKHMHTIF----SKLCTGCD--LCIKKCP 649
CI C LC+Q+CP D A + + T + C C+ C+K CP
Sbjct: 60 ACIRCGLCVQACPYDTLKLATLASGLSAGTPYFVARDIPCEMCEDIPCVKACP 112
>gnl|CDD|182296 PRK10194, PRK10194, ferredoxin-type protein; Provisional.
Length = 163
Score = 31.9 bits (72), Expect = 0.69
Identities = 12/24 (50%), Positives = 12/24 (50%)
Query: 608 CIGCTLCIQSCPVDAIIGAAKHMH 631
C GC C SCPV AI H H
Sbjct: 140 CNGCGACAASCPVSAITAEYLHAH 163
Score = 30.4 bits (68), Expect = 2.1
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 607 KCIGCTLCIQSCPVDAIIG----AAKHMHTIFSKLCTGCDLCIKKCPVNCIS 654
+ + C C SC AII + + + S+LC GC C CPV+ I+
Sbjct: 105 QSVECRRCQDSCEPMAIIFRPTLSGIYQPQLNSQLCNGCGACAASCPVSAIT 156
>gnl|CDD|224074 COG1152, CdhA, CO dehydrogenase/acetyl-CoA synthase alpha subunit
[Energy production and conversion].
Length = 772
Score = 32.9 bits (75), Expect = 0.70
Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 14/77 (18%)
Query: 606 NKCIGCTLCIQSCPVDAIIGAA--KHMHTIFSKL------CTGCDLCIKKCPVN--CISM 655
KC C C+++CP + I A FSKL C GC C + CP N ++M
Sbjct: 400 RKCTYCGNCMRACPNELDIPEAMEYAAKGDFSKLEDLHDVCIGCGRCEQVCPKNIPILNM 459
Query: 656 IEVTPCRTGWDAWSQKK 672
IE + ++K
Sbjct: 460 IE----KAAQKRIKEEK 472
>gnl|CDD|232959 TIGR00402, napF, ferredoxin-type protein NapF. The gene codes for
a ferredoxin-type cytosolic protein, NapF, of the
periplasmic nitrate reductase system, as in Escherichia
coli. NapF interacts with the catalytic subunit, NapA,
and may be an accessory protein for NapA maturation
[Energy metabolism, Electron transport].
Length = 101
Score = 30.7 bits (69), Expect = 0.78
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 632 TIFSKLCTGCDLCIKKCPVNCI 653
++FS +CT C C C N +
Sbjct: 30 SLFSAVCTRCGECASACENNIL 51
Score = 28.0 bits (62), Expect = 6.7
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 2/49 (4%)
Query: 608 CIGCTLCIQSCPVDAIIGAAKHMHTIFSKL--CTGCDLCIKKCPVNCIS 654
C C C +C + + + T+ C C C + CP N
Sbjct: 36 CTRCGECASACENNILQLGQQGQPTVEFDNAECDFCGKCAEACPTNAFH 84
>gnl|CDD|205080 pfam12800, Fer4_4, 4Fe-4S binding domain. This superfamily
includes proteins containing domains which bind to
iron-sulfur clusters. Members include bacterial
ferredoxins, various dehydrogenases, and various
reductases. Structure of the domain is an
alpha-antiparallel beta sandwich.
Length = 17
Score = 28.6 bits (64), Expect = 0.78
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 605 ENKCIGCTLCIQSCPVD 621
KCIGC C+ +CP
Sbjct: 1 PEKCIGCGACVDACPYG 17
Score = 27.4 bits (61), Expect = 2.0
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 637 LCTGCDLCIKKCPVN 651
C GC C+ CP
Sbjct: 3 KCIGCGACVDACPYG 17
>gnl|CDD|227208 COG4871, COG4871, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 193
Score = 31.8 bits (72), Expect = 0.79
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 534 NLLPQTQCTKCGYPGCRQYAEAIANKKANYNQC 566
LPQT C KCG C +A + N + + C
Sbjct: 132 KYLPQTNCGKCGEQTCMAFAIKLLNGEVKLDSC 164
>gnl|CDD|222145 pfam13459, Fer4_15, 4Fe-4S single cluster domain.
