RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9414
(582 letters)
>gnl|CDD|235424 PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional.
Length = 554
Score = 633 bits (1636), Expect = 0.0
Identities = 204/379 (53%), Positives = 266/379 (70%), Gaps = 19/379 (5%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
MR+GEF +G+ VLR KI+M S NINMRDP++YRIRH +H+RT + WCIYPMYD+AH ISD
Sbjct: 163 MRAGEFPEGSAVLRAKIDMASPNINMRDPVLYRIRHAHHHRTGDKWCIYPMYDFAHCISD 222
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
AIE ITHS+CTLEF+DHRP Y+W+L+ + P P+QYEFSRLNLT+T+ SKRKL
Sbjct: 223 AIEGITHSLCTLEFEDHRPLYDWVLDNL-----PIPPHPRQYEFSRLNLTYTVMSKRKLK 277
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDD 180
+L+E+K VDGWDDPRMPT+ G+RRRGYTPESI+ FC+RIGV+K DS I++ +LE +R+D
Sbjct: 278 QLVEEKHVDGWDDPRMPTISGLRRRGYTPESIREFCERIGVTKQDSVIDMSMLESCIRED 337
Query: 181 LDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEK-LRYFPISKILWIER 239
L+ APR MAVL+P+KL+I+N+ + Q E AP H + E R P S+ L+IER
Sbjct: 338 LNENAPRAMAVLDPLKLVITNYPEGQVEELEAP----NHPEDPEMGTREVPFSRELYIER 393
Query: 240 DDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKNNEVVEVYCKYFPDSKS 299
+DFME P KKYFRL P G VRLR YV++C K+ + + E++C Y PD+ S
Sbjct: 394 EDFMEEPPKKYFRLVP------GKEVRLRNAYVIKCEEVVKDADGNITEIHCTYDPDTLS 447
Query: 300 GTKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKDFKLLINPNSKKVIS 359
G + KVKG IHW+S +HA+ E RLYDRLF P P KDF +NP+S +
Sbjct: 448 G-NPADGRKVKGTIHWVSAAHAVPAEVRLYDRLFTVPNPA--AGKDFLDFLNPDSLVIKQ 504
Query: 360 AYLEPNLKLIFPKKHAQFE 378
++EP+L P+ QFE
Sbjct: 505 GFVEPSLADAKPEDRFQFE 523
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 468 bits (1206), Expect = e-157
Identities = 182/380 (47%), Positives = 248/380 (65%), Gaps = 15/380 (3%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
MR+GEF DGAHVLR KI+M S N+ +RDP++YRIRH +HYRT + WCIYPMYD+AHP+ D
Sbjct: 165 MRAGEFPDGAHVLRAKIDMSSPNMKLRDPLLYRIRHAHHYRTGDEWCIYPMYDFAHPLED 224
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
AIE +THSICTLEF+++R Y+W+L+ + P P+QYEF+RL L +T+ SKRKL
Sbjct: 225 AIEGVTHSICTLEFENNRAIYDWVLDHLGP----WPPRPRQYEFARLALGYTVMSKRKLR 280
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDD 180
+L+E+ V GWDDPRMPT+ G RRRG TPE+I+ F +IGV+K++S ++I +LE A+RDD
Sbjct: 281 ELVEEGYVSGWDDPRMPTIAGQRRRGVTPEAIRDFADQIGVAKTNSTVDIGVLEFAIRDD 340
Query: 181 LDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEKLRYFPISKILWIERD 240
L+ +APR+MAVL+P+K++I N + E P + H KE R P ++ L+IERD
Sbjct: 341 LNRRAPRVMAVLDPLKVVIENLPAGKVEELDLPYWP--HDVPKEGSRKVPFTRELYIERD 398
Query: 241 DFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKNNEVVEVYCKYFPDSKSG 300
DF E P K + RL P G VRLR Y++ C ++ + V E+ C Y P+S G
Sbjct: 399 DFSEDPPKGFKRLTP------GREVRLRGAYIIRCDEVVRDADGAVTELRCTYDPESAKG 452
Query: 301 TKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKDFKLLINPNSKKVISA 360
K G IHW+S HAL E RLYDRLF P P ++DF +NP+S +V
Sbjct: 453 EDTGR--KAAGVIHWVSAKHALPAEVRLYDRLFKVPQPEAA-DEDFLEFLNPDSLRVAQG 509
Query: 361 YLEPNLKLIFPKKHAQFEQN 380
+EP ++ QFE+
Sbjct: 510 RVEPAVRDDPADTRYQFERQ 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 = 366 bits (940), Expect = e-120
Identities = 173/380 (45%), Positives = 230/380 (60%), Gaps = 20/380 (5%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
MR G+FK+G +LR KI+M S MRDP+ YRI+ H++T WCIYPMYD+ H ISD
Sbjct: 134 MRDGKFKEGKAILRAKIDMASPFPVMRDPVAYRIKFAPHHQTGTKWCIYPMYDFTHCISD 193
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
A+ENITHS+CTLEFQD+R Y+W+L+ I I P QYEFSRLNL T+ SKRKL
Sbjct: 194 AMENITHSLCTLEFQDNRRLYDWVLDNIH----IFP-RPAQYEFSRLNLEGTVLSKRKLA 248
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDD 180
+L++ K V GWDDPRMPT+ G+RRRGYTP SI+ FC RIGV+K D+ I + LE +R+D
Sbjct: 249 QLVDDKFVRGWDDPRMPTISGLRRRGYTPASIREFCNRIGVTKQDNNIEVVRLESCIRED 308
Query: 181 LDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKE-KLRYFPISKILWIER 239
L+ APR MAV++P++++I N D E+ T P H E R P + +I+R
Sbjct: 309 LNENAPRAMAVIDPVEVVIENLSDEYEL-ATIP----NHPNTPEFGERQVPFTNEFYIDR 363
Query: 240 DDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKNNEVVEVYCKYFPDSKS 299
DF E K+Y RL G VRLR YV++ +K+ ++ ++C Y +
Sbjct: 364 ADFREEANKQYKRLVL------GKEVRLRNAYVIKAERVEKDAAGKITTIFCTYDNKTL- 416
Query: 300 GTKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKDFKLLINPNSKKVIS 359
G + + KVKG IHW+S S E RLYDRLF P P DF +INP S +
Sbjct: 417 GKEPADGRKVKGVIHWVSASSKYPTETRLYDRLFKVPNPG--APDDFLSVINPESLVIKQ 474
Query: 360 AYLEPNLKLIFPKKHAQFEQ 379
++E +L K QFE+
Sbjct: 475 GFMEHSLGDAVANKRFQFER 494
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 319 bits (819), Expect = 1e-99
Identities = 156/388 (40%), Positives = 227/388 (58%), Gaps = 33/388 (8%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
MR G ++G LR+K +M++ N NM D I YRI+ H + WCIYP YDYAH I D
Sbjct: 393 MRRGLIEEGKATLRMKQDMQNDNFNMYDLIAYRIKFTPHPHAGDKWCIYPSYDYAHCIVD 452
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
++ENITHS+CTLEF+ R Y W+L+ + P +E+SRLN+T+T+ SKRKL
Sbjct: 453 SLENITHSLCTLEFETRRASYYWLLDSLGLY------QPYVWEYSRLNVTNTVMSKRKLN 506
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSD-SWINIEILEQALRD 179
+L+ +K VDGWDDPR+ TL G+RRRG TP +I FC+ IG+++SD S I ++ LE +R+
Sbjct: 507 RLVTEKYVDGWDDPRLLTLAGLRRRGVTPTAINAFCRGIGITRSDNSLIRMDRLEHHIRE 566
Query: 180 DLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEKLRYFPISKILWIER 239
+L+ APR M VL+P+K++I+N + IE A + P S++++IER
Sbjct: 567 ELNKTAPRTMVVLHPLKVVITNLESGEVIELDAKRWPDAQNDDPSAFYKVPFSRVVYIER 626
Query: 240 DDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGF-KKNKNNEVVEVYCKYFPDSK 298
DF +K Y+ L P G V LRY + ++CT + N VVE+ +Y P+ K
Sbjct: 627 SDFRLKDSKDYYGLAP------GKSVLLRYAFPIKCTDVVLADDNETVVEIRAEYDPEKK 680
Query: 299 SGTKLSSNYKVKGNIHWISKS----HALSIEARLYDRLFIDPYPNIVNN--KDFKLLINP 352
+ K KG +HW+++ L +E RL+D+LF+ P + + +D NP
Sbjct: 681 T--------KPKGVLHWVAEPSPGVEPLKVEVRLFDKLFLSENPAELEDWLEDL----NP 728
Query: 353 NSKKVIS-AYLEPNLKLIFPKKHAQFEQ 379
SK+VIS AY P+LK QFE+
Sbjct: 729 QSKEVISGAYAVPSLKDAKVGDRFQFER 756
>gnl|CDD|235903 PRK06991, PRK06991, ferredoxin; Provisional.
Length = 270
Score = 276 bits (707), Expect = 4e-89
Identities = 100/166 (60%), Positives = 124/166 (74%)
Query: 379 QNLLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLNTIY 438
++LLPQTQCTKCGY GCR YAEAIA +ANYN+CP GG +GI +LA L KP+IPL+
Sbjct: 12 EDLLPQTQCTKCGYDGCRPYAEAIAAGEANYNRCPPGGAEGIARLAALLGKPVIPLDPAN 71
Query: 439 GNEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNC 498
G E+ R A+I E CIGCTLC+Q+CPVDAI+GA K MHT+ + LCTGCDLC+ CPV+C
Sbjct: 72 GVERPRAVAVIDEQLCIGCTLCMQACPVDAIVGAPKQMHTVLADLCTGCDLCVPPCPVDC 131
Query: 499 ISMIEVTPCRTGWDAWSQKKADDARKRYYLRKKRLFHEKKENYAKL 544
I M+ VT RTGWDAWSQ +AD AR R+ R+ RL E++ A+
Sbjct: 132 IDMVPVTGERTGWDAWSQAQADAARARHDARQARLRREREAAEARA 177
>gnl|CDD|240418 PTZ00437, PTZ00437, glutaminyl-tRNA synthetase; Provisional.
Length = 574
Score = 260 bits (666), Expect = 2e-79
Identities = 137/369 (37%), Positives = 210/369 (56%), Gaps = 29/369 (7%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
MR G + +G LRVK +MKS N NMRD I YR+++V H + WCIYP YD+ H + D
Sbjct: 180 MRQGRYAEGEATLRVKADMKSDNPNMRDFIAYRVKYVEHPHAKDKWCIYPSYDFTHCLID 239
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
++E+I +S+CTLEF+ R Y W+L +++ + RP +EFSRLN+T ++ SKRK+
Sbjct: 240 SLEDIDYSLCTLEFETRRESYFWLLEELN----LWRPH--VWEFSRLNVTGSLLSKRKIN 293
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDD 180
L+ K IV G+DDPR+ TL GMRRRGYTP +I FC+ +G+++S + I I +LE LR+D
Sbjct: 294 VLVRKGIVRGFDDPRLLTLAGMRRRGYTPAAINRFCELVGITRSMNVIQISMLENTLRED 353
Query: 181 LDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEKLRYFPISKILWIERD 240
LD + R + V++PIK+++ N+ +E EC P R+ K+ + + +++R
Sbjct: 354 LDERCERRLMVIDPIKVVVDNWKGEREFEC--PNHPRKPELGSRKVMF---TDTFYVDRS 408
Query: 241 DF-MEIPTKKYFRLYPPIGKNSGNR-VRLRYGYVVECTGFKKNKNNEVVEVYCKYFPDSK 298
DF E K++ L P G R V L+Y V C GF+ + + ++ + K
Sbjct: 409 DFRTEDNNSKFYGLAP------GPRVVGLKYSGNVVCKGFEVDAAGQPSVIHVDIDFERK 462
Query: 299 SGTKLSSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKDFKLLINPNSKKVI 358
K K NI W+S + +E RLY+ L D I + +F I+ +S+ V
Sbjct: 463 D--------KPKTNISWVSATACTPVEVRLYNALLKDDRAAI--DPEFLKFIDEDSEVVS 512
Query: 359 SAYLEPNLK 367
Y E ++
Sbjct: 513 HGYAEKGIE 521
>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 = 244 bits (626), Expect = 1e-77
Identities = 86/149 (57%), Positives = 111/149 (74%), Gaps = 6/149 (4%)
Query: 39 HYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF 98
H+RT + WCIYP YD+AHPI D+IE ITHS+CTLEF+D RP Y W+ + +
Sbjct: 96 HHRTGDKWCIYPTYDFAHPIVDSIEGITHSLCTLEFEDRRPSYYWLCDALRL------YR 149
Query: 99 PKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKR 158
P Q+EFSRLNLT+T+ SKRKLL+L+++ VDGWDDPR+PTL G+RRRG TPE+I+ F R
Sbjct: 150 PHQWEFSRLNLTYTVMSKRKLLQLVDEGYVDGWDDPRLPTLRGLRRRGVTPEAIRQFILR 209
Query: 159 IGVSKSDSWINIEILEQALRDDLDIKAPR 187
GVSK+DS I+ + LE +R DL+ APR
Sbjct: 210 QGVSKADSTIDWDKLEACVRKDLNPTAPR 238
>gnl|CDD|235347 PRK05113, PRK05113, electron transport complex protein RnfB;
Provisional.
