RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 010065
(519 letters)
>gnl|CDD|177899 PLN02257, PLN02257, phosphoribosylamine--glycine ligase.
Length = 434
Score = 868 bits (2244), Expect = 0.0
Identities = 361/434 (83%), Positives = 403/434 (92%)
Query: 86 LVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCRK 145
LVIGGGGREHALCYAL+RS SCDAVFCAPGNAGI+ SGDATC+PDLD+ D AVISFCRK
Sbjct: 1 LVIGGGGREHALCYALQRSPSCDAVFCAPGNAGIATSGDATCVPDLDISDSAAVISFCRK 60
Query: 146 WSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKY 205
W VGLVVVGPEAPLV+GLA+ LVKAGIPTFGPS+EAAALEGSKNFMK+LCDKY IPTAKY
Sbjct: 61 WGVGLVVVGPEAPLVAGLADDLVKAGIPTFGPSAEAAALEGSKNFMKDLCDKYKIPTAKY 120
Query: 206 KTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGC 265
+TFTDP AAK+YI+E+GAPIVVKADGLAAGKGV+VAMTLEEAYEAVDSML+K AFGSAG
Sbjct: 121 ETFTDPAAAKKYIKEQGAPIVVKADGLAAGKGVVVAMTLEEAYEAVDSMLVKGAFGSAGS 180
Query: 266 RVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKE 325
V++EEFL+GEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLT E
Sbjct: 181 EVVVEEFLDGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTPE 240
Query: 326 LQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLMV 385
L+S VME+II PTVKGM+AEGCKFVGVLYAGLMIEKKSGLPKL+EYNVRFGDPECQVLM+
Sbjct: 241 LESKVMETIIYPTVKGMAAEGCKFVGVLYAGLMIEKKSGLPKLLEYNVRFGDPECQVLMM 300
Query: 386 RLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQVA 445
RLESDLA+VLLAAC+GEL+GV+L WSP SAMVVVMAS GYPGSY+KG+ I+NL+EAE VA
Sbjct: 301 RLESDLAQVLLAACKGELSGVSLTWSPDSAMVVVMASNGYPGSYKKGTVIKNLDEAEAVA 360
Query: 446 PSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRDI 505
P VK+FHAGTALD+DGN +A GGRVLGVTAKGKD+ EA+ RAY AV++I+WPGGF+RRDI
Sbjct: 361 PGVKVFHAGTALDSDGNVVAAGGRVLGVTAKGKDIAEARARAYDAVDQIDWPGGFFRRDI 420
Query: 506 GWRALPQKQFATRE 519
GWRA+ + Q A +
Sbjct: 421 GWRAVARLQVANKR 434
>gnl|CDD|234856 PRK00885, PRK00885, phosphoribosylamine--glycine ligase;
Provisional.
Length = 420
Score = 720 bits (1862), Expect = 0.0
Identities = 259/426 (60%), Positives = 316/426 (74%), Gaps = 10/426 (2%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLVIG GGREHAL + L +S + V+ APGNAG + A + +DV D +A+++F +
Sbjct: 3 VLVIGSGGREHALAWKLAQSPLVEKVYVAPGNAGTAL--LAENVV-IDVTDIEALVAFAK 59
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+ + L VVGPEAPLV+G+ + AG+P FGP+ AA LEGSK F K+ +YGIPTA
Sbjct: 60 EEGIDLTVVGPEAPLVAGIVDAFRAAGLPIFGPTKAAAQLEGSKAFAKDFMARYGIPTAA 119
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+TFTD A Y+ E+GAPIVVKADGLAAGKGV+VAMTLEEA AVD ML N FG AG
Sbjct: 120 YETFTDAEEALAYLDEKGAPIVVKADGLAAGKGVVVAMTLEEAKAAVDDMLAGNKFGDAG 179
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
RV+IEEFL+GEEASFFA VDGEN +PL +AQDHKR GDGDTGPNTGGMGAYSPAPV+T+
Sbjct: 180 ARVVIEEFLDGEEASFFAFVDGENVLPLPTAQDHKRAGDGDTGPNTGGMGAYSPAPVVTE 239
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
E+ VME II PTVKGM+AEG + GVLYAGLMI K PK+IE+N RFGDPE QV++
Sbjct: 240 EVVERVMEEIIKPTVKGMAAEGIPYTGVLYAGLMITKDG--PKVIEFNARFGDPETQVVL 297
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
RL+SDL E+LLAA G+L V L W +A+ VV+A+KGYPG Y KG I LE A+
Sbjct: 298 PRLKSDLVELLLAAADGKLDEVELEWDDRAAVGVVLAAKGYPGDYRKGDVITGLEAAD-- 355
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
+ K+FHAGT L+ DG + GGRVL VTA G +EEAQ RAY A+++I++ GGFYRRD
Sbjct: 356 --ADKVFHAGTKLE-DGKLVTNGGRVLCVTALGDTLEEAQKRAYAALDKIDFDGGFYRRD 412
Query: 505 IGWRAL 510
IG+RAL
Sbjct: 413 IGYRAL 418
>gnl|CDD|223229 COG0151, PurD, Phosphoribosylamine-glycine ligase [Nucleotide
transport and metabolism].
Length = 428
Score = 638 bits (1648), Expect = 0.0
Identities = 250/431 (58%), Positives = 307/431 (71%), Gaps = 7/431 (1%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLVIG GGREHAL + L +S V+ APGN G + +A + D +A+++F +
Sbjct: 3 VLVIGSGGREHALAWKLAQSPLVLYVYVAPGNPGTA--LEAYLVNIEIDTDHEALVAFAK 60
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+ +V LVVVGPEAPLV+G+ + L AGIP FGP+ AA LEGSK F K+ KYGIPTA+
Sbjct: 61 EKNVDLVVVGPEAPLVAGVVDALRAAGIPVFGPTKAAAQLEGSKAFAKDFMKKYGIPTAE 120
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+ FTDP AK YI E+GAPIVVKADGLAAGKGVIVAMTLEEA AVD ML NAFGSAG
Sbjct: 121 YEVFTDPEEAKAYIDEKGAPIVVKADGLAAGKGVIVAMTLEEAEAAVDEMLEGNAFGSAG 180
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
RV+IEEFL+GEE S A VDG+ IP+ +AQDHKR DGDTGPNTGGMGAYSPAP +T
Sbjct: 181 ARVVIEEFLDGEEFSLQAFVDGKTVIPMPTAQDHKRAYDGDTGPNTGGMGAYSPAPFITD 240
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
E+ +E I+ PTV+GM+ EG F GVLYAGLM+ PK+IE+N RFGDPE QV++
Sbjct: 241 EVVERAVEEIVEPTVEGMAKEGYPFRGVLYAGLMLTADG--PKVIEFNARFGDPETQVVL 298
Query: 385 VRLESDLAEVLLAACRGELTGVT-LNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQ 443
LESDL E+LLAA G+L V L W G+A+ VV+A++GYPG EKG I EEAE
Sbjct: 299 PLLESDLVELLLAAVDGKLDEVEILFWDKGAAVGVVLAAEGYPGDPEKGDVITGDEEAE- 357
Query: 444 VAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRR 503
K+FHAG LD G + +GGRVL V G +EEAQ++AY A+E+I++ G FYR+
Sbjct: 358 -EEGAKVFHAGVKLDDGGQLVTSGGRVLAVVGTGDTLEEAQEKAYEALEKIHFDGLFYRK 416
Query: 504 DIGWRALPQKQ 514
DIG RAL +K+
Sbjct: 417 DIGSRALERKR 427
>gnl|CDD|233164 TIGR00877, purD, phosphoribosylamine--glycine ligase. Alternate
name: glycinamide ribonucleotide synthetase (GARS). This
enzyme appears as a monofunctional protein in
prokaryotes but as part of a larger, multidomain protein
in eukaryotes [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 422
Score = 565 bits (1458), Expect = 0.0
Identities = 239/426 (56%), Positives = 300/426 (70%), Gaps = 7/426 (1%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLVIG GGREHAL + L +S V+ APGNAG + + +++ D +A++ F +
Sbjct: 3 VLVIGNGGREHALAWKLAQSPLVKYVYVAPGNAGTARLAKNKNV-AIEITDIEALVEFAK 61
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
K + L ++GPEAPLV GL + L +AGIP FGP+ EAA LEGSK F K+ +YGIPTA+
Sbjct: 62 KKKIDLAIIGPEAPLVLGLVDALEEAGIPVFGPTKEAAQLEGSKAFAKDFMKRYGIPTAE 121
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+ FTDP AK YIQE+GAPIVVKADGLAAGKGVIVA T EEA +AV+ +L + FG AG
Sbjct: 122 YEVFTDPEEAKSYIQEKGAPIVVKADGLAAGKGVIVAKTNEEAIKAVEDILEQK-FGDAG 180
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
RV+IEEFL+GEE S A VDG+ IP+ AQDHKR +GD GPNTGGMGAYSPAPV T+
Sbjct: 181 ERVVIEEFLDGEEFSLLAFVDGKTVIPMPPAQDHKRALEGDKGPNTGGMGAYSPAPVFTE 240
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
E++ + E I+ PTVK M EG + GVLYAGLM+ K+ PK++E+N RFGDPE Q ++
Sbjct: 241 EVERRIAEEIVEPTVKAMRKEGTPYKGVLYAGLMLTKEG--PKVLEFNCRFGDPETQAVL 298
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
L+SDL EV LAA G+L V L + +A+ VV+AS+GYP Y KG I AE
Sbjct: 299 PLLKSDLLEVCLAAVEGKLDEVELRFDNRAAVTVVLASEGYPEDYRKGDPITGEPLAE-- 356
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
A VK+FHAGT D +G + GGRVL VTA GK +EEA++RAY AVE I + G FYR+D
Sbjct: 357 AEGVKVFHAGTKAD-NGKLVTNGGRVLAVTALGKTLEEARERAYEAVEYIKFEGMFYRKD 415
Query: 505 IGWRAL 510
IG+RAL
Sbjct: 416 IGFRAL 421
>gnl|CDD|184327 PRK13789, PRK13789, phosphoribosylamine--glycine ligase;
Provisional.
Length = 426
Score = 406 bits (1044), Expect = e-138
Identities = 202/427 (47%), Positives = 275/427 (64%), Gaps = 8/427 (1%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPD-LDVLDGDAVISFC 143
VL+IG GGRE A+ +AL++S+ + PGN G + D D +LD +V SF
Sbjct: 7 VLLIGSGGRESAIAFALRKSNLLSELKVFPGNGGFPD--DELLPADSFSILDKSSVQSFL 64
Query: 144 RKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTA 203
+ L+VVGPE PLV+G A+ + GIP FGP S A +EGSK+F K+L + IPTA
Sbjct: 65 KSNPFDLIVVGPEDPLVAGFADWAAELGIPCFGPDSYCAQVEGSKHFAKSLMKEAKIPTA 124
Query: 204 KYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSA 263
YKTFT+ +++ Y++ E PIV+KADGLAAGKGV VA + A A+ + FG +
Sbjct: 125 SYKTFTEYSSSLSYLESEMLPIVIKADGLAAGKGVTVATEKKMAKRALKEIFKDKKFGQS 184
Query: 264 GCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLT 323
G +V+IEEF+EG+EAS FA+ DG++ L +AQDHKR DGD GPNTGGMGAY PAPV+T
Sbjct: 185 GNQVVIEEFMEGQEASIFAISDGDSYFLLPAAQDHKRAFDGDQGPNTGGMGAYCPAPVIT 244
Query: 324 KELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVL 383
+ + V E I P +G + G+LYAGLMI + G PK++E+N RFGDPE Q +
Sbjct: 245 EAILQKVKERIFDPMFDDFRKKGHPYRGLLYAGLMISPE-GEPKVVEFNCRFGDPETQCV 303
Query: 384 MVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQ 443
+ L+ DL E+L AA G++ V L G+A VVV+A++GYP SYEK L E
Sbjct: 304 LAMLDGDLLELLYAASTGKIKVVNLKLKQGAAAVVVLAAQGYPDSYEKNIP---LNLPET 360
Query: 444 VAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRR 503
+V +FHAGT DG ++GGR+LG+ A+GKD++++ D+AY +E+I P FYR+
Sbjct: 361 SGQNVVLFHAGTKKK-DGKVFSSGGRILGIVAQGKDLKDSVDQAYSFLEKIQAPKTFYRK 419
Query: 504 DIGWRAL 510
DIG RAL
Sbjct: 420 DIGRRAL 426
>gnl|CDD|237507 PRK13790, PRK13790, phosphoribosylamine--glycine ligase;
Provisional.
