RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010048
(519 letters)
>3mjf_A Phosphoribosylamine--glycine ligase; structural genomics, CEN
structural genomics of infectious diseases, csgid; HET:
MSE PGE; 1.47A {Yersinia pestis} PDB: 1gso_A
Length = 431
Score = 768 bits (1985), Expect = 0.0
Identities = 220/426 (51%), Positives = 292/426 (68%), Gaps = 4/426 (0%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
+L+IG GGREHAL + +S D ++ APGNAG + + + D +++F +
Sbjct: 6 ILIIGNGGREHALGWKAAQSPLADKIYVAPGNAGTALEPTLENVD-IAATDIAGLLAFAQ 64
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+GL +VGPEAPLV G+ + AG+ FGP+ AA LEGSK F K+ ++ IP+A+
Sbjct: 65 SHDIGLTIVGPEAPLVIGVVDAFRAAGLAIFGPTQAAAQLEGSKAFTKDFLARHNIPSAE 124
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+ FTD AA Y++++GAPIV+KADGLAAGKGVIVAMT EEA AV+ ML NAFG AG
Sbjct: 125 YQNFTDVEAALAYVRQKGAPIVIKADGLAAGKGVIVAMTQEEAETAVNDMLAGNAFGDAG 184
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
R+++EEFL+GEEASF +VDGEN +P+ ++QDHKRVGDGDTGPNTGGMGAYSPAPV+T
Sbjct: 185 HRIVVEEFLDGEEASFIVMVDGENVLPMATSQDHKRVGDGDTGPNTGGMGAYSPAPVVTD 244
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
++ VM+ +I PTV+GM+AEG + G LYAGLMI G PK+IE+N RFGDPE Q +M
Sbjct: 245 DVHQRVMDQVIWPTVRGMAAEGNIYTGFLYAGLMISAD-GQPKVIEFNCRFGDPETQPIM 303
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
+R+ SDL E+ LA +G+L T +W ++ VV+A+ GYP Y +G I L + E
Sbjct: 304 LRMRSDLVELCLAGTQGKLNEKTSDWDERPSLGVVLAAGGYPADYRQGDVIHGLPQQE-- 361
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
K+FHAGT L+ + + GGRVL VTA G+ V +AQ AY E I W G F R+D
Sbjct: 362 VKDGKVFHAGTKLNGNHEVVTNGGRVLCVTALGETVAQAQQYAYQLAEGIQWEGVFCRKD 421
Query: 505 IGWRAL 510
IG+RA+
Sbjct: 422 IGYRAI 427
>3lp8_A Phosphoribosylamine-glycine ligase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, ALS collaborative
crystallography; 2.15A {Ehrlichia chaffeensis}
Length = 442
Score = 760 bits (1964), Expect = 0.0
Identities = 207/448 (46%), Positives = 298/448 (66%), Gaps = 7/448 (1%)
Query: 63 LAQKSQPSVSVNAPTNAGQRVVVLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNS 122
++ A T + VLVIG GGREH++ + +++S + +F APG G+S
Sbjct: 2 AHHHHHHMGTLEAQTQGPGSMNVLVIGSGGREHSMLHHIRKSTLLNKLFIAPGREGMSG- 60
Query: 123 GDATCIPDLDVLDGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAA 182
A I D+D+ VI C+K + LVV+GPE PL++GL++ L + GI FGPS AA
Sbjct: 61 -LADII-DIDINSTIEVIQVCKKEKIELVVIGPETPLMNGLSDALTEEGILVFGPSKAAA 118
Query: 183 ALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAM 242
LE SK F K LC +YGIPTAKY F D N+A ++I + P+VVKADGLA GKG ++
Sbjct: 119 RLESSKGFTKELCMRYGIPTAKYGYFVDTNSAYKFIDKHKLPLVVKADGLAQGKGTVICH 178
Query: 243 TLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVG 302
T EEAY AVD+ML+ + FG AGC +IIEEFLEG+E SFF LVDG N + L AQD+K +G
Sbjct: 179 THEEAYNAVDAMLVHHKFGEAGCAIIIEEFLEGKEISFFTLVDGSNPVILGVAQDYKTIG 238
Query: 303 DGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKK 362
D + GPNTGGMG+YS ++T+E++ ++++ II PT+K M +F G+L+AG++I+K
Sbjct: 239 DNNKGPNTGGMGSYSKPNIITQEMEHIIIQKIIYPTIKAMFNMNIQFRGLLFAGIIIKKN 298
Query: 363 SGLPKLIEYNVRFGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMAS 422
PKL+EYNVRFGDPE Q ++ RL SD ++L +G+L ++ S +A+ VV+AS
Sbjct: 299 E--PKLLEYNVRFGDPETQSILPRLNSDFLKLLSLTAKGKLGNESVELSKKAALCVVVAS 356
Query: 423 KGYPGSYEKGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEE 482
+GYPG Y+K S I +E E++ P+V++ HAGT + N+++ GRV+ V A+G+++
Sbjct: 357 RGYPGEYKKNSIINGIENIEKL-PNVQLLHAGTRRE-GNNWVSDSGRVINVVAQGENLAS 414
Query: 483 AQDRAYLAVEEINWPGGFYRRDIGWRAL 510
A+ +AY A++ ++WP G YR DIG AL
Sbjct: 415 AKHQAYAALDLLDWPDGIYRYDIGSCAL 442
>2yw2_A Phosphoribosylamine--glycine ligase; glycinamide ribonucleotide
synthetase, GAR synthetase, ATP B purine nucleotide
biosynthetic pathway; HET: ATP; 1.80A {Aquifex aeolicus}
PDB: 2yya_A
Length = 424
Score = 746 bits (1929), Expect = 0.0
Identities = 196/426 (46%), Positives = 275/426 (64%), Gaps = 9/426 (2%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLV+G GGREHA+ + + +S ++ A GNAGI A + + D + + F +
Sbjct: 3 VLVVGNGGREHAIAWKVAQSPLVKELYVAKGNAGIWE--IAKRVD-ISPTDVEKLAEFAK 59
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
V +VGPEAPLV G+ ++ K G+ FGP+ EAA LEGSK F K KYGIPTA+
Sbjct: 60 NEGVDFTIVGPEAPLVEGIVDEFEKRGLKIFGPNKEAAKLEGSKAFAKTFMKKYGIPTAR 119
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+ FTD AK+Y+++ GAPIVVKADGLAAGKG +V T+E+A E +D L K FG +
Sbjct: 120 YEVFTDFEKAKEYVEKVGAPIVVKADGLAAGKGAVVCETVEKAIETLDRFLNKKIFGKSS 179
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
RV+IEEFLEGEEAS+ +++G+ +PL ++QDHKR+ D D GPNTGGMGAYSP PV+ +
Sbjct: 180 ERVVIEEFLEGEEASYIVMINGDRYVPLPTSQDHKRLLDEDKGPNTGGMGAYSPTPVINE 239
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
E++ + E I+ +KG+ EG + G LYAGLMI K+ PK++E+NVR GDPE Q ++
Sbjct: 240 EVEKRIREEIVERVIKGLKEEGIYYRGFLYAGLMITKEG--PKVLEFNVRLGDPEAQPIL 297
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
+R+++D E LL G+ V + A+ VV+AS+GYP E G I L+ + +
Sbjct: 298 MRVKNDFLETLLNFYEGKD--VHIKEDERYALDVVLASRGYPEKPETGKIIHGLDYLKSM 355
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
V +FHAGT + + +GGRVL V A GK ++EA++RAY A+ + + G YR+D
Sbjct: 356 -EDVVVFHAGTKKE-GNFTVTSGGRVLNVCAYGKTLKEAKERAYEAIRYVCFEGMHYRKD 413
Query: 505 IGWRAL 510
IG +A
Sbjct: 414 IGDKAF 419
>2yrx_A Phosphoribosylglycinamide synthetase; glycinamide ribonucleotide
synthetase, GAR synthetase; HET: AMP; 1.90A {Geobacillus
kaustophilus} PDB: 2yrw_A* 2ys6_A* 2ys7_A
Length = 451
Score = 747 bits (1930), Expect = 0.0
Identities = 212/435 (48%), Positives = 290/435 (66%), Gaps = 11/435 (2%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLVIG GGREHA+ + +S ++ APGN GI++ A + +D LD +A++ F +
Sbjct: 24 VLVIGRGGREHAIAWKAAQSPLVGKLYVAPGNPGIAD--VAELVH-IDELDIEALVQFAK 80
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+ ++ L +VGPEAPL SG+ ++ + G+ FGPS AA +EGSK F K L KYGIPTA
Sbjct: 81 QQAIDLTIVGPEAPLASGIVDRFMAEGLRIFGPSQRAALIEGSKAFAKELMKKYGIPTAD 140
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
+ FT AK YI+++GAPIV+KADGLAAGKGV VA T+EEA A + L+ FG+AG
Sbjct: 141 HAAFTSYEEAKAYIEQKGAPIVIKADGLAAGKGVTVAQTVEEALAAAKAALVDGQFGTAG 200
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
+V+IEE+LEGEE SF A V+GE PL AQDHKR DGD GPNTGGMGAYSP P ++
Sbjct: 201 SQVVIEEYLEGEEFSFMAFVNGEKVYPLAIAQDHKRAYDGDEGPNTGGMGAYSPVPQISD 260
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
E+ +E+I+ P K ++AEG F+GVLYAGLM PK+IE+N RFGDPE QV++
Sbjct: 261 EMMDAALEAILRPAAKALAAEGRPFLGVLYAGLMATANG--PKVIEFNARFGDPEAQVVL 318
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
RL++DL E +LA G+ + L W+ + + VV+A+KGYPG+YE+G+EI+ L+
Sbjct: 319 PRLKTDLVEAVLAVMDGKE--LELEWTDEAVLGVVLAAKGYPGAYERGAEIRGLDRIS-- 374
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
P +FHAGT + G + GGRVL + AKG+ + +A+++AY + I+ G FYRRD
Sbjct: 375 -PDALLFHAGTKRE-GGAWYTNGGRVLLLAAKGETLAKAKEKAYEQLAAIDCDGLFYRRD 432
Query: 505 IGWRALPQKQFATRE 519
IG RA+ + A
Sbjct: 433 IGRRAIERASAAYTR 447
>2xcl_A Phosphoribosylamine--glycine ligase; GAR-SYN, ATP-grAsp, metal
binding; HET: ANP; 2.10A {Bacillus subtilis} PDB:
2xd4_A*
Length = 422
Score = 745 bits (1926), Expect = 0.0
Identities = 216/430 (50%), Positives = 275/430 (63%), Gaps = 11/430 (2%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VL+IG GGREH L + +S + VF APGN G++ A + ++ D ++SF +
Sbjct: 3 VLIIGKGGREHTLAWKAAQSSLVENVFAAPGNDGMAA--SAQLVN-IEESDHAGLVSFAK 59
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+ VGL +VGPE PL+ GL ++ KAG+ FGPS AA +EGSK F K+L KY IPTA+
Sbjct: 60 QNQVGLTIVGPEVPLIEGLVDEFEKAGLHVFGPSKAAAIIEGSKQFAKDLMKKYDIPTAE 119
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+TFT + AK Y+QE+GAPIV+KADGLAAGKGV VAMT EEA + L FG A
Sbjct: 120 YETFTSFDEAKAYVQEKGAPIVIKADGLAAGKGVTVAMTEEEAIACLHDFLEDEKFGDAS 179
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
V+IEE+L GEE S A V GE P+ AQDHKR DGD GPNTGGMGAYSP P +++
Sbjct: 180 ASVVIEEYLSGEEFSLMAFVKGEKVYPMVIAQDHKRAFDGDKGPNTGGMGAYSPVPQISE 239
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
E +E+I+ P K M EG F GVLYAGLM+ + K+IE+N RFGDPE QV++
Sbjct: 240 ETVRHAVETIVKPAAKAMVQEGRSFTGVLYAGLMLTENG--SKVIEFNARFGDPETQVVL 297
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
R+ESDL +VLL + V L W +A+ VV+AS+GYP SY KG+ I +L
Sbjct: 298 PRMESDLVQVLLDLLDDKE--VDLRWKDTAAVSVVLASEGYPESYAKGTPIGSLAAE--- 352
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
V +FHAGT + G F+ GGRV VTA + E A+DR Y AV+EI PG F+R+D
Sbjct: 353 TEQVVVFHAGTKAE-GGEFVTNGGRVANVTAFDETFEAARDRVYKAVDEIFKPGLFFRKD 411
Query: 505 IGWRALPQKQ 514
IG RAL Q
Sbjct: 412 IGARALKAAQ 421
>2qk4_A Trifunctional purine biosynthetic protein adenosi; purine
synthesis, enzyme, protein-ATP complex, structural GE
structural genomics consortium, SGC; HET: ATP; 2.45A
{Homo sapiens}
Length = 452
Score = 741 bits (1915), Expect = 0.0
Identities = 203/432 (46%), Positives = 275/432 (63%), Gaps = 8/432 (1%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VL+IG GGREH L + L +SH V APGNAG + S + + + D A+ FC+
Sbjct: 27 VLIIGSGGREHTLAWKLAQSHHVKQVLVAPGNAGTACSEKISNTA-ISISDHTALAQFCK 85
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+ + VVVGPEAPL +G+ L AG+ FGP++EAA LE SK F K D++GIPTA+
Sbjct: 86 EKKIEFVVVGPEAPLAAGIVGNLRSAGVQCFGPTAEAAQLESSKRFAKEFMDRHGIPTAQ 145
Query: 205 YKTFTDPNAAKQYIQEEGAP-IVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSA 263
+K FT P A +I P +VVKA GLAAGKGVIVA + EEA +AV ++ + AFG+A
Sbjct: 146 WKAFTKPEEACSFILSADFPALVVKASGLAAGKGVIVAKSKEEACKAVQEIMQEKAFGAA 205
Query: 264 GCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLT 323
G ++IEE L+GEE S DG+ P+ AQDHKR+ +GD GPNTGGMGAY PAP ++
Sbjct: 206 GETIVIEELLDGEEVSCLCFTDGKTVAPMPPAQDHKRLLEGDGGPNTGGMGAYCPAPQVS 265
Query: 324 KELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVL 383