Length = 60
Score = 29.6 bits (67), Expect = 0.81
Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 14/60 (23%)
Query: 605 ENKCIGCTLCIQSCP----VDAIIGAAKH--MHTIFSKLCTGCDLCIKK----CPVNCIS 654
+ CIGC LC+ P +D A + L + ++ CPV+ I
Sbjct: 4 RDTCIGCGLCVALAPDVFELDEDGKARVILDEGEVPDDL----EEDAQEAADACPVDAIH 59
>gnl|CDD|205895 pfam13720, Acetyltransf_11, Udp N-acetylglucosamine
O-acyltransferase; Domain 2. This is domain 2, or the
C-terminal domain, of Udp N-acetylglucosamine
O-acyltransferase. This enzyme is a zinc-dependent
enzyme that catalyzes the deacetylation of
UDP-3-O-((R)-3-hydroxymyristoyl)-N-acetylglucosamine to
form UDP-3-O-(R-hydroxymyristoyl)glucosamine and
acetate.
Length = 82
Score = 29.7 bits (68), Expect = 0.99
Identities = 7/15 (46%), Positives = 13/15 (86%)
Query: 293 LIGMRRRGYTPESIK 307
L+G++RRG++ E I+
Sbjct: 20 LVGLKRRGFSKEEIR 34
>gnl|CDD|225918 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 32.4 bits (74), Expect = 1.0
Identities = 21/89 (23%), Positives = 34/89 (38%), Gaps = 16/89 (17%)
Query: 606 NKCIGCTLCIQSCP----VDAIIGAAKHMHT---------IFSKLCTGCDLCIKKCPVNC 652
N+CI C C+++C +A+ + I C C C+ CPVN
Sbjct: 149 NQCILCGRCVEACQEVQVNEALTIDWRGEDPRVIWDNDVPINESSCVSCGACVTVCPVNA 208
Query: 653 I---SMIEVTPCRTGWDAWSQKKADDARK 678
+ SM+ TG + + + D K
Sbjct: 209 LMEKSMLGEAGYLTGINEDTLEPMIDLVK 237
Score = 29.7 bits (67), Expect = 7.4
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 603 IKENKCIGCTLCIQSCPVDAI-----IGAAKHMHTIFSKLCTGCDLCIKKC-----PVNC 652
I E+ C+ C C+ CPV+A+ +G A ++ I +KK P+
Sbjct: 189 INESSCVSCGACVTVCPVNALMEKSMLGEAGYLTGINEDTLEPMIDLVKKVEPEYGPIFA 248
Query: 653 ISMIE 657
IS IE
Sbjct: 249 ISEIE 253
>gnl|CDD|129414 TIGR00314, cdhA, CO dehydrogenase/acetyl-CoA synthase complex,
epsilon subunit. Acetyl-CoA decarbonylase/synthase
(ACDS) is a multienzyme complex. Carbon monoxide
dehydrogenase is a synonym. The ACDS complex carries out
an unusual reaction involving the reversible cleavage
and synthesis of acetyl-CoA in methanogens. The model
contains the prosite signature for 4Fe-4S ferredoxins
[C-x(2)-C-x(2)-C-x(3)-C-[PEG]] between residues 448-462
of the model [Energy metabolism, Chemoautotrophy].
Length = 784
Score = 32.5 bits (74), Expect = 1.0
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 14/77 (18%)
Query: 606 NKCIGCTLCIQSCP----VDAIIGAAKHMHTIFSKL------CTGCDLCIKKCPVNCISM 655
NKC C C+++CP VD + A+ SKL C C C + CP N I +
Sbjct: 399 NKCTQCGNCVRTCPNSLRVDEAMAHAQKGD--LSKLEQLEEQCYACGRCEQACPKN-IPI 455
Query: 656 IEVTPCRTGWDAWSQKK 672
I + + G D +K
Sbjct: 456 ISMI-TKAGEDRLKNEK 471
>gnl|CDD|131115 TIGR02060, aprB, adenosine phosphosulphate reductase, beta subunit.