Length = 191
Score = 199 bits (508), Expect = 9e-61
Identities = 72/135 (53%), Positives = 87/135 (64%), Gaps = 3/135 (2%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLNTIYGN 440
+LPQ+QC +CGYPGCR YAEAIAN N+CP GG ++KLA+ L PL+
Sbjct: 43 ILPQSQCGQCGYPGCRPYAEAIANG-EKINKCPPGGEATMLKLAELLGVEPQPLDGEAQE 101
Query: 441 EK-SRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
+R A I E+ CIGCT CIQ+CPVDAI+GA K MHT+ S LCTGCDLC+ CP +CI
Sbjct: 102 ATPARKVAFIDEDNCIGCTKCIQACPVDAIVGATKAMHTVISDLCTGCDLCVAPCPTDCI 161
Query: 500 SMIEVTPCRTGWDAW 514
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 = 191 bits (486), Expect = 1e-57
Identities = 81/156 (51%), Positives = 98/156 (62%), Gaps = 4/156 (2%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNK-PIIPLNTIYG 439
LLPQTQC +CGYPGCR YAEAIA A N+C GG I K+A+ L P + +G
Sbjct: 43 LLPQTQCGQCGYPGCRPYAEAIAEGGAKINRCAPGGEAVIRKIAELLGVEPPPADGSEHG 102
Query: 440 NEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
E++R A+I E CIGCT CIQ+CPVDAI+GA K MHT+ + LCTGCDLC+ CP +CI
Sbjct: 103 EEQARMVALIDEANCIGCTKCIQACPVDAIVGATKAMHTVIADLCTGCDLCVAPCPTDCI 162
Query: 500 SMIEV--TPCRTGWDAWS-QKKADDARKRYYLRKKR 532
M V TP R WD + A AR+R R R
Sbjct: 163 EMQPVAETPDRWKWDLDTIPVIAIPARERAAKRNAR 198
>gnl|CDD|223087 COG0008, GlnS, Glutamyl- and glutaminyl-tRNA synthetases
[Translation, ribosomal structure and biogenesis].
Length = 472
Score = 194 bits (496), Expect = 1e-55
Identities = 67/251 (26%), Positives = 103/251 (41%), Gaps = 15/251 (5%)
Query: 7 KDGAHVLRVKINMKSKNINMRDPIIYRIRHVN-HYR-TNNNWCIYPMYDYAHPISDAIEN 64
+ G V+R+KI M RD + RI H + YP Y++A + D +
Sbjct: 147 EGGPAVVRLKIPMAHPGPVFRDLVRGRIVFAPKHPDFVILRYDGYPTYNFAVVVDDHLMG 206
Query: 65 ITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNL-THTITSKRKLLKLL 123
ITH + + D+ P W+ + P P L SKRK +
Sbjct: 207 ITHVLRGEDHLDNTPRQIWLYEALG------WPPPVYAHLPLLLNEDGKKLSKRKGAVSI 260
Query: 124 EKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDDLDI 183
+ V+GW P +P L+ + RGY PE+I++F G+ D I + R LD
Sbjct: 261 GEYRVEGWLPPALPNLLALLGRGYPPEAIEIFSLEEGIKWFDLTIVSKSPAAFDRKKLDW 320
Query: 184 KAPRIMAVLNPIKLIISNFLDN-QEIECTAPLFSRQHTQYKEKLRYFPISKILWIERDDF 242
PR M V P++++I N + +E T PL + + ++ IER DF
Sbjct: 321 LNPRYMRVD-PVEVVIENLKPHLEEEGATLPL---NPEMGERVVPLTK-ETLIEIERLDF 375
Query: 243 MEIPTKKYFRL 253
K+ RL
Sbjct: 376 FFFEDKEEVRL 386
>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 = 183 bits (466), Expect = 4e-55
Identities = 71/126 (56%), Positives = 87/126 (69%), Gaps = 3/126 (2%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLN--KPIIPLNTIY 438
LLPQTQC +CGYPGCR YAEAIA +A N+CP GG I+ LA+ L PL+
Sbjct: 41 LLPQTQCGQCGYPGCRPYAEAIAEGEA-INKCPPGGEAVILALAELLGVEPIPQPLDADA 99
Query: 439 GNEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNC 498
G + A+I E+ CIGCT CIQ+CPVDAI+GAAK MHT+ + CTGCDLC++ CP +C
Sbjct: 100 GTIQPPMVALIDEDNCIGCTKCIQACPVDAIVGAAKAMHTVIADECTGCDLCVEPCPTDC 159
Query: 499 ISMIEV 504
I MI V
Sbjct: 160 IEMIPV 165
>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 = 184 bits (470), Expect = 1e-53
Identities = 68/170 (40%), Positives = 84/170 (49%), Gaps = 9/170 (5%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIR---HVNHYRTNNNWCIYPMYDYAHP 57
MR GE + G LR KI M+S MRD + RI+ H RT W YP YD+A
Sbjct: 134 MRKGEAEGGKATLRFKIPMES-PYVMRDLVRGRIKFEPSALHDRTGLKWDGYPTYDFAVV 192
Query: 58 ISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKR 117
I DAI ITH + E D+ P WI + + P P +E+ RLNL T SKR
Sbjct: 193 IDDAIMGITHVLRGEEHLDNTPKQIWIYQALG----WEVP-PFIHEYLRLNLDGTKLSKR 247
Query: 118 KLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSW 167
KL + V GW DP L +RRRG+TPE I+ F R + KS
Sbjct: 248 KLSLSVFISQVKGWGDPPEALLNFLRRRGWTPEGIREFFTREELIKSFDL 297
>gnl|CDD|181550 PRK08764, PRK08764, ferredoxin; Provisional.
Length = 135
Score = 164 bits (417), Expect = 2e-48
Identities = 65/121 (53%), Positives = 82/121 (67%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLNTIYGN 440
LLPQTQC +CG+ GCR YA+A+A +A ++CP GG G LA+ L P P + G
Sbjct: 14 LLPQTQCGQCGFDGCRPYAQAMARGEATIDRCPPGGDAGARALAQVLGVPARPYDRSRGT 73
Query: 441 EKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 500
K A I E CIGCT CIQ+CPVDAI+G AKHMHT+ + LCTGC+LC+ CPV+CI
Sbjct: 74 HKLPQVAWIVEADCIGCTKCIQACPVDAIVGGAKHMHTVIAPLCTGCELCVPACPVDCIE 133
Query: 501 M 501
+
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 = 165 bits (420), Expect = 3e-48
Identities = 74/196 (37%), Positives = 101/196 (51%), Gaps = 32/196 (16%)
Query: 185 APRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEK-LRYFPISKILWIERDDFM 243
APR MAVL+P+K++I N+ + +E E P H + E R P S+ ++IER+DF
Sbjct: 1 APRYMAVLDPVKVVIENYPEGEEEEAEVPN----HPKNPELGTRKVPFSREIYIEREDF- 55
Query: 244 EIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKNNEVVEVYCKYFPDSKSGTKL 303
RL P G VRL Y ++ T K+++ V E++C Y DS G
Sbjct: 56 -------KRLKP------GEEVRLMGAYNIKVTEVVKDEDGNVTELHCTYDGDSLGG--- 99
Query: 304 SSNYKVKGNIHWISKSHALSIEARLYDRLFIDPYPNIVNNKDFKLLINPNSKKVIS-AYL 362
KVKG IHW+S A+ E RLYDRLF D ++ DF L+NP+S KVI+
Sbjct: 100 --ARKVKGIIHWVSADDAVPAEVRLYDRLFKDE-----DDFDF--LLNPDSLKVITEGLA 150
Query: 363 EPNLKLIFPKKHAQFE 378
EP L + QFE
Sbjct: 151 EPALANLKVGDIVQFE 166
>gnl|CDD|235229 PRK04156, gltX, glutamyl-tRNA synthetase; Provisional.
Length = 567
Score = 160 bits (407), Expect = 2e-42
Identities = 88/330 (26%), Positives = 146/330 (44%), Gaps = 50/330 (15%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
M GE+K+G V+RVK +++ N ++RD + +RI H R + + ++P Y++A + D
Sbjct: 232 MLDGEYKEGEAVVRVKTDLEHPNPSVRDWVAFRIVKTPHPRVGDKYRVWPTYNFAVAVDD 291
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF----PKQYEFSRLNLTHTITSK 116
+ +TH L +DH I N K +I F P+ + RL + + S
Sbjct: 292 HLLGVTH---VLRGKDH------IDNTE-KQRYIYDYFGWEYPETIHYGRLKIEGFVLST 341
Query: 117 RKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQA 176
K+ K +E+ GWDDPR+PTL +RRRG PE+I+ +GV ++D+ I+ E L
Sbjct: 342 SKIRKGIEEGEYSGWDDPRLPTLRALRRRGILPEAIRELIIEVGVKETDATISWENLYAI 401
Query: 177 LRDDLDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEK-LRYFPISKIL 235
R +D A R V +P++L I + +E PL H E+ R P+ +
Sbjct: 402 NRKLIDPIANRYFFVRDPVELEIEGA---EPLEAKIPL----HPDRPERGEREIPVGGKV 454
Query: 236 WIERDDFMEIPTKKYFRLYPPIGKNSGNRVRLRYGYVVECTGFKKNKNNEVVEVYCKYFP 295
++ DD G VRL + VE T V +Y
Sbjct: 455 YVSSDDLEAE----------------GKMVRLMDLFNVEIT--------GVSVDKARYHS 490
Query: 296 DSKSGTKLSSNYKVKGNIHWISKSHALSIE 325
D + + + I W+ + ++ +
Sbjct: 491 DDLEEAR-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 = 151 bits (384), Expect = 1e-39
Identities = 67/245 (27%), Positives = 120/245 (48%), Gaps = 10/245 (4%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
M G+ + G+ V+RVK ++K KN +RD +I+RI H RT + + +YP D++ I D
Sbjct: 222 MLEGKEEGGSVVVRVKTDLKHKNPAIRDWVIFRIVKTPHPRTGDKYRVYPTMDFSVAIDD 281
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
+ +TH + + D+R E+I + + P + +++ +++
Sbjct: 282 HLLGVTHVLRGKDHIDNRRKQEYIY----RYFGWEPPEFIHWGRLKIDDVRALSTSSARK 337
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDD 180
+L + GWDDPR+PTL +RRRG PE+I+ F IGV +D ++ + + R
Sbjct: 338 GILRGEYS-GWDDPRLPTLRAIRRRGIRPEAIRKFMLSIGVKINDVTMSWKNIYALNRKI 396
Query: 181 LDIKAPRIMAVLNPIKLIISNFLDNQEIECTAPLFSRQHTQYKEKLRYFPISKILWIERD 240
+D +A R + NP+K+ I + + +E PL + L +++ +D
Sbjct: 397 IDEEARRYFFIWNPVKIEIVGLPEPKRVE--RPLHPDHPEIGERVLILR---GEIYVPKD 451
Query: 241 DFMEI 245
D E
Sbjct: 452 DLEEG 456
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 142 bits (361), Expect = 5e-36
Identities = 61/164 (37%), Positives = 93/164 (56%), Gaps = 15/164 (9%)
Query: 13 LRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISDAIENITHSICTL 72
+R K++M+ N ++RDP+ YR H+R + + +YP YD+A P DA+E +TH++ +
Sbjct: 354 VRGKLDMQDPNKSLRDPVYYRCNPTPHHRIGSKYKVYPTYDFACPFVDALEGVTHALRSS 413
Query: 73 EFQDHRPFYEWILNKIDKTNFIKRPFPKQ--YEFSRLNLTHTITSKRKLLKLLEKKIVDG 130
E+ D Y IL + K +EFSRLN +T+ SKRKL ++ V+G
Sbjct: 414 EYHDRNAQYYRILEDMG--------LRKVHIWEFSRLNFVYTLLSKRKLQWFVDNGKVEG 465
Query: 131 WDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILE 174
WDDPR PT+ G+ RRG E++K F G SK N+ ++E
Sbjct: 466 WDDPRFPTVQGIVRRGLKIEALKQFILSQGASK-----NLNLME 504
>gnl|CDD|240404 PTZ00402, PTZ00402, glutamyl-tRNA synthetase; Provisional.