+L + ++++ TV GM EG + G+LYAG+M+ K PK++E+N RFGDPECQV+
Sbjct: 266 NDLLLKIKDTVLQRTVDGMQQEGTPYTGILYAGIMLTKNG--PKVLEFNCRFGDPECQVI 323
Query: 384 MVRLESDLAEVLLAACRGELTGVTLNW-SPGSAMVVVMASKGYPGSYEKGSEIQNLEEAE 442
+ L+SDL EV+ + G L W +A+ VVMASKGYPG Y KG EI EA+
Sbjct: 324 LPLLKSDLYEVIQSTLDGLLCTSLPVWLENHTALTVVMASKGYPGDYTKGVEITGFPEAQ 383
Query: 443 QVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYR 502
A +++FHAGTAL +G + GGRVL VTA +++ A + A + I + G YR
Sbjct: 384 --ALGLEVFHAGTALK-NGKVVTHGGRVLAVTAIRENLISALEEAKKGLAAIKFEGAIYR 440
Query: 503 RDIGWRALPQKQ 514
+DIG+RA+ Q
Sbjct: 441 KDIGFRAIAFLQ 452
>2ip4_A PURD, phosphoribosylamine--glycine ligase; GAR synthetase, purine
nucleotid structural genomics, NPPSFA; 2.80A {Thermus
thermophilus}
Length = 417
Score = 726 bits (1876), Expect = 0.0
Identities = 197/430 (45%), Positives = 270/430 (62%), Gaps = 16/430 (3%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
VLV+G GGREHAL + +S ++ APGNAG+ A +P D +A+ +
Sbjct: 3 VLVVGSGGREHALLWKAAQSPRVKRLYAAPGNAGMEA--LAELVPWNG--DVEALADWAL 58
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
+ L +VGPEAPLV G+A+ G+ FGP+ +AA +EGSK F K L ++YGIPTA+
Sbjct: 59 AEGIDLTLVGPEAPLVEGIADAFQARGLLLFGPTQKAAMIEGSKAFAKGLMERYGIPTAR 118
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
Y+ F +P A Y++E G P+VVK GLAAGKGV VA L +A +AV ++L + G
Sbjct: 119 YRVFREPLEALAYLEEVGVPVVVKDSGLAAGKGVTVAFDLHQAKQAVANIL----NRAEG 174
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
V++EE+LEGEEA+ AL DGE +PL +QDHKR+ DGD GP TGGMGA +P P+
Sbjct: 175 GEVVVEEYLEGEEATVLALTDGETILPLLPSQDHKRLLDGDQGPMTGGMGAVAPYPMDEA 234
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
L+ V E I+ P V+G+ AEG + GV+YAGLM+ ++ PK++E+N RFGDPE Q L+
Sbjct: 235 TLRR-VEEEILGPLVRGLRAEGVVYRGVVYAGLMLTREG--PKVLEFNARFGDPEAQALL 291
Query: 385 VRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQV 444
LE+DL E+ L G L G L+W G+A VV+A+ GYP S KG + E E
Sbjct: 292 PLLENDLVELALRVAEGRLAGTRLSWKEGAAACVVLAAPGYPESPRKGIPLHVPEPPE-- 349
Query: 445 APSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEINWPGGFYRRD 504
V +FHAGT + G ++ GGRVL V G+D++EA +RAY + ++ +PG YRRD
Sbjct: 350 --GVLVFHAGTRRE-GGRLVSAGGRVLNVVGLGRDLKEALERAYAYIPQVGFPGAVYRRD 406
Query: 505 IGWRALPQKQ 514
IG RAL +
Sbjct: 407 IGRRALARLS 416
>1vkz_A Phosphoribosylamine--glycine ligase; TM1250, structural GENO JCSG,
protein structure initiative, PSI, joint center for S
genomics; 2.30A {Thermotoga maritima} SCOP: b.84.2.1
c.30.1.1 d.142.1.2
Length = 412
Score = 684 bits (1768), Expect = 0.0
Identities = 153/438 (34%), Positives = 223/438 (50%), Gaps = 28/438 (6%)
Query: 69 PSVSVNAPTNAGQRVVVLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCI 128
S ++ + + V V ++G GGREHA+ +A + V PGNAG D T
Sbjct: 2 GSDKIHHHHHHMKAVRVHILGSGGREHAIGWAF--AKQGYEVHFYPGNAGTKR--DGTNH 57
Query: 129 PDLDVLDGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSK 188
+ + +V+ G E LV G++N FGP E A LEGSK
Sbjct: 58 ------PYEGEKTLKAIPEEDIVIPGSEEFLVEGVSNWRSNV----FGPVKEVARLEGSK 107
Query: 189 NFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAY 248
+ K KYGI TA+++ P ++ I++ P V+KADGLA GKGV++ + EE
Sbjct: 108 VYAKRFMKKYGIRTARFEVAETPEELREKIKKFSPPYVIKADGLARGKGVLILDSKEETI 167
Query: 249 EAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGP 308
E +++ V+I+EFL G E S A+V+G N + L +D+KR+ DGD GP
Sbjct: 168 EKGSKLIIGELIKGVKGPVVIDEFLAGNELSAMAVVNGRNFVILPFVRDYKRLMDGDRGP 227
Query: 309 NTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKL 368
NTGGMG++ P + + ++ +E + T+ G+ EG + G LY GLM+ P +
Sbjct: 228 NTGGMGSWGPVEIPSDTIK--KIEELFDKTLWGVEKEGYAYRGFLYLGLMLHDGD--PYI 283
Query: 369 IEYNVRFGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGS 428
+EYNVR GDPE +V++ +L RG + G A+ VV+A++GYP +
Sbjct: 284 LEYNVRLGDPETEVIVTLNPEGFVNAVLEGYRGGK--MEPVEPRGFAVDVVLAARGYPDA 341
Query: 429 YEKGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAY 488
EKG EI EE IF AG A DG + GGRVL G+ EEA+ +AY
Sbjct: 342 PEKGKEITLPEEG-------LIFFAGVAEK-DGKLVTNGGRVLHCMGTGETKEEARRKAY 393
Query: 489 LAVEEINWPGGFYRRDIG 506
E++++ G YRRDI
Sbjct: 394 ELAEKVHFEGKTYRRDIA 411
>4dim_A Phosphoribosylglycinamide synthetase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
ligase; 2.61A {Anaerococcus prevotii}
Length = 403
Score = 338 bits (868), Expect = e-112
Identities = 77/417 (18%), Positives = 147/417 (35%), Gaps = 33/417 (7%)
Query: 85 VLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCR 144
+L++G G + L A K + NA A I +D+ + D V +
Sbjct: 10 LLILGAGRGQLGLYKAAK-ELGIHTIAGTMPNAHKPCLNLADEISYMDISNPDEVEQKVK 68
Query: 145 KWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAK 204
++ + LA K + G + EAA + G K MK KY + TA+
Sbjct: 69 DLNLDGAATCCLDTGIVSLARICDKENLV--GLNEEAAIMCGDKYKMKEAFKKYNVNTAR 126
Query: 205 YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAG 264
+ + N K ++ P++VKA L KG+ +A EEA + + + +
Sbjct: 127 HFVVRNENELKNALENLKLPVIVKATDLQGSKGIYIAKKEEEAIDGFNETM----NLTKR 182
Query: 265 CRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTK 324
I+EEF+EG E A V + + + D + +G Y P V
Sbjct: 183 DYCIVEEFIEGYEFGAQAFVYKNDVLFVMPHGDETYM-----SHTAVPVGHYVPLDVKDD 237
Query: 325 ELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLM 384
++E K + A G + +++ K +IE R G C +
Sbjct: 238 -----IIEKTKTEVKKAIKALGLNN-CAVNVDMIL--KDNEVYIIELTGRVGA-NCLPEL 288
Query: 385 VRLES--DLAEVLLAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAE 442
V + + +++ + E + WS S ++ + + G + L
Sbjct: 289 VEINYGIEYYKMIASMAISEN--PLVFWSQKSKENKAGLARMIIETEKSGILKEILNSNA 346
Query: 443 QVAPSVKIFH----AGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEIN 495
+ + + N + + K + +++ +D+ + + IN
Sbjct: 347 KD-DDIVEITFFKEENDEIKKFENS---NDCIGQIIVKEETLDKCKDKLDVIINNIN 399
>2pn1_A Carbamoylphosphate synthase large subunit; ZP_00538348.1, ATP-grAsp
domain, carbamoylphosphate synthase subunit (split gene
in MJ); 2.00A {Exiguobacterium sibiricum}
Length = 331
Score = 174 bits (442), Expect = 3e-50
Identities = 60/300 (20%), Positives = 100/300 (33%), Gaps = 42/300 (14%)
Query: 86 LVIGGGGREHALCYALKRSHSCDAVFCA---PGNAGISNSGDATCIPDLDVLD-GDAVIS 141
L+I GR L + V A P + + + +P +D ++ D +++
Sbjct: 7 LLITSAGRRAKLVEYFVKEFKTGRVSTADCSPLASALYMADQHYIVPKIDEVEYIDHLLT 66
Query: 142 FCRKWSVGLVV--VGPEAPLVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYG 199
C+ V ++ + PE L++ + G+ A L K M C + G
Sbjct: 67 LCQDEGVTALLTLIDPELGLLAQATERFQAIGVTVIVSPYAACELCFDKYTMYEYCLRQG 126
Query: 200 IPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNA 259
I A+ E P+ VK +A V T+EE +
Sbjct: 127 IAHARTYATMASFEEALAAGEVQLPVFVKPRNGSASIEVRRVETVEEVEQLF-------- 178
Query: 260 FGSAGCRVIIEEFLEGEEASFFALVDGENAIPL---ESAQDHKRVGDGDTGPNTGGMGAY 316
S +I++E L G+E A VD + + R G+ D +
Sbjct: 179 --SKNTDLIVQELLVGQELGVDAYVDLISGKVTSIFIKEKLTMRAGETDKSRS------- 229
Query: 317 SPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFG 376
VL ++ ++ + G VG L L +G L E N RFG
Sbjct: 230 ----VLRDDV-----FELVEHVLDGS-----GLVGPLDFDLFD--VAGTLYLSEINPRFG 273
>3vmm_A Alanine-anticapsin ligase BACD; ATP-grAsp domain, amino acid
ligase, ATP binding; HET: ADP P0D; 2.50A {Bacillus
subtilis}
Length = 474
Score = 107 bits (268), Expect = 3e-25
Identities = 74/462 (16%), Positives = 143/462 (30%), Gaps = 70/462 (15%)
Query: 79 AGQRVVVLVIGGGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDG-- 136
A + +V I A AL +S I + + D + D
Sbjct: 27 AEKYNLVSFIPRPFAITASHAALIEKYSVAV---------IKDKDYFKSLADFEHPDSIY 77
Query: 137 --------------DAVISFCRKWSVGLVVVGPE--APLVSGLANKLVKAGIPTFGPSSE 180
+ ++ + + E ++ +L G+ G +
Sbjct: 78 WAHEDHNKPEEEVVEQIVKVAEMFGADAITTNNELFIAPMAKACERL---GLR--GAGVQ 132
Query: 181 AAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIV 240
AA KN M++ +K G+ + K K T + ++E G P+++K LA+ GV +
Sbjct: 133 AAENARDKNKMRDAFNKAGVKSIKNKRVTTLEDFRAALEEIGTPLILKPTYLASSIGVTL 192
Query: 241 AMTLEEAYEAVD------SMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLES 294
E A + + + + I EEFL+GE ++ + I +E
Sbjct: 193 ITDTETAEDEFNRVNDYLKSINVPKAVTFEAPFIAEEFLQGEYGDWYQTEGYSDYISIEG 252
Query: 295 AQDHKRV---GDGDTGPNTG--GMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKF 349
D P G +P+ L +E + ++E+ K G +
Sbjct: 253 IMADGEYFPIAIHDKTPQIGFTETSHITPSI-LDEEAKKKIVEA----AKKANEGLGLQN 307
Query: 350 VGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLMVRLES--DLAEVLL-AACRGELTGV 406
+ + + K+ P LIE RF + ++ D+A++LL C G+ +
Sbjct: 308 -CATHTEIKL-MKNREPGLIESAARFAGWNM-IPNIKKVFGLDMAQLLLDVLCFGKDADL 364
Query: 407 TLNWSPGSAMVVV--------------MASKGYPGSYEKGSEIQNLEEAEQVAPSVKIFH 452
V + E L + + S
Sbjct: 365 PDGLLDQEPYYVADCHLYPQHFKQNGQIPETAEDLVIEAIDIPDGLLKGDTEIVSFSAAA 424
Query: 453 AGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEI 494
GT++D + KG + ++ + +
Sbjct: 425 PGTSVDLT--LFEAFNSIAAFELKGSNSQDVAESIRQIQQHA 464
>2r85_A PURP protein PF1517; ATP-grAsp superfamily, unknown function; HET:
AMP; 1.70A {Pyrococcus furiosus} SCOP: c.30.1.8
d.142.1.9 PDB: 2r84_A* 2r86_A* 2r87_A*
Length = 334
Score = 67.0 bits (163), Expect = 3e-12
Identities = 39/237 (16%), Positives = 80/237 (33%), Gaps = 22/237 (9%)
Query: 151 VVVGPEAPLVS-GLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT 209
VV P V+ + +P FG + E +N + K GI + +
Sbjct: 64 AVVVPTGSFVAHLGIELVENMKVPYFG-NKRVLRWESDRNLERKWLKKAGIRVPE--VYE 120
Query: 210 DPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVII 269
DP+ + P++VK G GKG +A E+ + + L + I
Sbjct: 121 DPD-------DIEKPVIVKPHGAKGGKGYFLAKDPEDFWRKAEKF-LGIKRKEDLKNIQI 172
Query: 270 EEFLEGEEAS---FFALVDGENAIP-LESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKE 325
+E++ G F++ V E + ++ + G +
Sbjct: 173 QEYVLGVPVYPHYFYSKVREELELMSIDRRYESNVDAIGRIPAKDQLEFDMDITYTVIGN 232
Query: 326 LQSVVMESIILPTVK---GMSAEGCKFVGVLYAGLMIE---KKSGLPKLIEYNVRFG 376
