RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 016343
(391 letters)
>3dth_A Branched-chain amino acid aminotransferase; open twisted
alpha/beta; HET: PLP OBZ; 1.85A {Mycobacterium
smegmatis} PDB: 3dtf_A* 3dtg_A* 3jz6_A* 3ht5_A*
Length = 372
Score = 482 bits (1244), Expect = e-171
Identities = 135/371 (36%), Positives = 211/371 (56%), Gaps = 14/371 (3%)
Query: 35 YTSQAAASLQQDCEPSAYSDDESADHMDWDNLGFGLTPADYMYTMKCSNDY-FEKGRLSR 93
+ + L+ + ++ N GFG D+M ++ + D + ++
Sbjct: 2 HHHHNSGPLEFTVSANTNPATDAVRESILANPGFGKYYTDHMVSIDYTVDEGWHNAQVIP 61
Query: 94 YGKIELSPSSGVLNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSID 153
YG I+L PS+ VL+YGQ +FEG+KAYR DG +V FRP+ NA RLQ+ A R+ +P +
Sbjct: 62 YGPIQLDPSAIVLHYGQEIFEGLKAYRWADGSIVSFRPEANAARLQSSARRLAIPELPEE 121
Query: 154 QFIDAVKQTALANKRWVPP-PGKGSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYF 212
FI++++Q +++WVPP G+ SLY+RP ++ + P LG+ P+ EY +L+ ASP G YF
Sbjct: 122 VFIESLRQLIAVDEKWVPPAGGEESLYLRPFVIATEPGLGVRPSNEYRYLLIASPAGAYF 181
Query: 213 K-GLAPLNLYVEDEFHRATPGGAGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKN 271
K G+ P+++++ E+ RA+PGG G K NYA L A ++A G V++LD++ ++
Sbjct: 182 KGGIKPVSVWLSHEYVRASPGGTGAAKFGGNYAASLLAQAQAAEMGCDQVVWLDAIERRY 241
Query: 272 LEEVSSCNIFILKGNI----ISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDEL 327
+EE+ N+F + G+ + TP SG++L GITR S++++A+D GF VEER I VDE
Sbjct: 242 VEEMGGMNLFFVFGSGGSARLVTPELSGSLLPGITRDSLLQLATDAGFAVEERKIDVDEW 301
Query: 328 LEA------DEVFCTGTAVVVAPVGSITYRGKRIEFKTG-AQSVSRELYSTLVGIQTGLI 380
+ EVF GTA V+ PV + + G ++ L TL GIQ G
Sbjct: 302 QKKAGAGEITEVFACGTAAVITPVSHVKHHDGEFTIADGQPGEITMALRDTLTGIQRGTF 361
Query: 381 KDNKGWTVEIN 391
D GW +N
Sbjct: 362 ADTHGWMARLN 372
>2a1h_A Branched chain aminotransferase; fold type IV; HET: PLP GBN; 1.80A
{Homo sapiens} SCOP: e.17.1.1 PDB: 1ekp_A* 1ekv_A*
1ekf_A* 1kta_A* 1kt8_A* 2hhf_B* 2hhf_A* 2hgw_A* 2hg8_A*
2hgx_A* 2hdk_A*
Length = 365
Score = 464 bits (1196), Expect = e-164
Identities = 112/345 (32%), Positives = 174/345 (50%), Gaps = 19/345 (5%)
Query: 62 DWDNLGFGLTPADYMYTMKCSNDYFEKGRLSRYGKIELSPSSGVLNYGQGLFEGMKAYRK 121
+ L FG T D+M ++ ++ + + R+ + + L P+S L+Y LFEGMKA++
Sbjct: 24 PGEPLVFGKTFTDHMLMVEWNDKGWGQPRIQPFQNLTLHPASSSLHYSLQLFEGMKAFKG 83
Query: 122 EDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGKGSLYIR 181
+D Q+ LFRP N R+ A R+C+PS + ++ +++ +K WVP SLY+R
Sbjct: 84 KDQQVRLFRPWLNMDRMLRSAMRLCLPSFDKLELLECIRRLIEVDKDWVPDAAGTSLYVR 143
Query: 182 PLLVGSGPILGLAPAPEYTFLVFASPVGNYFKG--LAPLNLYVEDEFHRATPGGAGGVKA 239
P+L+G+ P LG++ V PVG YF G + P++L + F RA GG G K
Sbjct: 144 PVLIGNEPSLGVSQPRRALLFVILCPVGAYFPGGSVTPVSLLADPAFIRAWVGGVGNYKL 203
Query: 240 ISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI-----ISTPATS 294
NY P + A RG VL+L + + L EV + NIF+ + + TP +
Sbjct: 204 GGNYGPTVLVQQEALKRGCEQVLWLYGPDHQ-LTEVGTMNIFVYWTHEDGVLELVTPPLN 262
Query: 295 GTILAGITRKSIIEIASDCG-FQVEERAIPVDELLEA------DEVFCTGTAVVVAPVGS 347
G IL G+ R+S++++A G F+V ER I + +LL A EVF +GTA V PV
Sbjct: 263 GVILPGVVRQSLLDMAQTWGEFRVVERTITMKQLLRALEEGRVREVFGSGTACQVCPVHR 322
Query: 348 ITYRGKRIEFKTGAQ--SVSRELYSTLVGIQTGLIKDNKGWTVEI 390
I Y+ + + T + L IQ G+ W +
Sbjct: 323 ILYKDRNLHIPTMENGPELILRFQKELKEIQYGIRAH--EWMFPV 365
>2coi_A Branched chain aminotransferase 1, cytosolic; PLP-dependent enzyme;
HET: PLP GBN; 1.90A {Homo sapiens} PDB: 2cog_A* 2coj_A*
2abj_A*
Length = 386
Score = 458 bits (1181), Expect = e-162
Identities = 114/347 (32%), Positives = 180/347 (51%), Gaps = 20/347 (5%)
Query: 62 DWDNLGFGLTPADYMYTMKCSNDY-FEKGRLSRYGKIELSPSSGVLNYGQGLFEGMKAYR 120
D +NL FG D+M T++ S+++ +EK + + L P S L+Y LFEG+KA+R
Sbjct: 43 DPNNLVFGTVFTDHMLTVEWSSEFGWEKPHIKPLQNLSLHPGSSALHYAVELFEGLKAFR 102
Query: 121 KEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGKGSLYI 180
D ++ LF+P+ N R+ A R +P ++ ++ ++Q ++ WVP SLYI
Sbjct: 103 GVDNKIRLFQPNLNMDRMYRSAVRATLPVFDKEELLECIQQLVKLDQEWVPYSTSASLYI 162
Query: 181 RPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKG--LAPLNLYVEDEFHRATPGGAGGVK 238
RP +G+ P LG+ + V SPVG YF P++L+ ++ RA GG G K