Length = 601
Score = 137 bits (347), Expect = 2e-34
Identities = 70/200 (35%), Positives = 113/200 (56%), Gaps = 12/200 (6%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
M+ G + LR KI++ ++N MRDP+IYR+ H R + YP YD+ PI D
Sbjct: 182 MKKGSAEGQETCLRAKISVDNENKAMRDPVIYRVNLTPHARQGTKYKAYPTYDFCCPIID 241
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
++E +TH++ T E+ D Y W + + I++P + +FSRLN+ +++ SKRKL
Sbjct: 242 SVEGVTHALRTNEYHDRNDQYYWFCDALG----IRKPIVE--DFSRLNMEYSVMSKRKLT 295
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDS---WINIEILEQAL 177
+L++ +VDGWDDPR PT+ + RRG E+++ F + G+SK+ + W + +
Sbjct: 296 QLVDTHVVDGWDDPRFPTVRALVRRGLKMEALRQFVQEQGMSKTVNFMEWSKLWYFNTQI 355
Query: 178 RDDLDIKAPRIMAVLNPIKL 197
LD PR V N +K+
Sbjct: 356 ---LDPSVPRYTVVSNTLKV 372
>gnl|CDD|178772 PLN03233, PLN03233, putative glutamate-tRNA ligase; Provisional.
Length = 523
Score = 133 bits (336), Expect = 2e-33
Identities = 69/203 (33%), Positives = 114/203 (56%), Gaps = 8/203 (3%)
Query: 1 MRSGEFKDGAHVLRVKINMKSKNINMRDPIIYRIRHVNHYRTNNNWCIYPMYDYAHPISD 60
M SG+ + GA LR KI+M+S N +RDP+++R H+R+ + YP YD A PI D
Sbjct: 140 MCSGKEEGGAWCLRAKIDMQSDNGTLRDPVLFRQNTTPHHRSGTAYKAYPTYDLACPIVD 199
Query: 61 AIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLL 120
+IE +TH++ T E+ D + WI + ++R P+ + F+R+N +T+ SKRKL
Sbjct: 200 SIEGVTHALRTTEYDDRDAQFFWIQKALG----LRR--PRIHAFARMNFMNTVLSKRKLT 253
Query: 121 KLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDSWINIEILEQALRDD 180
++ V GWDD R PT+ G+ RRG +++K+F G S+ ++ + +
Sbjct: 254 WFVDNGHVTGWDDARFPTIRGISRRGIDIDALKMFMCSQGASRRVVNLDWAKFWAENKKE 313
Query: 181 LDIKAPRIMAV--LNPIKLIISN 201
+D +A R MA+ + L ++N
Sbjct: 314 IDKRAKRFMAIDKADHTALTVTN 336
>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 = 111 bits (278), Expect = 1e-27
Identities = 41/136 (30%), Positives = 60/136 (44%), Gaps = 23/136 (16%)
Query: 48 IYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRL 107
YP+Y++ HP+ DA+ ITH + + D+ P +W+ P P+ Y F RL
Sbjct: 93 GYPLYNFVHPVDDALMGITHVLRGEDHLDNTPIQDWLYE-----ALGWEP-PRFYHFPRL 146
Query: 108 NL-THTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKLFCKRIGVSKSDS 166
L T SKRKL TL +RRRGY PE+++ + IG SK D
Sbjct: 147 LLEDGTKLSKRKL----------------NTTLRALRRRGYLPEALRNYLALIGWSKPDG 190
Query: 167 WINIEILEQALRDDLD 182
+ 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 = 99.0 bits (247), Expect = 2e-23
Identities = 48/153 (31%), Positives = 79/153 (51%), Gaps = 14/153 (9%)
Query: 39 HYRTNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKIDKTNFIKRPF 98
H RT + + ++P ++A + D + +TH L +DH ++ +K +I F
Sbjct: 98 HPRTGSKYRVWPTLNFAVAVDDHLLGVTH---VLRGKDH-------IDNTEKQRYIYEYF 147
Query: 99 ----PKQYEFSRLNLTHTITSKRKLLKLLEKKIVDGWDDPRMPTLIGMRRRGYTPESIKL 154
P+ + RL + S K+ K +E +GWDDPR+PTL +RRRG PE+I+
Sbjct: 148 GWEYPETIHWGRLKIEGGKLSTSKIRKGIESGEYEGWDDPRLPTLRALRRRGIRPEAIRD 207
Query: 155 FCKRIGVSKSDSWINIEILEQALRDDLDIKAPR 187
F +GV ++D+ I+ E L R +D +A R
Sbjct: 208 FIIEVGVKQTDATISWENLYAINRKLIDPRANR 240
>gnl|CDD|235941 PRK07118, PRK07118, ferredoxin; Validated.
Length = 280
Score = 83.1 bits (206), Expect = 1e-17
Identities = 49/150 (32%), Positives = 62/150 (41%), Gaps = 32/150 (21%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNK------PIIPL 434
+LP C CGYPGC YAEA+ N A N CP GG + K+A+ L K P + +
Sbjct: 43 VLPGANCGGCGYPGCDGYAEAVVNGDAPPNLCPVGGAEVAEKVAEILGKEAAESEPKVAV 102
Query: 435 ---NTIYGNEKSRC-------CAIIK---------ENKCIGCTLCIQSCPVDAII---GA 472
K R CA C+G C+ +CP DAI G
Sbjct: 103 VRCQGTCDKAKERYEYQGIKDCAAAALLFGGPKGCSYGCLGLGSCVAACPFDAIHIENGL 162
Query: 473 AKHMHTIFSKLCTGCDLCIKKCPVNCISMI 502
+ CTGC C+K CP N I +I
Sbjct: 163 PV----VDEDKCTGCGACVKACPRNVIELI 188
Score = 57.6 bits (140), Expect = 4e-09
Identities = 27/98 (27%), Positives = 43/98 (43%), Gaps = 20/98 (20%)
Query: 412 CPTGGRKGIIKLAKYLNKPIIPLNTIYGNEKSRCCAIIK---ENKCIGCTLCIQSCPVDA 468
CP + +I+L + + N+ +K +K E CIGC C+++CP A
Sbjct: 180 CP----RNVIELIPKSARVFVACNS---KDKG---KAVKKVCEVGCIGCGKCVKACPAGA 229
Query: 469 II---GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 503
I A I + CT C C++KCP I ++
Sbjct: 230 ITMENNLAV----IDQEKCTSCGKCVEKCPTKAIRILN 263
>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 = 55.8 bits (135), Expect = 2e-10
Identities = 17/35 (48%), Positives = 22/35 (62%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCPTG 415
LLP T C KCG+PGC +AEA+ +A + CP
Sbjct: 1 LLPGTNCGKCGFPGCMAFAEALLEGEAKIDDCPPL 35
>gnl|CDD|224068 COG1145, NapF, Ferredoxin [Energy production and conversion].
Length = 99
Score = 57.6 bits (138), Expect = 2e-10
Identities = 24/63 (38%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 449 IKENKCIGCTLCIQSCPVDAII----GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEV 504
I KCIGC LC++ CP AI G I LC C C+K CPV+ +S+ E
Sbjct: 26 IDAEKCIGCGLCVKVCPTGAIELIEEGLLLPEVVIDPDLCVLCGACLKVCPVDALSIAEE 85
Query: 505 TPC 507
Sbjct: 86 LVN 88
Score = 34.5 bits (78), Expect = 0.027
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 447 AIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCD 488
+I + C+ C C++ CPVDA+ A + ++ +KL
Sbjct: 58 VVIDPDLCVLCGACLKVCPVDALSIAEELVNAGEAKLREREG 99
>gnl|CDD|224069 COG1146, COG1146, Ferredoxin [Energy production and conversion].
Length = 68
Score = 53.6 bits (129), Expect = 2e-09
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK---LCTGCDLCIKKCPVNCISMIEV 504
+I +KCIGC +C++ CP C C LC CPV I + +
Sbjct: 4 VIDYDKCIGCGICVEVCPAGVFDLGEDEGGKPVVARPEECIDCGLCELACPVGAIKVDIL 63
Query: 505 TP 506
P
Sbjct: 64 RP 65
>gnl|CDD|235637 PRK05888, PRK05888, NADH dehydrogenase subunit I; Provisional.
Length = 164
Score = 56.0 bits (136), Expect = 3e-09
Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 451 ENKCIGCTLCIQSCPVDAI-IGAAKH--------MHTI-FSKLCTGCDLCIKKCPVNCIS 500
E +CI C LC CP DAI I AA+ + I F + C C C + CP + I
Sbjct: 57 EERCIACKLCAAICPADAITIEAAEREDGRRRTTRYDINFGR-CIFCGFCEEACPTDAIV 115
Query: 501 MIEV 504
Sbjct: 116 ETPD 119
>gnl|CDD|221966 pfam13187, Fer4_9, 4Fe-4S dicluster domain.
Length = 44
Score = 52.6 bits (126), Expect = 3e-09
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 453 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
KCIGC C++ CP I+ + C GC C++ CPV I
Sbjct: 1 KCIGCGACVKVCPAGVIMRDNGGKVVV---KCIGCGACVEVCPVGAI 44
Score = 33.4 bits (76), Expect = 0.015
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 452 NKCIGCTLCIQSCPVDAI 469
KCIGC C++ CPV AI
Sbjct: 27 VKCIGCGACVEVCPVGAI 44
Score = 28.8 bits (64), Expect = 0.69
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 484 CTGCDLCIKKCPVNCISMIEVTP 506
C GC C+K CP I
Sbjct: 2 CIGCGACVKVCPAGVIMRDNGGK 24
>gnl|CDD|224067 COG1144, COG1144, Pyruvate:ferredoxin oxidoreductase and related
2-oxoacid:ferredoxin oxidoreductases, delta subunit
[Energy production and conversion].
Length = 91
Score = 50.9 bits (122), Expect = 4e-08
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 448 IIKENKCIGCTLCIQSCPVDAII-GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTP 506
++ 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 = 53.9 bits (130), Expect = 7e-08
Identities = 18/59 (30%), Positives = 21/59 (35%)
Query: 446 CAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEV 504
I KCI C C + C AI+ + LC GC C CP I V
Sbjct: 63 IPEIDPEKCIRCGKCAEVCRFGAIVVLPGGKPVLNPDLCEGCGACSIVCPEPAIEEEPV 121
>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 = 48.5 bits (116), Expect = 2e-07
Identities = 19/56 (33%), Positives = 24/56 (42%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 503
++ + KCI C C CP AI I C GC +C CPV I M+
Sbjct: 21 VVDKEKCIKCKNCWLYCPEGAIQEDEGGFVGIDYDYCKGCGICANVCPVKAIEMVR 76
>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 = 47.2 bits (112), Expect = 2e-07
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 454 CIGCTLCIQSCPVDAI----IGAAKHMHTIFSKLCTGCDLCIKKCPVN 497
CIGC C+++CP AI G K I CTGC C+ CP
Sbjct: 1 CIGCGACVRACPYGAITLDEEGGKKGTVEIDPDKCTGCGACVAVCPTG 48
Score = 33.7 bits (77), Expect = 0.013
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 484 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQK 517
C GC C++ CP I++ E + + K
Sbjct: 1 CIGCGACVRACPYGAITLDEEGGKKGTVEIDPDK 34
Score = 31.8 bits (72), Expect = 0.068
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 436 TIYGNEKSRCCAIIKENKCIGCTLCIQSCPVD 467
T+ + I +KC GC C+ CP
Sbjct: 17 TLDEEGGKKGTVEIDPDKCTGCGACVAVCPTG 48
>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 = 46.2 bits (109), Expect = 6e-07
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL---CTGCDLCIKKCP 495
+I +KCIGC C+ +CP GA + C GC C++ CP
Sbjct: 1 VIDPDKCIGCGRCVAACPARVGAGAIRDEGGAVEIDPDRCIGCGACVEVCP 51
Score = 26.2 bits (57), Expect = 8.6
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 482 KLCTGCDLCIKKCPVN 497
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 = 48.2 bits (115), Expect = 6e-07
Identities = 23/60 (38%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 451 ENKCIGCTLCIQSCPVDAI-IGAAKHMH--------TIFSKLCTGCDLCIKKCPVNCISM 501
E KCIGCTLC CP DAI + A+ I C C LC + CP + I +
Sbjct: 42 EEKCIGCTLCAAVCPADAIRVVPAEGEDGKRRLKFYQINFGRCIFCGLCEEACPTDAIVL 101
Score = 33.2 bits (76), Expect = 0.093
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 484 CTGCDLCIKKCPVNCISMI 502
C GC LC CP + I ++
Sbjct: 45 CIGCTLCAAVCPADAIRVV 63
>gnl|CDD|236237 PRK08318, PRK08318, dihydropyrimidine dehydrogenase subunit B;
Validated.
Length = 420
Score = 51.1 bits (123), Expect = 9e-07
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 447 AIIKENKCIGCTLCIQSC------PVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPV-NCI 499
A I ++KCIGC C +C ++ + I + C GC+LC CPV CI
Sbjct: 337 ARIDQDKCIGCGRCYIACEDTSHQAIEWDEDGTRTPEVIEEE-CVGCNLCAHVCPVEGCI 395
Query: 500 SMIEVTP 506
+M EV
Sbjct: 396 TMGEVKF 402
>gnl|CDD|237198 PRK12771, PRK12771, putative glutamate synthase (NADPH) small
subunit; Provisional.