+ V+ ES+++ ++ + + +G L+ +E + E + R
Sbjct: 233 IPIVLRESLLMDVIEAGERVVKAAEELMGGLWGPFCLEGVFTPDLEFVVFEISARIV 289
>2dwc_A PH0318, 433AA long hypothetical phosphoribosylglycinamide
transferase; purine ribonucleotide biosynthesis; HET:
ADP; 1.70A {Pyrococcus horikoshii} PDB: 2czg_A*
Length = 433
Score = 66.1 bits (162), Expect = 7e-12
Identities = 38/201 (18%), Positives = 82/201 (40%), Gaps = 25/201 (12%)
Query: 84 VVLVIGGG--GREHALCYALKR----SHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGD 137
+L++G G G+E + +R + D AP +++ + +++D D
Sbjct: 21 KILLLGSGELGKE--IAIEAQRLGVEVVAVDRYANAPA-MQVAH--RSYVG---NMMDKD 72
Query: 138 AVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAAL----EGSKNFMKN 193
+ S + ++ EA + L + K G P++ A + E + +
Sbjct: 73 FLWSVVEREKPDAIIPEIEAINLDALF-EFEKDGYFVV-PNARATWIAMHRERLR---ET 127
Query: 194 LCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDS 253
L + +PT++Y T + + ++ G P KA ++GKG E+ +A +
Sbjct: 128 LVKEAKVPTSRYMYATTLDELYEACEKIGYPCHTKAIMSSSGKGSYFVKGPEDIPKAWE- 186
Query: 254 MLLKNAFGSAGCRVIIEEFLE 274
K + ++I+EE ++
Sbjct: 187 -EAKTKARGSAEKIIVEEHID 206
Score = 33.0 bits (76), Expect = 0.22
Identities = 22/103 (21%), Positives = 34/103 (33%), Gaps = 19/103 (18%)
Query: 396 LAACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQVAPSVK--IFHA 453
+ + + P A V+ + L +A V P+ +F
Sbjct: 326 IPGEWVDGYRLFPMLIPA-ATHVI-----KAKVSGYSPRFRGLVKALSV-PNATVRLF-- 376
Query: 454 GTALDADGNFIATGGRVLGV-TAKGKDVEEAQDRAYLAVEEIN 495
G A GR LG+ A KDVE A+ +A + I
Sbjct: 377 -------GKPEAYVGRRLGIALAWDKDVEVAKRKAEMVAHMIE 412
>3ln6_A Glutathione biosynthesis bifunctional protein GSH; gamma-glutamyl
cysteine ligase domain, ATP-grAsp domain, HYB enzyme;
2.95A {Streptococcus agalactiae serogroup V}
Length = 750
Score = 66.5 bits (162), Expect = 1e-11
Identities = 33/134 (24%), Positives = 52/134 (38%), Gaps = 13/134 (9%)
Query: 159 LVSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYI 218
L + VK G T + +K K + D+ PT FTD A Y
Sbjct: 456 LWHNSHIEYVKNGNMTSKDNYIVPLAMANKVVTKKILDEKHFPTPFGDEFTDRKEALNYF 515
Query: 219 QE-EGAPIVVK-ADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSA---GCRVIIEEFL 273
+ + PIVVK G G+ + T + A A +++EE++
Sbjct: 516 SQIQDKPIVVKPKST-NFGLGISIFKTSANLAS------YEKAIDIAFTEDSAILVEEYI 568
Query: 274 EGEEASFFALVDGE 287
EG E FF +++G+
Sbjct: 569 EGTEYRFF-VLEGD 581
>1kjq_A GART 2, phosphoribosylglycinamide formyltransferase 2, 5'-;
ATP-grAsp, purine biosynthesis, nucleotide; HET: ADP
MPO; 1.05A {Escherichia coli} SCOP: b.84.2.1 c.30.1.1
d.142.1.2 PDB: 1kj9_A* 1kji_A* 1kjj_A* 1kj8_A* 1eyz_A*
1ez1_A*
Length = 391
Score = 61.4 bits (150), Expect = 3e-10
Identities = 42/201 (20%), Positives = 86/201 (42%), Gaps = 27/201 (13%)
Query: 85 VLVIGGG--GREHALCYALKR----SHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDA 138
V+++G G G+E + +R + D AP +++ + I ++LDGDA
Sbjct: 14 VMLLGSGELGKE--VAIECQRLGVEVIAVDRYADAPA-MHVAH--RSHVI---NMLDGDA 65
Query: 139 VISFCRKWSVGLVVVGPEAPLVS-GLANKLVKAGIPTFGPSSEAAAL----EGSKNFMKN 193
+ +V PE ++ + +L + G+ P + A L EG + +
Sbjct: 66 LRRVVELEKPHYIV--PEIEAIATDMLIQLEEEGLNVV-PCARATKLTMNREGIR---RL 119
Query: 194 LCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDS 253
++ +PT+ Y+ + ++ + + G P +VK ++GKG + E+ +A
Sbjct: 120 AAEELQLPTSTYRFADSESLFREAVADIGYPCIVKPVMSSSGKGQTFIRSAEQLAQAWKY 179
Query: 254 MLLKNAFGSAGCRVIIEEFLE 274
G+ RVI+E ++
Sbjct: 180 AQQGGRAGAG--RVIVEGVVK 198
Score = 31.4 bits (72), Expect = 0.74
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 16/92 (17%)
Query: 405 GVTLNWSPGSAMVVVMASKGYPGSYEKGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFI 464
G + P A V+ P + N++ A +++F G
Sbjct: 312 GGIRQYGPA-ASAVI-----LPQLTSQNVTFDNVQNAVGADLQIRLF---------GKPE 356
Query: 465 ATGGRVLGV-TAKGKDVEEAQDRAYLAVEEIN 495
G R LGV A + V +A +RA A ++
Sbjct: 357 IDGSRRLGVALATAESVVDAIERAKHAAGQVK 388
>3ln7_A Glutathione biosynthesis bifunctional protein GSH;
gamma-glutamylcysteine ligase domain, ATP-grAsp domain,
HYBR enzyme, ATP-binding; 3.20A {Pasteurella multocida}
Length = 757
Score = 61.9 bits (150), Expect = 3e-10
Identities = 27/115 (23%), Positives = 45/115 (39%), Gaps = 12/115 (10%)
Query: 178 SSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPN-AAKQYIQEEGAPIVVKADGLAAGK 236
S + + +K K + K G + FT A Y E +V+K G
Sbjct: 480 SYISPLIMENKVVTKKVLQKAGFNVPQSVEFTSLEKAVASYALFENRAVVIKPKSTNYGL 539
Query: 237 GVIVAM----TLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGE 287
G+ + E+ +A L+ AF V++E++L G E FF ++ E
Sbjct: 540 GITIFQQGVQNREDFAKA-----LEIAF-REDKEVMVEDYLVGTEYRFF-VLGDE 587
>3df7_A Putative ATP-grAsp superfamily protein; putative protein, PSI-II,
nysgrc., structural genomics, protein structure
initiative; 1.87A {Archaeoglobus fulgidus}
Length = 305
Score = 57.0 bits (137), Expect = 4e-09
Identities = 45/303 (14%), Positives = 91/303 (30%), Gaps = 55/303 (18%)
Query: 124 DATCIPDLDVLDGDAVISFCRKWSVGLVVVGPEAPLVSGLANKLVKAGIPTFGPSSEAAA 183
+ +C+ L V D++ + K L++ PE + K + G SS A A
Sbjct: 48 EFSCLFTLPVDSMDSMEKYLEKSDAFLII-APEDDFLLYTLTKKAEKYCENLGSSSRAIA 106
Query: 184 LEGSKN-FMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAM 242
+ K K L + +P + ++ ++K AG+G+ +
Sbjct: 107 VTSDKWELYKKLRGEVQVP-------------QTSLRPLDCKFIIKPRTACAGEGIGFSD 153
Query: 243 TLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVG 302
+ + + I +EF+EG S V + + Q
Sbjct: 154 EVPDGH-------------------IAQEFIEGINLSVSLAVGEDVKCLSVNEQIINNFR 194
Query: 303 DGDTGPNTGGMGAYSPAPVLTKELQSVVMESI-ILPTVKGMSAEGCKFVGVLYAGLMIEK 361
G + + + +E+ + ++ + + G G V
Sbjct: 195 YA------GAVVPARISDEVKREVVEEAVRAVECVEGLNGYV--GVDIV----------- 235
Query: 362 KSGLPKLIEYNVRFGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWSPGSAMVVVMA 421
S P +IE N R + +A++L + + S + V
Sbjct: 236 YSDQPYVIEINARLT-TPVVAFSRAYGASVADLLAGGEVKHVRRQMVRKSKSAEKPYVSV 294
Query: 422 SKG 424
Sbjct: 295 GDY 297
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 57.4 bits (138), Expect = 1e-08
Identities = 47/269 (17%), Positives = 83/269 (30%), Gaps = 88/269 (32%)
Query: 178 SSEAA--ALEGSKNFMKNLCDKYGI---------PTAKYKTFTDPNAAKQYIQEEGAPIV 226
+S+AA + N K D YG P F + I+E + ++
Sbjct: 1638 TSKAAQDVWNRADNHFK---DTYGFSILDIVINNPVNLTIHFGGEKG--KRIRENYSAMI 1692
Query: 227 VK--ADGLAAGKGVIVAMTLEEA---YEAVDSMLLKNAF--------GSAGCRVIIEEFL 273
+ DG + + + + + +L F A + + L
Sbjct: 1693 FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGL 1752
Query: 274 EGEEASFFA---LVDGE--------NAIPLESAQD--HKR-------VGDGDTGPNTGGM 313
+ FA L GE + + +ES + R V + G + GM
Sbjct: 1753 I-PADATFAGHSL--GEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGM 1809
Query: 314 GAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIE--- 370
A +P V S E ++V + K++G L+E
Sbjct: 1810 IAINPGRV-----------------AASFSQEALQYVVE-----RVGKRTG--WLVEIVN 1845
Query: 371 YNVRFGDPECQVL----MVRLESDLAEVL 395
YNV Q + + L++ + VL
Sbjct: 1846 YNV----ENQQYVAAGDLRALDT-VTNVL 1869
Score = 50.0 bits (119), Expect = 2e-06
Identities = 77/506 (15%), Positives = 136/506 (26%), Gaps = 189/506 (37%)
Query: 30 ASSNNLRFSVGPNFSISFNPQGSKSSFFSTVKCLAQKSQPSVSVNAPTNAGQRVVVLVIG 89
N + +I F QG+ +F ++ L Q V + + + + L+
Sbjct: 149 VGEGNAQL-----VAI-FGGQGNTDDYFEELRDLYQTYHVLVG-DLIKFSAETLSELI-- 199
Query: 90 GGGREHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCRKWSVG 149
R + + + + + N + PD D L IS
Sbjct: 200 ---RTTLDAEKV-FTQGLNIL------EWLENPSNT---PDKDYLLS-IPISC------- 238
Query: 150 LVVVGPEAPL--VSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKT 207
PL V LA+ +V G
Sbjct: 239 --------PLIGVIQLAHYVV-------------------------TAKLLGF------- 258
Query: 208 FTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVA------MTLEEAYEAVDSMLLKNAFG 261
P + Y++ GA +G++ A + E + +V + F
Sbjct: 259 --TPGELRSYLK--GA--------TGHSQGLVTAVAIAETDSWESFFVSVRKA-ITVLF- 304
Query: 262 SAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPV 321
G R EA ++P +D +G P+P+
Sbjct: 305 FIGVR--------CYEAY------PNTSLPPSILEDSLENNEG------------VPSPM 338
Query: 322 LT------KELQSVVME-----------SIIL---PTVKGMSAEGCKFV--G---VLYA- 355
L+ +++Q V + I L V G LY
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK---------NLVVSGPPQSLYGL 389
Query: 356 GLMIEKKSGLPKLIEYNVRFGD--PECQV--LMVRL--ESDLAEVLLAACRGELTGVTLN 409
L + K L + + F + + L V S L +L ++
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS 449
Query: 410 WSPGSAMVVVMASKGYPGSYEKGSEIQNLEE------AEQVA------PSVKIFHAGTAL 457
++ + V Y GS+++ L + + + F A L
Sbjct: 450 FNAKDIQIPV-----Y--DTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Query: 458 DADGNFIATG-GRVLGV---TAKGKD 479
D F G G G+ T + KD
Sbjct: 503 D----F---GPGGASGLGVLTHRNKD 521
Score = 44.7 bits (105), Expect = 7e-05
Identities = 57/375 (15%), Positives = 96/375 (25%), Gaps = 141/375 (37%)
Query: 200 IPTAKY-------KTFTD--PNAAKQYIQ--EEGAPIVVKADGLAA---GKGVIVAMTLE 245
+PTA + + F P + + E P L G V+ +E
Sbjct: 22 VPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA-----ELVGKFLG---YVSSLVE 73
Query: 246 EAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEA-SFFALVDGENAIPLESAQDHKRVGDG 304
+ +L +LEG + + A + EN L ++ +
Sbjct: 74 PSKVGQFDQVLNLCLTE-----FENCYLEGNDIHALAAKLLQENDTTLVKTKELIK---- 124
Query: 305 DTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCKFVGVLYA--GLMIEKK 362
Y A ++ K S + V +A+ L A G
Sbjct: 125 ----------NYITARIMAKRPFDKKSNSALFRAVGEGNAQ-------LVAIFG------ 161
Query: 363 SG-------LPKLIE----YNVRFGDPECQVLMVRLESDLAEVLLAACRGELTGVTLNWS 411
G +L + Y+V GD L AE L EL TL+
Sbjct: 162 -GQGNTDDYFEELRDLYQTYHVLVGD---------LIKFSAETLS-----ELIRTTLDAE 206
Query: 412 PGSAMVVVMASKGYPGSYEKGSEIQN-LEEAEQVAPSVKIF-HA-----GTALDADGNFI 464
+ +G I LE P + +++
Sbjct: 207 K---------------VFTQGLNILEWLENPSN-TPDKDYLLSIPISCPLIGVIQLAHYV 250
Query: 465 ATGGRVLGVT------------------------AKGKDVEEAQDRAYLAVEEINWPGGF 500