During dissimilatory sulfate reduction and sulfur
oxidation, adenylylsulfate (APS) reductase catalyzes
reversibly the two-electron reduction of APS to sulfite
and AMP. Found in several bacterial lineages and in
Archaeoglobales, APS reductase is a heterodimer composed
of an alpha subunit containing a noncovalently bound
FAD, and a beta subunit containing two [4Fe-4S]
clusters. Described by this model is the beta subunit of
APS reductase, sharing common evolutionary origin with
other iron-sulfur cluster-binding proteins [Central
intermediary metabolism, Sulfur metabolism].
Length = 132
Score = 30.7 bits (69), Expect = 1.1
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 607 KCIGC-----TLCIQSCPVDAIIGAAKHM--HTIFSKLCTGCDLCIKKCPVNCI 653
KC GC T C+ CP D + + M + I +C C C+K CP I
Sbjct: 9 KCDGCKAGEKTACVYICPNDLMHLDTEIMKAYNIEPDMCWECYSCVKACPQGAI 62
>gnl|CDD|131231 TIGR02176, pyruv_ox_red, pyruvate:ferredoxin (flavodoxin)
oxidoreductase, homodimeric. This model represents a
single chain form of pyruvate:ferredoxin (or flavodoxin)
oxidoreductase. This enzyme may transfer electrons to
nitrogenase in nitrogen-fixing species. Portions of this
protein are homologous to gamma subunit of the four
subunit pyruvate:ferredoxin (flavodoxin) oxidoreductase.
Length = 1165
Score = 32.0 bits (73), Expect = 1.3
Identities = 17/74 (22%), Positives = 21/74 (28%), Gaps = 26/74 (35%)
Query: 604 KENKCIGCTLCIQSCP-----------------------VDAIIGAAKHMH---TIFSKL 637
+ CI C C CP +DA + M I
Sbjct: 681 VPDNCIQCNQCAFVCPHAAIRPKLADEEELENAPAGFKSLDAKGKELEGMKFRIQISPLD 740
Query: 638 CTGCDLCIKKCPVN 651
CTGC C+ CP
Sbjct: 741 CTGCGNCVDICPAK 754
>gnl|CDD|235402 PRK05312, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 31.8 bits (73), Expect = 1.4
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 324 IEILEQALRDDLDIKAPRI-MAVLNP 348
I LR I +PR+ +A LNP
Sbjct: 192 ARITAADLRRRFGIASPRLAVAGLNP 217
>gnl|CDD|205427 pfam13247, Fer4_11, 4Fe-4S dicluster domain. Superfamily includes
proteins containing domains which bind to iron-sulfur
clusters. Members include bacterial ferredoxins, various
dehydrogenases, and various reductases. Structure of the
domain is an alpha-antiparallel beta sandwich. Domain
contains two 4Fe4S clusters.
Length = 99
Score = 29.9 bits (68), Expect = 1.4
Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 12/66 (18%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGC-DL--------CIKKCPVNC 652
++ + C G +C+ +CP + K C C D C++ CP
Sbjct: 37 LVDQKTCRGWRMCVSACPYKKPYFNWETG--KAEK-CDMCYDRVEAGLPPACVETCPTGA 93
Query: 653 ISMIEV 658
+
Sbjct: 94 RYFGDR 99
Score = 29.1 bits (66), Expect = 2.0
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 9/45 (20%)
Query: 614 CIQSCPVDAII-----GAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
C+ SCP AI G + K C G +C+ CP
Sbjct: 18 CVASCPSGAIYKDEETGIV----LVDQKTCRGWRMCVSACPYKKP 58
>gnl|CDD|233229 TIGR00999, 8a0102, Membrane Fusion Protein cluster 2 (function with
RND porters). [Transport and binding proteins, Other].
Length = 265
Score = 31.3 bits (71), Expect = 1.8
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 670 QKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKN 729
QK+ + ARK Y R+K+LF + + + A ++ E Q + ++ +E K+
Sbjct: 29 QKRVELARKTYE-REKKLFEQGVIPRQEFESAEYALEEAQAEVQ--AAKSELRSAREAKD 85
>gnl|CDD|234837 PRK00783, PRK00783, DNA-directed RNA polymerase subunit D;
Provisional.