Length = 379
Score = 351 bits (903), Expect = e-118
Identities = 165/385 (42%), Positives = 224/385 (58%), Gaps = 16/385 (4%)
Query: 130 DLDVLDGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKN 189
++ D A++ F ++ +V VV+GPE PL+ GLA+ L G FGP+ +AA +EGSK
Sbjct: 10 EISESDHQAILDFAKQQNVDWVVIGPEQPLIDGLADILRANGFKVFGPNKQAAQIEGSKL 69
Query: 190 FMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYE 249
F K + +KY IPTA YK A YI+ P+VVK DGLAAGKGVI+A T+E A
Sbjct: 70 FAKKIMEKYNIPTADYKEVERKKDALTYIENCELPVVVKKDGLAAGKGVIIADTIEAARS 129
Query: 250 AVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLES-AQDHKRVGDGDTGP 308
A++ M G V+ E FLEGEE S V+G+ A+P + AQDHKR D D GP
Sbjct: 130 AIEIMYGDEEEG----TVVFETFLEGEEFSLMTFVNGDLAVPFDCIAQDHKRAFDHDEGP 185
Query: 309 NTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKL 368
NTGGMGAY P P ++ ++ + E+I P K M EG +F GVLY G ++ K PK+
Sbjct: 186 NTGGMGAYCPVPHISDDVLKLTNETIAQPIAKAMLNEGYQFFGVLYIGAILTKDG--PKV 243
Query: 369 IEYNVRFGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGS 428
IE+N RFGDPE QVL+ R+ESDL + ++ G+ W S + V++ASKGYP +
Sbjct: 244 IEFNARFGDPEAQVLLSRMESDLMQHIIDLDEGK--RTEFKWKNESIVGVMLASKGYPDA 301
Query: 429 YEKGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAY 488
YEKG ++ + E F +G D F+ +GGRV+ KG +V++AQ AY
Sbjct: 302 YEKGHKVSGFDLNENY------FVSGLKKQGD-TFVTSGGRVILAIGKGDNVQDAQRDAY 354
Query: 489 LAVEEINWPGGFYRRDIGWRALPQK 513
V +I FYR DI +AL K
Sbjct: 355 EKVSQIQSDHLFYRHDIANKALQLK 379
>gnl|CDD|216282 pfam01071, GARS_A, Phosphoribosylglycinamide synthetase, ATP-grasp
(A) domain. Phosphoribosylglycinamide synthetase
catalyzes the second step in the de novo biosynthesis of
purine. The reaction catalyzed by
Phosphoribosylglycinamide synthetase is the ATP-
dependent addition of 5-phosphoribosylamine to glycine
to form 5'phosphoribosylglycinamide. This domain is
related to the ATP-grasp domain of biotin
carboxylase/carbamoyl phosphate synthetase (see
pfam02786).
Length = 193
Score = 326 bits (838), Expect = e-110
Identities = 124/195 (63%), Positives = 147/195 (75%), Gaps = 2/195 (1%)
Query: 186 GSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLE 245
GSK+F K+ ++GIPTA+Y+TFTDP AK YI+E G P VVKADGLAAGKGVIVAM E
Sbjct: 1 GSKSFAKDFMKRHGIPTAEYETFTDPEEAKSYIREAGFPAVVKADGLAAGKGVIVAMDNE 60
Query: 246 EAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGD 305
EA +AVD +L + FG AG V+IEEFLEGEE S A VDG+ PL AQDHKR+G+GD
Sbjct: 61 EAIKAVDEILEQKKFGEAGEPVVIEEFLEGEEVSVLAFVDGKTVKPLPPAQDHKRLGEGD 120
Query: 306 TGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGL 365
TGPNTGGMGAYSPAPVLT EL + E+I+ PTV G+ EG + GVLYAGLM+ K
Sbjct: 121 TGPNTGGMGAYSPAPVLTPELLERIKETIVEPTVDGLRKEGIPYKGVLYAGLMLTKDG-- 178
Query: 366 PKLIEYNVRFGDPEC 380
PK++E+N RFGDPE
Sbjct: 179 PKVLEFNCRFGDPET 193
>gnl|CDD|180256 PRK05784, PRK05784, phosphoribosylamine--glycine ligase;
Provisional.
Length = 486
Score = 219 bits (561), Expect = 1e-65
Identities = 143/447 (31%), Positives = 220/447 (49%), Gaps = 32/447 (7%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPG--NAGISNSGDATC--IPDLDVLDGDAVI 140
VL++G G REHAL AL++S V+ N GI++ AT ++ + V
Sbjct: 3 VLLVGDGAREHALAEALEKSTKGYKVYALSSYLNPGINSVVKATGGEYFIGNINSPEEVK 62
Query: 141 SFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGI 200
++ + LVV+GPE PL +G+A+ L + G P FG SS+ A +E SK + + L KY I
Sbjct: 63 KVAKEVNPDLVVIGPEEPLFAGVADVLREEGFPVFGASSKCARIEKSKVWARELMWKYSI 122
Query: 201 P-TAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAY--EAVDSMLLK 257
P +YK F D A ++I E G + +K A GKGV V L +AY + L K
Sbjct: 123 PGRLRYKVFYDVEEAAKFI-EYGGSVAIKPARQAGGKGVKVIADL-QAYLSQEKREALTK 180
Query: 258 NA---------FGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGP 308
+ + ++++EE ++G E + L DGE IPL AQD+ + GP
Sbjct: 181 SVNDIKEGSAYYKDVEPKILVEEKVDGVEYTLQVLTDGETVIPLPLAQDYPHAYEDGIGP 240
Query: 309 NTGGMGAYSPA----PVLTKELQSVVMESIILPTVKGMSAEGC-KFVGVLYAGLMIEKKS 363
TGGMG+ S P + +E +E I+ T+ + E ++VGV+ +M+ +
Sbjct: 241 ETGGMGSISGPGELLPFINEEEYEEAVE-IVKRTIDAIYKETGERYVGVISGQMMLTELW 299
Query: 364 GLPKLIEYNVRFGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASK 423
G P +IEY RFGDPE ++ R+ESD E+ A G+L+ + ++ ++V +A
Sbjct: 300 G-PTVIEYYSRFGDPEASNIIPRIESDFGELFELAATGKLSKAKIKFNEEPSVVKAIAPL 358
Query: 424 GYPGSYE--KGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVE 481
GYP S + G I ++ + +F L G I G R L + A GKD E
Sbjct: 359 GYPLSRDLASGRRI-VVDLDKIKEEGCLVFFGSVEL-EGGQLITKGSRALEIVAIGKDFE 416
Query: 482 EAQDRAYLAVEEI--NWPGGFYRRDIG 506
EA ++ + + + YR DIG
Sbjct: 417 EAYEKLERCISYVSSDT-KLIYRTDIG 442
>gnl|CDD|102357 PRK06395, PRK06395, phosphoribosylamine--glycine ligase;
Provisional.
Length = 435
Score = 188 bits (479), Expect = 3e-54
Identities = 137/444 (30%), Positives = 215/444 (48%), Gaps = 36/444 (8%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
V+++G GGRE A+ A+KRS + +F G+ S + D D D + F
Sbjct: 5 VMLVGSGGREDAIARAIKRSGA--ILFSVIGHENPSIKKLSKKYLFYDEKDYDLIEDFAL 62
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIP--T 202
K +V +V VGP+ L + L N L+K GI P+ EAA +E SK FM+ L +++ IP
Sbjct: 63 KNNVDIVFVGPDPVLATPLVNNLLKRGIKVASPTMEAAMIETSKMFMRYLMERHNIPGNI 122
Query: 203 AKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVA----MTLEEAYEAVDSMLLKN 258
F++ +AA+ YI + VK GL GKGV V +++EA +L ++
Sbjct: 123 NFNACFSEKDAARDYI-TSMKDVAVKPIGLTGGKGVKVTGEQLNSVDEAIRYAIEILDRD 181
Query: 259 AFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSP 318
V+IE+ + GEE S A DG++ + QD+KR +GD GPNTGGMG+ S
Sbjct: 182 G------VVLIEKKMTGEEFSLQAFSDGKHLSFMPIVQDYKRAYEGDHGPNTGGMGSISD 235
Query: 319 A----PVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVR 374
P L+K+ + I+ ++ M E F G++Y M + +G+ K+IE N R
Sbjct: 236 RDFSLPFLSKDAPERA-KHILNDIIRAMKDENNPFKGIMYGQFM-DTPNGV-KVIEINAR 292
Query: 375 FGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSE 434
F DPE ++ L+SD E L G L G + + ++ GY + G
Sbjct: 293 FADPEGINVLYLLKSDFVETLHQIYSGNLNGSIKFERKATVLKYIVPP-GYGENPSPG-R 350
Query: 435 IQNLEEAEQVAPSVKIFHA---GTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAV 491
I+ + + +++A GT D +G R L + AKG + EA ++ +
Sbjct: 351 IKIDKTIFDS--NSDVYYASVSGTLNDVK----TSGSRSLAIIAKGDSIPEASEKVDSDL 404
Query: 492 EEINWPGGFY-RRDIGWRALPQKQ 514
++ G +Y RRDIG +K+
Sbjct: 405 NAVH--GSYYVRRDIGDSDFIRKK 426
>gnl|CDD|217251 pfam02844, GARS_N, Phosphoribosylglycinamide synthetase, N domain.
Phosphoribosylglycinamide synthetase catalyzes the
second step in the de novo biosynthesis of purine. The
reaction catalyzed by Phosphoribosylglycinamide
synthetase is the ATP- dependent addition of
5-phosphoribosylamine to glycine to form
5'phosphoribosylglycinamide. This domain is related to
the N-terminal domain of biotin carboxylase/carbamoyl
phosphate synthetase (see pfam00289).
Length = 101
Score = 152 bits (386), Expect = 1e-44
Identities = 49/101 (48%), Positives = 66/101 (65%), Gaps = 2/101 (1%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLV+G GGREHAL + L +S + V+ APGN G + A + +D D +A+ F +
Sbjct: 3 VLVVGSGGREHALAWKLAQSPRVEKVYVAPGNPGTAQ--LAKNVNVIDETDFEALADFAK 60
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALE 185
+ ++ LVVVGPEAPLV+G+ + L AGIP FGPS AA LE
Sbjct: 61 EENIDLVVVGPEAPLVAGIVDALRAAGIPVFGPSKAAARLE 101
>gnl|CDD|217250 pfam02843, GARS_C, Phosphoribosylglycinamide synthetase, C domain.
Phosphoribosylglycinamide synthetase catalyzes the
second step in the de novo biosynthesis of purine. The
reaction catalyzed by Phosphoribosylglycinamide
synthetase is the ATP- dependent addition of
5-phosphoribosylamine to glycine to form
5'phosphoribosylglycinamide. This domain is related to
the C-terminal domain of biotin carboxylase/carbamoyl
phosphate synthetase (see pfam02787).
Length = 92
Score = 137 bits (347), Expect = 3e-39
Identities = 54/97 (55%), Positives = 70/97 (72%), Gaps = 5/97 (5%)
Query: 414 SAMVVVMASKGYPGSYEKGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGV 473
+A+ VV+ASKGYP SYEKG EI LEE V +FHAGT L+ DG + GGRVL V
Sbjct: 1 AAVGVVLASKGYPESYEKGIEITGLEED----EGVLVFHAGTKLE-DGKLVTNGGRVLAV 55
Query: 474 TAKGKDVEEAQDRAYLAVEEINWPGGFYRRDIGWRAL 510
A G +EEA+++AY A+E+I++PG FYR+DIG +AL
Sbjct: 56 VALGDTLEEAREKAYEALEKIDFPGLFYRKDIGTKAL 92
>gnl|CDD|223516 COG0439, AccC, Biotin carboxylase [Lipid metabolism].