Length = 564
Score = 50.6 bits (122), Expect = 2e-06
Identities = 25/66 (37%), Positives = 30/66 (45%), Gaps = 10/66 (15%)
Query: 441 EKSRC--CAIIKENKCIGCTLCIQSCPVDAII--GAAKHMHTIFSKLCTGCDLCIKKCPV 496
E +RC C C C C +CP DAII G + H + K CTGC +C CP
Sbjct: 502 EAARCLSCGN-----CFECDNCYGACPQDAIIKLGPGRRYHFDYDK-CTGCHICADVCPC 555
Query: 497 NCISMI 502
I M
Sbjct: 556 GAIEMG 561
>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 49.6 bits (119), Expect = 3e-06
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 453 KCIGCTLCIQSCPVDAI-IGAAKHMHTIFSKLCTGCDLCIKKCPV 496
+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: 481 SKLCTGCDLCIKKCPVNCISMIEVTP 506
+ C GC +C+ CP I + E
Sbjct: 580 AAECVGCGVCVGACPTGAIRIEEGKR 605
Score = 33.8 bits (78), Expect = 0.31
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 433 PLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPV 466
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 = 48.5 bits (116), Expect = 5e-06
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 13/65 (20%)
Query: 449 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL-------------CTGCDLCIKKCP 495
+KCIGC C+++C I+GA ++ C GC C CP
Sbjct: 4 RDMSKCIGCGRCVRACTNVQIVGALGFLNRGGKTEVAPKFGRLLDESNCIGCGQCSLVCP 63
Query: 496 VNCIS 500
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 = 46.7 bits (111), Expect = 6e-06
Identities = 29/131 (22%), Positives = 42/131 (32%), Gaps = 32/131 (24%)
Query: 448 IIKENKCIGCTLCIQSCPVDAII---------GAAKHMH-TIFSKLCTGCDLCIKKCPVN 497
++ +KCIGC LC CP +AI G K I C C LC++ CP
Sbjct: 51 VLDRDKCIGCGLCANICPANAITMETAERKVDGRKKPKRPDINLGRCIFCGLCVEVCPTG 110
Query: 498 CISMIEVTPCRTGWDAWSQKKADDARKRYYLRKKRL-----------FHEKKENYAKLKK 546
+ + + A R+ K+RL E A K
Sbjct: 111 ALVLTPEF-----------ELASYKREDLVYDKERLLAPPDKKEEDKPFEIARLLALDAK 159
Query: 547 ATIQFKKNNRE 557
+ + E
Sbjct: 160 YLGKVQAEGAE 170
>gnl|CDD|170016 PRK09623, vorD, 2-ketoisovalerate ferredoxin oxidoreductase subunit
delta; Reviewed.
Length = 105
Score = 44.6 bits (105), Expect = 7e-06
Identities = 18/56 (32%), Positives = 29/56 (51%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 503
++ E+KC+ C +C + CP AI I C GC +C +CP I+M++
Sbjct: 47 VVDESKCVKCYICWKFCPEPAIYIKEDGYVAIDYDYCKGCGICANECPTKAITMVK 102
>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 = 42.2 bits (99), Expect = 1e-05
Identities = 15/51 (29%), Positives = 17/51 (33%), Gaps = 5/51 (9%)
Query: 452 NKCIGCTLCIQSCPV-----DAIIGAAKHMHTIFSKLCTGCDLCIKKCPVN 497
+KCI C C CPV CT C C + CPV
Sbjct: 3 SKCIRCGACRAVCPVYRALGRFSGDPRGGALAAELWSCTSCGACTEVCPVG 53
>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 = 46.1 bits (110), Expect = 2e-05
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 452 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 503
N C C C+ CP A+ + + C GCD CIK CP +
Sbjct: 41 NHCDHCGDCVAGCPAGALSLVDGKVVWD-KERCIGCDTCIKVCPHQSSPKTK 91
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 45.8 bits (109), Expect = 5e-05
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 9/65 (13%)
Query: 447 AIIKENKCIG---CTLCIQSCPV-----DAI-IGAAKHMHTIFSKLCTGCDLCIKKCPVN 497
A++ ++C CI+ CPV + I I I +LC GC +C+KKCP +
Sbjct: 6 AVVDYDRCQPKKCGYECIKYCPVVRTGKETIEIDEDTGKPVISEELCIGCGICVKKCPFD 65
Query: 498 CISMI 502
IS++
Sbjct: 66 AISIV 70
>gnl|CDD|182135 PRK09898, PRK09898, hypothetical protein; Provisional.
Length = 208
Score = 44.1 bits (104), Expect = 7e-05
Identities = 21/76 (27%), Positives = 30/76 (39%), Gaps = 14/76 (18%)
Query: 433 PLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTI-----FSKLCTGC 487
P+ I +K C + +CIGC+ C +CP M T+ S C C
Sbjct: 136 PIGAITWQQKEGCITV-DHKRCIGCSACTTACPW--------MMATVNTESKKSSKCVLC 186
Query: 488 DLCIKKCPVNCISMIE 503
C CP + +IE
Sbjct: 187 GECANACPTGALKIIE 202
Score = 30.6 bits (69), Expect = 1.7
Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 460 CIQSCPVDAIIGAAKH-MHTIFSKLCTGCDLCIKKCP 495
C+ CP+ AI K T+ K C GC C CP
Sbjct: 131 CMNVCPIGAITWQQKEGCITVDHKRCIGCSACTTACP 167
>gnl|CDD|129498 TIGR00403, ndhI, NADH-plastoquinone oxidoreductase subunit I
protein. [Energy metabolism, Electron transport].
Length = 183
Score = 43.4 bits (102), Expect = 9e-05
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 452 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK----------LCTGCDLCIKKCPVNCISM 501
+KCI C +C++ CP++ + + I K +C C C++ CP NC+SM
Sbjct: 62 DKCIACEVCVRVCPINLPVVDWEFNKAIKKKQLKNYSIDFGVCIFCGNCVEYCPTNCLSM 121
Query: 502 IE 503
E
Sbjct: 122 TE 123
>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: 380 NLLPQTQCTKCGYPGCRQYAEAIANKKANYNQCP 413
LLP+T C +CG C +A + +++A + CP
Sbjct: 11 KLLPKTNCGECGEATCMAFATKLIDREATPDDCP 44
>gnl|CDD|184037 PRK13409, PRK13409, putative ATPase RIL; Provisional.
Length = 590
Score = 44.8 bits (107), Expect = 1e-04
Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 14/68 (20%)
Query: 442 KSRCCAIIKENKCIGCTLCIQSCPV-----DAII--GAAKHMHTIFSKLCTGCDLCIKKC 494
RC + KC CI+ CPV + I I +LC GC +C+KKC
Sbjct: 9 YDRC----QPKKC--NYECIKYCPVVRTGEETIEIDEDDGKPV-ISEELCIGCGICVKKC 61
Query: 495 PVNCISMI 502
P + IS++
Sbjct: 62 PFDAISIV 69
>gnl|CDD|222168 pfam13484, Fer4_16, 4Fe-4S double cluster binding domain.
Length = 67
Score = 39.8 bits (93), Expect = 2e-04
Identities = 16/67 (23%), Positives = 20/67 (29%), Gaps = 22/67 (32%)
Query: 453 KCIGCTLCIQSCPVDAI---------IGAAKHMHTIFSK-------------LCTGCDLC 490
C C C +CP AI +TI K GC +C
Sbjct: 1 FCGTCGKCADACPTGAISGEDEPTWDARRCISYNTIGKKGWIIDELKCLLGGRIYGCGIC 60
Query: 491 IKKCPVN 497
+ CP N
Sbjct: 61 QEVCPFN 67
Score = 31.7 bits (72), Expect = 0.12
Identities = 7/18 (38%), Positives = 7/18 (38%)
Query: 484 CTGCDLCIKKCPVNCISM 501
C C C CP IS
Sbjct: 2 CGTCGKCADACPTGAISG 19
Score = 26.3 bits (58), Expect = 9.5
Identities = 17/85 (20%), Positives = 28/85 (32%), Gaps = 26/85 (30%)
Query: 385 TQCTKCGYPGCRQYAEAIANKKANYNQCPTG----GRKGIIKLAKYLNKPIIPLNTIYGN 440
C KC A+A CPTG + + ++ I +
Sbjct: 3 GTCGKC--------ADA----------CPTGAISGEDEPTWDARRCISYNTIGKKGWIID 44
Query: 441 EKSRCCAIIKENKCIGCTLCIQSCP 465
E +C + + GC +C + CP
Sbjct: 45 EL-KC---LLGGRIYGCGICQEVCP 65
>gnl|CDD|181399 PRK08348, PRK08348, NADH-plastoquinone oxidoreductase subunit;
Provisional.
Length = 120
Score = 41.4 bits (97), Expect = 2e-04
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 452 NKCIGCTLCIQSCPVDAI--IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 501
+KC+GC +C+ CP + + + +++ C C C+ CP + M
Sbjct: 42 DKCVGCRMCVTVCPAGVFVYLPEIRKV-ALWTGRCVFCGQCVDVCPTGALQM 92
>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: 452 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK----------LCTGCDLCIKKCPVNCISM 501
+KCI C +C++ CP+D + K I K +C C C++ CP NC+SM
Sbjct: 59 DKCIACEVCVRVCPIDLPVVDWKLETDIRKKRLLNYSIDFGVCIFCGNCVEYCPTNCLSM 118
Query: 502 IE 503
E
Sbjct: 119 TE 120
>gnl|CDD|226684 COG4231, COG4231, Indolepyruvate ferredoxin oxidoreductase, alpha
and beta subunits [Energy production and conversion].
Length = 640
Score = 43.9 bits (104), Expect = 2e-04
Identities = 23/74 (31%), Positives = 27/74 (36%), Gaps = 11/74 (14%)
Query: 447 AIIKENKCIGCTLCIQ--SCP---VDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 501
+ E KC GC CI CP D A+ I C GC C++ CP I
Sbjct: 572 YFVDEEKCTGCGDCIVLSGCPSIEPDPTFKKAR----IDPSSCNGCGSCVEVCPSFAIKE 627
Query: 502 IEVTPCRTGWDAWS 515
P W AW
Sbjct: 628 GGENP--KRWRAWQ 639
Score = 35.0 bits (81), Expect = 0.10
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 7/39 (17%)
Query: 431 IIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDAI 469
I P T +K A I + C GC C++ CP AI
Sbjct: 594 IEPDPT---FKK----ARIDPSSCNGCGSCVEVCPSFAI 625
>gnl|CDD|235235 PRK04165, PRK04165, acetyl-CoA decarbonylase/synthase complex
subunit gamma; Provisional.
Length = 450
Score = 43.3 bits (103), Expect = 2e-04
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 380 NLLPQTQCTKCGYPGCRQYAEAIANKKANYNQCP 413
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 = 40.0 bits (93), Expect = 3e-04
Identities = 18/56 (32%), Positives = 24/56 (42%)
Query: 450 KENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVT 505
+KC+ C LC CP AI + C GC +C +CP I M+ T
Sbjct: 49 NRDKCVRCYLCYIYCPEPAIYLDEEGYPVFDYDYCKGCGICANECPTKAIEMVRET 104
>gnl|CDD|225131 COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin),
alpha and beta subunits [Energy production and
conversion].
Length = 317
Score = 42.7 bits (101), Expect = 3e-04
Identities = 19/48 (39%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 495
+ E C GC C++ CP AI K + SK C GC CI+ CP
Sbjct: 168 KVDEELCRGCGKCVKVCPTGAITWDGKKLKIDGSK-CIGCGKCIRACP 214
>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 = 37.6 bits (88), Expect = 3e-04
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 447 AIIKENKCIGCTLCIQSCPVDAI 469
+I E KCIGC C++ CPV AI
Sbjct: 1 VVIDEEKCIGCGACVEVCPVGAI 23
Score = 33.4 bits (77), Expect = 0.012
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 478 TIFSKLCTGCDLCIKKCPVNCIS 500
I + C GC C++ CPV I+
Sbjct: 2 VIDEEKCIGCGACVEVCPVGAIT 24
>gnl|CDD|223514 COG0437, HybA, Fe-S-cluster-containing hydrogenase components 1
[Energy production and conversion].