Length = 263
Score = 31.0 bits (71), Expect = 1.8
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 602 IIKENKCIGCTLCIQSCPVDAI-IGAAKHMHT-IFSKLCTGCDLCIKKCPVNCISMIEV 658
I C C C+++CP + + K + T + + C+ C LC + CP I + +
Sbjct: 165 IEVSEDCDECEKCVEACPRGVLELKEGKLVVTDLLN--CSLCKLCERACPGKAIRVSDD 221
>gnl|CDD|222081 pfam13370, Fer4_13, 4Fe-4S single cluster domain.
Length = 58
Score = 28.0 bits (63), Expect = 2.1
Identities = 12/55 (21%), Positives = 18/55 (32%), Gaps = 5/55 (9%)
Query: 605 ENKCIGCTLCIQSCP-----VDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 654
+ CIGC LC + P D + + + + CPV I
Sbjct: 3 RDTCIGCGLCREIAPDVFAYDDDGGASVVLDQPVPEEEEAAALEALDSCPVAAIG 57
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 31.2 bits (71), Expect = 2.2
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 3/57 (5%)
Query: 667 AWSQKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKR 723
+ DDA +R+ +K L + K A L A + + N E + +E A +
Sbjct: 509 DIQEGNPDDAIQRF---EKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAEL 562
>gnl|CDD|235390 PRK05289, PRK05289, UDP-N-acetylglucosamine acyltransferase;
Provisional.
Length = 262
Score = 30.8 bits (71), Expect = 2.2
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 293 LIGMRRRGYTPESIK 307
L+G++RRG++ E I
Sbjct: 196 LVGLKRRGFSREEIH 210
>gnl|CDD|131958 TIGR02912, sulfite_red_C, sulfite reductase, subunit C. Members of
this protein family include the C subunit, one of three
subunits, of the anaerobic sulfite reductase of
Salmonella, and close homologs from various Clostridum
species, where the three-gene neighborhood is preserved.
Two such gene clusters are found in Clostridium
perfringens, but it may be that these sets of genes
correspond to the distinct assimilatory and
dissimilatory forms as seen in Clostridium pasteurianum.
Note that any one of these enzymes may have secondary
substates such as NH2OH, SeO3(2-), and SO3(2-).
Heterologous expression of the anaerobic sulfite
reductase of Salmonella confers on Escherichia coli the
ability to produce hydrogen sulfide gas from sulfite
[Central intermediary metabolism, Sulfur metabolism].
Length = 314
Score = 30.6 bits (69), Expect = 2.7
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 607 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSK--LCTGCDLCIKKCP 649
+CIGC C++ C A+ + + + C GC C+ KCP
Sbjct: 170 RCIGCGACVKVCKKKAVGALSFENYKVVRDHSKCIGCGECVLKCP 214
Score = 29.4 bits (66), Expect = 6.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 601 AIIKENKCIGCTLCIQSCPVDA 622
+ +KCIGC C+ CP A
Sbjct: 196 VVRDHSKCIGCGECVLKCPTGA 217
>gnl|CDD|181779 PRK09326, PRK09326, F420H2 dehydrogenase subunit F; Provisional.
Length = 341
Score = 30.6 bits (69), Expect = 2.9
Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 11/60 (18%)
Query: 602 IIKENKCIGCTLCIQSCPVDAIIGAAK-----------HMHTIFSKLCTGCDLCIKKCPV 650
+I+ + C C C CP+ AI K + +C GC C + CPV
Sbjct: 8 VIEYDVCTACGACEAVCPIGAITVDKKAEIRDPNDLELYEKGAAPNVCEGCLTCSRICPV 67
>gnl|CDD|223965 COG1034, NuoG, NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75
kD subunit (chain G) [Energy production and conversion].
Length = 693
Score = 30.8 bits (70), Expect = 2.9
Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 10/55 (18%)
Query: 606 NKCIGCTLCIQSC------PVDAIIGAAKHMH--TIFSKLCTG--CDLCIKKCPV 650
N+CI CT C++ C +I ++ T + C C+ CPV
Sbjct: 144 NRCILCTRCVRFCKEIAGTHELGVIKRGENSEIGTYLDQPLESELCGNCVDVCPV 198
>gnl|CDD|185675 cd00671, ArgRS_core, catalytic core domain of arginyl-tRNA
synthetases. Arginyl tRNA synthetase (ArgRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. There
are at least three subgroups of ArgRS. One type contains
both characteristic class I HIGH and KMSKS motifs, which
are involved in ATP binding. The second subtype lacks
the KMSKS motif; however, it has a lysine N-terminal to
the HIGH motif, which serves as the functional
counterpart to the second lysine of the KMSKS motif. A
third group, which is found primarily in archaea and a
few bacteria, lacks both the KMSKS motif and the HIGH
loop lysine.
