RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 023788
(277 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 = 408 bits (1050), Expect = e-144
Identities = 113/289 (39%), Positives = 172/289 (59%), Gaps = 12/289 (4%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPP-PG 59
+KAYR DG +V FRP+ NA RLQ+ A R+ +P + FI++++Q +++WVPP G
Sbjct: 84 LKAYRWADGSIVSFRPEANAARLQSSARRLAIPELPEEVFIESLRQLIAVDEKWVPPAGG 143
Query: 60 KGSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATPGG 119
+ SLY+RP ++ + P LG+ P+ EY +L+ ASP G YFK G+ P+++++ E+ RA+PGG
Sbjct: 144 EESLYLRPFVIATEPGLGVRPSNEYRYLLIASPAGAYFKGGIKPVSVWLSHEYVRASPGG 203
Query: 120 AGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI----IS 175
G K NYA L A ++A G V++LD++ ++ +EE+ N+F + G+ +
Sbjct: 204 TGAAKFGGNYAASLLAQAQAAEMGCDQVVWLDAIERRYVEEMGGMNLFFVFGSGGSARLV 263
Query: 176 TPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEA------DEVFCTGTAVVVA 229
TP SG++L GITR S++++A+D GF VEER I VDE + EVF GTA V+
Sbjct: 264 TPELSGSLLPGITRDSLLQLATDAGFAVEERKIDVDEWQKKAGAGEITEVFACGTAAVIT 323
Query: 230 PVGSITYRGKRIEFKTG-AQSVSRELYSTLVGIQTGLIKDNKGWTVEIN 277
PV + + G ++ L TL GIQ G D GW +N
Sbjct: 324 PVSHVKHHDGEFTIADGQPGEITMALRDTLTGIQRGTFADTHGWMARLN 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 = 386 bits (993), Expect = e-135
Identities = 96/291 (32%), Positives = 145/291 (49%), Gaps = 18/291 (6%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGK 60
MKA++ +D Q+ LFRP N R+ A R+C+PS + ++ +++ +K WVP
Sbjct: 78 MKAFKGKDQQVRLFRPWLNMDRMLRSAMRLCLPSFDKLELLECIRRLIEVDKDWVPDAAG 137
Query: 61 GSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKEG-LAPLNLYVEDEFHRATPGG 119
SLY+RP+L+G+ P LG++ V PVG YF G + P++L + F RA GG
Sbjct: 138 TSLYVRPVLIGNEPSLGVSQPRRALLFVILCPVGAYFPGGSVTPVSLLADPAFIRAWVGG 197
Query: 120 AGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI-----I 174
G K NY P + A RG VL+L + + L EV + NIF+ + +
Sbjct: 198 VGNYKLGGNYGPTVLVQQEALKRGCEQVLWLYGPDHQ-LTEVGTMNIFVYWTHEDGVLEL 256
Query: 175 STPATSGTILAGITRKSIIEIASDCG-FQVEERAIPVDELLEA------DEVFCTGTAVV 227
TP +G IL G+ R+S++++A G F+V ER I + +LL A EVF +GTA
Sbjct: 257 VTPPLNGVILPGVVRQSLLDMAQTWGEFRVVERTITMKQLLRALEEGRVREVFGSGTACQ 316
Query: 228 VAPVGSITYRGKRIEFKTGAQ--SVSRELYSTLVGIQTGLIKDNKGWTVEI 276
V PV I Y+ + + T + L IQ G+ W +
Sbjct: 317 VCPVHRILYKDRNLHIPTMENGPELILRFQKELKEIQYGIRAH--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 = 383 bits (986), Expect = e-134
Identities = 95/292 (32%), Positives = 150/292 (51%), Gaps = 18/292 (6%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGK 60
+KA+R D ++ LF+P+ N R+ A R +P ++ ++ ++Q ++ WVP
Sbjct: 98 LKAFRGVDNKIRLFQPNLNMDRMYRSAVRATLPVFDKEELLECIQQLVKLDQEWVPYSTS 157