T ++LG T A+ E A+ + +
Sbjct: 251 VTA-KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF---- 305
Query: 501 YRRDIGWRALPQKQF 515
IG R + +
Sbjct: 306 ----IGVRC--YEAY 314
>2r7k_A 5-formaminoimidazole-4-carboxamide-1-(beta)-D- ribofuranosyl
5'-monophosphate synthetase...; ATP-grAsp superfamily,
ATP-binding; HET: ACP AMZ; 2.10A {Methanocaldococcus
jannaschii} SCOP: c.30.1.8 d.142.1.9 PDB: 2r7l_A*
2r7m_A* 2r7n_A*
Length = 361
Score = 56.2 bits (135), Expect = 1e-08
Identities = 26/133 (19%), Positives = 49/133 (36%), Gaps = 13/133 (9%)
Query: 151 VVVGPEAPLVS--GLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTF 208
+V P ++ GL N +P FG + E ++ L + G+ K +
Sbjct: 87 SIVVPHGSFIAYCGLDNVENSFLVPMFG-NRRILRWESERSLEGKLLREAGLRVPK--KY 143
Query: 209 TDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCR-V 267
P ++ ++VK G G+G +A + EE Y+ + + +
Sbjct: 144 ESP-------EDIDGTVIVKFPGARGGRGYFIASSTEEFYKKAEDLKKRGILTDEDIANA 196
Query: 268 IIEEFLEGEEASF 280
IEE++ G
Sbjct: 197 HIEEYVVGTNFCI 209
>2pvp_A D-alanine-D-alanine ligase; 2.40A {Helicobacter pylori}
Length = 367
Score = 53.4 bits (129), Expect = 6e-08
Identities = 30/107 (28%), Positives = 41/107 (38%), Gaps = 7/107 (6%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEE-GAPIVVK 228
I GP EA+ L +K K GI T Y + N A P +VK
Sbjct: 132 YRIAFIGPRIEASVLSYNKYLTKLYAKDLGIKTLDYVLLNEKNRANALDLMNFNFPFIVK 191
Query: 229 ADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
+ GV V +E A+D +AF V+IE F++G
Sbjct: 192 PSNAGSSLGVNVVKEEKELIYALD-----SAF-EYSKEVLIEPFIQG 232
>3aw8_A PURK, phosphoribosylaminoimidazole carboxylase, ATPase; structural
genomics, riken structural genomics/proteomics in RSGI,
ATP grAsp; HET: AMP; 2.60A {Thermus thermophilus}
Length = 369
Score = 52.5 bits (127), Expect = 2e-07
Identities = 26/102 (25%), Positives = 42/102 (41%), Gaps = 17/102 (16%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
P ++A + + K G+PT + P ++ ++ G P ++K D
Sbjct: 86 PPAKALEVAQDRLREKTFFQGLGVPTPPFHPVDGPEDLEEGLKRVGLPALLKTRRGGYD- 144
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
GKG + T EEA EA+ A G G I+E F+
Sbjct: 145 ---GKGQALVRTEEEALEALK------ALGGRGL--ILEGFV 175
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 52.5 bits (127), Expect = 2e-07
Identities = 27/84 (32%), Positives = 42/84 (50%), Gaps = 4/84 (4%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGK----GVIVAMTLEEA 247
K + +YG+P K P AK+ +E G +V+KA G+ GV +A T +EA
Sbjct: 9 KEILARYGVPVPPGKVAYTPEEAKRIAEEFGKRVVIKAQVHVGGRGKAGGVKLADTPQEA 68
Query: 248 YEAVDSMLLKNAFGSAGCRVIIEE 271
YE ++L N G +V++ E
Sbjct: 69 YEKAQAILGMNIKGLTVKKVLVAE 92
>3tqt_A D-alanine--D-alanine ligase; cell envelope; 1.88A {Coxiella
burnetii}
Length = 372
Score = 51.5 bits (124), Expect = 3e-07
Identities = 22/116 (18%), Positives = 44/116 (37%), Gaps = 17/116 (14%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT----DPNAAKQYIQEEGA-P 224
+P G + +++A+ K+ K + GIP + T + ++ + G
Sbjct: 123 LNLPYVGANVQSSAVCMEKDLTKTVLRAGGIPVVDWHTLSPRDATEGVYQRLLDRWGTSE 182
Query: 225 IVVKADGLAAG---KGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
+ VKA + + T E +A +K F R+++E + G E
Sbjct: 183 LFVKA---VSLGSSVATLPVKTETEFTKA-----VKEVF-RYDDRLMVEPRIRGRE 229
>3r5x_A D-alanine--D-alanine ligase; alpha-beta structure, cytosol,
structural genomics, for structural genomics of
infectious diseases, csgid; HET: MSE ATP; 2.00A
{Bacillus anthracis} PDB: 3r23_A*
Length = 307
Score = 51.3 bits (124), Expect = 3e-07
Identities = 28/110 (25%), Positives = 47/110 (42%), Gaps = 11/110 (10%)
Query: 171 GIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT-DPNAAKQYIQEEGAPIVVKA 229
GIP G + ++ + KN K + GI T + T + + + G P+VVK
Sbjct: 81 GIPYSGSNMLSSGICMDKNISKKILRYEGIETPDWIELTKMEDLNFDELDKLGFPLVVKP 140
Query: 230 DGLAAG--KGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
+ G GV + +E L+ F V+IE++++GEE
Sbjct: 141 --NSGGSSVGVKIVYDKDELISM-----LETVF-EWDSEVVIEKYIKGEE 182
>2qf7_A Pyruvate carboxylase protein; multi-domain, multi-functional,
biotin-dependent, ligase; HET: KCX COA AGS; 2.00A
{Rhizobium etli} PDB: 3tw6_A* 3tw7_A*
Length = 1165
Score = 51.6 bits (124), Expect = 6e-07
Identities = 29/118 (24%), Positives = 46/118 (38%), Gaps = 10/118 (8%)
Query: 163 LANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQ 219
+ KAGI F GP ++ G+K +NL G+P A D +
Sbjct: 110 FVDACNKAGI-IFIGPKADTMRQLGNKVAARNLAISVGVPVVPATEPLPDDMAEVAKMAA 168
Query: 220 EEGAPIVVKADGLAAGKGVIVAMT---LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
G P+++KA G+G+ V + L + AFG V +E+ +E
Sbjct: 169 AIGYPVMLKASWGGGGRGMRVIRSEADLAKEVTEAKRE-AMAAFGKDE--VYLEKLVE 223
>3q2o_A Phosphoribosylaminoimidazole carboxylase, ATPase; carboxylates, ATP
binding, lyase; 1.96A {Bacillus anthracis} PDB: 3qff_A*
3r5h_A*
Length = 389
Score = 50.6 bits (122), Expect = 6e-07
Identities = 24/102 (23%), Positives = 42/102 (41%), Gaps = 17/102 (16%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
S+ + ++ KN +K G+P A Y+ + + I E P V+K D
Sbjct: 102 QGSQLLSKTQNRFTEKNAIEKAGLPVATYRLVQNQEQLTEAIAELSYPSVLKTTTGGYD- 160
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
GKG +V + + EA +A C I+E+++
Sbjct: 161 ---GKGQVVLRSEADVDEARK------LANAAEC--ILEKWV 191
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 51.0 bits (121), Expect = 8e-07
Identities = 39/305 (12%), Positives = 75/305 (24%), Gaps = 100/305 (32%)
Query: 176 GPSSEAAALEGSKNFMKN---LCDKYGIPTAK-YKTFTDPNAAKQYIQEEGAPIVVKADG 231
PS ++ + N + KY + + Y A + + +++ DG
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR--QALLELRPAKN--VLI--DG 157
Query: 232 LA-AGKGVIVAMTLEEAYEAVDSMLLKNAFG----SAGCRVIIEEFLEGEEA-------S 279
+ +GK + + K F + E LE + +
Sbjct: 158 VLGSGKTWVALDVCLS-----YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 280 FFALVDGENAIPL--ESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILP 337
+ + D + I L S Q R + L ++L
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRR--------------LLKSKPYENCL-------LVLL 251
Query: 338 TVKGMSAEGCKFVGVLYAGLMIEKKSGLPKLIEYNVRFGDPECQVLMVRLESDLAEVLLA 397
V+ K F + C++L+ + + L A
Sbjct: 252 NVQN------------------------AKAWNA---F-NLSCKILLTTRFKQVTDFLSA 283
Query: 398 ACRGELTGVTLNWSPGSAMVVVMASKGYPGSYEK-------GSEIQNL-EEAEQVAP-SV 448
A ++ + S K Q+L E P +
Sbjct: 284 ATTTHIS-------------LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL 330
Query: 449 KIFHA 453
I
Sbjct: 331 SIIAE 335
Score = 40.6 bits (94), Expect = 0.001
Identities = 18/92 (19%), Positives = 28/92 (30%), Gaps = 8/92 (8%)
Query: 163 LANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTD--PNAAKQYIQE 220
L K+ S L+ K + +CD D P + I
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICS 562
Query: 221 EGAPIVVKADGLAAGKGVIVAMTLEEAYEAVD 252
+ ++ A L A I EEA++ V
Sbjct: 563 KYTDLLRIA--LMAEDEAIF----EEAHKQVQ 588
Score = 39.5 bits (91), Expect = 0.003
Identities = 51/331 (15%), Positives = 84/331 (25%), Gaps = 106/331 (32%)
Query: 42 NFSISFNPQGSKSSFFSTVKCLAQKSQPSVSVNAPTNAGQRVVVLVIGGGGREHALCYAL 101
+ S++ P KS + C Q V P + ++
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP---------RRL-------SIIAES 336
Query: 102 KRSHSC-----DAVFCAPGNAGISNSGDA-------TCIPDLDVLDGDAVIS---FCRKW 146
R V C I +S + L V A I W
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396
Query: 147 SVGLVVVGPEAPLVSGLANK-LVKA-------GIPTF-----GPSSEAAALEGSKNFMKN 193
++ +V+ L LV+ IP+ AL ++
Sbjct: 397 F-DVIKSDVMV-VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH------RS 448
Query: 194 LCDKYGIPTAKYKTFTDPNAAKQYI------------QEEGA---PIV----------VK 228
+ D Y IP P QY E +V ++
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIR 508
Query: 229 ADGLAAGKGVIVAMTLE--EAYE-------AVDSMLLKNAFGSAGCRVIIEEFLEGEEAS 279
D A + TL+ + Y+ L+ I +FL E +
Sbjct: 509 HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA----------ILDFLPKIEEN 558
Query: 280 F----------FALVDGENAIPLESAQDHKR 300
AL+ + AI E+ + +R
Sbjct: 559 LICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>3hbl_A Pyruvate carboxylase; TIM barrel, ligase; HET: BTI ADP; 2.71A
{Staphylococcus aureus subsp} PDB: 3bg5_A* 3ho8_A*
3hb9_A*
Length = 1150
Score = 50.4 bits (121), Expect = 1e-06
Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 10/118 (8%)
Query: 163 LANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQ 219
A + + GI F GP E + G K + K +P AK++ +
Sbjct: 94 FARRCAEEGI-KFIGPHLEHLDMFGDKVKARTTAIKADLPVIPGTDGPIKSYELAKEFAE 152
Query: 220 EEGAPIVVKADGLAAGKGVIVAMT---LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
E G P+++KA GKG+ + LE+A+ S + +FG++ V IE +++
Sbjct: 153 EAGFPLMIKATSGGGGKGMRIVREESELEDAFHRAKSE-AEKSFGNSE--VYIERYID 207
>2dzd_A Pyruvate carboxylase; biotin carboxylase, ligase; 2.40A
{Geobacillus thermodenitrificans}
Length = 461
Score = 49.4 bits (119), Expect = 2e-06
Identities = 30/118 (25%), Positives = 50/118 (42%), Gaps = 10/118 (8%)
Query: 163 LANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT--AKYKTFTDPNAAKQYIQ 219
A + + GI F GP+ + G K ++ GIP + +
Sbjct: 96 FAKRCREEGI-IFIGPNENHLDMFGDKVKARHAAVNAGIPVIPGSDGPVDGLEDVVAFAE 154
Query: 220 EEGAPIVVKADGLAAGKGVIVAMT---LEEAYEAVDSMLLKNAFGSAGCRVIIEEFLE 274
G PI++KA G+G+ + + ++EA+E S K AFGS V +E+ +E
Sbjct: 155 AHGYPIIIKAALGGGGRGMRIVRSKSEVKEAFERAKSE-AKAAFGSDE--VYVEKLIE 209
>2z04_A Phosphoribosylaminoimidazole carboxylase ATPase subunit; purine
nucleotide biosynthetic pathway, structural genomics,
NPPSFA; 2.35A {Aquifex aeolicus}
Length = 365
Score = 48.7 bits (117), Expect = 2e-06
Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 17/102 (16%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
P+ +A ++ S+ K K+G P ++ ++ P+V+KA D
Sbjct: 82 PNPQALYVKKSRIREKLFLKKHGFPVPEFLVIKRD-EIIDALKSFKLPVVIKAEKLGYD- 139
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