Length = 212
Score = 30.2 bits (69), Expect = 3.0
Identities = 25/117 (21%), Positives = 39/117 (33%), Gaps = 35/117 (29%)
Query: 25 PEPNGYLHIGHAKSIFINFELAYKYNG--LCN-LRFDDTNPLKENKEYVN--------SI 73
P G LH+GH ++ I G L L F + +E Y+N I
Sbjct: 9 ANPTGPLHVGHLRNAII---------GDSLARILEFLGYDVTREY--YINDWGRQIGLLI 57
Query: 74 IKTIKWLNFNWDKVKK-------------RIYYASDYFDILYKIAEYLIISGDAYVD 117
+ KW + +K + S Y ++ K+ E L G Y +
Sbjct: 58 LSLEKWRKLVEESIKADLETYGRLDVRFDVWFGESSYLGLMGKVVELLEELGLLYEE 114
>gnl|CDD|132908 cd07030, RNAP_D, D subunit of Archaeal RNA polymerase. The D
subunit of archaeal RNA polymerase (RNAP) is involved in
the assembly of RNAP subunits. RNAP is a large
multi-subunit complex responsible for the synthesis of
RNA. It is the principal enzyme of the transcription
process, and is a final target in many regulatory
pathways that control gene expression in all living
cells. A single distinct RNAP complex is found in
archaea, which may be responsible for the synthesis of
all RNAs. The archaeal RNAP harbors homologues of all
eukaryotic RNAP II subunits with two exceptions (RPB8
and RPB9). The 12 archaeal subunits are designated by
letters and can be divided into three functional groups
that are engaged in: (I) catalysis (A'/A", B'/B" or B);
(II) assembly (L, N, D and P); and (III) auxiliary
functions (F, E, H and K). The D subunit is equivalent
to the RPB3 subunit of eukaryotic RNAP II. It contains
two subdomains: one subdomain is similar the eukaryotic
Rpb11/AC19/archaeal L subunit which is involved in
dimerization, and the other is an inserted beta sheet
subdomain. The assembly of the two largest archaeal RNAP
subunits that provide most of the enzyme's catalytic
functions depends on the presence of the archaeal D/L
heterodimer.
Length = 259
Score = 30.3 bits (69), Expect = 3.0
Identities = 12/52 (23%), Positives = 20/52 (38%)
Query: 607 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEV 658
C GC C++ CP + + + C+ C LC + C I +
Sbjct: 170 DCDGCGKCVEECPRGVLELEEGKVVVEDLEDCSLCKLCERACDAGAIRVGWD 221
>gnl|CDD|192017 pfam08372, PRT_C, Plant phosphoribosyltransferase C-terminal. This
domain is found at the C-terminus of
phosphoribosyltransferases and
phosphoribosyltransferase-like proteins. It contains
putative transmembrane regions. It often appears
together with calcium-ion dependent C2 domains
(pfam00168).
Length = 156
Score = 29.5 bits (67), Expect = 3.6
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 136 RNSPFYNRLPSESLNLFRRMRS 157
R+ F +R+PS LN FRR+ S
Sbjct: 129 RHPRFRSRMPSVPLNFFRRLPS 150
>gnl|CDD|100042 cd03351, LbH_UDP-GlcNAc_AT, UDP-N-acetylglucosamine
O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins
in this family catalyze the transfer of
(R)-3-hydroxymyristic acid from its acyl carrier protein
thioester to UDP-GlcNAc. It is the first enzyme in the
lipid A biosynthetic pathway and is also referred to as
LpxA. Lipid A is essential for the growth of Escherichia
coli and related bacteria. It is also essential for
maintaining the integrity of the outer membrane.