Query: 61 GSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKEG-LAPLNLYVEDEFHRATPGG 119
SLYIRP +G+ P LG+ + V SPVG YF G P++L+ ++ RA GG
Sbjct: 158 ASLYIRPTFIGTEPSLGVKKPTKALLFVLLSPVGPYFSSGTFNPVSLWANPKYVRAWKGG 217
Query: 120 AGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI-----I 174
G K NY L A A + G VL+L + + + EV + N+F+ N +
Sbjct: 218 TGDCKMGGNYGSSLFAQCEAVDNGCQQVLWLYGEDHQ-ITEVGTMNLFLYWINEDGEEEL 276
Query: 175 STPATSGTILAGITRKSIIEIASDCG-FQVEERAIPVDELLEA------DEVFCTGTAVV 227
+TP G IL G+TR+ I+++A G F+V ER + +D+L A E+F +GTA V
Sbjct: 277 ATPPLDGIILPGVTRRCILDLAHQWGEFKVSERYLTMDDLTTALEGNRVREMFGSGTACV 336
Query: 228 VAPVGSITYRGKRIEFKTGAQ--SVSRELYSTLVGIQTGLIKDNKGWTVEIN 277
V PV I Y+G+ I T ++ + S L IQ G + WT+ ++
Sbjct: 337 VCPVSDILYKGETIHIPTMENGPKLASRILSKLTDIQYGREER--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 = 150 bits (381), Expect = 5e-44
Identities = 82/285 (28%), Positives = 133/285 (46%), Gaps = 24/285 (8%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTALANKRWVPPPG 59
++ Y G +V FR ++ RL A+ P SID+ ++A + N
Sbjct: 40 IRCYDSHKGPVV-FRHREHMQRLHDSAKIYRFPVSQSIDELMEACRDVIRKN-------N 91
Query: 60 KGSLYIRPLL-VGSGPILGLAPAPEYT--FLVFASPVGNYFKEGL--APLNLYVEDEFHR 114
S YIRPL+ VG +G+ P Y+ ++ A P G Y ++ V ++R
Sbjct: 92 LTSAYIRPLIFVGDVG-MGVNPPAGYSTDVIIAAFPWGAYLGAEALEQGIDAMVSS-WNR 149
Query: 115 ATPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI 173
A P KA NY L S A+ G+ + + LD + E + N+F +K +
Sbjct: 150 AAPNTIPTAAKAGGNYLSSLLVGSEARRHGYQEGIALDV--NGYISEGAGENLFEVKDGV 207
Query: 174 ISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGS 233
+ TP + + L GITR +II++A + G +V E+ + + L ADEVF +GTA + PV S
Sbjct: 208 LFTPPFTSSALPGITRDAIIKLAKELGIEVREQVLSRESLYLADEVFMSGTAAEITPVRS 267
Query: 234 ITYRGKRIEFKTGAQ-SVSRELYSTLVGIQTGLIKDNKGWTVEIN 277
+ I+ G V++ + G+ TG +D GW ++N
Sbjct: 268 V----DGIQVGEGRCGPVTKRIQQAFFGLFTGETEDKWGWLDQVN 308
>3sno_A Hypothetical aminotransferase; D-aminoacid aminotransferase-like
PLP-dependent enzymes, STR genomics; HET: MSE; 1.60A
{Corynebacterium glutamicum}
Length = 315
Score = 149 bits (379), Expect = 1e-43
Identities = 55/253 (21%), Positives = 96/253 (37%), Gaps = 32/253 (12%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGK 60
+ DG ++ R + A + +P P ++ + A + + W P
Sbjct: 53 LLIR---DGHA--CNVRRHGERFKASAALLGLPEPILEDWEKATQMGI---ESWYSHPNA 104
Query: 61 GSLYIRPLL-VGSGPILGLAPAP--------------EYTFLVFASPVGNYFKEGLAPLN 105
G L G GLA E+ V S G GL +
Sbjct: 105 GEASCTWTLSRGRSS-TGLASGWLTITPVSSDKLAQREHGVSVMTSSRGYSIDTGLPGIG 163
Query: 106 LYVEDEFHRAT----PGGAGGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEV 161
E + P G K + YA + A+ AK+ GF DV++ D + E
Sbjct: 164 KATRGELSKVERTPAPWLTVGAKTL-AYAANMAALRYAKSNGFDDVIFTDG---DRVLEG 219