Length = 449
Score = 77.3 bits (191), Expect = 4e-15
Identities = 47/163 (28%), Positives = 70/163 (42%), Gaps = 13/163 (7%)
Query: 125 ATCIPDLDV----LDGDAVISFCRKWSVGLVVVGPE-APLVSGLANKLVKAGIPTF-GPS 178
A CI L+ DA+I+ + + G + A +AG+ TF GPS
Sbjct: 48 AVCIGPAPSADSYLNIDAIIAAAEETGADAIHPGYGFLSENAAFAEACAEAGL-TFIGPS 106
Query: 179 SEAAALEGSKNFMKNLCDKYGIPTAKYK--TFTDPNAAKQYIQEEGAPIVVKADGLAAGK 236
+EA G K + L K G+P D A +E G P++VKA G+
Sbjct: 107 AEAIRRMGDKITARRLMAKAGVPVVPGSDGAVADNEEALAIAEEIGYPVIVKAAAGGGGR 166
Query: 237 GVIVAMTLEEAYEAVDSML--LKNAFGSAGCRVIIEEFLEGEE 277
G+ V EE A ++ + AFG+ RV +E+F+EG
Sbjct: 167 GMRVVRNEEELEAAFEAARGEAEAAFGNP--RVYLEKFIEGPR 207
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 71.5 bits (176), Expect = 2e-14
Identities = 40/192 (20%), Positives = 67/192 (34%), Gaps = 20/192 (10%)
Query: 188 KNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEA 247
K M+ L G+P + D +E G P+V+K A GV + E
Sbjct: 5 KALMRELLRAAGLPVPPFFLVDDEEDLDAAAEEIGFPVVLKPRDGAGSLGVFRVDSAAEL 64
Query: 248 YEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTG 307
A+ + A ++EE+++G+E LVD + L ++
Sbjct: 65 EAALAA---LAAEVEDTREYLVEEYIDGDEYHVDGLVDDGELVFLGVSR--YLGPPPPDF 119
Query: 308 PNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIE---KKSG 364
+G+ SP L + E ++ K +G+ +E G
Sbjct: 120 SEGVELGSVSP---GEDPLPEALRE---------LAERVLKALGLRNGVFHLEFFLTPDG 167
Query: 365 LPKLIEYNVRFG 376
P L+E N R G
Sbjct: 168 RPVLLEINPRPG 179
>gnl|CDD|236325 PRK08654, PRK08654, pyruvate carboxylase subunit A; Validated.
Length = 499
Score = 56.1 bits (136), Expect = 2e-08
Identities = 40/117 (34%), Positives = 59/117 (50%), Gaps = 6/117 (5%)
Query: 162 GLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQ 219
A KAGI GPSS+ GSK K L K G+P + D AK+ +
Sbjct: 90 EFAKACEKAGIVFIGPSSDVIEAMGSKINAKKLMKKAGVPVLPGTEEGIEDIEEAKEIAE 149
Query: 220 EEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSM--LLKNAFGSAGCRVIIEEFLE 274
E G P+++KA G G+ V + EE +A++S + ++AFG + V IE++LE
Sbjct: 150 EIGYPVIIKASAGGGGIGMRVVYSEEELEDAIESTQSIAQSAFGDS--TVFIEKYLE 204
>gnl|CDD|237195 PRK12767, PRK12767, carbamoyl phosphate synthase-like protein;
Provisional.
Length = 326
Score = 55.3 bits (134), Expect = 2e-08
Identities = 48/209 (22%), Positives = 81/209 (38%), Gaps = 19/209 (9%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCA---PGNAGISNSGDATCIPDLDVLD-GDAVI 140
+LV G R L ALK+S V A + + +P + + D ++
Sbjct: 4 ILVTSAGRR-VQLVKALKKSLLKGRVIGADISELAPALYFADKFYVVPKVTDPNYIDRLL 62
Query: 141 SFCRKWSVGLVVVG--PEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKY 198
C+K + L++ PE PL++ ++ + G+ S E + K +
Sbjct: 63 DICKKEKIDLLIPLIDPELPLLAQNRDRFEEIGVKVLVSSKEVIEICNDKWLTYEFLKEN 122
Query: 199 GIPTAKYKTFTDPNAAKQYIQEE--GAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLL 256
GIPT K K + + P+ VK +A GV EE ++ +L
Sbjct: 123 GIPTPKSYLPESLEDFKAALAKGELQFPLFVKPRDGSASIGVFKVNDKEE----LEFLLE 178
Query: 257 KNAFGSAGCRVIIEEFLEGEEASFFALVD 285
+II+EF+EG+E + L D
Sbjct: 179 YVPN------LIIQEFIEGQEYTVDVLCD 201
>gnl|CDD|233310 TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine ligase. This
model describes D-Ala--D-Ala ligase, an enzyme that
makes a required precursor of the bacterial cell wall.
It also describes some closely related proteins
responsible for resistance to glycopeptide antibiotics
such as vancomycin. The mechanism of glyopeptide
antibiotic resistance involves the production of
D-alanine-D-lactate (VanA and VanB families) or
D-alanine-D-serine (VanC). The seed alignment contains
only chromosomally encoded D-ala--D-ala ligases, but a
number of antibiotic resistance proteins score above the
trusted cutoff of this model [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan].
Length = 315
Score = 53.4 bits (129), Expect = 8e-08
Identities = 34/114 (29%), Positives = 49/114 (42%), Gaps = 12/114 (10%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAA------KQYIQEEGA 223
GIP G A+AL K K L G+PT Y T A+ +Q + G
Sbjct: 88 MGIPYTGSGVLASALSMDKLLTKLLWKALGLPTPDYIVLTQNRASADELECEQVAEPLGF 147
Query: 224 PIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
P++VK + GV + EE A+D AF V++E+F++G E
Sbjct: 148 PVIVKPAREGSSVGVSKVKSEEELQAALD-----EAFEYDE-EVLVEQFIKGRE 195
>gnl|CDD|219843 pfam08442, ATP-grasp_2, ATP-grasp domain.
Length = 202
Score = 51.9 bits (125), Expect = 1e-07
Identities = 34/105 (32%), Positives = 52/105 (49%), Gaps = 12/105 (11%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAP-IVVKADGLAAGK----GVIVAMTLEE 246
K L KYG+P + + P A++ ++ G VVKA LA G+ GV +A + EE
Sbjct: 8 KELLAKYGVPVPRGEVAFSPEEAEEAAKKLGGKVWVVKAQVLAGGRGKAGGVKLAKSPEE 67
Query: 247 AYEAVDSMLLKN----AFGSAGC---RVIIEEFLEGEEASFFALV 284
A EA ML KN G G +V++EE ++ + ++V
Sbjct: 68 AKEAAKEMLGKNLVTKQTGPEGKPVNKVLVEEAVDIAREYYLSIV 112
>gnl|CDD|223123 COG0045, SucC, Succinyl-CoA synthetase, beta subunit [Energy
production and conversion].
Length = 387
Score = 52.6 bits (127), Expect = 2e-07
Identities = 36/112 (32%), Positives = 57/112 (50%), Gaps = 11/112 (9%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGA-PIVVKADGLAAGKG----VIVAMTLEE 246
K L KYGIP T P A++ +E G P+VVKA A G+G V +A + EE
Sbjct: 9 KELFAKYGIPVPPGYVATSPEEAEEAAKELGGGPVVVKAQVHAGGRGKAGGVKLAKSPEE 68
Query: 247 AYEAVDSMLLKNAF-GSAGC---RVIIEEFLEGEEASFF--ALVDGENAIPL 292
A EA + +L KN G +V++EE ++ + ++ ++D + P+
Sbjct: 69 AKEAAEEILGKNYQTDIKGEPVNKVLVEEAVDIIKKEYYLSIVLDRSSRRPV 120
>gnl|CDD|233379 TIGR01369, CPSaseII_lrg, carbamoyl-phosphate synthase, large
subunit. Carbamoyl-phosphate synthase (CPSase)
catalyzes the first committed step in pyrimidine,
arginine, and urea biosynthesis. In general, it is a
glutamine-dependent enzyme, EC 6.3.5.5, termed CPSase II
in eukaryotes. An exception is the mammalian
mitochondrial urea-cycle form, CPSase I, in which the
glutamine amidotransferase domain active site Cys on the
small subunit has been lost, and the enzyme is
ammonia-dependent. In both CPSase I and the closely
related, glutamine-dependent CPSase III (allosterically
activated by acetyl-glutamate) demonstrated in some
other vertebrates, the small and large chain regions are
fused in a single polypeptide chain. This model
represents the large chain of glutamine-hydrolysing
carbamoyl-phosphate synthases, or the corresponding
regions of larger, multifunctional proteins, as found in
all domains of life, and CPSase I forms are considered
exceptions within the family. In several thermophilic
species (Methanobacterium thermoautotrophicum,
Methanococcus jannaschii, Aquifex aeolicus), the large
subunit appears split, at different points, into two
separate genes [Purines, pyrimidines, nucleosides, and
nucleotides, Pyrimidine ribonucleotide biosynthesis].
Length = 1050
Score = 52.7 bits (127), Expect = 4e-07
Identities = 65/239 (27%), Positives = 101/239 (42%), Gaps = 43/239 (17%)
Query: 149 GLVV-VGPEAPLVSGLANKLVKAGIPTFGPSSEAA-ALEGSKNFMKNLCDKYGIPTAKYK 206
G++V G + PL LA L +AG+P G S E+ E + F + L D+ GIP K+K
Sbjct: 632 GVIVQFGGQTPL--NLAKALEEAGVPILGTSPESIDRAEDREKFSE-LLDELGIPQPKWK 688
Query: 207 TFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFG-SAGC 265
T T A ++ E G P++V+ + G+ + + EE L+ A S
Sbjct: 689 TATSVEEAVEFASEIGYPVLVRPSYVLGGRAMEIVYNEEELRR-----YLEEAVEVSPEH 743
Query: 266 RVIIEEFLE-GEEASFFALVDGENA-IP-----LESAQDHKRVGDGDTGPNTGGMGAYSP 318
V+I+++LE E A+ DGE IP +E A G ++G P
Sbjct: 744 PVLIDKYLEDAVEVDVDAVSDGEEVLIPGIMEHIEEA-----------GVHSGDSTCVLP 792
Query: 319 APVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLM---IEKKSGLPKLIEYNVR 374
L+ E+ ++ I+ K ++ GLM K G +IE N R
Sbjct: 793 PQTLSAEIVD-RIKDIVRKIAKELN----------VKGLMNIQFAVKDGEVYVIEVNPR 840
Score = 28.8 bits (65), Expect = 9.6
Identities = 25/110 (22%), Positives = 42/110 (38%), Gaps = 6/110 (5%)
Query: 167 LVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIV 226
L K G+ G EA + + + G P + + A +E G P++
Sbjct: 107 LEKYGVEVLGTPVEAIKKAEDRELFREAMKEIGEPVPESEIAHSVEEALAAAKEIGYPVI 166
Query: 227 VKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFG-SAGCRVIIEEFLEG 275
V+ G G +A EE E + + A S +V++E+ L G
Sbjct: 167 VRPAFTLGGTGGGIAYNREELKE-----IAERALSASPINQVLVEKSLAG 211
>gnl|CDD|234993 PRK01966, ddl, D-alanyl-alanine synthetase A; Reviewed.