Length = 203
Score = 41.7 bits (98), Expect = 4e-04
Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 16/68 (23%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL--CTGC---------DLCIKKCPV 496
++ ++ CIGC CI +CP A + + CT C C++ CP
Sbjct: 96 LVDKDLCIGCGYCIAACPYGAP-----QFNPDKGVVDKCTFCVDRVAVGKLPACVEACPT 150
Query: 497 NCISMIEV 504
+ ++
Sbjct: 151 GALIFGDI 158
Score = 32.0 bits (73), Expect = 0.49
Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 21/71 (29%)
Query: 448 IIKENKCIGCTLCIQSC-------------------PVDAIIGAAKHMHTIFSKLCTGCD 488
+I ++CIGC C+ +C V+ G+ + S C C+
Sbjct: 14 VIDSSRCIGCKACVVACKEENDRLPVGNSVFRRYVNYVEGDWGSGTVEYYYLSISCMHCE 73
Query: 489 --LCIKKCPVN 497
C+K CP
Sbjct: 74 DPPCVKVCPTG 84
Score = 32.0 bits (73), Expect = 0.59
Identities = 13/51 (25%), Positives = 16/51 (31%), Gaps = 9/51 (17%)
Query: 460 CIQSCPVDAII-----GAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVT 505
C++ CP A+ G LC GC CI CP
Sbjct: 77 CVKVCPTGALFKREEDGIVLVDK----DLCIGCGYCIAACPYGAPQFNPDK 123
>gnl|CDD|224070 COG1148, HdrA, Heterodisulfide reductase, subunit A and related
polyferredoxins [Energy production and conversion].
Length = 622
Score = 42.8 bits (101), Expect = 4e-04
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 447 AIIKENKCIGCTLCIQSCPVDAI-IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 501
A + E+KC GC +C CP AI + A+ + C GC +C CP I +
Sbjct: 556 ATVDEDKCTGCGICA-ECPFGAISVDKAE----VNPLRCKGCGICSAACPSGAIDL 606
Score = 38.6 bits (90), Expect = 0.009
Identities = 24/102 (23%), Positives = 34/102 (33%), Gaps = 33/102 (32%)
Query: 452 NKCIGCTLCIQSCPV-----------------DAIIGAAKHMHTIFSKLCTGCDLCIKKC 494
+KC GC C + CPV A + I K C C LC K C
Sbjct: 224 DKCTGCGACSEVCPVEVPNEFNEGLGKRKAIYIPFPQAVPLNYNIDPKHCIECGLCEKAC 283
Query: 495 PVNCISM--------IEVTP--CRTGWDAWSQKKADDARKRY 526
P + + +EV TG+ + DA ++
Sbjct: 284 PNEAVDLNQEPEEVELEVGAIIVATGYKPF------DATRKE 319
>gnl|CDD|234472 TIGR04105, FeFe_hydrog_B1, [FeFe] hydrogenase, group B1/B3. See
PMID:20395274 for descriptions of different groups.
Length = 462
Score = 43.0 bits (102), Expect = 4e-04
Identities = 22/59 (37%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 452 NKCIGCTL--CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCR 508
+ C GC CI+ CP A I I + C C C K CP N I IE PC
Sbjct: 111 DACRGCLAHPCIEVCPKGA-ISMVNGRAYIDQEKCIECGKCKKACPYNAIVEIER-PCE 167
Score = 40.3 bits (95), Expect = 0.002
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 14/55 (25%)
Query: 447 AIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 501
A I + KCI C C ++CP +AI+ + C K CPV IS
Sbjct: 137 AYIDQEKCIECGKCKKACPYNAIV---EIERP-----------CEKACPVGAISS 177
Score = 39.1 bits (92), Expect = 0.006
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 433 PLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDAI 469
P+ I +E R A+I +KCI C C+ +CP AI
Sbjct: 171 PVGAISSDENGR--AVIDYDKCISCGACMVACPFGAI 205
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 43.0 bits (102), Expect = 4e-04
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 516 QKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKN 575
+KKA++A+ R+ R+ RL EK A+ KKA + K + A+ R+K K
Sbjct: 445 KKKAEEAKARFEARQARLEREKAAREARHKKA----AEARAAKDKDAVAAALARVKAKKA 500
Query: 576 KENKKI 581
+ I
Sbjct: 501 AATQPI 506
>gnl|CDD|179457 PRK02651, PRK02651, photosystem I subunit VII; Provisional.
Length = 81
Score = 38.9 bits (90), Expect = 4e-04
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 7/57 (12%)
Query: 452 NKCIGCTLCIQSCPVDAI-------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISM 501
+ CIGCT C+++CP+D + A + + ++ C GC C CP + +S+
Sbjct: 9 DTCIGCTQCVRACPLDVLEMVPWDGCKAGQIASSPRTEDCVGCKRCETACPTDFLSI 65
Score = 32.7 bits (74), Expect = 0.066
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 484 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKAD 520
C GC C++ CP++ + M+ C+ G A S + D
Sbjct: 11 CIGCTQCVRACPLDVLEMVPWDGCKAGQIASSPRTED 47
>gnl|CDD|224065 COG1142, HycB, Fe-S-cluster-containing hydrogenase components 2
[Energy production and conversion].
Length = 165
Score = 40.9 bits (96), Expect = 4e-04
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 7/64 (10%)
Query: 448 IIKENKCIGCTLCIQSCPVDAI-IGAAKHMHTIFSKLCTGCD------LCIKKCPVNCIS 500
+ E KCIGC LC+ +CP AI + + + C C C++ CP +
Sbjct: 78 QVDEEKCIGCKLCVVACPFGAITMVSYPVAAKAVAVKCDLCAGREVGPACVEACPTEALE 137
Query: 501 MIEV 504
+++
Sbjct: 138 LVDE 141
Score = 35.2 bits (81), Expect = 0.034
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 1/51 (1%)
Query: 460 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCRTG 510
C + CPV AI + K C GC LC+ CP I+M+
Sbjct: 61 CAEVCPVGAITRDDGAVQVDEEK-CIGCKLCVVACPFGAITMVSYPVAAKA 110
Score = 30.2 bits (68), Expect = 1.7
Identities = 16/74 (21%), Positives = 24/74 (32%), Gaps = 17/74 (22%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL-------------CTGCD--LCIK 492
I KCIGC C +C V + ++ C C+ C +
Sbjct: 6 IADPEKCIGCRTCEVACVV--AHEEIQSQSIFLPRIMVIKNDGESAPVVCHHCEDAPCAE 63
Query: 493 KCPVNCISMIEVTP 506
CPV I+ +
Sbjct: 64 VCPVGAITRDDGAV 77
>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 = 42.4 bits (100), Expect = 6e-04
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 448 IIKENKCIGCTLCIQS--CPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
+ ++KCIGC CI+ CP + LCTGC +C + CP + I
Sbjct: 546 KVDQDKCIGCKKCIKELGCPAIEPEDKE----AVIDPLCTGCGVCAQICPFDAI 595
Score = 38.9 bits (91), Expect = 0.006
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 7/32 (21%)
Query: 445 CCAIIKENK-------CIGCTLCIQSCPVDAI 469
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 = 41.9 bits (98), Expect = 6e-04
Identities = 24/67 (35%), Positives = 31/67 (46%), Gaps = 12/67 (17%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKH----------MHTI-FS-KLCTGCDLCIKKCP 495
+I +KCI C C CP DAII A + M I F + C GC +C + CP
Sbjct: 243 VIDHSKCIMCRKCWLYCPDDAIIEAWREAEGPRGRKFRMKMIDFDYQYCKGCGVCAEVCP 302
Query: 496 VNCISMI 502
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 = 6e-04
Identities = 22/99 (22%), Positives = 29/99 (29%), Gaps = 32/99 (32%)
Query: 412 CPTG------GRKGIIKLAKYLNKPIIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCP 465
CP G GRK +IK+A KC C C CP
Sbjct: 178 CPLGAFYGLIGRKSLIKIA-----------------------ASDREKCTNCMDCFNVCP 214
Query: 466 VDAIIGAAKHM---HTIFSKLCTGCDLCIKKCPVNCISM 501
++ + S CT C CI C + +
Sbjct: 215 EPQVLRMPLKKGGSTLVLSGDCTLCGRCIDVCHEDVLGF 253
>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 = 8e-04
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 454 CIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
CI C C ++CP+DAI ++ + + + +C GC C+ CP I
Sbjct: 12 CIRCNTCEETCPIDAITHDDRN-YVVKADVCNGCMACVSPCPTGAI 56
Score = 28.7 bits (64), Expect = 9.8
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 448 IIKENKCIGCTLCIQSCPVDAI 469
++K + C GC C+ CP AI
Sbjct: 35 VVKADVCNGCMACVSPCPTGAI 56
>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 = 41.0 bits (96), Expect = 8e-04
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 449 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
I +C GC +C+ +CP AI K C GC C + CP N I
Sbjct: 145 IDRKRCKGCGICVDACPRSAIDMVDGKAFIRLLK-CVGCGKCKEACPYNAI 194
Score = 32.2 bits (73), Expect = 0.51
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 447 AIIKENKCIGCTLCIQSCPVDAIIG 471
A I+ KC+GC C ++CP +AI G
Sbjct: 172 AFIRLLKCVGCGKCKEACPYNAIHG 196
>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: 450 KENKCIGCTLCIQSCPVDAI----IGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMI 502
KEN+C+GC C++ CP + ++ I + CT C C + CP +S++
Sbjct: 46 KENRCLGCGKCVEVCPAGTARLSELADGRNRIIIRREKCTHCGKCTEACPSGALSIV 102
Score = 31.1 bits (71), Expect = 1.6
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHM 476
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 = 39.0 bits (91), Expect = 0.001
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 454 CIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVN 497
CI C C CP AI+ K + + C GC +C++ CP N
Sbjct: 61 CINCFNCWVYCPDAAILSRDKKLKGVDYSHCKGCGVCVEVCPTN 104
>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 = 40.9 bits (96), Expect = 0.002
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 453 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTG--CDLCIKKCPVNCIS 500
CI C C++ CP A+ I + C G C C + CP
Sbjct: 480 GCIACQKCVKECPGKALSILESEPPRIDTDRCLGTACRRCERVCPEKVFD 529
Score = 34.4 bits (79), Expect = 0.16
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 476 MHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCRT 509
+ C C C+K+CP +S++E P R
Sbjct: 474 LEAQVEG-CIACQKCVKECPGKALSILESEPPRI 506
>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 = 36.4 bits (84), Expect = 0.003
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 17/62 (27%)
Query: 452 NKCIGCTLCIQSCPVDAI------------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
+ CIGCT C+++CP D + I +A ++ C GC C CP + +
Sbjct: 8 DTCIGCTQCVRACPTDVLEMVPWDGCKAGQIASAPR-----TEDCVGCKRCESACPTDFL 62
Query: 500 SM 501
S+
Sbjct: 63 SV 64
Score = 31.0 bits (70), Expect = 0.24
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 484 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKAD 520
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 = 36.5 bits (84), Expect = 0.003
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 454 CIGCTLCIQSCPVDA---IIGAAKHMHTIFS----KLCTGCDLCIKKCPVNCISM 501
CIGCT C+++CP D I I S + C GC C CP + +S+
Sbjct: 11 CIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTEDCVGCKRCESACPTDFLSV 65
Score = 28.0 bits (62), Expect = 3.9
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 484 CTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKAD 520
C GC C++ CP + + MI C+ A + + D
Sbjct: 11 CIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTED 47
>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 = 39.5 bits (92), Expect = 0.003
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 12/58 (20%)
Query: 452 NKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGC---------DLCIKKCPVNCIS 500
+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 = 34.5 bits (80), Expect = 0.005
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 447 AIIKENKCIGCTLCIQSCPVDAI 469
I +KCIGC C+ CP AI
Sbjct: 2 VEIDPDKCIGCGRCVAVCPEGAI 24
Score = 27.6 bits (62), Expect = 1.5
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 482 KLCTGCDLCIKKCPVNCI 499
C GC C+ CP I
Sbjct: 7 DKCIGCGRCVAVCPEGAI 24
>gnl|CDD|177005 CHL00065, psaC, photosystem I subunit VII.
Length = 81
Score = 35.5 bits (82), Expect = 0.008
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 17/61 (27%)
Query: 452 NKCIGCTLCIQSCPVDAI------------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
+ CIGCT C+++CP D + I +A C GC C CP + +
Sbjct: 9 DTCIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTED-----CVGCKRCESACPTDFL 63
Query: 500 S 500
S
Sbjct: 64 S 64
Score = 30.1 bits (68), Expect = 0.68
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 484 CTGCDLCIKKCPVNCISMIEVTPCRTG 510
C GC C++ CP + + MI C+
Sbjct: 11 CIGCTQCVRACPTDVLEMIPWDGCKAK 37
>gnl|CDD|227003 COG4656, RnfC, Predicted NADH:ubiquinone oxidoreductase, subunit
RnfC [Energy production and conversion].
Length = 529
Score = 38.5 bits (90), Expect = 0.008
Identities = 44/168 (26%), Positives = 68/168 (40%), Gaps = 28/168 (16%)
Query: 427 LNKPIIPLNTIYG------NEKSRCCAIIKENKCIGCTLCIQSCPVDAI---IGAAKHMH 477
L+ P+ T G E IKE CI C+LC +CPV+ + +
Sbjct: 339 LDAPVT--KTTNGLLALTKKELLEP---IKEQSCIRCSLCADACPVNLLPQQLYWFAKGE 393
Query: 478 TI------FSKLCTGCDLCIKKCPVNCISMIEVTPCRTGW-DAWSQK----KADDARKRY 526
C C C CP N I +++ R + +Q+ KA++A+ R+
Sbjct: 394 QHDEEEEHNLLDCIECGACAYVCPSN-IPLVQYF--RQEKAEILAQRQELKKAEEAKTRF 450
Query: 527 YLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELK 574
R RL EK E ++KKA ++ I A++R+KE K
Sbjct: 451 EARTARLEREKAERIPRMKKAAVKRLSFVTAALIDAIAAALERVKEKK 498
>gnl|CDD|183762 PRK12809, PRK12809, putative oxidoreductase Fe-S binding subunit;
Reviewed.