Query: 162 SSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFC 221
++ + KG+ I TP+ G IL G T+ ++ A++ G++ +E+ + +D+L AD V+
Sbjct: 220 ATSTVVSFKGDKIRTPSPGGDILPGTTQAALFAHATEKGWRCKEKDLSIDDLFGADSVWL 279
Query: 222 TGTAVVVAPVGSI 234
+ V +
Sbjct: 280 VSSVRGPVRVTRL 292
>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 = 147 bits (373), Expect = 9e-43
Identities = 82/285 (28%), Positives = 117/285 (41%), Gaps = 25/285 (8%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTALANKRWVPPPG 59
++AY G + FR ++ R A+ + M P + ++ +A+K+ N G
Sbjct: 39 IRAYETAKGPAI-FRLKEHVKRFYNSAKVLRMEIPFAPEELEEAIKEVVRRN-------G 90
Query: 60 KGSLYIRPLL-VGSGPILGLAPAPEY--TFLVFASPVGNYFKEGL--APLNLYVEDEFHR 114
S YIRPL +G+ LG+ P P +V A G Y E L + R
Sbjct: 91 YRSCYIRPLAWMGAKA-LGVNPLPNNPAEVMVAAWEWGAYLGEEAVRKGARLITSS-WAR 148
Query: 115 ATPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNI 173
G K NY A A G + L LD + + E S N+F ++ +
Sbjct: 149 FPANVMPGKAKVGGNYVNSALAKMEAVAAGADEALLLDE--EGYVAEGSGENLFFVRDGV 206
Query: 174 ISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGS 233
I S L GITR S+I IA D G++V+ D+L ADEVF TGTA V PV
Sbjct: 207 IYALEHSV-NLEGITRDSVIRIAKDLGYEVQVVRATRDQLYMADEVFMTGTAAEVTPVSM 265
Query: 234 ITYRGKRIEFKTGAQ-SVSRELYSTLVGIQTGLIKDNKGWTVEIN 277
I G V+ L + TG + +GW +N
Sbjct: 266 I----DWRPIGKGTAGPVALRLREVYLEAVTGRRPEYEGWLTYVN 306
>3u0g_A Putative branched-chain amino acid aminotransfera; structural
genomics, seattle structural genomics center for
infectious disease; 1.90A {Burkholderia pseudomallei}
Length = 328
Score = 146 bits (372), Expect = 2e-42
Identities = 73/279 (26%), Positives = 115/279 (41%), Gaps = 23/279 (8%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTALANKRWVPPPG 59
++AY+ DG +FR ++ RL A+ M P + A + NK
Sbjct: 62 VRAYKTADGGTAIFRLKEHTKRLLNSAKIFQMDVPFDQETLEAAQRDVVRENKL------ 115
Query: 60 KGSLYIRPLL-VGSGPILGLAPAP-EYTFLVFASPVGNYFKEGL--APLNLYVEDEFHRA 115
S Y+RP++ +GS LG++ + A P G Y E + + F R
Sbjct: 116 -ESCYLRPIIWIGSEK-LGVSAKGNTIHVAIAAWPWGAYLGEEGLAKGIRVKTSS-FTRH 172
Query: 116 TPGGA-GGVKAISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNII 174
+ KA Y + A A G+ + L LD + E S N F++ +
Sbjct: 173 HVNVSMVRAKASGWYVNSILANQEATADGYDEALLLDV--DGYVSEGSGENFFLVNRGKL 230
Query: 175 STPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
TP + L GITR ++I +A + G +V E+ I DE+ ADE F TGTA V P+ +
Sbjct: 231 YTPDLAS-CLDGITRDTVITLAKEAGIEVIEKRITRDEVYTADEAFFTGTAAEVTPIREL 289
Query: 235 TYRGKRIEFKTGAQ-SVSRELYSTLVGIQTGLIKDNKGW 272
GA+ ++ +L S + G + W
Sbjct: 290 ----DNRTIGGGARGPITEKLQSAFFDVVNGKSAKHADW 324
>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 = 141 bits (358), Expect = 6e-41
Identities = 50/226 (22%), Positives = 92/226 (40%), Gaps = 21/226 (9%)