Sbjct: 163 RPTFIGTEPSLGVKKPTKALLFVLLSPVGPYFSSGTFNPVSLWANPKYVRAWKGGTGDCK 222
Query: 239 AISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI-----ISTPAT 293
NY L A A + G VL+L + + + EV + N+F+ N ++TP
Sbjct: 223 MGGNYGSSLFAQCEAVDNGCQQVLWLYGEDHQ-ITEVGTMNLFLYWINEDGEEELATPPL 281
Query: 294 SGTILAGITRKSIIEIASDCG-FQVEERAIPVDELLEA------DEVFCTGTAVVVAPVG 346
G IL G+TR+ I+++A G F+V ER + +D+L A E+F +GTA VV PV
Sbjct: 282 DGIILPGVTRRCILDLAHQWGEFKVSERYLTMDDLTTALEGNRVREMFGSGTACVVCPVS 341
Query: 347 SITYRGKRIEFKTGAQ--SVSRELYSTLVGIQTGLIKDNKGWTVEIN 391
I Y+G+ I T ++ + S L IQ G + WT+ ++
Sbjct: 342 DILYKGETIHIPTMENGPKLASRILSKLTDIQYGREER--DWTIVLS 386
>1iye_A Branched-chain amino acid aminotransferase; hexamer, PLP; HET: PGU;
1.82A {Escherichia coli} SCOP: e.17.1.1 PDB: 1i1l_A*
1i1m_A* 1iyd_A* 1i1k_A* 1a3g_A*
Length = 309
Score = 169 bits (431), Expect = 6e-50
Identities = 89/298 (29%), Positives = 143/298 (47%), Gaps = 31/298 (10%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTAL 164
L+YG +FEG++ Y G +V FR ++ RL A+ P SID+ ++A +
Sbjct: 30 LHYGTSVFEGIRCYDSHKGPVV-FRHREHMQRLHDSAKIYRFPVSQSIDELMEACRDVIR 88
Query: 165 ANKRWVPPPGKGSLYIRPLL-VGSGPILGLAPAPEYT--FLVFASPVGNYF------KGL 215
N S YIRPL+ VG +G+ P Y+ ++ A P G Y +G+
Sbjct: 89 KN-------NLTSAYIRPLIFVGDVG-MGVNPPAGYSTDVIIAAFPWGAYLGAEALEQGI 140
Query: 216 APLNLYVEDEFHRATPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEE 274
+ V ++RA P KA NY L S A+ G+ + + LD + E
Sbjct: 141 ---DAMVSS-WNRAAPNTIPTAAKAGGNYLSSLLVGSEARRHGYQEGIALDV--NGYISE 194
Query: 275 VSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVF 334
+ N+F +K ++ TP + + L GITR +II++A + G +V E+ + + L ADEVF
Sbjct: 195 GAGENLFEVKDGVLFTPPFTSSALPGITRDAIIKLAKELGIEVREQVLSRESLYLADEVF 254
Query: 335 CTGTAVVVAPVGSITYRGKRIEFKTGAQ-SVSRELYSTLVGIQTGLIKDNKGWTVEIN 391
+GTA + PV S+ I+ G V++ + G+ TG +D GW ++N
Sbjct: 255 MSGTAAEITPVRSV----DGIQVGEGRCGPVTKRIQQAFFGLFTGETEDKWGWLDQVN 308
>2eiy_A ILVE, branched-chain amino acid aminotransferase; PLP-dependent
enzyme; HET: PLP; 1.35A {Thermus thermophilus} PDB:
1wrv_A* 2ej0_A* 2ej2_A* 2ej3_A*
Length = 308
Score = 166 bits (422), Expect = 9e-49
Identities = 89/298 (29%), Positives = 126/298 (42%), Gaps = 32/298 (10%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTAL 164
L+YG +FEG++AY G + FR ++ R A+ + M P + ++ +A+K+
Sbjct: 29 LHYGTSVFEGIRAYETAKGPAI-FRLKEHVKRFYNSAKVLRMEIPFAPEELEEAIKEVVR 87
Query: 165 ANKRWVPPPGKGSLYIRPLL-VGSGPILGLAPAPEY--TFLVFASPVGNYF------KGL 215
N G S YIRPL +G+ LG+ P P +V A G Y KG
Sbjct: 88 RN-------GYRSCYIRPLAWMGAKA-LGVNPLPNNPAEVMVAAWEWGAYLGEEAVRKGA 139
Query: 216 APLNLYVEDEFHRATPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEE 274
L + R G K NY A A G + L LD + + E
Sbjct: 140 ---RLITSS-WARFPANVMPGKAKVGGNYVNSALAKMEAVAAGADEALLLDE--EGYVAE 193
Query: 275 VSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVF 334
S N+F ++ +I S L GITR S+I IA D G++V+ D+L ADEVF
Sbjct: 194 GSGENLFFVRDGVIYALEHSV-NLEGITRDSVIRIAKDLGYEVQVVRATRDQLYMADEVF 252
Query: 335 CTGTAVVVAPVGSITYRGKRIEFKTGAQ-SVSRELYSTLVGIQTGLIKDNKGWTVEIN 391
TGTA V PV I G V+ L + TG + +GW +N
Sbjct: 253 MTGTAAEVTPVSMI----DWRPIGKGTAGPVALRLREVYLEAVTGRRPEYEGWLTYVN 306
>3sno_A Hypothetical aminotransferase; D-aminoacid aminotransferase-like
PLP-dependent enzymes, STR genomics; HET: MSE; 1.60A
{Corynebacterium glutamicum}
Length = 315
Score = 165 bits (420), Expect = 2e-48
Identities = 53/262 (20%), Positives = 98/262 (37%), Gaps = 31/262 (11%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALA 165
L G G+FE + DG ++ R + A + +P P ++ + A +
Sbjct: 43 LTRGDGIFETLLIR---DGHA--CNVRRHGERFKASAALLGLPEPILEDWEKATQMGI-- 95
Query: 166 NKRWVPPPGKGSLYIRPLL-VGSGPILGLAPAPEYTFLVFASPVGNYFKG----LAPLNL 220
+ W P G L G GLA V + + G +
Sbjct: 96 -ESWYSHPNAGEASCTWTLSRGRSS-TGLASGWLTITPVSSDKLAQREHGVSVMTSSRGY 153
Query: 221 YVEDEFHRATPGGAGGVKAIS--------------NYAPVLKAISRAKNRGFSDVLYLDS 266
++ G + + YA + A+ AK+ GF DV++ D
Sbjct: 154 SIDTGLPGIGKATRGELSKVERTPAPWLTVGAKTLAYAANMAALRYAKSNGFDDVIFTDG 213
Query: 267 VNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 326