GKG LE+A + V + IIEEF+
Sbjct: 140 ---GKGQYRIKKLEDANQVVKNHD-----KEESF--IIEEFV 171
>2i87_A D-alanine-D-alanine ligase; APO; 2.00A {Staphylococcus aureus
subsp} PDB: 2i8c_A* 3n8d_A* 2i80_A*
Length = 364
Score = 48.7 bits (117), Expect = 2e-06
Identities = 25/115 (21%), Positives = 44/115 (38%), Gaps = 13/115 (11%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT------DPNAAKQYIQEE-G 222
+P G +AA K MK L + G+P Y +F + + + ++
Sbjct: 112 LDVPYVGNGVLSAASSMDKLVMKQLFEHRGLPQLPYISFLRSEYEKYEHNILKLVNDKLN 171
Query: 223 APIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
P+ VK L + G+ E E +K AF +++IE+ + E
Sbjct: 172 YPVFVKPANLGSSVGISKCNNEAELKEG-----IKEAF-QFDRKLVIEQGVNARE 220
>1e4e_A Vancomycin/teicoplanin A-type resistance protein; ligase, cell
WALL, antibiotic resistance, membrane, peptidog
synthesis; HET: ADP PHY; 2.5A {Enterococcus faecium}
SCOP: c.30.1.2 d.142.1.1 PDB: 1e4e_B*
Length = 343
Score = 48.4 bits (116), Expect = 3e-06
Identities = 21/108 (19%), Positives = 42/108 (38%), Gaps = 8/108 (7%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA 229
+GIP G +++A+ K+ + GI T + + P+ VK
Sbjct: 115 SGIPFVGCDIQSSAICMDKSLTYIVAKNAGIATPAFWVINKDDRPV--AATFTYPVFVKP 172
Query: 230 DGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
+ GV + +E A +++A +++IE+ + G E
Sbjct: 173 ARSGSSFGVKKVNSADELDYA-----IESAR-QYDSKILIEQAVSGCE 214
>3u9t_A MCC alpha, methylcrotonyl-COA carboxylase, alpha-subunit; biotin
carboxylase, carboxyltransferase, BT domain, BCCP DOM
ligase; 2.90A {Pseudomonas aeruginosa} PDB: 3u9s_A
Length = 675
Score = 48.4 bits (116), Expect = 4e-06
Identities = 41/156 (26%), Positives = 66/156 (42%), Gaps = 27/156 (17%)
Query: 134 LDGDAVISFCRKWSVGLVVVGPEAPLV----------SGLANKLVKAGIPTF-GPSSEAA 182
L GD +I+ G +A + + A +AG+ F GP + A
Sbjct: 87 LRGDRIIAAALA-------SGAQA--IHPGYGFLSENADFARACEEAGL-LFLGPPAAAI 136
Query: 183 ALEGSKNFMKNLCDKYGIPTAK--YKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIV 240
GSK+ K L ++ G+P + D ++ G P+++KA GKG+ V
Sbjct: 137 DAMGSKSAAKALMEEAGVPLVPGYHGEAQDLETFRREAGRIGYPVLLKAAAGGGGKGMKV 196
Query: 241 AMTLEEAYEAVDSMLL--KNAFGSAGCRVIIEEFLE 274
E EA+ S K AFG A R+++E++L
Sbjct: 197 VEREAELAEALSSAQREAKAAFGDA--RMLVEKYLL 230
>3ax6_A Phosphoribosylaminoimidazole carboxylase, ATPase; structural
genomics, riken structural genomics/proteomics in RSGI,
ATP grAsp, ATP binding; HET: ADP; 2.20A {Thermotoga
maritima}
Length = 380
Score = 47.9 bits (115), Expect = 4e-06
Identities = 25/96 (26%), Positives = 36/96 (37%), Gaps = 13/96 (13%)
Query: 166 KLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPI 225
KL G PS + K K K GIP +YK D + ++E G P+
Sbjct: 80 KLYNEGYKIH-PSPYTLEIIQDKFVQKEFLKKNGIPVPEYKLVKDLESD---VREFGFPV 135
Query: 226 VVKA-----DGLAAGKGVIVAMTLEEAYEAVDSMLL 256
V KA D G+GV + ++ A+
Sbjct: 136 VQKARKGGYD----GRGVFIIKNEKDLENAIKGETY 167
>1ehi_A LMDDL2, D-alanine:D-lactate ligase; ATP-binding. grAsp motif for
ATP.; HET: ADP PHY; 2.38A {Leuconostoc mesenteroides}
SCOP: c.30.1.2 d.142.1.1
Length = 377
Score = 48.0 bits (115), Expect = 5e-06
Identities = 27/110 (24%), Positives = 38/110 (34%), Gaps = 10/110 (9%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEE----GAPI 225
P G A+ K K L GI KY +A + G +
Sbjct: 118 LDKPYVGAPLRGHAVSFDKALTKELLTVNGIRNTKYIVVDPESANNWSWDKIVAELGNIV 177
Query: 226 VVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
VKA + G+ EE EA L ++F +V+IEE + G
Sbjct: 178 FVKAANQGSSVGISRVTNAEEYTEA-----LSDSF-QYDYKVLIEEAVNG 221
>4e4t_A Phosphoribosylaminoimidazole carboxylase, ATPase; structural
genomics, seattle structural genomics center for
infectious disease, ssgcid; 1.55A {Burkholderia
ambifaria} PDB: 3uvz_A
Length = 419
Score = 48.0 bits (115), Expect = 5e-06
Identities = 20/105 (19%), Positives = 36/105 (34%), Gaps = 20/105 (19%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPN---AAKQYIQEEGAPIVVKA---- 229
P+ A+ + K + G+P A + A + P ++K
Sbjct: 123 PAGRCVAVAQDRIAEKRFIEASGVPVAPHVVIESAAALAALDDAALDAVLPGILKTARLG 182
Query: 230 -DGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
D GKG + T EA +A ++ G ++E+ L
Sbjct: 183 YD----GKGQVRVSTAREARDAHAAL--------GGVPCVLEKRL 215
>3se7_A VANA; alpha-beta structure, D-alanine-D-lactate ligase, ligase;
HET: ATP; 3.07A {}
Length = 346
Score = 47.6 bits (114), Expect = 5e-06
Identities = 26/108 (24%), Positives = 42/108 (38%), Gaps = 8/108 (7%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA 229
+GIP G +++AL K+ + GI T + T T + P+ VK
Sbjct: 115 SGIPYVGCDIQSSALCMDKSLTYLVARSAGIATPNFWTVTADEKIP--TDQLTYPVFVKP 172
Query: 230 DGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
+ GV E+ A ++ A +V+IEE + G E
Sbjct: 173 ARSGSSFGVSKVAREEDLQGA-----VEAAR-EYDSKVLIEEAVIGTE 214
>3orq_A N5-carboxyaminoimidazole ribonucleotide synthetas; ATP-grAsp
superfamily, ligase,biosynthetic protein; HET: MSE ADP;
2.23A {Staphylococcus aureus subsp} PDB: 3orr_A
Length = 377
Score = 47.5 bits (114), Expect = 6e-06
Identities = 17/102 (16%), Positives = 34/102 (33%), Gaps = 17/102 (16%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
+A L + K G + + + + I+ G P +VK D
Sbjct: 100 QGYQAIQLLQDRLTEKETLKSAGTKVVPFISVKESTDIDKAIETLGYPFIVKTRFGGYD- 158
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
GKG ++ ++ E ++ C + E++L
Sbjct: 159 ---GKGQVLINNEKDLQEGFK------LIETSEC--VAEKYL 189
>3k5i_A Phosphoribosyl-aminoimidazole carboxylase; purine biosynthesis,
ATP-grAsp, lyase; HET: NHE ADP AIR; 2.00A {Aspergillus
clavatus} PDB: 3k5h_A*
Length = 403
Score = 47.2 bits (113), Expect = 7e-06
Identities = 21/104 (20%), Positives = 45/104 (43%), Gaps = 19/104 (18%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAA--KQYIQEEGAPIVVKA----- 229
PS +A +K K KYGIP A+++ + A + ++ G P+++K+
Sbjct: 113 PSWQAIRTIQNKFNQKEHLRKYGIPMAEHRELVENTPAELAKVGEQLGYPLMLKSKTMAY 172
Query: 230 DGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
D G+G + ++ EA++++ + E++
Sbjct: 173 D----GRGNFRVNSQDDIPEALEAL--------KDRPLYAEKWA 204
>3eth_A Phosphoribosylaminoimidazole carboxylase ATPase subunit; ATP-grAsp,
purine biosynthesis, antimicrobial, ATP-binding,
decarboxylase, lyase; HET: ATP; 1.60A {Escherichia coli}
SCOP: b.84.2.1 c.30.1.1 d.142.1.2 PDB: 1b6r_A* 3etj_A*
1b6s_A*
Length = 355
Score = 46.8 bits (112), Expect = 9e-06
Identities = 17/102 (16%), Positives = 32/102 (31%), Gaps = 19/102 (18%)
Query: 177 PSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA-----DG 231
+ + + + K L DK +PTA ++ + + G +VK D
Sbjct: 69 VNRDVFPIIADRLTQKQLFDKLHLPTAPWQLLAERSEWPAVFDRLGELAIVKRRTGGYD- 127
Query: 232 LAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFL 273
G+G E + C I+E+ +
Sbjct: 128 ---GRGQWRLRANETEQLPAECY--------GEC--IVEQGI 156
>3i12_A D-alanine-D-alanine ligase A; D-alanyl-alanine synthetase A, ADP
binding protein, csgid, A binding, cell shape; HET: ADP;
2.20A {Salmonella typhimurium} PDB: 3q1k_A*
Length = 364
Score = 46.8 bits (112), Expect = 9e-06
Identities = 27/115 (23%), Positives = 43/115 (37%), Gaps = 16/115 (13%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEE----GAPI 225
A +P G ++A K+ K L G+ A + T T N E G P+
Sbjct: 123 ANLPFVGSDVLSSAACMDKDVAKRLLRDAGLNIAPFITLTRTNRHAFSFAEVESRLGLPL 182
Query: 226 VVKADGLAAG---KGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
VK A GV + +A + AF +V++E+ ++G E
Sbjct: 183 FVKP---ANQGSSVGVSKVANEAQYQQA-----VALAF-EFDHKVVVEQGIKGRE 228
>3lwb_A D-alanine--D-alanine ligase; DDL, D-alanyl--D-alanine ligase
RV2981C, structural genomics, TB structural GENO
consortium, TBSGC; 2.10A {Mycobacterium tuberculosis}
Length = 373
Score = 46.5 bits (111), Expect = 1e-05
Identities = 27/110 (24%), Positives = 42/110 (38%), Gaps = 8/110 (7%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT--DPNAAKQYIQEEGAPIVV 227
AG+P G A+A+ K F K L G+P Y +Q + G P+ V
Sbjct: 134 AGVPYVGAGVLASAVGMDKEFTKKLLAADGLPVGAYAVLRPPRSTLHRQECERLGLPVFV 193
Query: 228 KADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
K + GV + ++ A + A +VI+E + G E
Sbjct: 194 KPARGGSSIGVSRVSSWDQLPAA-----VARAR-RHDPKVIVEAAISGRE 237
>3n6r_A Propionyl-COA carboxylase, alpha subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Ruegeria pomeroyi}
Length = 681
Score = 46.9 bits (112), Expect = 1e-05
Identities = 33/119 (27%), Positives = 51/119 (42%), Gaps = 14/119 (11%)
Query: 164 ANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPTAK--YKTFTDPNAAKQYIQE 220
A L G+ F GP A G K K + + + T D + A + +
Sbjct: 92 AEALEAEGV-IFVGPPKGAIEAMGDKITSKKIAQEANVSTVPGYMGLIEDADEAVKISNQ 150
Query: 221 EGAPIVVKADGLAA---GKGVIVAMTLEEAYEAVDSMLL--KNAFGSAGCRVIIEEFLE 274
G P+++KA +A GKG+ +A +EA E S N+FG R+ IE+F+
Sbjct: 151 IGYPVMIKA---SAGGGGKGMRIAWNDQEAREGFQSSKNEAANSFGDD--RIFIEKFVT 204
>1iow_A DD-ligase, DDLB, D-ALA\:D-Ala ligase; glycogen phosphorylase, cell
WALL, peptidoglycan synthesis, vancomycin, ADP binding;
HET: ADP PHY; 1.90A {Escherichia coli} SCOP: c.30.1.2
d.142.1.1 PDB: 1iov_A* 2dln_A* 3v4z_A*
Length = 306
Score = 46.4 bits (111), Expect = 1e-05
Identities = 29/115 (25%), Positives = 44/115 (38%), Gaps = 13/115 (11%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT-------DPNAAKQYIQEEG 222
G+P G A+AL K K L G+P A + T + I G
Sbjct: 79 MGLPYTGSGVMASALSMDKLRSKLLWQGAGLPVAPWVALTRAEFEKGLSDKQLAEISALG 138
Query: 223 APIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
P++VK + G+ + +A L+ AF V+IE++L G E
Sbjct: 139 LPVIVKPSREGSSVGMSKVVAENALQDA-----LRLAF-QHDEEVLIEKWLSGPE 187
>2w70_A Biotin carboxylase; ligase, ATP-binding, fatty acid biosynthesis,
nucleotide-BIN lipid synthesis, ATP-grAsp domain,
fragment screening; HET: L22; 1.77A {Escherichia coli}
PDB: 1bnc_A 2j9g_A* 2v58_A* 2v59_A* 2v5a_A* 2vr1_A*
2w6m_A* 1dv1_A* 2w6o_A* 2w6n_A* 2w6q_A* 2w6z_A* 2w6p_A*
2w71_A* 3jzf_A* 3jzi_A* 3rv3_A* 3rup_A* 1dv2_A* 3rv4_A*
...