Query: 13 LFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTALANKRWVPPPGKGSLYIRPLL-V 70
+ RL A ++ +P S D + + + Q + I+ +L
Sbjct: 40 PSFAYMHWERLGNSARQLGIPFEISFDDWFEHLIQKIQKDNL-------YHGGIKAILSG 92
Query: 71 GSGPILGLAPAPEYTFLVFAS-PVGNYFKEGLAPLNLYVEDEFHRATPGGAGGVKAISNY 129
G GLA + + L+F + P+ L + R +K++ NY
Sbjct: 93 GPAS-RGLAERGQVSQLIFQTFNYSIQKH----PVRLISI-NWLRDKANPLYQLKSV-NY 145
Query: 130 AP-VLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNIISTPATSGTILAGIT 188
++ A +A G D L+ ++ N ++ E + N+F+++ NI+ TP IL GIT
Sbjct: 146 LEAII-AQRQAIAVGADDALFFNTEN--HVTETTCANLFLIENNILYTPRVEDGILPGIT 202
Query: 189 RKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
R +I V+E ++ + +AD VF T + + V S+
Sbjct: 203 RARLISHCQQHKMSVQEISLTKKRIEDADAVFLTNSLQGIRRVLSL 248
>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 = 139 bits (352), Expect = 4e-40
Identities = 48/247 (19%), Positives = 93/247 (37%), Gaps = 29/247 (11%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGK 60
+ DG++ L + RLQ +R+ + Q +K A +
Sbjct: 29 ARVI---DGKVSLL--SAHIQRLQDACQRLMISCDFWPQLEQEMKTLAAEQQ-------- 75
Query: 61 GSLYIRPLLV--GSGPILGLAPAPEY--TFLVFASPVGNYFKEGLA-PLNLYVEDEFHRA 115
+ ++ +++ GSG G + T ++ + ++ + L +
Sbjct: 76 -NGVLK-VVISRGSGG-RGYSTLNSGPATRILSVTAYPAHYDRLRNEGITLALSP-VRLG 131
Query: 116 TPGGAGGVKAISNYAP-VLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNII 174
G+K + N VL S + + L LDS + + E + N+F KGN++
Sbjct: 132 RNPHLAGIKHL-NRLEQVL-IRSHLEQTNADEALVLDS--EGWVTECCAANLFWRKGNVV 187
Query: 175 STPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
TP + GI R+ I + + +Q+ E ++E L+ADE+ + V PV +
Sbjct: 188 YTPRLDQAGVNGIMRQFCIRLLAQSSYQLVEVQASLEESLQADEMVICNALMPVMPVCAC 247
Query: 235 TYRGKRI 241
Sbjct: 248 --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 = 135 bits (342), Expect = 3e-38
Identities = 46/239 (19%), Positives = 84/239 (35%), Gaps = 26/239 (10%)
Query: 1 MKAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGK 60
+ G +++ RL+ G R+ +P + A
Sbjct: 51 LAVR---AGTP--RLLERHLARLEEGCRRLAIP-LDTAALRQELLAFCAALG-------- 96
Query: 61 GSLYIRPLL-VGSGPILGLAPA--PEYTFLVFASPVGNYFKEGLA-PLNLYVEDEFHRAT 116
+ ++ G G G AP ++ SP Y + + L+ A
Sbjct: 97 -DGVAKLIVTRGEGL-RGYAPPAEASPRRILSGSPRPAYPERHWQQGVRLFAC-RTRLAE 153
Query: 117 PGGAGGVKAISNYAP-VLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNIIS 175
G+K + N VL A + + G ++ L LD + E N+ ++ +
Sbjct: 154 QPLLAGLKHL-NRLEQVL-ARAEWSDAGHAEGLMLDVHE--RVVEGVFSNLLLVLDGTLV 209
Query: 176 TPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
P +AG+ R ++E A G + R + + EL ADEVF + + PV ++
Sbjct: 210 APDLRRCGVAGVMRAELLERAEGIGVPLAIRDVSMAELATADEVFLCNSQFGIWPVRAL 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 = 129 bits (326), Expect = 4e-36