+ E ++ + KG+ I TP+ G IL G T+ ++ A++ G++ +E+ + +D+
Sbjct: 214 ---DRVLEGATSTVVSFKGDKIRTPSPGGDILPGTTQAALFAHATEKGWRCKEKDLSIDD 270
Query: 327 LLEADEVFCTGTAVVVAPVGSI 348
L AD V+ + V +
Sbjct: 271 LFGADSVWLVSSVRGPVRVTRL 292
>3lul_A 4-amino-4-deoxychorismate lyase; structural genomi center for
structural genomics, JCSG, protein structure INI PSI-2,
pyridoxal phosphate; HET: MSE LLP; 1.78A {Legionella
pneumophila}
Length = 272
Score = 164 bits (417), Expect = 3e-48
Identities = 56/258 (21%), Positives = 110/258 (42%), Gaps = 28/258 (10%)
Query: 98 ELSPSSGV---LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SID 153
+++PS G+ + G+GLFE ++ + + RL A ++ +P S D
Sbjct: 12 DMTPSFGIDDRIFLGEGLFETIRVN---SSKP--SFAYMHWERLGNSARQLGIPFEISFD 66
Query: 154 QFIDAVKQTALANKRWVPPPGKGSLYIRPLL-VGSGPILGLAPAPEYTFLVFAS-PVGNY 211
+ + + Q + I+ +L G GLA + + L+F +
Sbjct: 67 DWFEHLIQKIQKDNL-------YHGGIKAILSGGPAS-RGLAERGQVSQLIFQTFNYSIQ 118
Query: 212 FKGLAPLNLYVEDEFHRATPGGAGGVKAISNYAP-VLKAISRAKNRGFSDVLYLDSVNKK 270
+ +++ + R +K++ NY ++ A +A G D L+ ++ N
Sbjct: 119 KHPVRLISI----NWLRDKANPLYQLKSV-NYLEAII-AQRQAIAVGADDALFFNTEN-- 170
Query: 271 NLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEA 330
++ E + N+F+++ NI+ TP IL GITR +I V+E ++ + +A
Sbjct: 171 HVTETTCANLFLIENNILYTPRVEDGILPGITRARLISHCQQHKMSVQEISLTKKRIEDA 230
Query: 331 DEVFCTGTAVVVAPVGSI 348
D VF T + + V S+
Sbjct: 231 DAVFLTNSLQGIRRVLSL 248
>3u0g_A Putative branched-chain amino acid aminotransfera; structural
genomics, seattle structural genomics center for
infectious disease; 1.90A {Burkholderia pseudomallei}
Length = 328
Score = 165 bits (420), Expect = 3e-48
Identities = 81/292 (27%), Positives = 125/292 (42%), Gaps = 30/292 (10%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTAL 164
L+YG G+FEG++AY+ DG +FR ++ RL A+ M P + A +
Sbjct: 52 LHYGMGVFEGVRAYKTADGGTAIFRLKEHTKRLLNSAKIFQMDVPFDQETLEAAQRDVVR 111
Query: 165 ANKRWVPPPGKGSLYIRPLL-VGSGPILGLAPAP-EYTFLVFASPVGNYF------KGLA 216
NK S Y+RP++ +GS LG++ + A P G Y KG+
Sbjct: 112 ENKL-------ESCYLRPIIWIGSEK-LGVSAKGNTIHVAIAAWPWGAYLGEEGLAKGI- 162
Query: 217 PLNLYVEDEFHRATPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEV 275
+ F R + KA Y + A A G+ + L LD + E
Sbjct: 163 --RVKTSS-FTRHHVNVSMVRAKASGWYVNSILANQEATADGYDEALLLDV--DGYVSEG 217
Query: 276 SSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFC 335
S N F++ + TP + L GITR ++I +A + G +V E+ I DE+ ADE F
Sbjct: 218 SGENFFLVNRGKLYTPDLAS-CLDGITRDTVITLAKEAGIEVIEKRITRDEVYTADEAFF 276
Query: 336 TGTAVVVAPVGSITYRGKRIEFKTGAQ-SVSRELYSTLVGIQTGLIKDNKGW 386
TGTA V P+ + GA+ ++ +L S + G + W
Sbjct: 277 TGTAAEVTPIREL----DNRTIGGGARGPITEKLQSAFFDVVNGKSAKHADW 324
>1i2k_A 4-amino-4-deoxychorismate lyase; pyridoxal phosphate, PABC; HET:
PLP; 1.79A {Escherichia coli} SCOP: e.17.1.1 PDB:
1et0_A* 1i2l_A*
Length = 269
Score = 159 bits (404), Expect = 2e-46
Identities = 52/257 (20%), Positives = 98/257 (38%), Gaps = 30/257 (11%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALA 165
+G G F + DG++ L + RLQ +R+ + Q +K A
Sbjct: 19 TQFGDGCFTTARVI---DGKVSLL--SAHIQRLQDACQRLMISCDFWPQLEQEMKTLAAE 73
Query: 166 NKRWVPPPGKGSLYIRPLLV--GSGPILGLAPAPEY--TFLVFASPVGNYFKGLA--PLN 219
+ + ++ +++ GSG G + T ++ + ++ L +
Sbjct: 74 QQ---------NGVLK-VVISRGSGG-RGYSTLNSGPATRILSVTAYPAHYDRLRNEGIT 122
Query: 220 LYVEDEFHRATPGGAGGVKAISNYAP-VLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSC 278
L + G+K + N VL S + + L LDS + + E +
Sbjct: 123 LALSP-VRLGRNPHLAGIKHL-NRLEQVL-IRSHLEQTNADEALVLDS--EGWVTECCAA 177
Query: 279 NIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGT 338
N+F KGN++ TP + GI R+ I + + +Q+ E ++E L+ADE+
Sbjct: 178 NLFWRKGNVVYTPRLDQAGVNGIMRQFCIRLLAQSSYQLVEVQASLEESLQADEMVICNA 237
Query: 339 AVVVAPVGSITYRGKRI 355
+ V PV +
Sbjct: 238 LMPVMPVCAC--GDVSF 252
>2xpf_A 4-amino-4-deoxychorismate lyase; para-aminobenzoic acid, folate
biosynthesis; HET: PLP PG4; 1.75A {Pseudomonas
aeruginosa} PDB: 2y4r_A* 2xpf_B*
Length = 292
Score = 151 bits (385), Expect = 2e-43