Length = 639
Score = 38.5 bits (89), Expect = 0.010
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 460 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIE 503
C+ +CPV+A+ + + + + C GC C CP + M++
Sbjct: 64 CVTACPVNALTFQSDSVQ-LDEQKCIGCKRCAIACPFGVVEMVD 106
Score = 37.3 bits (86), Expect = 0.023
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 449 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSK--LC----TGCDLCIKKCPVNCISMI 502
+ E KCIGC C +CP G + + TI K LC +G CI+ CP + ++
Sbjct: 82 LDEQKCIGCKRCAIACP----FGVVEMVDTIAQKCDLCNQRSSGTQACIEVCPTQALRLM 137
Query: 503 E 503
+
Sbjct: 138 D 138
>gnl|CDD|179174 PRK00941, PRK00941, acetyl-CoA decarbonylase/synthase complex
subunit alpha; Validated.
Length = 781
Score = 38.4 bits (90), Expect = 0.012
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 452 NKCIGCTLCIQSCP-----VDAIIGAAKHMHTIFSKL---CTGCDLCIKKCPVN--CISM 501
KC C C++ CP +A+ AAK + L C GC C + CP N +SM
Sbjct: 404 KKCTECGWCVRVCPNELPIPEAMEAAAKGDLSKLEDLYDKCIGCGRCEQVCPKNIPIVSM 463
Query: 502 IE 503
IE
Sbjct: 464 IE 465
>gnl|CDD|184955 PRK14993, PRK14993, tetrathionate reductase subunit B; Provisional.
Length = 244
Score = 37.2 bits (86), Expect = 0.013
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 19/77 (24%)
Query: 439 GNEKSRCCAIIKENKCIGCTLCIQSCPVD-----------------AIIGAAKHMHTIFS 481
G+ + R +I +CIGC C SC ++ G+ + + +
Sbjct: 38 GSPRHRYAMLIDLRRCIGCQSCTVSCTIENQTPQGAFRTTVNQYQVQREGSQEVTNVLLP 97
Query: 482 KLCTGCD--LCIKKCPV 496
+LC CD C+ CPV
Sbjct: 98 RLCNHCDNPPCVPVCPV 114
Score = 36.0 bits (83), Expect = 0.037
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 430 PIIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCPVDA 468
P+ P+ + ++ ++ +C+GC C+Q+CP DA
Sbjct: 110 PVCPVQATF--QREDGIVVVDNKRCVGCAYCVQACPYDA 146
Score = 33.3 bits (76), Expect = 0.29
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 460 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 495
C+ CPV A + + +K C GC C++ CP
Sbjct: 108 CVPVCPVQATFQREDGIVVVDNKRCVGCAYCVQACP 143
>gnl|CDD|225358 COG2768, COG2768, Uncharacterized Fe-S center protein [General
function prediction only].
Length = 354
Score = 37.9 bits (88), Expect = 0.013
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 16/59 (27%)
Query: 449 IKENKCIGCTLCIQSCPVDAI-------IGAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 500
+ E KC C LC++ CPV AI I K C GC C++ CP +
Sbjct: 190 VVEEKCYDCGLCVKICPVGAITLTKVVKIDYEK---------CIGCGQCMEACPYGAVD 239
Score = 30.5 bits (69), Expect = 2.4
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 484 CTGCDLCIKKCPVNCISMIEV 504
C C LC+K CPV I++ +V
Sbjct: 195 CYDCGLCVKICPVGAITLTKV 215
>gnl|CDD|235745 PRK06214, PRK06214, sulfite reductase; Provisional.
Length = 530
Score = 38.1 bits (89), Expect = 0.014
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 384 QTQCTKCGYPGCRQYAEAIANKK-ANYNQCPTGGR 417
Q C +CGY C+ YAEAIA+ + N C GG+
Sbjct: 89 QQDCGQCGY-NCQDYAEAIASGEEKRLNLCAPGGK 122
>gnl|CDD|183733 PRK12769, PRK12769, putative oxidoreductase Fe-S binding subunit;
Reviewed.
Length = 654
Score = 37.8 bits (88), Expect = 0.017
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 460 CIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEVTPCRTGWDAWSQKKA 519
C +SCP AI + K C GC C+ CP + + +TP G + K
Sbjct: 64 CARSCPNGAISHVDDSIQVNQQK-CIGCKSCVVACPFGTMQI-VLTPVAAGKVKATAHKC 121
Query: 520 D 520
D
Sbjct: 122 D 122
Score = 33.2 bits (76), Expect = 0.45
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 14/56 (25%)
Query: 453 KCIGCTLCIQSCPVDAI-----IGAAKHMHTIFSKLCTGCDLCIKK-----CPVNC 498
KCIGC C+ +CP + AA + K CDLC + C NC
Sbjct: 86 KCIGCKSCVVACPFGTMQIVLTPVAAGKVKATAHK----CDLCAGRENGPACVENC 137
>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 = 33.7 bits (77), Expect = 0.018
Identities = 14/59 (23%), Positives = 18/59 (30%), Gaps = 18/59 (30%)
Query: 453 KCIGCTLCIQSCPVDAIIGAAKH----------------MHTIFSKLCTGCDLCIKKCP 495
+CI C C+ CP + G S C+ C LC CP
Sbjct: 1 RCIQCGYCVPVCPSYLLNGDEPKKLMRAAYNGDLEELLANEAADS--CSECGLCEYVCP 57
>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 = 35.5 bits (82), Expect = 0.025
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 16/56 (28%)
Query: 451 ENKCIGCTLCIQSCPVDA--IIGAAKHMHTIFSKLCTGC-DL--------CIKKCP 495
++KCIGC C+ +CP A M C GC D C+ CP
Sbjct: 94 QDKCIGCRYCVWACPYGAPQYDPQQGVMGK-----CDGCYDRVEKGLRPACVDACP 144
>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 = 0.033
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 453 KCIGCTLCI--QSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 495
+C C C+ ++CPV AI K T+ ++ C GC C + CP
Sbjct: 303 RCENCDPCLVEEACPVPAI----KKDGTLNTEDCFGCGYCAEICP 343
>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 = 33.5 bits (77), Expect = 0.039
Identities = 18/69 (26%), Positives = 22/69 (31%), Gaps = 19/69 (27%)
Query: 449 IKENKCIGCTLCIQSCPVDAII-------------------GAAKHMHTIFSKLCTGCDL 489
I + KCIGC C + C D + K M C GC
Sbjct: 18 IDQEKCIGCGRCYKVCGRDVLTLKGINEEGELVASDDDDDEIERKVMVVANPGNCIGCGA 77
Query: 490 CIKKCPVNC 498
C + CP C
Sbjct: 78 CARVCPKKC 86
Score = 27.4 bits (61), Expect = 6.5
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 447 AIIKENKCIGCTLCIQSCPVDA 468
+ CIGC C + CP
Sbjct: 65 VVANPGNCIGCGACARVCPKKC 86
>gnl|CDD|224516 COG1600, COG1600, Uncharacterized Fe-S protein [Energy production
and conversion].
Length = 337
Score = 36.2 bits (84), Expect = 0.043
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 19/69 (27%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAK-------HMHTIF---------SKLCT---GCD 488
+E+ C CT C+ +CP A++ TI + GCD
Sbjct: 181 PEEEDHCGSCTRCLDACPTGALVAPYTVDARRCISYLTIEKGGAPEEFRPLIGNRIYGCD 240
Query: 489 LCIKKCPVN 497
+C K CP N
Sbjct: 241 ICQKVCPWN 249
>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 = 36.1 bits (84), Expect = 0.052
Identities = 15/45 (33%), Positives = 17/45 (37%), Gaps = 6/45 (13%)
Query: 450 KENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKC 494
CI C LC+Q CP I + C C LCI C
Sbjct: 229 PLGDCIDCNLCVQVCPTGIDIRDGLQLE------CINCGLCIDAC 267
>gnl|CDD|224911 COG2000, COG2000, Predicted Fe-S protein [General function
prediction only].
Length = 226
Score = 35.2 bits (81), Expect = 0.058
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 381 LLPQTQCTKCGYPGCRQYAEAIANKKANYNQCP 413
LLP C CGY C ++AEA+ K + CP
Sbjct: 14 LLPGFNCGACGYSRCDEFAEALLKKLVKIDDCP 46
>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 = 35.8 bits (83), Expect = 0.064
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 10/62 (16%)
Query: 452 NKCIGCTLCIQSCP-----VDAIIGAAKHMHTIFSKL---CTGCDLCIKKCPVN--CISM 501
KC C C ++CP +A+ A + + + L C GC C ++CP I+M
Sbjct: 365 AKCTDCGWCTRACPNSLRIKEAMEAAKEGDFSGLADLFDQCVGCGRCEQECPKEIPIINM 424
Query: 502 IE 503
IE
Sbjct: 425 IE 426
>gnl|CDD|181037 PRK07569, PRK07569, bidirectional hydrogenase complex protein HoxU;
Validated.
Length = 234
Score = 35.0 bits (81), Expect = 0.069
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 26/72 (36%)
Query: 449 IKENKCIGCTLCIQSCPVDAIIGAAKHMHT-----------IFSKL---------CTGCD 488
I N+C+ CT C++ C D I GA HT + + L CT C
Sbjct: 143 IDHNRCVLCTRCVRVC--DEIEGA----HTWDVAGRGAKSRVITDLNQPWGTSETCTSCG 196
Query: 489 LCIKKCPVNCIS 500
C++ CP I
Sbjct: 197 KCVQACPTGAIF 208
>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 = 34.0 bits (78), Expect = 0.083
Identities = 13/71 (18%), Positives = 20/71 (28%), Gaps = 9/71 (12%)
Query: 52 YDYAHPISDAIENITH---SICTLEFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLN 108
Y + + T + + H + + K RPF F R+
Sbjct: 78 YMFLQAADFLLLYETECDIHLGGSDQLGHIELGLEL---LKKAGGPARPF--GLTFGRVM 132
Query: 109 LT-HTITSKRK 118
T SK K
Sbjct: 133 GADGTKMSKSK 143
>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 = 30.8 bits (70), Expect = 0.10
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 454 CIGCTLCIQSCPVDA 468
C GC C++ CPV A
Sbjct: 1 CTGCGACVEVCPVGA 15
Score = 28.1 bits (63), Expect = 0.72
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 484 CTGCDLCIKKCPVNC 498
CTGC C++ CPV
Sbjct: 1 CTGCGACVEVCPVGA 15
>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 = 34.4 bits (79), Expect = 0.11
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 438 YGNEKSRC---CAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKC 494
G E C ++ + C+GC C +CP A I + C C C +C
Sbjct: 157 EGTEACGCDLMTKVVNQGLCMGCGTCAAACPTRA-IEMEDGRPNVNRDRCIKCGACYVQC 215
Query: 495 P 495
P
Sbjct: 216 P 216
Score = 31.7 bits (72), Expect = 0.72
Identities = 10/30 (33%), Positives = 12/30 (40%)
Query: 477 HTIFSKLCTGCDLCIKKCPVNCISMIEVTP 506
+ LC GC C CP I M + P
Sbjct: 169 KVVNQGLCMGCGTCAAACPTRAIEMEDGRP 198
>gnl|CDD|236535 PRK09477, napH, quinol dehydrogenase membrane component;
Provisional.
Length = 271
Score = 34.5 bits (80), Expect = 0.11
Identities = 18/94 (19%), Positives = 27/94 (28%), Gaps = 33/94 (35%)
Query: 412 CPTG------GRKGIIKLAKYLNKPIIPLNTIYGNEKSRCCAIIKENKCIGCTLCIQSCP 465
CP G G+K +I++ + KC C C CP
Sbjct: 185 CPLGAFYGLIGKKSLIRVKAH-----------------------DRQKCTRCMDCFHVCP 221
Query: 466 ----VDAIIGAAKHMHTIFSKLCTGCDLCIKKCP 495
+ + + + S C C CI C
Sbjct: 222 EPQVLRPPLKGKQSPSQVTSGDCITCGRCIDVCS 255
>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 = 34.1 bits (78), Expect = 0.12
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 9/51 (17%)
Query: 453 KCIGCTLCIQSCPV--DAII-------GAAKHMHTIFSKLCTGCDLCIKKC 494
K + C++C++ CP+ +AI + T+ S CTGC C K C
Sbjct: 137 KGLNCSICVRVCPIRGEAISLKPIENERGRLQIPTVDSAKCTGCGTCEKHC 187
Score = 28.7 bits (64), Expect = 7.7
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 454 CIGCTLCIQSCPVDAIIGAA----KHMHTIF----SKLCTGC-DL-CIKKCPVNCIS 500
C+ C LC+++CP D + A+ + T F C C D+ C + CP +
Sbjct: 55 CVRCGLCVEACPYDILSLASWSDPAPLGTPFFTPREVPCRMCKDIPCARACPTGALD 111
>gnl|CDD|235764 PRK06273, PRK06273, ferredoxin; Provisional.