Identities = 57/225 (25%), Positives = 93/225 (41%), Gaps = 30/225 (13%)
Query: 13 LFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTALANKRWVPPPGKGSLYIRPLL-V 70
F ++ RL+ A+ +P S D+F +K A K+ + I+ L
Sbjct: 53 PFAAYKHYTRLKRSADFFNLPLSLSFDEFTKVLKAGADEFKQ--------EVRIKVYLFP 104
Query: 71 GSGPILGLAPAPEYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATPGGA-GGVKAISNY 129
SG +L SP+ E + + + R +K +
Sbjct: 105 DSGEVL-----------FVFSPLNIPDLE--TGVEVKIS-NVRRIPDLSTPPALKI-TGR 149
Query: 130 APVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITR 189
++R + DV+ L + E S N+F++K + TP+ IL GITR
Sbjct: 150 --TDIVLARREIVDCYDVILLGLNG--QVCEGSFSNVFLVKEGKLITPSLDSGILDGITR 205
Query: 190 KSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
+++I++A VEER + V EL EADE+F T T+ V PV +
Sbjct: 206 ENVIKLAKSLEIPVEERVVWVWELFEADEMFLTHTSAGVVPVRRL 250
>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 = 123 bits (311), Expect = 5e-34
Identities = 53/240 (22%), Positives = 85/240 (35%), Gaps = 47/240 (19%)
Query: 13 LFRPDQNAIRLQTGAERMCMPSP-SIDQFIDAVKQTALANKRWVPPPGKGSLYIRPLL-V 70
+F +++ RL AE++ + P + D+F + + N + +I +
Sbjct: 41 MFTVNEHIDRLYASAEKIRITIPYTKDKFHQLLHELVEKN-------ELNTGHIYFQVTR 93
Query: 71 GSGPILGLA-PAPEYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATPGGAGGVKAIS-- 127
G+ P P ++ N GVKA
Sbjct: 94 GTSP-RAHQFPENTVKPVIIGYTKENPRPL-----------------ENLEKGVKATFVE 135
Query: 128 ------------NY-APVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNII 174
N VL A A +G + + L + E SS N+F +K I+
Sbjct: 136 DIRWLRCDIKSLNLLGAVL-AKQEAHEKGCYEAI-LHR--NNTVTEGSSSNVFGIKDGIL 191
Query: 175 STPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
T + IL GITR +I A++ V+E E L+ DE+F T T + PV I
Sbjct: 192 YTHPANNMILKGITRDVVIACANEINMPVKEIPFTTHEALKMDELFVTSTTSEITPVIEI 251
>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 = 116 bits (293), Expect = 1e-31
Identities = 45/216 (20%), Positives = 81/216 (37%), Gaps = 34/216 (15%)
Query: 22 RLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGKGSLYIRPLL-VGSGP-ILGLA 79
RL+ A + + P + F++ ++ A + + +R VG G +
Sbjct: 44 RLRRHALALGLSYPGDEAFLEDLEALLRAFPK--------APCLRLRFTVGEGVRLSEAR 95
Query: 80 PAPEYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATPGGAGGVKAISNYAP-VLKAISR 138
P P+ Y +EG+ + + +R P A K NY P L A+
Sbjct: 96 PYAPL-------PLSLY-REGV---RVRLTG--YRVHPDLAR-YKT-GNYLPYRL-ALEE 139
Query: 139 AKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASD 198
A+ G + L LD+ ++ + S + + + + L GITR+ + E A
Sbjct: 140 ARKEGAFEGLLLDAFG--HVVDGSRTSPLLFREGTLYLLEG---GLEGITREKVAEAARG 194
Query: 199 CGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
G +VE + L + G+ V + PV
Sbjct: 195 LGLRVERGLFRPEGL--RGHLLLAGSGVGLLPVRPP 228