Length = 449
Score = 46.7 bits (112), Expect = 1e-05
Identities = 28/112 (25%), Positives = 48/112 (42%), Gaps = 9/112 (8%)
Query: 169 KAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT---AKYKTFTDPNAAKQYIQEEGAP 224
++G F GP +E L G K K G+P + D + + + G P
Sbjct: 97 RSGF-IFIGPKAETIRLMGDKVSAIAAMKKAGVPCVPGSDGPLGDDMDKNRAIAKRIGYP 155
Query: 225 IVVKADGLAAGKGVIVAMTLEEAYEAVDS--MLLKNAFGSAGCRVIIEEFLE 274
+++KA G G+G+ V E +++ K AF + V +E++LE
Sbjct: 156 VIIKASGGGGGRGMRVVRGDAELAQSISMTRAEAKAAFSNDM--VYMEKYLE 205
>3ouz_A Biotin carboxylase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta fold,
cytosol, LIG; HET: MSE ADP SRT TLA; 1.90A {Campylobacter
jejuni subsp} PDB: 3ouu_A*
Length = 446
Score = 45.9 bits (110), Expect = 2e-05
Identities = 30/111 (27%), Positives = 50/111 (45%), Gaps = 8/111 (7%)
Query: 169 KAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPTA--KYKTFTDPNAAKQYIQEEGAPI 225
K I F GPS EA L K+ K + + G+P AAK+ +E G P+
Sbjct: 101 KHNI-KFIGPSVEAMNLMSDKSKAKQVMQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPV 159
Query: 226 VVKADGLAAGKGVIVAMTLEEAYEAVDS--MLLKNAFGSAGCRVIIEEFLE 274
++KA G+G+ V ++ +A S AFG + +E++++
Sbjct: 160 ILKAAAGGGGRGMRVVENEKDLEKAYWSAESEAMTAFGDGT--MYMEKYIQ 208
>1ulz_A Pyruvate carboxylase N-terminal domain; biotin carboxylase; 2.20A
{Aquifex aeolicus} SCOP: b.84.2.1 c.30.1.1 d.142.1.2
Length = 451
Score = 45.9 bits (110), Expect = 2e-05
Identities = 32/116 (27%), Positives = 51/116 (43%), Gaps = 8/116 (6%)
Query: 164 ANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPTA--KYKTFTDPNAAKQYIQE 220
A +AGI TF GP + L G K K + K G+P AK +E
Sbjct: 91 AKMCEEAGI-TFIGPHWKVIELMGDKARSKEVMKKAGVPVVPGSDGVLKSLEEAKALARE 149
Query: 221 EGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDS--MLLKNAFGSAGCRVIIEEFLE 274
G P+++KA G+G+ + EE + + + AFG +++E+F+E
Sbjct: 150 IGYPVLLKATAGGGGRGIRICRNEEELVKNYEQASREAEKAFGRGD--LLLEKFIE 203
>3va7_A KLLA0E08119P; carboxylase, ligase; HET: BTI; 2.60A {Kluyveromyces
lactis}
Length = 1236
Score = 46.2 bits (110), Expect = 2e-05
Identities = 25/115 (21%), Positives = 51/115 (44%), Gaps = 7/115 (6%)
Query: 164 ANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPTAK-YKTFTDPNAAKQYIQEE 221
+++ + I F GPS +A G K+ + + ++ +P D AK+ ++
Sbjct: 121 SDRCSQENI-VFVGPSGDAIRKLGLKHSAREIAERAKVPLVPGSGLIKDAKEAKEVAKKL 179
Query: 222 GAPIVVKADGLAAGKGVIVAMTLEEAYEAVDS--MLLKNAFGSAGCRVIIEEFLE 274
P++VK+ G G+ + ++ ++ K+ FG AG V +E F+
Sbjct: 180 EYPVMVKSTAGGGGIGLQKVDSEDDIERVFETVQHQGKSYFGDAG--VFMERFVN 232
>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.23.4.1 d.142.1.4
PDB: 1scu_B* 2nu6_B* 1jkj_B* 2nu7_B* 2nu9_B* 2nua_B*
2scu_B* 1jll_B* 1cqj_B* 1cqi_B*
Length = 388
Score = 45.5 bits (109), Expect = 3e-05
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 12/92 (13%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPI-VVKADGLAAGK----GVIVAMTLEE 246
K L +YG+P T P A++ + GA VVK A G+ GV V + E+
Sbjct: 9 KQLFARYGLPAPVGYACTTPREAEEAASKIGAGPWVVKCQVHAGGRGKAGGVKVVNSKED 68
Query: 247 AYEAVDSMLLKNAF----GSAGC---RVIIEE 271
++ L K + G ++++E
Sbjct: 69 IRAFAENWLGKRLVTYQTDANGQPVNQILVEA 100
>4eg0_A D-alanine--D-alanine ligase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.65A {Burkholderia ambifaria} PDB: 4egq_A
Length = 317
Score = 45.2 bits (108), Expect = 3e-05
Identities = 26/110 (23%), Positives = 42/110 (38%), Gaps = 10/110 (9%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTD----PNAAKQYIQEEGAPI 225
GI G +AL K K + + G+PT ++T A + + G P+
Sbjct: 90 YGIRYTGSGVLGSALGLDKFRTKLVWQQTGVPTPPFETVMRGDDYAARATDIVAKLGLPL 149
Query: 226 VVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
VK + V+ T + A L A + VI+E+ +EG
Sbjct: 150 FVKPASEGSSVAVLKVKTADALPAA-----LSEAA-THDKIVIVEKSIEG 193
>3e5n_A D-alanine-D-alanine ligase A; bacterial blight; 2.00A {Xanthomonas
oryzae PV} PDB: 3r5f_A* 3rfc_A*
Length = 386
Score = 44.9 bits (107), Expect = 4e-05
Identities = 25/115 (21%), Positives = 42/115 (36%), Gaps = 16/115 (13%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFT---DPNAAKQYIQEE-GAPI 225
A +P G +A+ K+ K + + A + F +A + + G P+
Sbjct: 142 ANLPFVGSGVLGSAVAMDKDMAKRVLRDARLAVAPFVCFDRHTAAHADVDTLIAQLGLPL 201
Query: 226 VVKADGLA-AG--KGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
VK A G GV T + A L A + +V++E + G E
Sbjct: 202 FVKP---ANQGSSVGVSQVRTADAFAAA-----LALAL-AYDHKVLVEAAVAGRE 247
>2vpq_A Acetyl-COA carboxylase; bacteria, ATP-grAsp domain, biotin
carboxylase, ligase; HET: ANP; 2.1A {Staphylococcus
aureus}
Length = 451
Score = 45.2 bits (108), Expect = 4e-05
Identities = 29/111 (26%), Positives = 49/111 (44%), Gaps = 8/111 (7%)
Query: 169 KAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPTA--KYKTFTDPNAAKQYIQEEGAPI 225
+ F GPS ++ G K+ K K +P D + AK+ ++ G P+
Sbjct: 96 ACQL-KFIGPSYQSIQKMGIKDVAKAEMIKANVPVVPGSDGLMKDVSEAKKIAKKIGYPV 154
Query: 226 VVKADGLAAGKGVIVAMTLEEAYEAVDS--MLLKNAFGSAGCRVIIEEFLE 274
++KA GKG+ VA +E + AFG+ G + +E+F+E
Sbjct: 155 IIKATAGGGGKGIRVARDEKELETGFRMTEQEAQTAFGNGG--LYMEKFIE 203
>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_A*
Length = 425
Score = 44.5 bits (106), Expect = 5e-05
Identities = 24/101 (23%), Positives = 36/101 (35%), Gaps = 18/101 (17%)
Query: 192 KNLCDKYGIPTAK------YKTFTDPNAAKQYIQEE----GAPIVVKADGLAA--GK--G 237
K L K+ T+ Y T + +Q+ +VVK D L GK
Sbjct: 12 KELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPDQLIKRRGKLGL 71
Query: 238 VIVAMTLEEAYEAVDSMLLKN-AFGSAG---CRVIIEEFLE 274
V V +TL+ + L + G A +IE F+
Sbjct: 72 VGVNLTLDGVKSWLKPRLGQEATVGKATGFLKNFLIEPFVP 112
>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active
site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus
scrofa} SCOP: c.23.4.1 d.142.1.4 PDB: 2fpg_B* 2fpi_B*
2fpp_B* 1euc_B* 1eud_B*
Length = 395
Score = 44.0 bits (105), Expect = 7e-05
Identities = 21/99 (21%), Positives = 34/99 (34%), Gaps = 19/99 (19%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAP-IVVKADGLAAGK-----------GVI 239
K L G+ ++ N A + + A IV+KA LA G+ GV
Sbjct: 9 KKLMSDNGVKVQRFFVADTANEALEAAKRLNAKEIVLKAQILAGGRGKGVFSSGLKGGVH 68
Query: 240 VAMTLEEAYEAVDSMLLKNAF----GSAGC---RVIIEE 271
+ E + M+ N G +V++ E
Sbjct: 69 LTKDPEVVGQLAKQMIGYNLATKQTPKEGVKVNKVMVAE 107
>2fb9_A D-alanine:D-alanine ligase; 1.90A {Thermus caldophilus} PDB:
2zdh_A* 2yzg_A 2yzn_A* 2yzm_A* 2zdg_A* 2zdq_A*
Length = 322
Score = 42.6 bits (101), Expect = 2e-04
Identities = 19/106 (17%), Positives = 34/106 (32%), Gaps = 9/106 (8%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKA 229
G P G A+AL K+ K + + G+P + P VK
Sbjct: 101 LGKPYVGAGVAASALCMDKDLSKRVLAQAGVPVVPWVAVRKGEPPVVPF---DPPFFVKP 157
Query: 230 DGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
+ G+ ++ A+ AF + ++E+ L
Sbjct: 158 ANTGSSVGISRVERFQDLEAALA-----LAF-RYDEKAVVEKALSP 197
>1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
c.30.1.6 d.142.1.7 PDB: 1uc9_A*
Length = 280
Score = 40.5 bits (95), Expect = 7e-04
Identities = 51/274 (18%), Positives = 82/274 (29%), Gaps = 43/274 (15%)
Query: 100 ALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVISFCRKWSVGLVVVGPEAPL 159
A V+ + +L+ + C S GL
Sbjct: 20 AEALGLPYKKVYVPALPMVLGERP-----KELE--GVTVALERCVSQSRGLAA------- 65
Query: 160 VSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQ 219
A L GIP E G K K G+P K TD A + ++
Sbjct: 66 ----ARYLTALGIPVV-NRPEVIEACGDKWATSVALAKAGLPQPKTALATDREEALRLME 120
Query: 220 EEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEAS 279
G P+V+K + G+ + + F I+E++E
Sbjct: 121 AFGYPVVLKPVIGSWGRLLAXXXXXXXXXXXXXXKEVLGGFQH--QLFYIQEYVEKPGRD 178
Query: 280 FFALVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTV 339
V GE AI A ++R T G G P LT+E+ + +++
Sbjct: 179 IRVFVVGERAI----AAIYRRSAHWITNTARG--GQAENCP-LTEEVARLSVKA------ 225
Query: 340 KGMSAEGCKFVGVLYAGL-MIEKKSGLPKLIEYN 372
+ VG + + E + G + E N
Sbjct: 226 -------AEAVGGGVVAVDLFESERG-LLVNEVN 251
>3k3p_A D-alanine--D-alanine ligase; D-alanyl-alanine synthetase,
ATP-binding, cell shape, cell W biogenesis/degradation,
magnesium, manganese; 2.23A {Streptococcus mutans}
Length = 383
Score = 40.7 bits (96), Expect = 7e-04
Identities = 19/113 (16%), Positives = 41/113 (36%), Gaps = 11/113 (9%)
Query: 170 AGIPTFGPSSEAAALEGSKNFMKNLCDKY-GIPTAKYKTFTDPNAAKQYIQEE----GAP 224
+P G + ++++ K + + IP Y + + + E P
Sbjct: 144 LKMPYVGTNILSSSVAMDKITTNQVLESATTIPQVAYVALIEGEPLESKLAEVEEKLIYP 203
Query: 225 IVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEE 277
+ VK + + G+ A + +A + A RV+IE+ ++ E
Sbjct: 204 VFVKPANMGSSVGISKAENRTDLKQA-----IALALKYDS-RVLIEQGVDARE 250
>3jrx_A Acetyl-COA carboxylase 2; BC domain, soraphen A, alternative
splicing, ATP-binding, biotin, fatty acid biosynthesis,
ligase, lipid synthesis; HET: S1A; 2.50A {Homo sapiens}