Identities = 53/249 (21%), Positives = 91/249 (36%), Gaps = 27/249 (10%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALA 165
L YG GLFE + G +++ RL+ G R+ +P + A
Sbjct: 41 LAYGDGLFETLAVR---AGTP--RLLERHLARLEEGCRRLAIP-LDTAALRQELLAFCAA 94
Query: 166 NKRWVPPPGKGSLYIRPLL-VGSGPILGLAPA--PEYTFLVFASPVGNYFKGLA--PLNL 220
+ ++ G G G AP ++ SP Y + + L
Sbjct: 95 LG---------DGVAKLIVTRGEGL-RGYAPPAEASPRRILSGSPRPAYPERHWQQGVRL 144
Query: 221 YVEDEFHRATPGGAGGVKAISNYAP-VLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCN 279
+ A G+K + N VL A + + G ++ L LD + E N
Sbjct: 145 FAC-RTRLAEQPLLAGLKHL-NRLEQVL-ARAEWSDAGHAEGLMLDVHE--RVVEGVFSN 199
Query: 280 IFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTA 339
+ ++ + P +AG+ R ++E A G + R + + EL ADEVF +
Sbjct: 200 LLLVLDGTLVAPDLRRCGVAGVMRAELLERAEGIGVPLAIRDVSMAELATADEVFLCNSQ 259
Query: 340 VVVAPVGSI 348
+ PV ++
Sbjct: 260 FGIWPVRAL 268
>3csw_A BCAT, putative branched-chain-amino-acid aminotransfera; TM0831,
putative branched-chain amino acid aminotransferase;
HET: PLP CIT; 2.15A {Thermotoga maritima MSB8}
Length = 285
Score = 146 bits (372), Expect = 1e-41
Identities = 57/246 (23%), Positives = 100/246 (40%), Gaps = 34/246 (13%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTAL 164
+ ++E ++ Y F ++ RL+ A+ +P S D+F +K A
Sbjct: 36 KSLQGAVYETLRTY---SRAP--FAAYKHYTRLKRSADFFNLPLSLSFDEFTKVLKAGAD 90
Query: 165 ANKRWVPPPGKGSLYIRPLL-VGSGPILGLAPAPEYTFLVFASPVGNYFKGLAPLNLYVE 223
K+ + I+ L SG + +P + + G+ + +
Sbjct: 91 EFKQ--------EVRIKVYLFPDSGEV-LFVFSP--------LNIPDLETGV---EVKIS 130
Query: 224 DEFHRATPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFI 282
R +K + ++R + DV+ L + E S N+F+
Sbjct: 131 -NVRRIPDLSTPPALKI-TGR--TDIVLARREIVDCYDVILLGLNG--QVCEGSFSNVFL 184
Query: 283 LKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVV 342
+K + TP+ IL GITR+++I++A VEER + V EL EADE+F T T+ V
Sbjct: 185 VKEGKLITPSLDSGILDGITRENVIKLAKSLEIPVEERVVWVWELFEADEMFLTHTSAGV 244
Query: 343 APVGSI 348
PV +
Sbjct: 245 VPVRRL 250
>2zgi_A Putative 4-amino-4-deoxychorismate lyase; TTHA0621, PLP cofactor,
pyridoxal enzyme, structural NPPSFA; HET: PLP PGE; 1.93A
{Thermus thermophilus}
Length = 246
Score = 138 bits (351), Expect = 6e-39
Identities = 50/253 (19%), Positives = 95/253 (37%), Gaps = 38/253 (15%)
Query: 99 LSPSSGVLNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDA 158
L+ L +G +F ++A G+ +++ RL+ A + + P + F++
Sbjct: 11 LALPEAFLYHGASVFTTLRAE---GGRP--LWLEEHLARLRRHALALGLSYPGDEAFLED 65
Query: 159 VKQTALANKRWVPPPGKGSLYIRPLL-VGSGP-ILGLAPAPEYTFLVFASPVGNYFKGLA 216
++ A + + +R VG G + P P+ Y +G+
Sbjct: 66 LEALLRAFPK--------APCLRLRFTVGEGVRLSEARPYAPL-------PLSLYREGV- 109
Query: 217 PLNLYVEDEFHRATPGGAGGVKAISNYAP-VLKAISRAKNRGFSDVLYLDSVNKKNLEEV 275
+ + +R P A K NY P L A+ A+ G + L LD+ ++ +
Sbjct: 110 --RVRLTG--YRVHPDLAR-YKT-GNYLPYRL-ALEEARKEGAFEGLLLDAFG--HVVDG 160
Query: 276 SSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFC 335
S + + + + L GITR+ + E A G +VE + L +
Sbjct: 161 SRTSPLLFREGTLYLLEG---GLEGITREKVAEAARGLGLRVERGLFRPEGL--RGHLLL 215
Query: 336 TGTAVVVAPVGSI 348
G+ V + PV
Sbjct: 216 AGSGVGLLPVRPP 228
>3daa_A D-amino acid aminotransferase; pyridoxal phosphate, transaminase;
HET: PDD; 1.90A {Bacillus SP} SCOP: e.17.1.1 PDB:
4daa_A* 3lqs_A* 1daa_A* 2daa_A* 5daa_A* 1g2w_A* 1a0g_A*
2dab_A*
Length = 277
Score = 138 bits (350), Expect = 2e-38
Identities = 60/261 (22%), Positives = 98/261 (37%), Gaps = 51/261 (19%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTAL 164
+G G++E +K Y +G++ F +++ RL AE++ + P + D+F + +
Sbjct: 24 YQFGDGVYEVVKVY---NGEM--FTVNEHIDRLYASAEKIRITIPYTKDKFHQLLHELVE 78
Query: 165 ANKRWVPPPGKGSLYIRPLL-VGSGPILGLA-PAPEYTFLVFASPVGNYFKGLAPLNLYV 222
N + +I + G+ P P ++ N
Sbjct: 79 KN-------ELNTGHIYFQVTRGTSP-RAHQFPENTVKPVIIGYTKENP----------- 119
Query: 223 EDEFHRATPGGAGGVKAIS--------------NY-APVLKAISRAKNRGFSDVLYLDSV 267
R GVKA N VL A A +G + + L
Sbjct: 120 -----RPLENLEKGVKATFVEDIRWLRCDIKSLNLLGAVL-AKQEAHEKGCYEAI-LHR- 171
Query: 268 NKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDEL 327
+ E SS N+F +K I+ T + IL GITR +I A++ V+E E