Length = 333
Score = 51.7 bits (125), Expect = 4e-07
Identities = 34/115 (29%), Positives = 47/115 (40%), Gaps = 16/115 (13%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEE----GAPI 225
GIP G A+AL K K L GIP A Y T + + + E G P+
Sbjct: 106 LGIPYVGCGVLASALSMDKILTKRLLAAAGIPVAPYVVLTRGDWEEASLAEIEAKLGLPV 165
Query: 226 VVKADGLA-AGK--GVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
VK A G G+ EE A+D AF +V++E+ ++G E
Sbjct: 166 FVKP---ANLGSSVGISKVKNEEELAAALD-----LAFEYDR-KVLVEQGIKGRE 211
>gnl|CDD|130302 TIGR01235, pyruv_carbox, pyruvate carboxylase. This enzyme plays a
role in gluconeogensis but not glycolysis [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 1143
Score = 51.4 bits (123), Expect = 1e-06
Identities = 35/152 (23%), Positives = 55/152 (36%), Gaps = 19/152 (12%)
Query: 134 LDGDAVISFCRKWSV-------GLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEG 186
L D +I + V G + E A+ KAGI GP +E G
Sbjct: 61 LSIDEIIRVAKLNGVDAIHPGYGFLSENSE------FADACNKAGIIFIGPKAEVMDQLG 114
Query: 187 SKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTL 244
K +NL K G+P + G P+++KA G+G+ V +
Sbjct: 115 DKVAARNLAIKAGVPVVPGTDGPPETMEEVLDFAAAIGYPVIIKASWGGGGRGMRVVRSE 174
Query: 245 EEAYEAVD--SMLLKNAFGSAGCRVIIEEFLE 274
+ +A K AFG+ +E+ +E
Sbjct: 175 ADVADAFQRAKSEAKAAFGNDEV--YVEKLIE 204
>gnl|CDD|233234 TIGR01016, sucCoAbeta, succinyl-CoA synthetase, beta subunit. This
model is designated subfamily because it does not
discriminate the ADP-forming enzyme ((EC 6.2.1.5) from
the GDP_forming (EC 6.2.1.4) enzyme. The N-terminal half
is described by the CoA-ligases model (pfam00549). The
C-terminal half is described by the ATP-grasp model
(pfam02222). This family contains a split seen both in a
maximum parsimony tree (which ignores gaps) and in the
gap pattern near position 85 of the seed alignment.
Eukaryotic and most bacterial sequences are longer and
contain a region similar to TXQTXXXG. Sequences from
Deinococcus radiodurans, Mycobacterium tuberculosis,
Streptomyces coelicolor, and the Archaea are 6 amino
acids shorter in that region and contain a motif
resembling [KR]G [Energy metabolism, TCA cycle].
Length = 386
Score = 50.5 bits (121), Expect = 1e-06
Identities = 31/105 (29%), Positives = 50/105 (47%), Gaps = 12/105 (11%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGA-PIVVKADGLAAGK----GVIVAMTLEE 246
K + KYGIP + T A++ + GA P+VVKA A G+ GV VA + EE
Sbjct: 9 KQIFAKYGIPVPRGYVATSVEEAEEIAAKLGAGPVVVKAQVHAGGRGKAGGVKVAKSKEE 68
Query: 247 AYEAVDSML---LKNAFGSAGC----RVIIEEFLEGEEASFFALV 284
A A + +L L +++IEE + ++ + ++V
Sbjct: 69 ARAAAEKLLGKELVTNQTDPLGQPVNKILIEEATDIDKEYYLSIV 113
>gnl|CDD|233121 TIGR00768, rimK_fam, alpha-L-glutamate ligases, RimK family. This
family, related to bacterial glutathione synthetases,
contains at least two different alpha-L-glutamate
ligases. One is RimK, as in E. coli, which adds
additional Glu residues to the native Glu-Glu C-terminus
of ribosomal protein S6, but not to Lys-Glu mutants.
Most species with a member of this subfamily lack an S6
homolog ending in Glu-Glu, however. Members in
Methanococcus jannaschii act instead as a
tetrahydromethanopterin:alpha-l-glutamate ligase
(MJ0620) and a gamma-F420-2:alpha-l-glutamate ligase
(MJ1001).
Length = 277
Score = 49.7 bits (119), Expect = 1e-06
Identities = 49/236 (20%), Positives = 89/236 (37%), Gaps = 28/236 (11%)
Query: 163 LANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEG 222
+A L G+P S +A G K L K G+P + P A + I+E G
Sbjct: 65 VARYLESLGVPVINSS-DAILNAGDKFLTSQLLAKAGLPQPRTGLAGSPEEALKLIEEIG 123
Query: 223 APIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL-EGEEASFF 281
P+V+K + G+ V +A + A + ++E++ +
Sbjct: 124 FPVVLKPVFGSWGRLVSLA---RDKQAAETLLEHFEQLNGPQNLFYVQEYIKKPGGRDIR 180
Query: 282 ALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKG 341
V G+ I A + R+ G N G P P LT+E ++
Sbjct: 181 VFVVGDEVI----AAIY-RITSGHWRTNLARGGKAEPCP-LTEE-------------IEE 221
Query: 342 MSAEGCKFVGVLYAGL-MIEKKSGLPKLIEYNVRFGDPECQVLMVRLESDLAEVLL 396
++ + K +G+ G+ ++E + + E N +PE + + ++A LL
Sbjct: 222 LAIKAAKALGLDVVGIDLLESEDRGLLVNEVN---PNPEFKNSVKTTGVNIAGKLL 274
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 50.4 bits (121), Expect = 1e-06
Identities = 47/151 (31%), Positives = 66/151 (43%), Gaps = 17/151 (11%)
Query: 134 LDGDAVISFCRKWSVGLVVVGP------EAPLVSGLANKLVKAGIPTFGPSSEAAALEGS 187
LD D +I R+ G + P E A + AG+ GPS+ A G
Sbjct: 61 LDIDKIIDAARR--TGAQAIHPGYGFLSENA---DFAQAVEDAGLVFIGPSAGAIRAMGD 115
Query: 188 KNFMKNLCDKYGIPTAK-YK-TFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLE 245
K K L + G+PT Y D +E G P+++KA GKG+ V T E
Sbjct: 116 KIAAKKLAAEAGVPTVPGYHGPIQDAAELVAIAEEIGYPVLIKASAGGGGKGMRVVETPE 175
Query: 246 EAYEAVDSMLL--KNAFGSAGCRVIIEEFLE 274
E EA++S K +FG RV IE++L+
Sbjct: 176 EFAEALESARREAKASFGDD--RVFIEKYLD 204
>gnl|CDD|224102 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp
enzymes [Cell envelope biogenesis, outer membrane].
Length = 317
Score = 49.6 bits (119), Expect = 2e-06
Identities = 24/112 (21%), Positives = 39/112 (34%), Gaps = 10/112 (8%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAA----KQYIQEEGAPI 225
GIP G A+A K K L G+P A Y T + ++ + G P+
Sbjct: 86 LGIPYVGKGVLASAGAMDKIVTKRLFKAEGLPVAPYVALTRDEYSSVIVEEVEEGLGFPL 145
Query: 226 VVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
VK + G + A++ + V+ E+ + G E
Sbjct: 146 FVKPAREGSSVGRSPVNVEGDLQSALELAFKYDR------DVLREQGITGRE 191
>gnl|CDD|233295 TIGR01161, purK, phosphoribosylaminoimidazole carboxylase, PurK
protein. Phosphoribosylaminoimidazole carboxylase is a
fusion protein in plants and fungi, but consists of two
non-interacting proteins in bacteria, PurK and PurE.
This model represents PurK, N5-carboxyaminoimidazole
ribonucleotide synthetase, which hydrolyzes ATP and
converts AIR to N5-CAIR. PurE converts N5-CAIR to CAIR.
In the presence of high concentrations of bicarbonate,
PurE is reported able to convert AIR to CAIR directly
and without ATP [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 352
Score = 49.3 bits (118), Expect = 3e-06
Identities = 29/108 (26%), Positives = 42/108 (38%), Gaps = 10/108 (9%)
Query: 166 KLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPI 225
KL G+ F PS +A A+ + K K G+P + D +QE G P+
Sbjct: 78 KLEARGVKLF-PSPDALAIIQDRLTQKQFLQKLGLPVPPFLVIKDEEELDAALQELGFPV 136
Query: 226 VVKADGLA-AGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEF 272
V+KA G+G + +A G C I+EEF
Sbjct: 137 VLKARTGGYDGRGQYRIRNEADLPQAAK------ELGDREC--IVEEF 176
>gnl|CDD|237263 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
Length = 1146
Score = 49.8 bits (120), Expect = 3e-06
Identities = 38/118 (32%), Positives = 58/118 (49%), Gaps = 10/118 (8%)
Query: 163 LANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQ 219
A +AGI TF GP++E L G K +N K G+P D A ++ +
Sbjct: 95 FARACAEAGI-TFIGPTAEVLRLLGDKVAARNAAIKAGVPVIPGSEGPIDDIEEALEFAE 153
Query: 220 EEGAPIVVKADGLAAGKGVIVAMT---LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
E G PI++KA G+G+ + + LEEA+E K AFG+ V +E+++E
Sbjct: 154 EIGYPIMLKASAGGGGRGMRIVRSEEELEEAFERAKRE-AKAAFGND--EVYLEKYVE 208
>gnl|CDD|223105 COG0026, PurK, Phosphoribosylaminoimidazole carboxylase (NCAIR
synthetase) [Nucleotide transport and metabolism].
Length = 375
Score = 48.4 bits (116), Expect = 5e-06
Identities = 22/107 (20%), Positives = 35/107 (32%), Gaps = 18/107 (16%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
PS +A + + K DK G+P A ++ + G P V+K D
Sbjct: 89 PSPDALRIAQDRLVEKQFLDKAGLPVAPFQVVDSAEELDAAAADLGFPAVLKTRRGGYD- 147
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEF--LEGE 276
GKG + + + ++EEF E E
Sbjct: 148 ---GKGQWRIRSDADLELRAAGLAEGGVP-------VLEEFVPFERE 184
>gnl|CDD|235674 PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase
subunit; Reviewed.
Length = 372
Score = 48.2 bits (116), Expect = 6e-06
Identities = 30/107 (28%), Positives = 41/107 (38%), Gaps = 19/107 (17%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
P +A A+ + K DK GIP A + + + + G P V+K D
Sbjct: 90 PGPDALAIAQDRLTEKQFLDKLGIPVAPFAVVDSAEDLEAALADLGLPAVLKTRRGGYD- 148
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEF--LEGE 276
GKG V + E+ A GS C I+EEF E E
Sbjct: 149 ---GKGQWVIRSAEDLEAAWA------LLGSVPC--ILEEFVPFERE 184
>gnl|CDD|237215 PRK12815, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1068
Score = 48.4 bits (116), Expect = 7e-06
Identities = 47/183 (25%), Positives = 75/183 (40%), Gaps = 39/183 (21%)
Query: 160 VSGLANKLVKAGIPTFGPSSEAA-ALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYI 218
LA L +AG+ G S + LE F L D+ G+P T TD A +
Sbjct: 643 AINLAKGLEEAGLTILGTSPDTIDRLEDRDRF-YQLLDELGLPHVPGLTATDEEEAFAFA 701
Query: 219 QEEGAPIVVKADGLAAGKGVIV-----AMT--LEEAYEAVDSMLLKNAFGSAGCRVIIEE 271
+ G P++++ + G+G+ V A+ L E + +L I++
Sbjct: 702 KRIGYPVLIRPSYVIGGQGMAVVYDEPALEAYLAENASQLYPIL-------------IDQ 748
Query: 272 FLEGEEASFFALVDGENA-IP-----LESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKE 325
F++G+E A+ DGE+ IP +E A H GD+ A P L++E
Sbjct: 749 FIDGKEYEVDAISDGEDVTIPGIIEHIEQAGVHS----GDS-------IAVLPPQSLSEE 797
Query: 326 LQS 328
Q
Sbjct: 798 QQE 800
>gnl|CDD|234813 PRK00696, sucC, succinyl-CoA synthetase subunit beta; Provisional.
Length = 388
Score = 46.6 bits (112), Expect = 2e-05
Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQE-EGAPIVVKADGLAAGK----GVIVAMTLEE 246
K L KYG+P + T P A + +E G VVKA A G+ GV +A + EE
Sbjct: 9 KELFAKYGVPVPRGIVATTPEEAVEAAEELGGGVWVVKAQVHAGGRGKAGGVKLAKSPEE 68
Query: 247 AYEAVDSML 255
A E +L
Sbjct: 69 AREFAKQIL 77
>gnl|CDD|169452 PRK08463, PRK08463, acetyl-CoA carboxylase subunit A; Validated.