Length = 165
Score = 33.5 bits (77), Expect = 0.13
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 478 TIFSKLCTGCDLCIKKCPVNCISMIEVTP 506
+F +LC GC C CP I MI V P
Sbjct: 45 KVFEELCIGCGGCANVCPTKAIEMIPVEP 73
>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 = 32.5 bits (74), Expect = 0.14
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 9/78 (11%)
Query: 42 TNNNWCIYPMYDYAHPISDAIENITHSICTLEFQDHRPFYEWILNKID-KTNFIKRPFPK 100
++ ++IE S+C +FQ +R Y W+ + I + P+
Sbjct: 36 NPPVKVWQDPHELEERK-ESIEED-ISVCGEDFQQNRELYRWVKDNITLPVD------PE 87
Query: 101 QYEFSRLNLTHTITSKRK 118
Q E RLNL T+ SKRK
Sbjct: 88 QVELPRLNLETTVMSKRK 105
>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 = 0.14
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 28/71 (39%)
Query: 451 ENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLC----T--------------------G 486
+ C CT C+ +CP AI+ + + ++ C T G
Sbjct: 178 TDHCGSCTACLDACPTGAIVAP----YQLDARRCISYLTIELKGPIPEEFRPLIGNRIYG 233
Query: 487 CDLCIKKCPVN 497
CD C CP N
Sbjct: 234 CDDCQLVCPWN 244
>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 = 30.1 bits (68), Expect = 0.17
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 448 IIKENKCIGCTLCIQSCPV 466
+I E+KCIGC C+ +CP
Sbjct: 4 LIDEDKCIGCGACVSACPA 22
Score = 25.5 bits (56), Expect = 7.5
Identities = 7/21 (33%), Positives = 8/21 (38%)
Query: 476 MHTIFSKLCTGCDLCIKKCPV 496
I C GC C+ CP
Sbjct: 2 KPLIDEDKCIGCGACVSACPA 22
>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 = 0.17
Identities = 14/27 (51%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 170 IEILEQALRDDLDIKAPRIMAV--LNP 194
+ 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 = 33.9 bits (78), Expect = 0.22
Identities = 14/61 (22%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 518 KADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKNKE 577
+A+ A ++ L E++ AKL + + KK + L K+++EL+ E
Sbjct: 177 RAEIAAEQAELTTLLS--EQRAQQAKLAQLLEERKKTLAQLNSELSADQ-KKLEELRANE 233
Query: 578 N 578
+
Sbjct: 234 S 234
>gnl|CDD|172486 PRK13984, PRK13984, putative oxidoreductase; Provisional.
Length = 604
Score = 33.6 bits (77), Expect = 0.28
Identities = 19/61 (31%), Positives = 23/61 (37%), Gaps = 11/61 (18%)
Query: 452 NKCIGCTLCIQSCPVDAII-----------GAAKHMHTIFSKLCTGCDLCIKKCPVNCIS 500
KCIGC C + CP DAI G I C+ C LC+ C +
Sbjct: 45 EKCIGCGTCSKICPTDAITMVEVPDLPQEYGKKPQRPVIDYGRCSFCALCVDICTTGSLK 104
Query: 501 M 501
M
Sbjct: 105 M 105
Score = 33.2 bits (76), Expect = 0.37
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 484 CTGCDLCIKKCPVNCISMIEV 504
C GC C K CP + I+M+EV
Sbjct: 47 CIGCGTCSKICPTDAITMVEV 67
>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 = 30.8 bits (70), Expect = 0.28
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 454 CIGCTLCIQSCPVD 467
C+GC C++ CP
Sbjct: 52 CVGCGRCVEVCPTG 65
>gnl|CDD|224062 COG1139, COG1139, Uncharacterized conserved protein containing a
ferredoxin-like domain [Energy production and
conversion].
Length = 459
Score = 33.5 bits (77), Expect = 0.31
Identities = 17/66 (25%), Positives = 23/66 (34%), Gaps = 24/66 (36%)
Query: 454 CIGCTLCIQSCPVDAIIGAAKH---------MHTIFS-------------KLCTGCDLCI 491
CI C C+ CPV IG H + ++S C+ C C
Sbjct: 310 CIRCGACLNHCPVYRHIG--GHAYGSIYPGPIGVVWSPILGGYDAAGDLPYACSLCGACT 367
Query: 492 KKCPVN 497
+ CPV
Sbjct: 368 EVCPVK 373
>gnl|CDD|224852 COG1941, FrhG, Coenzyme F420-reducing hydrogenase, gamma subunit
[Energy production and conversion].
Length = 247
Score = 32.7 bits (75), Expect = 0.42
Identities = 20/65 (30%), Positives = 24/65 (36%), Gaps = 19/65 (29%)
Query: 445 CCAIIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGC----DLCIK--KCPVNC 498
CC + + C+GC C SCP AI C GC CIK C V+C
Sbjct: 183 CCLLEQGLPCMGCGTCAASCPSRAIP-------------CRGCRGNIPRCIKCGACFVSC 229
Query: 499 ISMIE 503
Sbjct: 230 PRSKG 234
>gnl|CDD|223325 COG0247, GlpC, Fe-S oxidoreductase [Energy production and
conversion].
Length = 388
Score = 33.0 bits (75), Expect = 0.47
Identities = 13/63 (20%), Positives = 18/63 (28%), Gaps = 19/63 (30%)
Query: 453 KCIGCTLCIQSCPV-----------------DAIIGAAKHMHTIFS--KLCTGCDLCIKK 493
KC+ C C CP + + G A ++ C C C
Sbjct: 10 KCVHCGFCTNVCPSYRATEALSPRGRIVLVREVLRGKAPGDEEVYEALDTCLACGACATA 69
Query: 494 CPV 496
CP
Sbjct: 70 CPS 72
Score = 28.8 bits (64), Expect = 8.3
Identities = 10/50 (20%), Positives = 15/50 (30%), Gaps = 4/50 (8%)
Query: 454 CIGCTLCIQSCPVDA----IIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
C+ C C +CP +I A+ L + VN
Sbjct: 60 CLACGACATACPSGIDIGDLIREARRKLAKGLLLDGLLAEAEELLGVNLG 109
>gnl|CDD|236597 PRK09626, oorD, 2-oxoglutarate-acceptor oxidoreductase subunit
OorD; Reviewed.
Length = 103
Score = 30.8 bits (70), Expect = 0.53
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 9/63 (14%)
Query: 449 IKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKL--------CTGCDLCIKKCPVNCIS 500
+ E++C C +C+ CP ++ H + K+ C GC C CP I
Sbjct: 13 VDESRCKACDICVSVCPA-GVLAMRIDPHAVLGKMIKVVHPESCIGCRECELHCPDFAIY 71
Query: 501 MIE 503
+ +
Sbjct: 72 VAD 74
>gnl|CDD|224074 COG1152, CdhA, CO dehydrogenase/acetyl-CoA synthase alpha subunit
[Energy production and conversion].
Length = 772
Score = 32.5 bits (74), Expect = 0.66
Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 14/77 (18%)
Query: 452 NKCIGCTLCIQSCPVDAIIGAA--KHMHTIFSKL------CTGCDLCIKKCPVN--CISM 501
KC C C+++CP + I A FSKL C GC C + CP N ++M
Sbjct: 400 RKCTYCGNCMRACPNELDIPEAMEYAAKGDFSKLEDLHDVCIGCGRCEQVCPKNIPILNM 459
Query: 502 IEVTPCRTGWDAWSQKK 518
IE + ++K
Sbjct: 460 IE----KAAQKRIKEEK 472
>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 = 30.1 bits (69), Expect = 0.67
Identities = 7/15 (46%), Positives = 13/15 (86%)
Query: 139 LIGMRRRGYTPESIK 153
L+G++RRG++ E I+
Sbjct: 20 LVGLKRRGFSKEEIR 34
>gnl|CDD|182296 PRK10194, PRK10194, ferredoxin-type protein; Provisional.
Length = 163
Score = 31.5 bits (71), Expect = 0.69
Identities = 12/24 (50%), Positives = 12/24 (50%)
Query: 454 CIGCTLCIQSCPVDAIIGAAKHMH 477
C GC C SCPV AI H H
Sbjct: 140 CNGCGACAASCPVSAITAEYLHAH 163
Score = 30.0 bits (67), Expect = 2.3
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 453 KCIGCTLCIQSCPVDAIIG----AAKHMHTIFSKLCTGCDLCIKKCPVNCIS 500
+ + C C SC AII + + + S+LC GC C CPV+ I+
Sbjct: 105 QSVECRRCQDSCEPMAIIFRPTLSGIYQPQLNSQLCNGCGACAASCPVSAIT 156
>gnl|CDD|236534 PRK09476, napG, quinol dehydrogenase periplasmic component;
Provisional.
Length = 254
Score = 31.9 bits (73), Expect = 0.70
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 453 KCIGCTLCIQSCPVD----AIIGAAKHMHTIF----SKLCTGCD--LCIKKCP 495
CI C LC+Q+CP D A + + T + C C+ C+K CP
Sbjct: 60 ACIRCGLCVQACPYDTLKLATLASGLSAGTPYFVARDIPCEMCEDIPCVKACP 112
>gnl|CDD|227208 COG4871, COG4871, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 193
Score = 31.8 bits (72), Expect = 0.74
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 380 NLLPQTQCTKCGYPGCRQYAEAIANKKANYNQC 412
LPQT C KCG C +A + N + + C
Sbjct: 132 KYLPQTNCGKCGEQTCMAFAIKLLNGEVKLDSC 164
>gnl|CDD|225918 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 32.4 bits (74), Expect = 0.80
Identities = 21/89 (23%), Positives = 34/89 (38%), Gaps = 16/89 (17%)
Query: 452 NKCIGCTLCIQSCP----VDAIIGAAKHMHT---------IFSKLCTGCDLCIKKCPVNC 498
N+CI C C+++C +A+ + I C C C+ CPVN
Sbjct: 149 NQCILCGRCVEACQEVQVNEALTIDWRGEDPRVIWDNDVPINESSCVSCGACVTVCPVNA 208
Query: 499 I---SMIEVTPCRTGWDAWSQKKADDARK 524
+ SM+ TG + + + D K
Sbjct: 209 LMEKSMLGEAGYLTGINEDTLEPMIDLVK 237
Score = 29.7 bits (67), Expect = 6.0
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 449 IKENKCIGCTLCIQSCPVDAI-----IGAAKHMHTIFSKLCTGCDLCIKKC-----PVNC 498
I E+ C+ C C+ CPV+A+ +G A ++ I +KK P+
Sbjct: 189 INESSCVSCGACVTVCPVNALMEKSMLGEAGYLTGINEDTLEPMIDLVKKVEPEYGPIFA 248
Query: 499 ISMIE 503
IS IE
Sbjct: 249 ISEIE 253
>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 = 30.3 bits (68), Expect = 0.80
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 478 TIFSKLCTGCDLCIKKCPVNCI 499
++FS +CT C C C N +
Sbjct: 30 SLFSAVCTRCGECASACENNIL 51
Score = 27.6 bits (61), Expect = 7.0
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 2/49 (4%)
Query: 454 CIGCTLCIQSCPVDAIIGAAKHMHTIFSKL--CTGCDLCIKKCPVNCIS 500
C C C +C + + + T+ C C C + CP N
Sbjct: 36 CTRCGECASACENNILQLGQQGQPTVEFDNAECDFCGKCAEACPTNAFH 84
>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 = 0.98
Identities = 17/74 (22%), Positives = 21/74 (28%), Gaps = 26/74 (35%)
Query: 450 KENKCIGCTLCIQSCP-----------------------VDAIIGAAKHMH---TIFSKL 483
+ CI C C CP +DA + M I
Sbjct: 681 VPDNCIQCNQCAFVCPHAAIRPKLADEEELENAPAGFKSLDAKGKELEGMKFRIQISPLD 740
Query: 484 CTGCDLCIKKCPVN 497
CTGC C+ CP
Sbjct: 741 CTGCGNCVDICPAK 754
>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 = 32.1 bits (73), Expect = 1.0
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 14/77 (18%)
Query: 452 NKCIGCTLCIQSCP----VDAIIGAAKHMHTIFSKL------CTGCDLCIKKCPVNCISM 501
NKC C C+++CP VD + A+ SKL C C C + CP N I +
Sbjct: 399 NKCTQCGNCVRTCPNSLRVDEAMAHAQKGD--LSKLEQLEEQCYACGRCEQACPKN-IPI 455
Query: 502 IEVTPCRTGWDAWSQKK 518
I + + G D +K
Sbjct: 456 ISMI-TKAGEDRLKNEK 471
>gnl|CDD|235402 PRK05312, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 31.4 bits (72), Expect = 1.1
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 170 IEILEQALRDDLDIKAPRI-MAVLNP 194
I LR I +PR+ +A LNP
Sbjct: 192 ARITAADLRRRFGIASPRLAVAGLNP 217
>gnl|CDD|222145 pfam13459, Fer4_15, 4Fe-4S single cluster domain.