Sbjct: 172 -NNTVTEGSSSNVFGIKDGILYTHPANNMILKGITRDVVIACANEINMPVKEIPFTTHEA 230
Query: 328 LEADEVFCTGTAVVVAPVGSI 348
L+ DE+F T T + PV I
Sbjct: 231 LKMDELFVTSTTSEITPVIEI 251
>3qqm_A MLR3007 protein; structural genomics, joint center for structural
genomics, J protein structure initiative, PSI-biology,
transferase; HET: LLP; 2.30A {Mesorhizobium loti}
Length = 221
Score = 111 bits (280), Expect = 5e-29
Identities = 43/244 (17%), Positives = 72/244 (29%), Gaps = 35/244 (14%)
Query: 106 LNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALA 165
L E M+ G L A RL A + Q I V AL
Sbjct: 12 DTADFELIETMRWQ---PGTSFLRFDRHLA-RLYGSAAELGFACD--PQRIAEVLSDALD 65
Query: 166 NKRWVPPPGKGSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKGLAPLNLYVEDE 225
R ++ R L + + P Y L L +
Sbjct: 66 GAR-------TAMRTR-LALARNGDATASAQP-YEPLAADKVW----------ILRL-AR 105
Query: 226 FHRATPGGAGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKG 285
+ K S A S +VL + + + E + N+F G
Sbjct: 106 TRLDSQNTLLRHKT-SRRQLYTHARSEYLVTQADEVLLANE--RGEICEGTITNVFADFG 162
Query: 286 N-IISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAP 344
+ +++TP +L G+ R +++ + EE D+L A +F + + P
Sbjct: 163 DGVLATPRLDCGLLPGVLRAELLDEG-----RAEEAIYSYDDLKSAKALFVGNSLRGLIP 217
Query: 345 VGSI 348
+
Sbjct: 218 AKLV 221
>3ceb_A D-aminoacid aminotransferase-like PLP-dependent E; joint center for
structural genomics, protein structure initiative,
PSI-2, lyase; HET: LLP; 2.40A {Haemophilus somnus}
Length = 194
Score = 79.4 bits (196), Expect = 1e-17
Identities = 28/235 (11%), Positives = 65/235 (27%), Gaps = 53/235 (22%)
Query: 108 YGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFI-DAVKQTALAN 166
+ LFE + E GQ + R + + + + +
Sbjct: 3 WQFPLFETILI---EQGQAKNI--SYHQQRYEKSLLKFYPKMKLQPFDLAKIIAKHTALF 57
Query: 167 KRWVPPPGKGSLYIRPLLVGSGPILGLAPAPEYTF----LVFASPVGNYFKGLAPLNLYV 222
+G + R +L P + + VF + K
Sbjct: 58 T-----HREGLIRCRIDYNHHDYVLQCFPYQQKVYRTFKPVFCDHIDYSLK--------- 103
Query: 223 EDEFHRATPGGAGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFI 282
+ +L + + +++ + + + + S N+
Sbjct: 104 ------------------FSDRTLLNNL-LKQKEECDEIMI---IRQGKVTDCSIGNLIF 141
Query: 283 LKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTG 337
+ N TP +L G R ++E ++ R I ++L + +E+
Sbjct: 142 RQNNQWITPDKP--LLEGTQRAKLLEQ-----KKIIAREIFFEDLAQYEEIRLIN 189
>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 = 52.0 bits (124), Expect = 2e-07
Identities = 43/217 (19%), Positives = 68/217 (31%), Gaps = 70/217 (32%)
Query: 181 RPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKGLAPLNLYVEDEFHR----ATPGGAGG 236
RPL + G + E+ LV P ++F ++++F++ T G A
Sbjct: 7 RPLTLSHGSL-------EHVLLV---PTASFFIASQ-----LQEQFNKILPEPTEGFAAD 51
Query: 237 VKAISN---YAPVLKAISRAKNRG----FSDVLYLDSVNKKNLEEVSSCNIFILKGNII- 288
+ + L +S F VL L E +C L+GN I
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVL------NLCLTEFENC---YLEGNDIH 102
Query: 289 ----STPATSGTILAGITRKSIIEI---ASDCGFQVEERAIPVDELLEADEVFCTGTAVV 341
+ T L K +I+ A + ++ L A G A +
Sbjct: 103 ALAAKLLQENDTTLV--KTKELIKNYITARIMAKRPFDKKSN-SALFRAVG---EGNAQL 156
Query: 342 VAPVGSITYRGKRIEFKTGAQSVS-------RELYST 371
VA F G Q + R+LY T
Sbjct: 157 VA------------IF--GGQGNTDDYFEELRDLYQT 179
Score = 45.0 bits (106), Expect = 3e-05
Identities = 75/478 (15%), Positives = 133/478 (27%), Gaps = 182/478 (38%)
Query: 2 MRPATMIRNACLRNFSQSLRV--GSAF----LKSGDFCRYTSQAAASLQQDCEPSA---- 51
RP T + + + L V S F L+ F + + D EP+
Sbjct: 6 TRPLT-LSHG---SLEHVLLVPTASFFIASQLQE-QFNKILPEPTEGFAADDEPTTPAEL 60
Query: 52 ----------YSDDESADHMDWDNLGFGLTP--ADYMYTMKCSND--------------- 84
+ D L LT Y+ ND
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFD-QVLNLCLTEFENCYL----EGNDIHALAAKLLQENDTT 115
Query: 85 ----------YFEKGRLSRYGKIELSPSSGVLN---------Y----GQGLFEGMKAYRK 121
Y +++ + +S + GQG + Y +
Sbjct: 116 LVKTKELIKNYITARIMAK-RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD---DYFE 171
Query: 122 EDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDA--------VKQTALANK------ 167
E L+ + + I ++ T A K