Length = 478
Score = 46.3 bits (110), Expect = 2e-05
Identities = 31/94 (32%), Positives = 46/94 (48%), Gaps = 8/94 (8%)
Query: 164 ANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIP----TAKYKTFTDPNAAKQYIQ 219
A + AGI GP SE G+KN + L K GIP T K + + K + +
Sbjct: 91 AKAVEDAGIIFIGPKSEVIRKMGNKNIARYLMKKNGIPIVPGTEKLNSES-MEEIKIFAR 149
Query: 220 EEGAPIVVKADGLAAGKGVIVAMT---LEEAYEA 250
+ G P+++KA G G+G+ V LE A+E+
Sbjct: 150 KIGYPVILKASGGGGGRGIRVVHKEEDLENAFES 183
>gnl|CDD|216935 pfam02222, ATP-grasp, ATP-grasp domain. This family does not
contain all known ATP-grasp domain members. This family
includes a diverse set of enzymes that possess
ATP-dependent carboxylate-amine ligase activity.
Length = 171
Score = 44.5 bits (106), Expect = 2e-05
Identities = 22/78 (28%), Positives = 32/78 (41%), Gaps = 9/78 (11%)
Query: 196 DKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLA-AGKGVIVAMTLEEAYEAVDSM 254
K G+PT ++ + QE G P V+KA GKG V + + +A +
Sbjct: 2 QKLGLPTPRFAAAESLEELIEAGQELGYPCVLKARRGGYDGKGQYVVRSEADIPQAWEE- 60
Query: 255 LLKNAFGSAGCRVIIEEF 272
G VI+EEF
Sbjct: 61 -------LGGGPVIVEEF 71
>gnl|CDD|179427 PRK02471, PRK02471, bifunctional glutamate--cysteine
ligase/glutathione synthetase; Provisional.
Length = 752
Score = 46.8 bits (112), Expect = 3e-05
Identities = 29/99 (29%), Positives = 38/99 (38%), Gaps = 9/99 (9%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQE-EGAPIVVKADGLAAGKGVIV--AMTLEEAY 248
K + + G P FT A IVVK G G+ + E Y
Sbjct: 493 KKILAEAGFPVPAGDEFTSLEEALADYSLFADKAIVVKPKSTNFGLGISIFKEPASLEDY 552
Query: 249 EAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGE 287
E L+ AF V++EEF+ G E FF L DG+
Sbjct: 553 EKA----LEIAF-REDSSVLVEEFIVGTEYRFFVL-DGK 585
>gnl|CDD|223968 COG1038, PycA, Pyruvate carboxylase [Energy production and
conversion].
Length = 1149
Score = 46.6 bits (111), Expect = 3e-05
Identities = 34/118 (28%), Positives = 51/118 (43%), Gaps = 8/118 (6%)
Query: 163 LANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQE 220
A +AGI GP E + G K +N K G+P A ++ +E
Sbjct: 97 FARACAEAGITFIGPKPEVLDMLGDKVKARNAAIKAGVPVIPGTDGPIETIEEALEFAEE 156
Query: 221 EGAPIVVKADGLAAGKGVIVAM---TLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
G P+++KA G+G+ V L EA+E S K AFG+ V +E+ +E
Sbjct: 157 YGYPVMIKAAAGGGGRGMRVVRSEADLAEAFERAKSE-AKAAFGND--EVYVEKLVEN 211
>gnl|CDD|237586 PRK14016, PRK14016, cyanophycin synthetase; Provisional.
Length = 727
Score = 45.9 bits (110), Expect = 4e-05
Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 15/95 (15%)
Query: 188 KNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-DGLAAGKGVIVAMT--- 243
K K L G+P + + T A + +E G P+VVK DG G+GV V +T
Sbjct: 215 KELTKRLLAAAGVPVPEGRVVTSAEDAWEAAEEIGYPVVVKPLDG-NHGRGVTVNITTRE 273
Query: 244 -LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
+E AY + S VI+E ++ G++
Sbjct: 274 EIEAAYAVA------SKESSD---VIVERYIPGKD 299
>gnl|CDD|130212 TIGR01142, purT, phosphoribosylglycinamide formyltransferase 2.
This enzyme is an alternative to PurN (TIGR00639)
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 380
Score = 44.3 bits (105), Expect = 9e-05
Identities = 96/378 (25%), Positives = 156/378 (41%), Gaps = 60/378 (15%)
Query: 132 DVLDGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFM 191
++LDGDA+ + + +V EA L +L K G P++ A L ++ +
Sbjct: 47 NMLDGDALRAVIEREKPDYIVPEIEAIATDALF-ELEKEGY-FVVPNARATKLTMNREGI 104
Query: 192 KNL-CDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMT---LEEA 247
+ L ++ G+PT++Y + ++ +++ G P VVK ++GKG V +E+A
Sbjct: 105 RRLAAEELGLPTSRYMFADSLDELREAVEKIGYPCVVKPVMSSSGKGQSVVRGPEDIEKA 164
Query: 248 YEAVDSMLLKNAFGSAGCRVIIEEFLEGE-EASFFAL--VDGENAIPLESAQDHKRVGDG 304
+E + A G AG RVI+EEF++ + E + + VDG A R DG
Sbjct: 165 WEYA----QEGARGGAG-RVIVEEFIDFDYEITLLTVRHVDGNTTFC---APIGHRQIDG 216
Query: 305 DTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSG 364
D ++ P + K L+ + I + G GV L ++
Sbjct: 217 DY------HESWQPQEMSEKALEEA--QRIAKRITDALGGYG--LFGV---ELFVKGD-- 261
Query: 365 LPKLI--EYNVRFGDPECQVLMVRLES-DLAEVLL--AACRGELTGVTLNWSPGSAMVVV 419
++I E + R D MV L S L+E L A G P ++ V+
Sbjct: 262 --EVIFSEVSPRPHDTG----MVTLISQGLSEFALHVRAILGLPIPGIPQLGPAASAVIK 315
Query: 420 MASKGYPGSYEKGSEIQNLEEAEQVAPS-VKIFHAGTALDADGNFIATGGRVLGVT-AKG 477
GY ++ LE+A V + V++F G A GR LGV A
Sbjct: 316 AKVTGYSPAFR------GLEKALSVPNTQVRLF---------GKPEAYVGRRLGVALATA 360
Query: 478 KDVEEAQDRAYLAVEEIN 495
K VE A++RA +
Sbjct: 361 KSVEAARERAEEVAHAVE 378
>gnl|CDD|180406 PRK06111, PRK06111, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 450
Score = 44.6 bits (106), Expect = 1e-04
Identities = 31/118 (26%), Positives = 54/118 (45%), Gaps = 6/118 (5%)
Query: 161 SGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT--DPNAAKQYI 218
+ A + + GI GPS++ A GSK + G+P T D A
Sbjct: 89 ASFAERCKEEGIVFIGPSADIIAKMGSKIEARRAMQAAGVPVVPGITTNLEDAEEAIAIA 148
Query: 219 QEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLK--NAFGSAGCRVIIEEFLE 274
++ G P+++KA G G+ + T +E +A +S + N FG+ + IE+++E
Sbjct: 149 RQIGYPVMLKASAGGGGIGMQLVETEQELTKAFESNKKRAANFFGNG--EMYIEKYIE 204
>gnl|CDD|129605 TIGR00514, accC, acetyl-CoA carboxylase, biotin carboxylase
subunit. This model represents the biotin carboxylase
subunit found usually as a component of acetyl-CoA
carboxylase. Acetyl-CoA carboxylase is designated EC
6.4.1.2 and this component, biotin carboxylase, has its
own designation, EC 6.3.4.14. Homologous domains are
found in eukaryotic forms of acetyl-CoA carboxylase and
in a number of other carboxylases (e.g. pyruvate
carboxylase), but seed members and trusted cutoff are
selected so as to exclude these. In some systems, the
biotin carboxyl carrier protein and this protein (biotin
carboxylase) may be shared by different
carboxyltransferases. However, this model is not
intended to identify the biotin carboxylase domain of
propionyl-coA carboxylase. The model should hit the full
length of proteins, except for chloroplast transit
peptides in plants. If it hits a domain only of a longer
protein, there may be a problem with the identification
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 449
Score = 44.0 bits (104), Expect = 1e-04
Identities = 52/217 (23%), Positives = 87/217 (40%), Gaps = 36/217 (16%)
Query: 171 GIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQEEGAPIVVK 228
G GPS+E+ L G K K G+P D + + G P+++K
Sbjct: 99 GFTFIGPSAESIRLMGDKVSAIETMKKAGVPCVPGSDGLVEDEEENVRIAKRIGYPVIIK 158
Query: 229 ADGLAAGKGVIVAMTLEEAYEAVDSML--LKNAFGSAGCRVIIEEFLEG-EEASFFALVD 285
A G+G+ V +E +++ K AFG+ G V IE+++E L D
Sbjct: 159 ATAGGGGRGMRVVREPDELVKSISMTRAEAKAAFGNDG--VYIEKYIENPRHVEIQVLAD 216
Query: 286 GE-NAIPLE----SAQ-DHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTV 339
NAI L S Q H+++ + +P+P LT EL+ + ++
Sbjct: 217 KYGNAIYLGERDCSIQRRHQKLLE------------EAPSPALTPELRRKMGDA------ 258
Query: 340 KGMSAEGCKFVGVLYAGLM--IEKKSGLPKLIEYNVR 374
+ + +G AG + + K+G +E N R
Sbjct: 259 ---AVKAAVSIGYRGAGTVEFLLDKNGEFYFMEMNTR 292
>gnl|CDD|203643 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus. This
family represents the C-terminal, catalytic domain of
the D-alanine--D-alanine ligase enzyme EC:6.3.2.4.
D-Alanine is one of the central molecules of the
cross-linking step of peptidoglycan assembly. There are
three enzymes involved in the D-alanine branch of
peptidoglycan biosynthesis: the pyridoxal
phosphate-dependent D-alanine racemase (Alr), the
ATP-dependent D-alanine:D-alanine ligase (Ddl), and the
ATP-dependent D-alanine:D-alanine-adding enzyme (MurF).
Length = 201
Score = 41.8 bits (99), Expect = 3e-04
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 10/83 (12%)
Query: 199 GIPTAKYKTFT----DPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSM 254
GIP A + T ++ ++ G P+ VK L + G+ + EE A++
Sbjct: 6 GIPVAPFIVLTREDWVLATKEKVEEKLGYPVFVKPANLGSSVGISKVTSREELQSAIEEA 65
Query: 255 LLKNAFGSAGCRVIIEEFLEGEE 277
+ +V+IEE +EG E
Sbjct: 66 FQYDN------KVLIEEAIEGRE 82
>gnl|CDD|131199 TIGR02144, LysX_arch, Lysine biosynthesis enzyme LysX. The family
of proteins found in this equivalog include the
characterized LysX from Thermus thermophilus which is
part of a well-organized lysine biosynthesis gene
cluster. LysX is believed to carry out an ATP-dependent
acylation of the amino group of alpha-aminoadipate in
the prokaryotic version of the fungal AAA lysine
biosynthesis pathway. No species having a sequence in
this equivalog contains the elements of the more common
diaminopimelate lysine biosythesis pathway, and none has
been shown to be a lysine auxotroph. These sequences
have mainly recieved the name of the related enzyme,
"ribosomal protein S6 modification protein RimK". RimK
has been characterized in E. coli, and acts by
ATP-dependent condensation of S6 with glutamate
residues.
Length = 280
Score = 40.5 bits (95), Expect = 0.001
Identities = 42/184 (22%), Positives = 68/184 (36%), Gaps = 20/184 (10%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVK- 228
G+P S G K F K G+PT + D AA + + G P+V+K
Sbjct: 71 LGVPVINSS-HVIEACGDKIFTYLKLAKAGVPTPRTYLAFDREAALKLAEALGYPVVLKP 129
Query: 229 ADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGEN 288
G + G+ V + +E ++ + GS I+E++ V G+
Sbjct: 130 VIG-SWGRLVALIRDKDELESLLE--HKEVLGGSQHKLFYIQEYINKPGRDIRVFVIGDE 186
Query: 289 AIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCK 348
AI A ++ T NT G P P+ +E++ + VK A G
Sbjct: 187 AI----AAIYRYSNHWRT--NTARGGKAEPCPL-DEEVEEL--------AVKAAEAVGGG 231
Query: 349 FVGV 352
V +
Sbjct: 232 VVAI 235
>gnl|CDD|223106 COG0027, PurT, Formate-dependent phosphoribosylglycinamide
formyltransferase (GAR transformylase) [Nucleotide
transport and metabolism].