UDP-GlcNAc acyltransferase is a homotrimer of
left-handed parallel beta helix (LbH) subunits. Each
subunit contains an N-terminal LbH region with 9 turns,
each containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X),
and a C-terminal alpha-helical region.
Length = 254
Score = 30.1 bits (69), Expect = 3.7
Identities = 7/15 (46%), Positives = 13/15 (86%)
Query: 293 LIGMRRRGYTPESIK 307
L+G++RRG++ E I+
Sbjct: 193 LVGLKRRGFSREEIR 207
>gnl|CDD|237731 PRK14494, PRK14494, putative molybdopterin-guanine dinucleotide
biosynthesis protein MobB/FeS domain-containing protein
protein; Provisional.
Length = 229
Score = 29.9 bits (68), Expect = 3.8
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 541 CTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLN 589
C CG+ C+ +A+AI +A ++ C + G +KL ++ IIPLN
Sbjct: 153 CGHCGF-NCKGFAKAIVKGEAKWDDCVS--LSGRVKLI--VDGKIIPLN 196
>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional.
Length = 390
Score = 30.1 bits (68), Expect = 4.1
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 12/58 (20%)
Query: 668 WSQKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIK 725
W+ +D+ R+R+Y K + KK+ + K K + E +KRIK
Sbjct: 106 WAHHLSDEFRRRFY---KNWYKSKKKAFTK------YKKFAATKKA---EERTLKRIK 151
>gnl|CDD|234122 TIGR03149, cyt_nit_nrfC, cytochrome c nitrite reductase, Fe-S
protein. Members of this protein family are the Fe-S
protein, NrfC, of a cytochrome c nitrite reductase
system for which the pentaheme cytochrome c protein,
NrfB (family TIGR03146) is an unambiguous marker.
Members of this protein family show similarity to other
ferredoxin-like proteins, including a subunit of a
polysulfide reductase [Energy metabolism, Electron
transport].
Length = 225
Score = 29.8 bits (67), Expect = 4.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 605 ENKCIGCTLCIQSC 618
E CIGCT C+ +C
Sbjct: 45 ETACIGCTACMDAC 58
>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA
synthetases. Leucyl tRNA synthetase (LeuRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. In Aquifex
aeolicus, the gene encoding LeuRS is split in two, just
before the KMSKS motif. Consequently, LeuRS is a
heterodimer, which likely superimposes with the LeuRS
monomer found in most other organisms. LeuRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements and thus differs between
prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This
editing region hydrolyzes mischarged cognate tRNAs and
thus prevents the incorporation of chemically similar
amino acids.
Length = 314
Score = 29.9 bits (68), Expect = 4.9
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 18/79 (22%)
Query: 25 PEPNGYLHIGHAKS-----IFINFELAYKYNGLCNLRFD-------------DTNPLKEN 66
P P+G LH+GH ++ I ++ YN L + FD +P
Sbjct: 9 PYPSGALHVGHVRTYTIGDIIARYKRMQGYNVLFPMGFDAFGLPAENAAIKIGRDPEDWT 68
Query: 67 KEYVNSIIKTIKWLNFNWD 85
+ + + + +K + F++D
Sbjct: 69 EYNIKKMKEQLKRMGFSYD 87
>gnl|CDD|188518 TIGR04003, rSAM_BssD, [benzylsuccinate synthase]-activating enzyme.
Members of this radical SAM protein family are
[benzylsuccinate synthase]-activating enzyme, a glycyl
radical active site-creating enzyme related to [pyruvate
formate-lyase]-activating enzyme and additional
uncharacterized homologs activating additional glycyl
radical-containing enzymes [Protein fate, Protein
modification and repair].
Length = 314
Score = 29.8 bits (67), Expect = 5.2
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 10/55 (18%)
Query: 605 ENKCIGCTLCIQSCPVDAIIGAAKHMH-----TIFSKLCTGCDLCIKKCPVNCIS 654
N+C+GC C+ CP G ++ + TI T C C+ +C C++
Sbjct: 49 PNRCVGCGRCVAVCPA----GTSRLVDNSDGRTIVVVDRTKCQRCM-RCVAACLT 98
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 29.9 bits (68), Expect = 5.6
Identities = 11/62 (17%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 675 DARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKNKENKK 734
+ ++ ++ L E +E K+KK + K R ++++ E K K +++
Sbjct: 331 ELKEELKELEEEL-KELEEELEKIKKLLKKLPKKARGQLPPEKREQLEKLLETKEKLSEE 389
Query: 735 IK 736
++
Sbjct: 390 LE 391
>gnl|CDD|181301 PRK08222, PRK08222, hydrogenase 4 subunit H; Validated.