Sbjct: 172 E---------------LR---DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 168 ---RWVPPPGK--GSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKGLAPLNLYV 222
W+ P Y+ + + S P++G+ Y +V A + G P L
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPI-SCPLIGVIQLAHY--VVTAKLL-----GFTPGELR- 264
Query: 223 EDEFHRATPGGAGGVKAI---------SNYAPVLKAIS-------RAKNRGFSDVLYLDS 266
AT G V A+ S + V KAI+ R + + S
Sbjct: 265 -SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCY-EAYPNTSLPPS 322
Query: 267 VNKKNLEEVSSCNIFILKGNIISTPATSGTILA--GITRKSIIEIASDCGFQVEERAIPV 324
+ + +LE + +P +L+ +T++ QV++
Sbjct: 323 ILEDSLEN----------NEGVPSP-----MLSISNLTQE-----------QVQDYVNKT 356
Query: 325 DELLEADE-----VFCTGTAVVVA-PVGS-----ITYRGKRIEFKTGA-QSVSRELYS 370
+ L A + + +VV+ P S +T R + + +G Q SR +S
Sbjct: 357 NSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR--KAKAPSGLDQ--SRIPFS 410
Score = 35.4 bits (81), Expect = 0.036
Identities = 53/291 (18%), Positives = 80/291 (27%), Gaps = 117/291 (40%)
Query: 56 ESADHMDWDNLGFGLT------P----------------ADYMYTMKCSNDYFEKGRLS- 92
AD+ D GF + P +Y M + G+L
Sbjct: 1647 NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS-AMIF--ETIVDGKLKT 1703
Query: 93 ---------RYGKIELSPSSGVLN---YGQ--------GLFEGMKAYRKEDGQLVLFRPD 132
G+L+ + Q FE +K G L D
Sbjct: 1704 EKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLK----SKG---LIPAD 1756
Query: 133 Q----------NAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGKG-SLY-- 179
A L + A+ M SI+ ++ V + + VP G S Y
Sbjct: 1757 ATFAGHSLGEYAA--LASLADVM-----SIESLVEVVFYRGMTMQVAVPRDELGRSNYGM 1809
Query: 180 --IRPLLVGSGPILGLAP--------APEYTFLVFASPVGNYFKGLAPLNLYVEDEFHRA 229
I P V + +LV V NY N
Sbjct: 1810 IAINPGRVAAS--FSQEALQYVVERVGKRTGWLV--EIV-NY-------N---------- 1847
Query: 230 TPGG----AGGVKAISNYAPVLKAISRAKNRGFSDVLYL-DSVNKKNLEEV 275
AG ++A+ VL I + + D++ L S+ +LEEV
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVLNFI-KLQK---IDIIELQKSL---SLEEV 1891
Score = 33.5 bits (76), Expect = 0.15
Identities = 36/208 (17%), Positives = 64/208 (30%), Gaps = 64/208 (30%)
Query: 217 PLNLYVEDEFHRATPGGAGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVS 276
P+NL + H GG G + NY+ ++ + K + E S
Sbjct: 1669 PVNLTI----H---FGGEKGKRIRENYSAMIFETIVDGKLKTEKIF-------KEINEHS 1714
Query: 277 SCNIFIL-KGNIIST----PA---TSGTILAGITRKSII------------E---IASDC 313
+ F KG + +T PA + K +I E +AS
Sbjct: 1715 TSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLA 1774
Query: 314 G---FQ-----VEERAIPVDELLEADEVFCTGTAVV-VAPVGSITYRGKRIEFKTGAQSV 364
+ V R + + + DE+ + ++ + P G + + + + V
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP-GRVAASFSQEALQYVVERV 1833
Query: 365 SRELYSTLVGIQTGLIKDNKGWTVEI-N 391
+ GW VEI N
Sbjct: 1834 GKR----------------TGWLVEIVN 1845
>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 = 42.9 bits (100), Expect = 2e-04
Identities = 55/411 (13%), Positives = 95/411 (23%), Gaps = 150/411 (36%)
Query: 12 CLRNFSQSLRVGSAFLKSGDFCRYTSQAAASLQQDC-EPSAYSDDESADHMDWDNLGFGL 70
L S+ + F++ Y + ++ + +PS +
Sbjct: 70 TLL--SKQEEMVQKFVEEVLRINY-KFLMSPIKTEQRQPSMMTRMYIEQR---------- 116
Query: 71 TPADYMYTMKCSNDYFEKGRLSRYGKI--------ELSPSSGVLNYGQGLFEGMKAYRKE 122
D +Y N F K +SR EL P+ VL G G
Sbjct: 117 ---DRLYN---DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL---GS------ 161
Query: 123 DGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGKGSLYIRP 182
G+ + A +C+ + + W+
Sbjct: 162 -GKTWV-------------ALDVCLSYKVQCKMDFKI--------FWL------------ 187
Query: 183 LLVGSGPILGLAPAPEYTFLVFASPVGNYFKG---LAPL-NLYVEDEFHRATPGGAGGVK 238
+ N L L L ++ P
Sbjct: 188 ------------------------NLKNCNSPETVLEMLQKLL-----YQIDPNWTSRSD 218
Query: 239 AISNYAPVLKAISRAKNRGFSDVLY------LDSV-NKKNLEEVS-SCNIFILKGNIIST 290
SN + +I R Y L +V N K + SC I +++T
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI------LLTT 272
Query: 291 PATSGT-ILAGITRKSIIEIASDCGFQVEERA--------IPVDEL-LEADEVFCTGTAV 340
T L+ T I +E +L E T
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV----LTTNPR 328
Query: 341 VVAPVGSITYRGK-RIEF--------KTGAQSVS---------RELYSTLV 373