Length = 394
Score = 39.6 bits (93), Expect = 0.003
Identities = 42/147 (28%), Positives = 74/147 (50%), Gaps = 11/147 (7%)
Query: 132 DVLDGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFM 191
D+LDGDA+ + + +V EA L +L + G T P++ A L ++ +
Sbjct: 60 DMLDGDALRAVVEREKPDYIVPEIEAIATDALV-ELEEEGY-TVVPNARATKLTMNREGI 117
Query: 192 KNLC-DKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMT---LEEA 247
+ L ++ G+PT+KY+ + +++ G P VVK ++GKG V + +E+A
Sbjct: 118 RRLAAEELGLPTSKYRFADSLEELRAAVEKIGFPCVVKPVMSSSGKGQSVVRSPEDVEKA 177
Query: 248 YEAVDSMLLKNAFGSAGCRVIIEEFLE 274
+E G +G RVI+EEF++
Sbjct: 178 WEYAQQ----GGRGGSG-RVIVEEFVK 199
Score = 36.6 bits (85), Expect = 0.030
Identities = 37/120 (30%), Positives = 51/120 (42%), Gaps = 20/120 (16%)
Query: 384 MVRLES-DLAEVLL--AACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEE 440
MV L S DL+E L A G SP ++ V++ +++ L E
Sbjct: 290 MVTLISQDLSEFALHVRAILGLPIPEIRQISPAASAVILAQETSQAPTFD------GLAE 343
Query: 441 AEQVAPS-VKIFHAGTALDADGNFIATGGRVLGVT-AKGKDVEEAQDRAYLAVEEINWPG 498
A V + V++F G A GGR LGV A + VEEA++RA A I G
Sbjct: 344 ALGVPDTQVRLF---------GKPEADGGRRLGVALATAESVEEARERARKAASAIEVKG 394
>gnl|CDD|236307 PRK08591, PRK08591, acetyl-CoA carboxylase biotin carboxylase
subunit; Validated.
Length = 451
Score = 39.0 bits (92), Expect = 0.005
Identities = 38/112 (33%), Positives = 52/112 (46%), Gaps = 19/112 (16%)
Query: 174 TF-GPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQEEGAPIVVKAD 230
TF GPS+E L G K K K G+P D A +E G P+++KA
Sbjct: 101 TFIGPSAETIRLMGDKVTAKATMKKAGVPVVPGSDGPVDDEEEALAIAKEIGYPVIIKAT 160
Query: 231 GLAAGKGVIVAMT---LEEAY-----EAVDSMLLKNAFGSAGCRVIIEEFLE 274
G+G+ V T LE+A+ EA K AFG+ G V +E++LE
Sbjct: 161 AGGGGRGMRVVRTEAELEKAFSMARAEA------KAAFGNPG--VYMEKYLE 204
>gnl|CDD|183781 PRK12833, PRK12833, acetyl-CoA carboxylase biotin carboxylase
subunit; Provisional.
Length = 467
Score = 38.6 bits (90), Expect = 0.007
Identities = 32/134 (23%), Positives = 52/134 (38%), Gaps = 7/134 (5%)
Query: 164 ANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQEE 221
A + AG+ GP ++ G K + + G+PT +AA +
Sbjct: 95 AEAVEAAGLIFVGPDAQTIRTMGDKARARRTARRAGVPTVPGSDGVVASLDAALEVAARI 154
Query: 222 GAPIVVKADGLAAGKGVIVAMTLEEAYE--AVDSMLLKNAFGSAGCRVIIEEFLE-GEEA 278
G P+++KA G+G+ VA + + + AFG G V +E F+
Sbjct: 155 GYPLMIKAAAGGGGRGIRVAHDAAQLAAELPLAQREAQAAFGDGG--VYLERFIARARHI 212
Query: 279 SFFALVDGENAIPL 292
L DGE + L
Sbjct: 213 EVQILGDGERVVHL 226
>gnl|CDD|224673 COG1759, COG1759,
5-formaminoimidazole-4-carboxamide-1-beta-D-
ribofuranosyl 5'-monophosphate synthetase (purine
biosynthesis) [Nucleotide transport and metabolism].
Length = 361
Score = 38.1 bits (89), Expect = 0.010
Identities = 28/105 (26%), Positives = 44/105 (41%), Gaps = 11/105 (10%)
Query: 172 IPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADG 231
+P FG E K K L +K G+ K + P +E P++VK G
Sbjct: 110 VPMFGNRELLRWEEDRKLEYK-LLEKAGLRIPK--KYKSP-------EEIDRPVIVKLPG 159
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCR-VIIEEFLEG 275
G+G +A + EE YE + +L + + IEE++ G
Sbjct: 160 AKGGRGYFIASSPEEFYEKAERLLKRGVITEEDLKNARIEEYVVG 204
>gnl|CDD|180883 PRK07206, PRK07206, hypothetical protein; Provisional.
Length = 416
Score = 38.1 bits (89), Expect = 0.010
Identities = 38/149 (25%), Positives = 67/149 (44%), Gaps = 10/149 (6%)
Query: 135 DGDAVISFCRKWSVGLVVVGPEAPLVSG--LANKLVKAGIPTFGPSSEAAALEGSKNFMK 192
D D ++ F RK ++ G E SG LA++L + P + ++ +K M
Sbjct: 58 DIDDLVEFLRKLGPEAIIAGAE----SGVELADRLAEILTPQYSNDPALSSARRNKAEMI 113
Query: 193 NLCDKYGIPTAKYKTFTDPNAAKQYIQEE---GAPIVVKADGLAAGKGVIVAMTLEEAYE 249
N + G+P A+ D A+ +++E P+V+K A GV + +
Sbjct: 114 NALAEAGLPAARQINTADWEEAEAWLRENGLIDRPVVIKPLESAGSDGVFICPAKGDWKH 173
Query: 250 AVDSMLLK-NAFGSAGCRVIIEEFLEGEE 277
A +++L K N G V+++E+L G E
Sbjct: 174 AFNAILGKANKLGLVNETVLVQEYLIGTE 202
>gnl|CDD|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed.
Length = 304
Score = 37.4 bits (88), Expect = 0.014
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 12/110 (10%)
Query: 171 GIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKAD 230
GIP G A+AL K K + G+PT + T I + G P+VVK
Sbjct: 82 GIPYTGSGVLASALAMDKLRTKLVWQAAGLPTPPWIVLTREEDLLAAIDKLGLPLVVK-- 139
Query: 231 GLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSA---GCRVIIEEFLEGEE 277
A +G V ++ + + L+ A A V++E++++G E
Sbjct: 140 --PAREGSSVGVSKVKEEDE-----LQAALELAFKYDDEVLVEKYIKGRE 182
>gnl|CDD|236269 PRK08462, PRK08462, biotin carboxylase; Validated.
Length = 445
Score = 37.4 bits (87), Expect = 0.016
Identities = 30/98 (30%), Positives = 43/98 (43%), Gaps = 6/98 (6%)
Query: 169 KAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQEEGAPIV 226
I GPS E AL K+ K + + G+P AK+ +E G P++
Sbjct: 99 HHNIKFIGPSVEVMALMSDKSKAKEVMKRAGVPVIPGSDGALKSYEEAKKIAKEIGYPVI 158
Query: 227 VKADGLAAGKGVIVAMT---LEEAYEAVDSMLLKNAFG 261
+KA G+G+ V LE Y A +S L +AFG
Sbjct: 159 LKAAAGGGGRGMRVVEDESDLENLYLAAESEAL-SAFG 195
Score = 30.1 bits (68), Expect = 2.7
Identities = 32/131 (24%), Positives = 56/131 (42%), Gaps = 32/131 (24%)
Query: 173 PTFGPSSEAAALEGSKNFMKNLCDKYGI----PTAK-YKTFTDPNAAKQYIQEEGAPIVV 227
P +G SE ++NF++ +C + I P+ + +D + AK+ ++ G P++
Sbjct: 82 PGYGFLSE------NQNFVE-ICSHHNIKFIGPSVEVMALMSDKSKAKEVMKRAGVPVIP 134
Query: 228 KADGLAAGKGVIVAMTLEEAYEAVDSM----LLKNAFGSA--GCRVIIEE------FLEG 275
+DG EEA + + +LK A G G RV+ +E +L
Sbjct: 135 GSDGALKS--------YEEAKKIAKEIGYPVILKAAAGGGGRGMRVVEDESDLENLYLAA 186
Query: 276 EEASFFALVDG 286
E + A DG
Sbjct: 187 ESEALSAFGDG 197
>gnl|CDD|217166 pfam02655, ATP-grasp_3, ATP-grasp domain. No functional
information or experimental verification of function is
known in this family. This family appears to be an
ATP-grasp domain (Pers. obs. A Bateman).
Length = 159
Score = 35.8 bits (83), Expect = 0.020
Identities = 21/66 (31%), Positives = 27/66 (40%), Gaps = 16/66 (24%)
Query: 243 TLEEAYEAVDSMLLKNAFGSAG----------------CRVIIEEFLEGEEASFFALVDG 286
+ EE E ++K G G VII+EF+EGE S L DG
Sbjct: 22 SAEEPTEEEKKYIVKPRDGCGGEGVRFVENGREDEEFIENVIIQEFIEGEPLSVSVLSDG 81
Query: 287 ENAIPL 292
E +PL
Sbjct: 82 EKVLPL 87
>gnl|CDD|200101 TIGR01435, glu_cys_lig_rel, glutamate--cysteine
ligase/gamma-glutamylcysteine synthetase, Streptococcus
agalactiae type. This model represents a bifunctional
protein family for the biosynthesis of glutathione, and
perhaps a range of related gamma-glutamyltripeptides of
the form gamma-Glu-Cys-X(aa). The N-terminal region is
similar to proteobacterial glutamate-cysteine ligase.
The C-terminal region is homologous to cyanophycin
synthetase of cyanobacteria and, more distantly, to
D-alanine-D-alanine ligases. Members of This model
family are found in Listeria and Enterococcus,
Gram-positive lineages in which glutathione is produced
(see PUBMED:8606174), and in Pasteurella multocida, a
Proteobacterium. In Clostridium acetobutylicum, adjacent
genes include separate proteins rather than a fusion
protein [Biosynthesis of cofactors, prosthetic groups,
and carriers, Glutathione and analogs].
Length = 737
Score = 36.4 bits (84), Expect = 0.037
Identities = 39/122 (31%), Positives = 51/122 (41%), Gaps = 12/122 (9%)
Query: 187 SKNFMKNLCDKYGIPTAKYKTFTD-PNAAKQYIQEEGAPIVVKADGLAAGKGVIV---AM 242
+K K + K G + F+ A + Y E IVVK G G+ + +
Sbjct: 475 NKVVTKKVLQKAGFNVPQGVEFSSLEKAVEAYALFENKAIVVKPKSTNYGLGITIFKQGV 534
Query: 243 TLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVG 302
LE+ EA L+ AF VIIEEFL G E FF L D A+ L + G
Sbjct: 535 QLEDFAEA-----LEIAF-REDKEVIIEEFLPGTEYRFFVLGDEVLAVLLRVPAN--VTG 586
Query: 303 DG 304
DG
Sbjct: 587 DG 588
>gnl|CDD|236454 PRK09288, purT, phosphoribosylglycinamide formyltransferase 2;
Validated.