PDB: 3jrw_A*
Length = 587
Score = 38.8 bits (91), Expect = 0.003
Identities = 25/145 (17%), Positives = 43/145 (29%), Gaps = 41/145 (28%)
Query: 163 LANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT------------------- 202
L L K G+ F GP SEA G K + +PT
Sbjct: 156 LPELLCKNGV-AFLGPPSEAMWALGDKIASTVVAQTLQVPTLPWSGSGLTVEWTEDDLQQ 214
Query: 203 ----------AKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMT---LEEAYE 249
D + + + G P+++KA GKG+ A + +
Sbjct: 215 GKRISVPEDVYDKGCVKDVDEGLEAAERIGFPLMIKASEGGGGKGIRKAESAEDFPILFR 274
Query: 250 AVDSMLLKNAFGSAGCRVIIEEFLE 274
V ++ G + + + +
Sbjct: 275 QV-----QSEIP--GSPIFLMKLAQ 292
>1wr2_A Hypothetical protein PH1789; structural genomics, NPPSFA, national
on protein structural and functional analyses; 2.00A
{Pyrococcus horikoshii}
Length = 238
Score = 38.0 bits (89), Expect = 0.004
Identities = 19/94 (20%), Positives = 37/94 (39%), Gaps = 11/94 (11%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLA------AGKGVIV----A 241
K + YG+P + K + A +Y +E G P+V+K A V++
Sbjct: 26 KQVLKAYGLPVPEEKLAKTLDEALEYAKEIGYPVVLKLMSPQILHKSDAK-VVMLNIKNE 84
Query: 242 MTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEG 275
L++ +E + K + V++ L+
Sbjct: 85 EELKKKWEEIHENAKKYRPDAEILGVLVAPMLKP 118
>1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION, membrane
protein; HET: ATP; 2.10A {Rattus norvegicus} SCOP:
c.30.1.5 d.142.1.3 PDB: 1px2_A*
Length = 422
Score = 38.7 bits (89), Expect = 0.004
Identities = 32/211 (15%), Positives = 61/211 (28%), Gaps = 36/211 (17%)
Query: 169 KAGIPTFGPSSEAAALEGSKNFMKN--LCDKYGIPTAKYKT--FTDPNAAKQYIQEEGAP 224
AGIP+ S + K ++ + + T ++ T K+ + P
Sbjct: 208 YAGIPSV-NSLHSVYNFCDKPWVFAQMVRLHKKLGTEEFPLIDQTFYPNHKEMLSSTTYP 266
Query: 225 IVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALV 284
+VVK +G G + + + E F++ +
Sbjct: 267 VVVKMGHAHSGMGKVKVDNQHDFQDIAS------VVALTKTYATAEPFID-AKYDVRVQK 319
Query: 285 DGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSA 344
G+N + G+ NTG +E I + +
Sbjct: 320 IGQNYKAYM-----RTSVSGNWKTNTGSAM----------------LEQIAMSDRYKLWV 358
Query: 345 EGC--KFVGVLYAGL-MIEKKSGLPKLIEYN 372
+ C F G+ + + K G +IE
Sbjct: 359 DTCSEIFGGLDICAVEALHGKDGRDHIIEVV 389
>3glk_A Acetyl-COA carboxylase 2; ATP binding, alternative splicing,
ATP-binding, biotin, fatty acid biosynthesis, ligase,
lipid synthesis, manganese; 2.10A {Homo sapiens} PDB:
3gid_A 2hjw_A 2yl2_A
Length = 540
Score = 38.4 bits (90), Expect = 0.005
Identities = 25/145 (17%), Positives = 43/145 (29%), Gaps = 41/145 (28%)
Query: 163 LANKLVKAGIPTF-GPSSEAAALEGSKNFMKNLCDKYGIPT------------------- 202
L L K G+ F GP SEA G K + +PT
Sbjct: 140 LPELLCKNGV-AFLGPPSEAMWALGDKIASTVVAQTLQVPTLPWSGSGLTVEWTEDDLQQ 198
Query: 203 ----------AKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMT---LEEAYE 249
D + + + G P+++KA GKG+ A + +
Sbjct: 199 GKRISVPEDVYDKGCVKDVDEGLEAAERIGFPLMIKASEGGGGKGIRKAESAEDFPILFR 258
Query: 250 AVDSMLLKNAFGSAGCRVIIEEFLE 274
V ++ G + + + +
Sbjct: 259 QV-----QSEIP--GSPIFLMKLAQ 276
>2cqy_A Propionyl-COA carboxylase alpha chain, mitochondrial; PCCA, B
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 108
Score = 35.2 bits (82), Expect = 0.008
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 10/92 (10%)
Query: 187 SKNFMKNLCDKYGIPTA--KYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTL 244
SK K K + T D A + +E G P+++KA GKG+ +A
Sbjct: 12 SKLLAK----KAEVNTIPGFDGVVKDAEEAVRIAREIGYPVMIKASAGGGGKGMRIAWDD 67
Query: 245 EEAYEAVDSMLL--KNAFGSAGCRVIIEEFLE 274
EE + ++FG R++IE+F++
Sbjct: 68 EETRDGFRLSSQEAASSFGDD--RLLIEKFID 97
>2p0a_A Synapsin-3, synapsin III; neurotransmitter release, schizophrenia,
vesicle T structural genomics, structural genomics
consortium, SGC, neuropeptide; HET: ANP; 1.90A {Homo
sapiens}
Length = 344
Score = 34.4 bits (78), Expect = 0.075
Identities = 34/213 (15%), Positives = 61/213 (28%), Gaps = 36/213 (16%)
Query: 167 LVKAGIPTFGPSSEAAALEGSKNFMKNLCDKYGIPTAKYKT----FTDPNAAKQYIQEEG 222
L G+P S + SK ++ + K K T K +
Sbjct: 111 LQYGGLPAV-NSLYSVYNFCSKPWVFSQLIKIFHSLGPEKFPLVEQTFFPNHKPMVTAPH 169
Query: 223 APIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFA 282
P+VVK AG G I + + + + + E F++ +
Sbjct: 170 FPVVVKLGHAHAGMGKIKVENQLDFQDITSVVAMAKTY------ATTEAFID-SKYDIRI 222
Query: 283 LVDGENAIPLESAQDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGM 342
G N + G+ NTG ++E + + +
Sbjct: 223 QKIGSNYKAYM-----RTSISGNWKANTGSA----------------MLEQVAMTERYRL 261
Query: 343 SAEGCK--FVGVLYAGL-MIEKKSGLPKLIEYN 372
+ C F G+ + + K G +IE
Sbjct: 262 WVDSCSEMFGGLDICAVKAVHSKDGRDYIIEVM 294
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.4 bits (75), Expect = 0.078
Identities = 5/18 (27%), Positives = 12/18 (66%)
Query: 58 STVKCLAQKSQPSVSVNA 75
+++K A S P++++ A
Sbjct: 27 ASLKLYADDSAPALAIKA 44
Score = 29.9 bits (66), Expect = 1.2
Identities = 6/27 (22%), Positives = 13/27 (48%), Gaps = 7/27 (25%)
Query: 430 EKGSEIQNLEEAEQVAPSVKIFHAGTA 456
EK ++ L+ S+K++ +A
Sbjct: 18 EK-QALKKLQA------SLKLYADDSA 37
>1i7n_A Synapsin II; synapse, phosphorylation, neuropeptide; 1.90A {Rattus
norvegicus} SCOP: c.30.1.5 d.142.1.3 PDB: 1i7l_A 1auv_A
1aux_A*
Length = 309
Score = 33.6 bits (76), Expect = 0.15
Identities = 40/258 (15%), Positives = 74/258 (28%), Gaps = 40/258 (15%)
Query: 124 DATCIPDLDVLDGDAVISFCRKWSVGLVVVGP----EAPLVSGLANKLVKAGIPTFGPSS 179
D T D+ VL + + L+ E L + AG+P+ S
Sbjct: 47 DGTYAVDMQVLRNGTKVVRSFRPDFVLIRQHAFGMAENEDFRHLVIGMQYAGLPSI-NSL 105
Query: 180 EAAALEGSKNF----MKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAG 235
E+ K + M + G T ++ + P+VVK +G
Sbjct: 106 ESIYNFCDKPWVFAQMVAIFKTLGGEKFPLIEQTYYPNHREMLTLPTFPVVVKIGHAHSG 165
Query: 236 KGVIVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESA 295
G + + + + L + E F++ + G N
Sbjct: 166 MGKVKVENHYDFQDIASVVALTQTY------ATAEPFID-AKYDIRVQKIGNNYKAYM-- 216
Query: 296 QDHKRVGDGDTGPNTGGMGAYSPAPVLTKELQSVVMESIILPTVKGMSAEGCK--FVGVL 353
+ G+ NTG ++E I + + + C F G+
Sbjct: 217 ---RTSISGNWKTNTGSA----------------MLEQIAMSDRYKLWVDACSEMFGGLD 257
Query: 354 YAGL-MIEKKSGLPKLIE 370
+ + K G + E
Sbjct: 258 ICAVKAVHGKDGKDYIFE 275
>3m2t_A Probable dehydrogenase; PSI, SGXNY, structural genomics, protein
structure initiative; HET: NAD; 2.30A {Chromobacterium
violaceum}
Length = 359
Score = 33.1 bits (76), Expect = 0.19
Identities = 10/79 (12%), Positives = 20/79 (25%), Gaps = 26/79 (32%)
Query: 191 MKNLCDKYGIPTAKYKTFTDPNAAKQYIQEEG-------------APIVVKADGLAAGKG 237
+ + + A + + + + A ++ G
Sbjct: 44 ARRVHRFISDI----PVLDNVPAM---LNQVPLDAVVMAGPPQLHFEMGLLA--MSKGVN 94
Query: 238 VIV----AMTLEEAYEAVD 252
V V TLEE +D
Sbjct: 95 VFVEKPPCATLEELETLID 113
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 33.6 bits (78), Expect = 0.20
Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 162 GLANKLVKAGIPTFGPSSEA--AALEGSKNFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQ 219
LA L AG+P G S +A A E + F ++ ++ + T T A + +
Sbjct: 649 KLARALEAAGVPVIGTSPDAIDRA-EDRERF-QHAVERLKLKQPANATVTAIEMAVEKAK 706
Query: 220 EEGAPIVV 227
E G P+VV
Sbjct: 707 EIGYPLVV 714
>2x4l_A Ferric-siderophore receptor protein; transport; 1.50A {Streptomyces
coelicolor}
Length = 325
Score = 32.2 bits (73), Expect = 0.36
Identities = 14/77 (18%), Positives = 27/77 (35%)
Query: 418 VVMASKGYPGSYEKGSEIQNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKG 477
V++ + ++ ++ ++APSV I L + LG K
Sbjct: 113 VLITTTFDTAGTLWSVPEESKDKVAKLAPSVAISVFDRQLTQPLQRMWELAESLGADMKA 172
Query: 478 KDVEEAQDRAYLAVEEI 494
K V +A+ A +
Sbjct: 173 KKVTDAKAAFDKAAARL 189
>1h6d_A Precursor form of glucose-fructose oxidoreductase; protein
translocation, periplasmic oxidoreductase, signal
peptide, ligand binding,; HET: NDP; 2.05A {Zymomonas
mobilis} SCOP: c.2.1.3 d.81.1.5 PDB: 1h6b_A* 1h6a_A*
1h6c_A* 1ryd_A* 1rye_A* 1ofg_A* 1evj_A*
Length = 433
Score = 32.0 bits (73), Expect = 0.42
Identities = 13/78 (16%), Positives = 26/78 (33%), Gaps = 30/78 (38%)
Query: 196 DKYGIPTAKYKTFTD-----------------PNAAKQYIQEEGAPIVVKADGLAAGKGV 238
+YG+ K +++ PN+ A ++A AGK V
Sbjct: 127 AEYGVDPRKIYDYSNFDKIAKDPKIDAVYIILPNSLH-------AEFAIRA--FKAGKHV 177
Query: 239 IV----AMTLEEAYEAVD 252
+ A ++ + +D
Sbjct: 178 MCEKPMATSVADCQRMID 195
>2p2s_A Putative oxidoreductase; YP_050235.1, structural genomics, joint
center for structural genomics, JCSG; HET: MSE; 1.25A
{Pectobacterium atrosepticum SCRI1043}
Length = 336
Score = 31.2 bits (71), Expect = 0.68
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
A + ++ L AGK TLE+
Sbjct: 80 AELALRT--LDAGKDFFTAKPPLTTLEQLDAVQR 111
>3ip3_A Oxidoreductase, putative; structural genomics, PSI-2, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 2.14A {Thermotoga maritima}
Length = 337