Length = 60
Score = 28.8 bits (65), Expect = 1.1
Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 14/60 (23%)
Query: 451 ENKCIGCTLCIQSCP----VDAIIGAAKH--MHTIFSKLCTGCDLCIKK----CPVNCIS 500
+ CIGC LC+ P +D A + L + ++ CPV+ I
Sbjct: 4 RDTCIGCGLCVALAPDVFELDEDGKARVILDEGEVPDDL----EEDAQEAADACPVDAIH 59
>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 = 30.3 bits (68), Expect = 1.2
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 453 KCIGC-----TLCIQSCPVDAIIGAAKHM--HTIFSKLCTGCDLCIKKCPVNCI 499
KC GC T C+ CP D + + M + I +C C C+K CP I
Sbjct: 9 KCDGCKAGEKTACVYICPNDLMHLDTEIMKAYNIEPDMCWECYSCVKACPQGAI 62
>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 = 27.4 bits (61), Expect = 1.3
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 451 ENKCIGCTLCIQSCPVD 467
KCIGC C+ +CP
Sbjct: 1 PEKCIGCGACVDACPYG 17
Score = 26.2 bits (58), Expect = 3.2
Identities = 6/15 (40%), Positives = 7/15 (46%)
Query: 483 LCTGCDLCIKKCPVN 497
C GC C+ CP
Sbjct: 3 KCIGCGACVDACPYG 17
>gnl|CDD|233229 TIGR00999, 8a0102, Membrane Fusion Protein cluster 2 (function with
RND porters). [Transport and binding proteins, Other].
Length = 265
Score = 30.9 bits (70), Expect = 1.4
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 516 QKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKN 575
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 = 1.5
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 448 IIKENKCIGCTLCIQSCPVDAI-IGAAKHMHT-IFSKLCTGCDLCIKKCPVNCISMIEV 504
I C C C+++CP + + K + T + + C+ C LC + CP I + +
Sbjct: 165 IEVSEDCDECEKCVEACPRGVLELKEGKLVVTDLLN--CSLCKLCERACPGKAIRVSDD 221
>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 = 31.6 bits (72), Expect = 1.6
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 3/57 (5%)
Query: 513 AWSQKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKR 569
+ 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 = 1.6
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 139 LIGMRRRGYTPESIK 153
L+G++RRG++ E I
Sbjct: 196 LVGLKRRGFSREEIH 210
>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 = 28.7 bits (65), Expect = 2.3
Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 12/66 (18%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGC-DL--------CIKKCPVNC 498
++ + C G +C+ +CP + K C C D C++ CP
Sbjct: 37 LVDQKTCRGWRMCVSACPYKKPYFNWETG--KAEK-CDMCYDRVEAGLPPACVETCPTGA 93
Query: 499 ISMIEV 504
+
Sbjct: 94 RYFGDR 99
Score = 28.7 bits (65), Expect = 2.7
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 9/45 (20%)
Query: 460 CIQSCPVDAII-----GAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
C+ SCP AI G + K C G +C+ CP
Sbjct: 18 CVASCPSGAIYKDEETGIV----LVDQKTCRGWRMCVSACPYKKP 58
>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 = 2.4
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 453 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSK--LCTGCDLCIKKCP 495
+CIGC C++ C A+ + + + C GC C+ KCP
Sbjct: 170 RCIGCGACVKVCKKKAVGALSFENYKVVRDHSKCIGCGECVLKCP 214
Score = 29.1 bits (65), Expect = 5.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 447 AIIKENKCIGCTLCIQSCPVDA 468
+ +KCIGC C+ CP A
Sbjct: 196 VVRDHSKCIGCGECVLKCPTGA 217
>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 = 2.4
Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 10/55 (18%)
Query: 452 NKCIGCTLCIQSC------PVDAIIGAAKHMH--TIFSKLCTG--CDLCIKKCPV 496
N+CI CT C++ C +I ++ T + C C+ CPV
Sbjct: 144 NRCILCTRCVRFCKEIAGTHELGVIKRGENSEIGTYLDQPLESELCGNCVDVCPV 198
>gnl|CDD|222081 pfam13370, Fer4_13, 4Fe-4S single cluster domain.
Length = 58
Score = 27.6 bits (62), Expect = 2.5
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 451 ENKCIGCTLCIQSCP 465
+ CIGC LC + P
Sbjct: 3 RDTCIGCGLCREIAP 17
>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 = 2.5
Identities = 12/52 (23%), Positives = 20/52 (38%)
Query: 453 KCIGCTLCIQSCPVDAIIGAAKHMHTIFSKLCTGCDLCIKKCPVNCISMIEV 504
C GC C++ CP + + + C+ C LC + C I +
Sbjct: 170 DCDGCGKCVEECPRGVLELEEGKVVVEDLEDCSLCKLCERACDAGAIRVGWD 221
>gnl|CDD|181779 PRK09326, PRK09326, F420H2 dehydrogenase subunit F; Provisional.
Length = 341
Score = 30.6 bits (69), Expect = 2.5
Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 11/60 (18%)
Query: 448 IIKENKCIGCTLCIQSCPVDAIIGAAK-----------HMHTIFSKLCTGCDLCIKKCPV 496
+I+ + C C C CP+ AI K + +C GC C + CPV
Sbjct: 8 VIEYDVCTACGACEAVCPIGAITVDKKAEIRDPNDLELYEKGAAPNVCEGCLTCSRICPV 67
>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 = 2.7
Identities = 7/15 (46%), Positives = 13/15 (86%)
Query: 139 LIGMRRRGYTPESIK 153
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 = 29.6 bits (67), Expect = 3.8
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 387 CTKCGYPGCRQYAEAIANKKANYNQCPTGGRKGIIKLAKYLNKPIIPLN 435
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 = 29.7 bits (67), Expect = 4.2
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 12/58 (20%)
Query: 514 WSQKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIK 571
W+ +D+ R+R+Y K + KK+ + K K + E +KRIK
Sbjct: 106 WAHHLSDEFRRRFY---KNWYKSKKKAFTK------YKKFAATKKA---EERTLKRIK 151
>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 = 29.5 bits (66), Expect = 4.4
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 10/55 (18%)
Query: 451 ENKCIGCTLCIQSCPVDAIIGAAKHMH-----TIFSKLCTGCDLCIKKCPVNCIS 500
N+C+GC C+ CP G ++ + TI T C C+ +C C++
Sbjct: 49 PNRCVGCGRCVAVCPA----GTSRLVDNSDGRTIVVVDRTKCQRCM-RCVAACLT 98
>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 = 29.4 bits (66), Expect = 4.5
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 451 ENKCIGCTLCIQSC 464
E CIGCT C+ +C
Sbjct: 45 ETACIGCTACMDAC 58
>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 = 29.5 bits (67), Expect = 4.7
Identities = 11/62 (17%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 521 DARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQKSLIEMAVKRIKELKNKENKK 580
+ ++ ++ L E +E K+KK + K R ++++ E K K +++
Sbjct: 331 ELKEELKELEEEL-KELEEELEKIKKLLKKLPKKARGQLPPEKREQLEKLLETKEKLSEE 389
Query: 581 IK 582
++
Sbjct: 390 LE 391
>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 = 27.3 bits (61), Expect = 5.3
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 3/22 (13%)
Query: 508 RTGWDAWSQKKA---DDARKRY 526
R WDAW+ K +DA K Y
Sbjct: 52 RAKWDAWNSLKGMSKEDAMKAY 73
>gnl|CDD|224906 COG1995, PdxA, Pyridoxal phosphate biosynthesis protein [Coenzyme
metabolism].
Length = 332
Score = 29.5 bits (67), Expect = 5.5
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 170 IEILEQALRDDLDIKAPRIMAV--LNP 194
+ IL++ LR I PRI AV LNP
Sbjct: 186 LRILDKDLRKKFGIAEPRI-AVAGLNP 211
>gnl|CDD|217937 pfam04166, PdxA, Pyridoxal phosphate biosynthetic protein PdxA. In
Escherichia coli the coenzyme pyridoxal 5'-phosphate is
synthesised de novo by a pathway that is thought to
involve the condensation of
4-(phosphohydroxy)-L-threonine and 1-deoxy-D-xylulose,
catalyzed by the enzymes PdxA and PdxJ, to form either
pyridoxine (vitamin B6) or pyridoxine 5'-phosphate.
Length = 299
Score = 29.2 bits (66), Expect = 5.7
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 170 IEILEQALRDDLDIKAPRI-MAVLNP 194
+ +L +ALR+ I PRI +A LNP
Sbjct: 162 LRLLHKALREKFGIAEPRIAVAGLNP 187
>gnl|CDD|183492 PRK12387, PRK12387, formate hydrogenlyase complex iron-sulfur
subunit; Provisional.
Length = 180
Score = 28.5 bits (64), Expect = 6.3
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 454 CIGCTLCIQSCPVDAI 469
CIGC C+ +CP +A+
Sbjct: 40 CIGCAACVNACPSNAL 55
>gnl|CDD|181301 PRK08222, PRK08222, hydrogenase 4 subunit H; Validated.
Length = 181
Score = 28.6 bits (64), Expect = 6.5
Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 453 KCIGCTLCIQSCPVDA------IIGAAKHMHTIFSKLCTGCDLCIKKCPVNCI 499
+CI C C +CP +A ++ ++ C C C + CP I
Sbjct: 39 QCIACGACTCACPANALTIQTDDQQNSRTWQ-LYLGRCIYCGRCEEVCPTRAI 90
>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 = 6.7
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 413 PTGGR----KGIIKLAKYLNKPIIPLNTIY 438
P G R G+I LA+ PI+P+
Sbjct: 107 PRGPRYKVKPGVILLARKSGAPIVPVAIAA 136
>gnl|CDD|233812 TIGR02290, M3_fam_3, oligoendopeptidase, pepF/M3 family. The M3
family of metallopeptidases contains several distinct
clades. Oligoendopeptidase F as characterized in
Lactococcus, the functionally equivalent
oligoendopeptidase B of group B Streptococcus, and
closely related sequences are described by TIGR00181.
The present family is quite similar but forms a distinct
clade, and a number of species have one member of each.
A greater sequence difference separates members of
TIGR02289, probable oligoendopeptidases of the M3 family
that probably should not be designated PepF.
Length = 587
Score = 29.2 bits (66), Expect = 6.9
Identities = 9/56 (16%), Positives = 16/56 (28%)
Query: 73 EFQDHRPFYEWILNKIDKTNFIKRPFPKQYEFSRLNLTHTITSKRKLLKLLEKKIV 128
E Q F+ L ++ + R L L E+K++
Sbjct: 96 EIQQALLFFTLELMRLSDEVWAALLSDPDLAPYRFYLKELRKEAPHTLSEEEEKLI 151
>gnl|CDD|232783 TIGR00016, ackA, acetate kinase. Acetate kinase is involved in the
activation of acetate to acetyl CoA and in the secretion
of acetate. It catalyzes the reaction ATP + acetate =
ADP + acetyl phosphate. Some members of this family have
been shown to act on propionate as well as acetate. An
example of a propionate/acetate kinase is TdcD of E.
coli, an enzyme of an anaerobic pathway of threonine
catabolism. It is not known how many members of this
family act on additional substrates besides acetate
[Energy metabolism, Fermentation].
Length = 404
Score = 28.9 bits (65), Expect = 8.3
Identities = 17/37 (45%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 422 KLAKYLNKPIIPLNTI---YGNEKSRCCAIIKENKCI 455
+ AK LNKP+ LN I GN S C IK K I
Sbjct: 194 RAAKILNKPLDDLNLIVCHLGNGASVCA--IKNGKSI 228
>gnl|CDD|218270 pfam04795, PAPA-1, PAPA-1-like conserved region. Family of
proteins with a conserved region found in PAPA-1, a
PAP-1 binding protein.
Length = 89
Score = 26.9 bits (60), Expect = 8.6
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 515 SQKKADDARKRYYLRKKRLFHEKKENYAKLKKATIQFKKNNRETQK 560
K+A+ AR+R +KR EK E KL K + KK + +K
Sbjct: 3 QLKRAEAARRRKNQSEKRAEEEKMETINKLLKKQARRKKREDKIKK 48
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 0.138 0.428
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: 29,699,487
Number of extensions: 2908785
Number of successful extensions: 3618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3404
Number of HSP's successfully gapped: 264
Length of query: 582
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 480
Effective length of database: 6,413,494
Effective search space: 3078477120
Effective search space used: 3078477120
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: 62 (27.6 bits)