Length = 181
Score = 29.0 bits (65), Expect = 5.7
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 607 KCIGCTLCIQSCPVDA------IIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 653
+CI C C +CP +A ++ ++ C C C + CP I
Sbjct: 39 QCIACGACTCACPANALTIQTDDQQNSRTWQ-LYLGRCIYCGRCEEVCPTRAI 90
>gnl|CDD|238248 cd00435, ACBP, Acyl CoA binding protein (ACBP) binds thiol esters
of long fatty acids and coenzyme A in a one-to-one
binding mode with high specificity and affinity.
Acyl-CoAs are important intermediates in fatty lipid
synthesis and fatty acid degradation and play a role in
regulation of intermediary metabolism and gene
regulation. The suggested role of ACBP is to act as a
intracellular acyl-CoA transporter and pool former.
ACBPs are present in a large group of eukaryotic species
and several tissue-specific isoforms have been detected.
Length = 85
Score = 27.7 bits (62), Expect = 5.9
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 3/22 (13%)
Query: 662 RTGWDAWSQKKA---DDARKRY 680
R WDAW+ K +DA K Y
Sbjct: 52 RAKWDAWNSLKGMSKEDAMKAY 73
>gnl|CDD|183492 PRK12387, PRK12387, formate hydrogenlyase complex iron-sulfur
subunit; Provisional.
Length = 180
Score = 28.8 bits (65), Expect = 6.2
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 608 CIGCTLCIQSCPVDAI 623
CIGC C+ +CP +A+
Sbjct: 40 CIGCAACVNACPSNAL 55
>gnl|CDD|232981 TIGR00456, argS, arginyl-tRNA synthetase. This model recognizes
arginyl-tRNA synthetase in every completed genome to
date. An interesting feature of the alignment of all
arginyl-tRNA synthetases is a fairly deep split between
two families. One family includes archaeal, eukaryotic
and organellar, spirochete, E. coli, and Synechocystis
sp. The second, sharing a deletion of about 25 residues
in the central region relative to the first, includes
Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and
Mycobacteria, and the Gram-negative bacterium
Helicobacter pylori [Protein synthesis, tRNA
aminoacylation].
Length = 566
Score = 29.6 bits (67), Expect = 7.2
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 10 DKYGNKLP---QVITRF-APEPNGYLHIGHAKSIFI 41
+ YG+K ++I F + P G LHIGH ++ I
Sbjct: 102 EDYGSKKLKNKKIIIEFSSANPAGPLHIGHLRNAII 137
>gnl|CDD|153245 cd07983, LPLAT_DUF374-like, Lysophospholipid Acyltransferases
(LPLATs) of Glycerophospholipid Biosynthesis: DUF374.
Lysophospholipid acyltransferase (LPLAT) superfamily
member: acyltransferases of de novo and remodeling
pathways of glycerophospholipid biosynthesis which
catalyze the incorporation of an acyl group from either
acylCoAs or acyl-acyl carrier proteins (acylACPs) into
acceptors such as glycerol 3-phosphate, dihydroxyacetone
phosphate or lyso-phosphatidic acid. Included in this
subgroup are the uncharacterized DUF374
phospholipid/glycerol acyltransferases and similar
proteins.
Length = 189
Score = 28.7 bits (65), Expect = 8.5
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 567 PTGGR----KGIIKLAKYLNKPIIPLNTIY 592
P G R G+I LA+ PI+P+
Sbjct: 107 PRGPRYKVKPGVILLARKSGAPIVPVAIAA 136
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
0.322 0.139 0.431
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 38,035,752
Number of extensions: 3782403
Number of successful extensions: 4511
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4257
Number of HSP's successfully gapped: 273
Length of query: 736
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 632
Effective length of database: 6,324,786
Effective search space: 3997264752
Effective search space used: 3997264752
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (28.0 bits)