Score = 30.8 bits (70), Expect = 1.2
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
I+++A L V A T E+ +
Sbjct: 81 GKILLEA--LERKIHAFVEKPIATTFEDLEKIRS 112
>1xea_A Oxidoreductase, GFO/IDH/MOCA family; structural genomics, protein
structure initiative, NYSGXRC, VCA1048, GFO/IDH/MOCA
family oxidoreductase; 2.65A {Vibrio cholerae} SCOP:
c.2.1.3 d.81.1.5
Length = 323
Score = 30.5 bits (69), Expect = 1.4
Identities = 11/77 (14%), Positives = 19/77 (24%), Gaps = 25/77 (32%)
Query: 192 KNLCDKYGIPTAKYKTFTDPNAAKQYIQEEG------------APIVVKADGLAAGKGVI 239
L +Y + T TD +Q + + L G
Sbjct: 41 GTLATRYRVS----ATCTDYRDV---LQYGVDAVMIHAATDVHSTLAAFF--LHLGIPTF 91
Query: 240 V----AMTLEEAYEAVD 252
V A + +E +
Sbjct: 92 VDKPLAASAQECENLYE 108
>3db2_A Putative NADPH-dependent oxidoreductase; two domain protein,
rossman fold, putative dehydrogenase, ST genomics; 1.70A
{Desulfitobacterium hafniense dcb-2}
Length = 354
Score = 30.4 bits (69), Expect = 1.6
Identities = 6/34 (17%), Positives = 15/34 (44%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
A ++ + +GK + V +++L+ A
Sbjct: 80 AEVIEQC--ARSGKHIYVEKPISVSLDHAQRIDQ 111
>3ami_A Zinc peptidase; alpha/beta, zinc binding, hydrolase; 2.40A
{Sphingomonas} PDB: 3amj_C
Length = 445
Score = 30.4 bits (69), Expect = 1.7
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 5/59 (8%)
Query: 436 QNLEEAEQVAPSVKIFHAGTALDADGNFIATGGRVLGVTAKGKDVEEAQDRAYLAVEEI 494
+ L + A S + + G FI + GV +KG + + + V +I
Sbjct: 285 RQLVRGNKHAVSAGAGYDSLSRGQQGLFI-----LEGVPSKGVTIAQLETDLRAQVRDI 338
>3tl4_X Glutaminyl-tRNA synthetase; glutamine, appended domain, hinge, tRNA
LIG amidotransferase, ligase; 2.30A {Saccharomyces
cerevisiae}
Length = 187
Score = 29.5 bits (66), Expect = 1.8
Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%)
Query: 199 GIPTAKYKTFTDPNAAKQYIQEEGAPIVVKADGLAAGKGVIVAMTLEEAYEAVDSMLLKN 258
GI KT +AA +Y++ G +G G+ + T ++ V + +N
Sbjct: 76 GIINGDLKTSLQVDAAFKYVKANGEASTKMGMNENSGVGIEI--TEDQVRNYVMQYIQEN 133
Query: 259 A 259
Sbjct: 134 K 134
>3qns_A DYP peroxidase; lignan, heme, enzyme, oxidoreductase; HET: HEM SO4;
1.40A {Rhodococcus jostii RHA1} PDB: 3qnr_A* 3ved_A*
3vec_A* 3vef_A* 3vee_A* 3veg_A*
Length = 353
Score = 29.9 bits (67), Expect = 1.9
Identities = 13/67 (19%), Positives = 22/67 (32%), Gaps = 1/67 (1%)
Query: 239 IVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDH 298
I A + +E ++ +A + F + VDG + A D
Sbjct: 111 IKAARKDLCFELG-RQIVSALGSAATVVDEVHGFRYFDSRDLLGFVDGTENPTDDDAADS 169
Query: 299 KRVGDGD 305
+GD D
Sbjct: 170 ALIGDED 176
>4fb5_A Probable oxidoreductase protein; PSI-biology, nysgrc, structural
genomics, NEW YORK structura genomics research
consortium, GFO/IDH/MOCA family; 2.61A {Rhizobium etli}
Length = 393
Score = 30.1 bits (68), Expect = 1.9
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVI----VAMTLEEAYEAVD 252
A + + A L AGK V +A +A +
Sbjct: 108 AEMAIAA--LEAGKHVWCEKPMAPAYADAERMLA 139
>3oqb_A Oxidoreductase; structural genomics, protein structure INI NEW YORK
structural genomix research consortium, NYSGXRC, PSI-2;
2.60A {Bradyrhizobium japonicum}
Length = 383
Score = 29.8 bits (67), Expect = 2.1
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
++ +A + AGK V A EEA E V
Sbjct: 97 PGLLTQA--INAGKHVYCEKPIATNFEEALEVVK 128
>1tlt_A Putative oxidoreductase (virulence factor MVIM HO; structural
genomics, NYSGXRC, PSI, protein structure initiative;
2.70A {Escherichia coli} SCOP: c.2.1.3 d.81.1.5
Length = 319
Score = 28.8 bits (65), Expect = 3.8
Identities = 10/34 (29%), Positives = 13/34 (38%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
+V L AG V V A L +A V+
Sbjct: 79 FDVVSTL--LNAGVHVCVDKPLAENLRDAERLVE 110
>2iiz_A Melanin biosynthesis protein TYRA, putative; NP_716371.1, putative
melanin biosynthesis protein TYRA, STR genomics, PSI-2;
HET: MSE HEM; 2.30A {Shewanella oneidensis} SCOP:
d.58.4.14 PDB: 2hag_A*
Length = 312
Score = 29.1 bits (65), Expect = 3.8
Identities = 8/67 (11%), Positives = 16/67 (23%), Gaps = 1/67 (1%)
Query: 239 IVAMTLEEAYEAVDSMLLKNAFGSAGCRVIIEEFLEGEEASFFALVDGENAIPLESAQDH 298
+ + + + + + F + VDG Q+
Sbjct: 107 LRCDRYDILHLVA-NEISQMFEDLVELVEEERGFRFMDSRDLTGFVDGTENPKGRHRQEV 165
Query: 299 KRVGDGD 305
VG D
Sbjct: 166 ALVGSED 172
>1jnr_A Adenylylsulfate reductase; oxidoreductase; HET: FAD; 1.60A
{Archaeoglobus fulgidus dsm 4304} SCOP: a.7.3.1 c.3.1.4
d.168.1.1 PDB: 1jnz_A* 2fjb_A* 2fja_A* 2fjd_A* 2fje_A*
Length = 643
Score = 29.0 bits (65), Expect = 4.2
Identities = 17/93 (18%), Positives = 27/93 (29%), Gaps = 36/93 (38%)
Query: 85 VLVIGGGGREHALCYA----------------------LKRSHSC----DAVFCAPGNAG 118
+L+IGGG + C A ++RS + A+ G
Sbjct: 25 ILIIGGGF---SGCGAAYEAAYWAKLGGLKVTLVEKAAVERSGAVAQGLSAINTYIDLTG 81
Query: 119 ISNSGD------ATCIPDLDVL-DGDAVISFCR 144
S + D+ L D V + R
Sbjct: 82 RSERQNTLEDYVRYVTLDMMGLAREDLVADYAR 114
>2p5q_A Glutathione peroxidase 5; thioredoxin fold, oxidoreductase; 2.00A
{Populus trichocarpa x populusdeltoides} PDB: 2p5r_A
Length = 170
Score = 28.3 bits (64), Expect = 4.2
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 179 SEAAALEGSK---NFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQE 220
+ G NF K L +K G +Y T P + ++ I++
Sbjct: 121 LGKWGIFGDDIQWNFAKFLVNKDGQVVDRYYPTTSPLSLERDIKQ 165
>3uuw_A Putative oxidoreductase with NAD(P)-binding rossm domain;
structural genomics, center for structural genomics of
infec diseases, csgid; HET: 1PE PGE; 1.63A {Clostridium
difficile}
Length = 308
Score = 28.4 bits (64), Expect = 5.9
Identities = 8/34 (23%), Positives = 13/34 (38%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
I+ L G V V A T+ + E ++
Sbjct: 80 YEIIKIL--LNLGVHVYVDKPLASTVSQGEELIE 111
>2ggs_A 273AA long hypothetical DTDP-4-dehydrorhamnose reductase; alpha,
beta, oxidoreductase; HET: NDP; 1.70A {Sulfolobus
tokodaii}
Length = 273
Score = 27.9 bits (63), Expect = 7.5
Identities = 15/71 (21%), Positives = 23/71 (32%), Gaps = 14/71 (19%)
Query: 85 VLVIGGGG---REHALCYALKRSHSCDAVFCAPGNAGISNSGDATCIPDLDVLDGDAVIS 141
L+ G G E L L H V+ NS + LD+ D +
Sbjct: 3 TLITGASGQLGIE--LSRLLSERHEVIKVY---------NSSEIQGGYKLDLTDFPRLED 51
Query: 142 FCRKWSVGLVV 152
F K +++
Sbjct: 52 FIIKKRPDVII 62
>3c1a_A Putative oxidoreductase; ZP_00056571.1, oxidoreductase FAM binding
rossmann fold, structural genomics; HET: MSE PG4 PGE;
1.85A {Magnetospirillum magnetotacticum}
Length = 315
Score = 28.1 bits (63), Expect = 8.1
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 223 APIVVKADGLAAGKGVIV----AMTLEEAYEAVD 252
A I + A +A+GK V+V + L EA
Sbjct: 83 AEITLAA--IASGKAVLVEKPLTLDLAEAEAVAA 114
>2v1m_A Glutathione peroxidase; selenium, selenocysteine, oxidoreductase,
lipid peroxidase, schistosoma detoxification pathway;
1.00A {Schistosoma mansoni} PDB: 2wgr_A
Length = 169
Score = 27.2 bits (61), Expect = 8.5
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 3/45 (6%)
Query: 179 SEAAALEGSK---NFMKNLCDKYGIPTAKYKTFTDPNAAKQYIQE 220
S + NF K L D+ G P +Y T P + I E
Sbjct: 120 SRQHGTLTNNIKWNFSKFLVDRQGQPVKRYSPTTAPYDIEGDIME 164
>1r0r_E Subtilisin carlsberg; high resolution, serine protease, protein
inhibitor, hydrolase; 1.10A {Bacillus licheniformis}
SCOP: c.41.1.1 PDB: 1af4_A* 1be8_A* 1bfk_A 1bfu_A 1be6_A
1oyv_A 1cse_E 1sbc_A 1sca_A 1scb_A 1scd_A 2sec_E 2wuv_A
2wuw_E 1yu6_A 1scn_E* 1c3l_A 1avt_A* 1av7_A* 1sel_A ...
Length = 274
Score = 27.9 bits (63), Expect = 8.7
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 77 TNAGQRVVVLVIGGGGREHALCYALKRSHSCDAVF-CAPGNAGISNSGDATCIP 129
T G V+ + +GG A+ A+ +++ V A GN+G S S + P
Sbjct: 114 TTNGMDVINMSLGGASGSTAMKQAVDNAYARGVVVVAAAGNSGNSGSTNTIGYP 167
>1nu0_A Hypothetical protein YQGF; structural genomics, structure 2
function project, S2F, unknown function; 1.60A
{Escherichia coli} SCOP: c.55.3.8 PDB: 1nmn_A 1ovq_A
Length = 138
Score = 26.7 bits (60), Expect = 9.8
Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 19/68 (27%)
Query: 135 DGDAVISFCRKWSVGLVVVGPEAPL-VSGLANKLVKAGIPTFGPSSEAAALEGSKNFMKN 193
D + + ++W ++VG PL + G T P + A + F
Sbjct: 41 DWNIIERLLKEWQPDEIIVG--LPLNMDG-----------TEQPLTARA-----RKFANR 82
Query: 194 LCDKYGIP 201
+ ++G+
Sbjct: 83 IHGRFGVE 90
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.134 0.395
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,062,584
Number of extensions: 528458
Number of successful extensions: 1807
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1712
Number of HSP's successfully gapped: 119
Length of query: 519
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 421
Effective length of database: 3,965,535
Effective search space: 1669490235
Effective search space used: 1669490235
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: 59 (26.6 bits)