Length = 395
Score = 36.3 bits (85), Expect = 0.037
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 10/83 (12%)
Query: 196 DKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMT---LEEAYE-AV 251
++ G+PT+ Y+ + ++E G P VVK ++GKG V + +E+A+E A
Sbjct: 123 EELGLPTSPYRFADSLEELRAAVEEIGYPCVVKPVMSSSGKGQSVVRSPEDIEKAWEYAQ 182
Query: 252 DSMLLKNAFGSAGCRVIIEEFLE 274
+ G AG RVI+EEF++
Sbjct: 183 -----EGGRGGAG-RVIVEEFID 199
Score = 34.0 bits (79), Expect = 0.16
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 17/87 (19%)
Query: 411 SPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQVAPS-VKIFHAGTALDADGNFIATGGR 469
SP ++ V++ + S++ L EA V + V++F G GGR
Sbjct: 320 SPAASAVILAEGESANPSFD------GLAEALAVPGTDVRLF---------GKPEIRGGR 364
Query: 470 VLGVT-AKGKDVEEAQDRAYLAVEEIN 495
+GV A G+DVEEA+++A A ++
Sbjct: 365 RMGVALATGEDVEEAREKAKEAASKVK 391
>gnl|CDD|223534 COG0458, CarB, Carbamoylphosphate synthase large subunit (split
gene in MJ) [Amino acid transport and metabolism /
Nucleotide transport and metabolism].
Length = 400
Score = 36.1 bits (84), Expect = 0.042
Identities = 37/137 (27%), Positives = 55/137 (40%), Gaps = 19/137 (13%)
Query: 150 LVVVGPEAPL--VSGLANKLV--KAGIPTFGPSSEAAAL----EGSKNFMKNLCDKYGIP 201
L +G + L L K V K G+ G EA + + K M+ + GIP
Sbjct: 75 LPTLGGQTALNAALELKEKGVLEKYGVEVVGSDPEAIEIAEDKKLFKEAMREI----GIP 130
Query: 202 TAKYKTFTDPNAAKQYIQEEGAPIVVK-ADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAF 260
+ A + E G P++VK + GL G G +A EE E ++ L
Sbjct: 131 VPSRIAHS-VEEADEIADEIGYPVIVKPSFGL-GGSGGGIAYNEEELEEIIEEGLRA--- 185
Query: 261 GSAGCRVIIEEFLEGEE 277
S V+IEE + G +
Sbjct: 186 -SPVEEVLIEESIIGWK 201
>gnl|CDD|222215 pfam13549, ATP-grasp_5, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 222
Score = 34.7 bits (81), Expect = 0.069
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKAD 230
K L YGIP + P A +E G P+V+K
Sbjct: 16 KALLAAYGIPVVPTRLARSPEEAVAAAEEIGYPVVLKIV 54
>gnl|CDD|180150 PRK05586, PRK05586, biotin carboxylase; Validated.
Length = 447
Score = 34.7 bits (80), Expect = 0.13
Identities = 34/119 (28%), Positives = 53/119 (44%), Gaps = 8/119 (6%)
Query: 161 SGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYI 218
S A + I GP SE L G+K+ + + K G+P + A +
Sbjct: 89 SKFAKMCKECNIVFIGPDSETIELMGNKSNAREIMIKAGVPVVPGSEGEIENEEEALEIA 148
Query: 219 QEEGAPIVVKADGLAAGKGVIVAMTLEE---AYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
+E G P++VKA G+G+ + + EE A+ S K AFG + IE+F+E
Sbjct: 149 KEIGYPVMVKASAGGGGRGIRIVRSEEELIKAFNTAKSE-AKAAFGDD--SMYIEKFIE 204
>gnl|CDD|173034 PRK14570, PRK14570, D-alanyl-alanine synthetase A; Provisional.
Length = 364
Score = 34.4 bits (79), Expect = 0.14
Identities = 34/120 (28%), Positives = 50/120 (41%), Gaps = 27/120 (22%)
Query: 172 IPTFGPSSEAAALEGSKNFMKNLCDKYGIPTA------KYKTFTDPNAAKQYIQEE-GAP 224
IP G +A+ +K F K L + IP KY F D K+ I+E G P
Sbjct: 114 IPCVGAGILGSAISINKYFCKLLLKSFNIPLVPFIGFRKYDYFLDKEGIKKDIKEVLGYP 173
Query: 225 IVVKADGLAAGKGVIVAMT-------LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
++VK L + G+ VA +EEA++ V+IE+F+E E
Sbjct: 174 VIVKPAVLGSSIGINVAYNENQIEKCIEEAFK-------------YDLTVVIEKFIEARE 220
>gnl|CDD|237329 PRK13278, purP,
5-formaminoimidazole-4-carboxamide-1-(beta)-D-
ribofuranosyl 5'-monophosphate synthetase; Provisional.
Length = 358
Score = 34.1 bits (79), Expect = 0.16
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 224 PIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
P++VK G G+G +A + EE E +D ++ + II+E++ G
Sbjct: 151 PVIVKLPGAKGGRGYFIAKSPEEFKEKIDKLIERGLITEVE-EAIIQEYVVG 201
>gnl|CDD|233705 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin is
an insoluble storage polymer for carbon, nitrogen, and
energy, found in most Cyanobacteria. The polymer has a
backbone of L-aspartic acid, with most Asp side chain
carboxyl groups attached to L-arginine. The polymer is
made by this enzyme, cyanophycin synthetase, and
degraded by cyanophycinase. Heterologously expressed
cyanophycin synthetase in E. coli produces a closely
related, water-soluble polymer with some Arg replaced by
Lys. It is unclear whether enzymes that produce soluble
cyanophycin-like polymers in vivo in non-Cyanobacterial
species should be designated as cyanophycin synthetase
itself or as a related enzyme. This model makes the
designation as cyanophycin synthetase. Cyanophycin
synthesis is analogous to polyhydroxyalkanoic acid (PHA)
biosynthesis, except that PHA polymers lack nitrogen and
may be made under nitrogen-limiting conditions [Cellular
processes, Biosynthesis of natural products].
Length = 864
Score = 34.4 bits (79), Expect = 0.17
Identities = 29/121 (23%), Positives = 47/121 (38%), Gaps = 15/121 (12%)
Query: 188 KNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMT---- 243
K+ K + G+P + A + Q+ G P+V+K G+GV + +
Sbjct: 214 KDLTKEILSDAGVPVPEGTVVQSAEDAWEAAQDLGYPVVIKPYDGNHGRGVTINILTRDE 273
Query: 244 LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGD 303
+E AYEA VI+E F+ G + LV G + + +GD
Sbjct: 274 IESAYEAAVEE---------SSGVIVERFITGRD--HRLLVVGGKVVAVAERVPAHVIGD 322
Query: 304 G 304
G
Sbjct: 323 G 323
>gnl|CDD|235393 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 33.9 bits (79), Expect = 0.23
Identities = 25/67 (37%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 163 LANKLVKAGIPTFGPSSEA--AALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQE 220
LA L AG+P G S +A A E + F K L +K GIP T T A + +E
Sbjct: 645 LAKALEAAGVPILGTSPDAIDLA-EDRERFSK-LLEKLGIPQPPNGTATSVEEALEVAEE 702
Query: 221 EGAPIVV 227
G P++V
Sbjct: 703 IGYPVLV 709
>gnl|CDD|117020 pfam08443, RimK, RimK-like ATP-grasp domain. This ATP-grasp domain
is found in the ribosomal S6 modification enzyme RimK.
Length = 190
Score = 32.8 bits (75), Expect = 0.25
Identities = 31/121 (25%), Positives = 58/121 (47%), Gaps = 12/121 (9%)
Query: 197 KYGIPTAKYKTFTDPNAAKQYIQE-EGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSML 255
K+GIP P A+++I++ +G P+VVK+ + G GV +A E ++++ +L
Sbjct: 13 KHGIPVPNTGLAWSPEDAEKFIEQIKGFPVVVKSVFGSQGIGVFLA----EDEQSLEQLL 68
Query: 256 LKNAFGSAGCRVIIEEFLE--GEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGM 313
AF +++++EF+ G +V GE + + GD T + GG+
Sbjct: 69 --EAFKWLKNQILVQEFIAEAGNRDIRCLVVGGEVVGAIHRQSNE---GDFRTNLHRGGV 123
Query: 314 G 314
Sbjct: 124 A 124
>gnl|CDD|225393 COG2837, COG2837, Predicted iron-dependent peroxidase [Inorganic
ion transport and metabolism].
Length = 352
Score = 32.7 bits (75), Expect = 0.43
Identities = 23/102 (22%), Positives = 36/102 (35%), Gaps = 12/102 (11%)
Query: 220 EEGAPIV-VKADGLAAGKG------VIVAMTLEEAYEAVDSMLLKNAFGSAGCRV-IIEE 271
+E D L A I A + + A +++ + G A I
Sbjct: 103 KELKDFPEFPNDSLDAPSTQGDLLIQICADDQDVVFHAARAII--RSLGDAAEVRWEIHG 160
Query: 272 FLEGEEASFFALVDG-ENAIPLESAQDHKRVGDGDTGPNTGG 312
F E+ + DG EN ++ + V DGD G + GG
Sbjct: 161 FRSAEDRNLLGFKDGTENPAGDDNPLEVAVVWDGD-GGDAGG 201
>gnl|CDD|180865 PRK07178, PRK07178, pyruvate carboxylase subunit A; Validated.
Length = 472
Score = 32.8 bits (75), Expect = 0.50
Identities = 35/117 (29%), Positives = 48/117 (41%), Gaps = 12/117 (10%)
Query: 163 LANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQE 220
LA + GI GPS+E G K + K G+P D + A +
Sbjct: 90 LAEICAERGIKFIGPSAEVIRRMGDKTEARRAMIKAGVPVTPGSEGNLADLDEALAEAER 149
Query: 221 EGAPIVVKADGLAAGKGVIV---AMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
G P+++KA G+G+ LE+ + V S K AFGSA E FLE
Sbjct: 150 IGYPVMLKATSGGGGRGIRRCNSREELEQNFPRVISEATK-AFGSA------EVFLE 199
>gnl|CDD|183549 PRK12479, PRK12479, branched-chain amino acid aminotransferase;
Provisional.
Length = 299
Score = 32.2 bits (73), Expect = 0.60
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 9/83 (10%)
Query: 177 PSSEAAALEG-SKNFMKNLCDKYGIPTAKYKTFTDPN---AAKQYIQEEGAPI--VVKAD 230
P S ALEG ++N + LC++ IP + + FT + A + ++ A + VVK D
Sbjct: 202 PPSYLGALEGITRNSVIELCERLSIPCEE-RPFTRHDVYVADEVFLTGTAAELIPVVKVD 260
Query: 231 GLAAGKGVIVAMT--LEEAYEAV 251
G G ++T L E ++ +
Sbjct: 261 SREIGDGKPGSVTKQLTEEFKKL 283
>gnl|CDD|236205 PRK08259, PRK08259, enoyl-CoA hydratase; Provisional.
Length = 254
Score = 31.4 bits (72), Expect = 0.96
Identities = 26/82 (31%), Positives = 32/82 (39%), Gaps = 33/82 (40%)
Query: 130 DLDVLDGDAVIS-FCRKWSVGLV-------------------------VVGPEAPLVSGL 163
DL V + DAV FCR+W V L+ V EA L GL
Sbjct: 116 DLRVAEEDAVFGVFCRRWGVPLIDGGTVRLPRLIGHSRAMDLILTGRPVDADEA-LAIGL 174
Query: 164 ANKLVKAGIPTFGPSSEAAALE 185
AN++V G + AAA E
Sbjct: 175 ANRVVPKG------QARAAAEE 190
>gnl|CDD|178534 PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase.
Length = 577
Score = 32.0 bits (73), Expect = 0.96
Identities = 34/121 (28%), Positives = 53/121 (43%), Gaps = 5/121 (4%)
Query: 135 DGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNL 194
D AV F + ++ V E V L L K G+ P S + K K
Sbjct: 73 DRAAVREFAK--RCDVLTVEIEHVDVDTLE-ALEKQGVDV-QPKSSTIRIIQDKYAQKVH 128
Query: 195 CDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLA-AGKGVIVAMTLEEAYEAVDS 253
K+GIP ++ D +A++ G P+++K+ LA G+G VA T E+ AV +
Sbjct: 129 FSKHGIPLPEFMEIDDLESAEKAGDLFGYPLMLKSRRLAYDGRGNAVAKTEEDLSSAVAA 188
Query: 254 M 254
+
Sbjct: 189 L 189
>gnl|CDD|191183 pfam05066, RNA_pol_delta, DNA-directed RNA polymerase delta
subunit. The delta protein is a dispensable subunit of
Bacillus subtilis RNA polymerase (RNAP) that has major
effects on the biochemical properties of the purified
enzyme. In the presence of delta, RNAP displays an
increased specificity of transcription, a decreased
affinity for nucleic acids, and an increased efficiency
of RNA synthesis because of enhanced recycling. The
delta protein, contains two distinct regions, an
N-terminal domain and a glutamate and aspartate
residue-rich carboxyl-terminal region.