++ + G + T S R+++ L
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
>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 = 31.8 bits (71), Expect = 0.20
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 20/46 (43%)
Query: 117 KAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQT 162
+A +K L L+ D +P++ A+K T
Sbjct: 20 QALKKLQASLKLYADDS---------------APAL-----AIKAT 45
Score = 28.0 bits (61), Expect = 3.7
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 7/28 (25%)
Query: 213 KGL-APLNLYVEDEFHRATPGGAGGVKA 239
K L A L LY +D + P A +KA
Sbjct: 23 KKLQASLKLYADD----SAP--ALAIKA 44
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.6 bits (71), Expect = 0.31
Identities = 9/59 (15%), Positives = 20/59 (33%), Gaps = 15/59 (25%)
Query: 269 KKNLEEVSSC-NIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 326
NL V +C + I+ + G + + + CG + ++ + D
Sbjct: 15 GPNLNIVLTCPECKVYPPKIVERFS-EGDV-----------VCALCGLVLSDKLV--DT 59
>2z1u_A Hydrogenase expression/formation protein HYPE; alpha-beta fold,
beta barrel, lyase; HET: ATP; 2.00A {Desulfovibrio
vulgaris subsp} PDB: 2z1t_A*
Length = 343
Score = 31.9 bits (73), Expect = 0.33
Identities = 15/64 (23%), Positives = 21/64 (32%), Gaps = 16/64 (25%)
Query: 292 ATSGTILAGITRKSIIEIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAV 340
T G + + EIA S V E A+PV L D + G +
Sbjct: 221 PTRGGLATTLN-----EIAGQSQAVCHVLETAVPVRESVRNGCSFLGLDPLYLANEGKLI 275
Query: 341 VVAP 344
+ P
Sbjct: 276 CILP 279
>3vti_C Hydrogenase maturation factor; transferase, carbamoyltransfer,
maturation of [NIFE]-hydroge nitrIle synthesis, iron;
2.56A {Thermoanaerobacter tengcongensis}
Length = 314
Score = 31.8 bits (73), Expect = 0.34
Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 16/64 (25%)
Query: 292 ATSGTILAGITRKSIIEIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAV 340
T G + + EI+ S G ++ E +PV E + D + G V
Sbjct: 200 PTRGGVAEVL-----YEISKMSGVGIKIYEEKLPVKESVKSACEFMGIDFLHLANEGKVV 254
Query: 341 VVAP 344
VV
Sbjct: 255 VVVE 258
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing
proteins); PSI-2, midwest center for structural
genomics; 1.65A {Chromobacterium violaceum}
Length = 113
Score = 29.5 bits (67), Expect = 0.69
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 302 TRKSIIEIASDCGF 315
T KSI++I CGF
Sbjct: 71 TSKSIVQIGLACGF 84
>2rb9_A HYPE protein; hydrogenase maturation, dimer, enzyme, X- RAY
crystallography, structural genomics, BSGI; 2.00A
{Escherichia coli O157} PDB: 2i6r_A
Length = 334
Score = 30.7 bits (70), Expect = 0.72
Identities = 18/64 (28%), Positives = 24/64 (37%), Gaps = 16/64 (25%)
Query: 292 ATSGTILAGITRKSIIEIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAV 340
AT G + A + E A CG ++ E A+PV ELL D G V
Sbjct: 220 ATRGGVNAVVH-----EFAAACGCGIEISESALPVKPAVRGVCELLGLDALNFANEGKLV 274
Query: 341 VVAP 344
+
Sbjct: 275 IAVE 278
>2z1e_A Hydrogenase expression/formation protein HYPE; [NIFE] hydrogenase
maturation, ATPase, transferase; 1.55A {Thermococcus
kodakarensis} SCOP: d.79.4.1 d.139.1.1 PDB: 2z1f_A
Length = 338
Score = 30.7 bits (70), Expect = 0.77
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 11/48 (22%)
Query: 308 EIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAVVVAP 344
EIA S+ G V E IP+ E+L +V G V+V
Sbjct: 233 EIARKSNVGILVREADIPIRPEVRAASEMLGISPYDVANEGKVVMVVA 280
>1bl0_A Protein (multiple antibiotic resistance protein), DNA (5'-
D(*CP*CP*GP*AP*TP*GP*CP*CP*AP*CP*GP*TP*TP*TP*TP*GP*CP*TP
*AP *AP*AP*TP* CP*C)-3')...; transcriptional activator;
HET: DNA; 2.30A {Escherichia coli} SCOP: a.4.1.8 a.4.1.8
PDB: 1xs9_A
Length = 129
Score = 28.8 bits (65), Expect = 1.5
Identities = 4/15 (26%), Positives = 9/15 (60%)
Query: 302 TRKSIIEIASDCGFQ 316
+ + I+ +A GF+
Sbjct: 75 SNEPILYLAERYGFE 89
>3vg8_G Hypothetical protein TTHB210; alpha and beta proteins (A+B),
unknown function; 2.20A {Thermus thermophilus}
Length = 116
Score = 27.8 bits (61), Expect = 2.7
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 4/71 (5%)
Query: 173 PGKGSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKGLAPLNLYVEDEFHRATPG 232