Length = 91
Score = 29.1 bits (66), Expect = 1.2
Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 16/64 (25%)
Query: 434 EIQNL--EEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAV 491
EIQ L E++ + F+ T L+ DG FI+ G G+ R++ V
Sbjct: 38 EIQKLLGISDEEIRERLAQFY--TDLNIDGRFISLGENEWGL------------RSWYPV 83
Query: 492 EEIN 495
++I+
Sbjct: 84 DQID 87
>gnl|CDD|190425 pfam02786, CPSase_L_D2, Carbamoyl-phosphate synthase L chain, ATP
binding domain. Carbamoyl-phosphate synthase catalyzes
the ATP-dependent synthesis of carbamyl-phosphate from
glutamine or ammonia and bicarbonate. This important
enzyme initiates both the urea cycle and the
biosynthesis of arginine and/or pyrimidines. The
carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes
is a heterodimer of a small and large chain. The small
chain promotes the hydrolysis of glutamine to ammonia,
which is used by the large chain to synthesise carbamoyl
phosphate. See pfam00988. The small chain has a GATase
domain in the carboxyl terminus. See pfam00117. The ATP
binding domain (this one) has an ATP-grasp fold.
Length = 211
Score = 30.7 bits (70), Expect = 1.3
Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 10/90 (11%)
Query: 192 KNLCDKYGIPTAKYKTFTDPN----AAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEA 247
K + G+PT P A +E G P+++KA G G+ +A EE
Sbjct: 6 KAAMKEAGVPTVP--GTAGPVETEEEALAAAKEIGYPVIIKAAFGGGGLGMGIARNEEEL 63
Query: 248 YEAVDSMLL--KNAFGSAGCRVIIEEFLEG 275
E L AFG+ ++E+ L+G
Sbjct: 64 AELFALALAEAPAAFGNPQV--LVEKSLKG 91
>gnl|CDD|107302 cd06307, PBP1_uncharacterized_sugar_binding, Periplasmic
sugar-binding domain of uncharacterized transport
systems. Periplasmic sugar-binding domain of
uncharacterized transport systems that share homology
with a family of pentose/hexose sugar-binding proteins
of the type I periplasmic binding protein (PBP1)
superfamily. The members of this group are predicted to
be involved in the transport of sugar-containing
molecules across cellular and organellar membranes.
Length = 275
Score = 30.6 bits (70), Expect = 1.8
Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 131 LDVLDGDAVISF---CRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTF 175
++ D A+ + S G+ +V P+ P V +L AG+P
Sbjct: 40 VESFDPAALAAALLRLGARSDGVALVAPDHPQVRAAVARLAAAGVPVV 87
>gnl|CDD|235753 PRK06252, PRK06252, methylcobalamin:coenzyme M methyltransferase;
Validated.
Length = 339
Score = 30.6 bits (70), Expect = 2.1
Identities = 25/97 (25%), Positives = 37/97 (38%), Gaps = 38/97 (39%)
Query: 153 VGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPN 212
VG E P+++GL GP S A++L G KNF+K L P
Sbjct: 134 VGEEVPIIAGLT-----------GPISLASSLMGPKNFLKWL-------------IKKPE 169
Query: 213 AAKQYIQ--------------EEGAPIVVKADGLAAG 235
A +++ E GA ++ AD A+
Sbjct: 170 LAHEFLDFVTDFCIEYAKAQLEAGADVICIADPSASP 206
>gnl|CDD|131978 TIGR02932, vnfK_nitrog, V-containing nitrogenase, beta subunit.
Nitrogenase is the enzyme of biological nitrogen
fixation. The most wide-spread and most efficient
nitrogenase contains a molybdenum cofactor. This protein
family, VnfK, represents the beta subunit of the
vanadium (V)-containing alternative nitrogenase. It is
homologous to NifK and AnfK, of the
molybdenum-containing and the iron (Fe)-only types,
respectively [Central intermediary metabolism, Nitrogen
fixation].
Length = 457
Score = 30.2 bits (68), Expect = 2.6
Identities = 19/63 (30%), Positives = 24/63 (38%), Gaps = 6/63 (9%)
Query: 166 KLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT------DPNAAKQYIQ 219
KLV P+F S E K+ +K + K G P+ K F D K Y
Sbjct: 130 KLVPVHTPSFKGSQVTGYAECVKSVIKTIAAKKGEPSGKLNVFPGWVNPGDVVLLKHYFS 189
Query: 220 EEG 222
E G
Sbjct: 190 EMG 192
>gnl|CDD|225543 COG2996, COG2996, Predicted RNA-bindining protein (contains S1 and
HTH domains) [General function prediction only].
Length = 287
Score = 30.0 bits (68), Expect = 3.2
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 468 GRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
GR+ G A K +E AY ++ YR
Sbjct: 131 GRIWGTLAIEKILENLATPAYNNLKNQEVDATVYRLL 167
>gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase
A/UDP-N-acetylmuramate--L-alanine ligase; Provisional.
Length = 809
Score = 30.2 bits (68), Expect = 3.5
Identities = 27/109 (24%), Positives = 41/109 (37%), Gaps = 13/109 (11%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT------DPNAAKQYIQEEGA 223
G P GPS +A+ K K G+P Y+ T +P +I E +
Sbjct: 551 IGKPYTGPSLAFSAIAMDKVLTKRFASDVGVPVVPYQPLTLAGWKREPELCLAHIVEAFS 610
Query: 224 -PIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEE 271
P+ VK L + GV +EE + + L + V +EE
Sbjct: 611 FPMFVKTAHLGSSIGVFEVHNVEELRDKISEAFLYDT------DVFVEE 653
>gnl|CDD|239423 cd03307, Mta_CmuA_like, MtaA_CmuA_like family. MtaA/CmuA, also
MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M
isozymes, are methylcobamide:Coenzyme M
methyltransferases, which play a role in metabolic
pathways of methane formation from various substrates,
such as methylated amines and methanol. Coenzyme M,
2-mercaptoethylsulfonate or CoM, is methylated during
methanogenesis in a reaction catalyzed by three
proteins. A methyltransferase methylates the corrinoid
cofactor, which is bound to a second polypeptide, a
corrinoid protein. The methylated corrinoid protein then
serves as a substrate for MT2-A and related enzymes,
which methylate CoM.
Length = 326
Score = 29.6 bits (67), Expect = 3.8
Identities = 22/97 (22%), Positives = 36/97 (37%), Gaps = 38/97 (39%)
Query: 153 VGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPN 212
G E P++ G+ GP+S A+ L G +NF+K L P
Sbjct: 125 YGEEVPVIGGMT-----------GPASLASHLAGVENFLKWLI-------------KKPE 160
Query: 213 AAKQYIQ--------------EEGAPIVVKADGLAAG 235
+++++ E GA I+ AD A+
Sbjct: 161 KVREFLEFLTEACIEYAKAQLEAGADIITIADPTASP 197
>gnl|CDD|214387 CHL00177, ccs1, c-type cytochrome biogenensis protein; Validated.
Length = 426
Score = 29.6 bits (67), Expect = 3.9
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 42 NFSISFNPQGSKSSFFSTVKCL----AQKSQPSVSVNAP 76
+F I++ P+ S F+S + L + + ++SVN P
Sbjct: 218 DFWITYTPEKSIKQFYSDLSILNSEGKEIKRKTISVNHP 256
>gnl|CDD|181268 PRK08175, PRK08175, aminotransferase; Validated.
Length = 395
Score = 29.7 bits (67), Expect = 4.2
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 146 WSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAA--ALEGSKNFMKNLCDKY 198
W +G +V PE LVS LA TF P AA ALEG + ++++ ++Y
Sbjct: 244 WRIGFMVGNPE--LVSALARIKSYHDYGTFTPLQVAAIAALEGDQQCVRDIAEQY 296
>gnl|CDD|173799 cd07473, Peptidases_S8_Subtilisin_like, Peptidase S8 family domain
in Subtilisin-like proteins. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 259
Score = 28.7 bits (65), Expect = 6.1
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 89 GGGGREHALCYALKRSHSCDAVF-CAPGNAGISNSGDAT 126
GGGG AL A+ R+ +F A GN G +N T
Sbjct: 129 GGGGPSQALRDAIARAIDAGILFVAAAGNDGTNNDKTPT 167
>gnl|CDD|225141 COG2232, COG2232, Predicted ATP-dependent carboligase related to
biotin carboxylase [General function prediction only].
Length = 389
Score = 29.0 bits (65), Expect = 6.6
Identities = 35/141 (24%), Positives = 58/141 (41%), Gaps = 21/141 (14%)
Query: 267 VIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGM--GAYSPAPVL-T 323
I +EF+EG S + +G +A+ L + ++ DG G + + G +P P
Sbjct: 178 FIFQEFIEGRPVSVSFISNGSDALTLAV---NDQIIDGLRGEYSQFVYKGNLTPFPYEEV 234
Query: 324 KELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRF-GDPECQV 382
+E + + E + + G + G FV G P +IE N R G EC
Sbjct: 235 EEAERLAEELVEELGLVGSN--GVDFV---------LNDKG-PYVIEVNPRIQGTLEC-- 280
Query: 383 LMVRLESDLAEVLLAACRGEL 403
+ +L + + A GEL
Sbjct: 281 IERSSGINLFRLHIQAFDGEL 301
>gnl|CDD|182468 PRK10446, PRK10446, ribosomal protein S6 modification protein;
Provisional.
Length = 300
Score = 28.7 bits (64), Expect = 8.5
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 222 GAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
GAP+VVK G GV++A T + A +D AF ++++E+++
Sbjct: 135 GAPLVVKLVEGTQGIGVVLAETRQAAESVID------AFRGLNAHILVQEYIK 181
>gnl|CDD|236562 PRK09552, mtnX, 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate
phosphatase; Reviewed.
Length = 219
Score = 28.4 bits (64), Expect = 8.8
Identities = 9/34 (26%), Positives = 20/34 (58%)
Query: 187 SKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQE 220
+++F+ C++ GIP ++TF D +++ E
Sbjct: 184 ARDFLITKCEELGIPYTPFETFHDVQTELKHLLE 217
>gnl|CDD|222037 pfam13307, Helicase_C_2, Helicase C-terminal domain. This domain
is the second of two tandem AAA domains found in a wide
variety of helicase enzymes.
Length = 165
Score = 27.9 bits (63), Expect = 9.0
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 9/59 (15%)
Query: 233 AAGKGVIVAMT----LEEAYEAVDSMLLKNAF-----GSAGCRVIIEEFLEGEEASFFA 282
A GV+V LE+ E + S LL+ G ++E F +G+ A F
Sbjct: 7 AIPGGVLVLFPSYSLLEQVAELLASELLEKGIELLVQGEGSREKLLERFKKGKGAILFG 65
>gnl|CDD|181329 PRK08258, PRK08258, enoyl-CoA hydratase; Provisional.
Length = 277
Score = 28.4 bits (64), Expect = 10.0
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 224 PIVVKADGLAAGKGVIVAM 242
PI+ DG+ AG G I+AM
Sbjct: 115 PIIAAVDGVCAGAGAILAM 133
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.134 0.395
Gapped
Lambda K H
0.267 0.0868 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,343,826
Number of extensions: 2615251
Number of successful extensions: 2808
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2724
Number of HSP's successfully gapped: 100
Length of query: 519
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 418
Effective length of database: 6,457,848
Effective search space: 2699380464
Effective search space used: 2699380464
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.0 bits)