PG G+LY+ P + GP L A +VF P+ K L + YV+
Sbjct: 16 PGLGTLYVDPSTLPEGPFLAYDRAGNLVKVVFMVPL----KKLNESHKYVDIGTKTLRAL 71
Query: 233 GAGGVKAISNY 243
G + ++
Sbjct: 72 GITRIDHVNMI 82
>1c3c_A Protein (adenylosuccinate lyase); purine biosynthesis; 1.80A
{Thermotoga maritima} SCOP: a.127.1.1 PDB: 1c3u_A
Length = 429
Score = 28.4 bits (64), Expect = 4.6
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 267 VNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 326
VN++ +++ NI + KG + S I G+TRK +I + E
Sbjct: 335 VNEERMKK----NIDLTKGLVFSQRVLLKLIEKGLTRKEAYDIVQRNALKTWNSEKHFLE 390
Query: 327 LLEADE 332
L DE
Sbjct: 391 YLLEDE 396
>3dty_A Oxidoreductase, GFO/IDH/MOCA family; MGCL2, tetramer, PSI-2, 11131,
NYSGXRC, structural genomics, protein structure
initiative; 2.04A {Pseudomonas syringae PV}
Length = 398
Score = 28.3 bits (63), Expect = 4.6
Identities = 14/96 (14%), Positives = 31/96 (32%), Gaps = 17/96 (17%)
Query: 87 EKGRLSRYGKIELSPSSGVLNY-----GQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTG 141
+ ++ G L P++ + + +GLFE + +A
Sbjct: 300 QPAQILERGMGYLHPNALIDDRIGGGHPEGLFEAWANLYYRFALAM------DATDRSDT 353
Query: 142 AERMCMPSPSID------QFIDAVKQTALANKRWVP 171
+ P ID ++++ +A + WV
Sbjct: 354 QALSAVRYPGIDAGVEGVRWVERCVLSADNDSIWVA 389
>2pfm_A Adenylosuccinate lyase; PURB, purine biosynthesis, B anthracis;
2.00A {Bacillus anthracis} PDB: 1f1o_A 2x75_A*
Length = 444
Score = 28.4 bits (64), Expect = 4.9
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 267 VNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 326
V +N++ N+ G I S I G+ R+ +I + E + E
Sbjct: 347 VYPENMKR----NMTRTYGLIYSQRVMLTLIDKGMVREEAYDIVQPKAMEAWETQVQFKE 402
Query: 327 LLEADE 332
L+EADE
Sbjct: 403 LVEADE 408
>2d1g_A Acid phosphatase; ACPA, decavanadate vanadate, hydrolase; HET: DVT
ETE PGE; 1.75A {Francisella tularensis subsp}
Length = 498
Score = 28.0 bits (61), Expect = 6.2
Identities = 18/133 (13%), Positives = 34/133 (25%), Gaps = 12/133 (9%)
Query: 50 SAYSDDESADHMDWDNLGF-----GLTPADYMYTMKCSNDYFEKGRLSRYGKIELSPSSG 104
S ++ A D N+G G+T + K ++ + + S
Sbjct: 223 SGDTNTAVAKITDGYNIGHYLTQKGITWGWFQGGFKPTSYSGKTAICDAMSTNKFGVKSR 282
Query: 105 VLNYGQGLFEGMKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTAL 164
F K + G+ I +F A+ Q +
Sbjct: 283 DYIPHHEPFNYWKETSN-------PHHLAPSDDKYIGSNDQANHQYDISEFWKALDQNNM 335
Query: 165 ANKRWVPPPGKGS 177
++ PG
Sbjct: 336 PAVSYLKAPGYQD 348
>3gbg_A TCP pilus virulence regulatory protein; cupin, helix-turn-helix,
ARAC family, activator, DNA-binding transcription,
transcription regulation; HET: PAM; 1.90A {Vibrio
cholerae}
Length = 276
Score = 27.2 bits (60), Expect = 8.1
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 302 TRKSIIEIASDCGFQ 316
I +IA GF
Sbjct: 232 GEFKIKQIAYQSGFA 246
>3mn2_A Probable ARAC family transcriptional regulator; structural
genomics, PSI-2, protein structure initiative; 1.80A
{Rhodopseudomonas palustris}
Length = 108
Score = 26.0 bits (58), Expect = 8.5
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 298 LAGITRKSIIEIASDCGF 315
G T ++ A CGF
Sbjct: 64 SDGATPTTVTAAALSCGF 81
>1d5y_A ROB transcription factor; protein-DNA complex, DNA,
transcription/DNA complex; HET: DNA; 2.70A {Escherichia
coli} SCOP: a.4.1.8 a.4.1.8 d.60.1.2
Length = 292
Score = 27.1 bits (60), Expect = 9.1
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 302 TRKSIIEIASDCGFQ 316
T + I++IA F
Sbjct: 67 TARPILDIALQYRFD 81
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
0.318 0.136 0.401
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,064,284
Number of extensions: 376054
Number of successful extensions: 819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 770
Number of HSP's successfully gapped: 40
Length of query: 391
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 296
Effective length of database: 4,049,298
Effective search space: 1198592208
Effective search space used: 1198592208
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 (21.7 bits)
S2: 58 (26.0 bits)