>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 = 95.4 bits (238), Expect = 6e-24
Identities = 40/231 (17%), Positives = 69/231 (29%), Gaps = 33/231 (14%)
Query: 5 RKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQTALANKRWVPPPGKGSLY 64
R + G L A RL A + Q I V AL R ++
Sbjct: 23 RWQPGTSFLRFDRHLA-RLYGSAAELGFACD--PQRIAEVLSDALDGAR-------TAMR 72
Query: 65 IRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATPGGAGGVK 124
R L + + P + LA + K
Sbjct: 73 TR-LALARNGDATASAQP-----YEPLAADKVWILRLART--------RLDSQNTLLRHK 118
Query: 125 AISNYAPVLKAISRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGN-IISTPATSGTI 183
S A S +VL + + + E + N+F G+ +++TP +
Sbjct: 119 T-SRRQLYTHARSEYLVTQADEVLLANE--RGEICEGTITNVFADFGDGVLATPRLDCGL 175
Query: 184 LAGITRKSIIEIASDCGFQVEERAIPVDELLEADEVFCTGTAVVVAPVGSI 234
L G+ R +++ + EE D+L A +F + + P +
Sbjct: 176 LPGVLRAELLDEG-----RAEEAIYSYDDLKSAKALFVGNSLRGLIPAKLV 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 = 71.7 bits (176), Expect = 2e-15
Identities = 22/207 (10%), Positives = 56/207 (27%), Gaps = 49/207 (23%)
Query: 22 RLQTGAERMCMPSPSIDQFI-DAVKQTALANKRWVPPPGKGSLYIRPLLVGSGPILGLAP 80
R + + + + + +G + R +L P
Sbjct: 27 RYEKSLLKFYPKMKLQPFDLAKIIAKHTALFT-----HREGLIRCRIDYNHHDYVLQCFP 81
Query: 81 APEYTF----LVFASPVGNYFKEGLAPLNLYVEDEFHRATPGGAGGVKAISNYAPVLKAI 136
+ + VF + K + +L +
Sbjct: 82 YQQKVYRTFKPVFCDHIDYSLK----------------------------FSDRTLLNNL 113
Query: 137 SRAKNRGFSDVLYLDSVNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIA 196
+ +++ + + + + S N+ + N TP +L G R ++E
Sbjct: 114 -LKQKEECDEIMI---IRQGKVTDCSIGNLIFRQNNQWITPDKP--LLEGTQRAKLLEQ- 166
Query: 197 SDCGFQVEERAIPVDELLEADEVFCTG 223
++ R I ++L + +E+
Sbjct: 167 ----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 = 51.2 bits (122), Expect = 2e-07
Identities = 44/219 (20%), Positives = 68/219 (31%), Gaps = 73/219 (33%)
Query: 66 RPLLVGSGPILGLAPAPEYTFLVFASPVGNYFK-EGLAPLNLYVEDEFHR----ATPGGA 120
RPL + G + E+ LV P ++F L +++F++ T G A
Sbjct: 7 RPLTLSHGSL-------EHVLLV---PTASFFIASQL-------QEQFNKILPEPTEGFA 49
Query: 121 GGVKAISN---YAPVLKAISRAKNRG----FSDVLYLDSVNKKNLEEVSSCNIFILKGNI 173
+ + L +S F VL L E +C L+GN
Sbjct: 50 ADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVL------NLCLTEFENC---YLEGND 100
Query: 174 I-----STPATSGTILAGITRKSIIEI---ASDCGFQVEERAIPVDELLEADEVFCTGTA 225
I + T L K +I+ A + ++ L A G A
Sbjct: 101 IHALAAKLLQENDTTLV--KTKELIKNYITARIMAKRPFDKKSN-SALFRAVG---EGNA 154
Query: 226 VVVAPVGSITYRGKRIEFKTGAQSVS-------RELYST 257
+VA F G Q + R+LY T
Sbjct: 155 QLVA------------IF--GGQGNTDDYFEELRDLYQT 179
Score = 33.9 bits (77), Expect = 0.058
Identities = 39/220 (17%), Positives = 71/220 (32%), Gaps = 62/220 (28%)
Query: 95 NYFKE--GLAPLNLYVEDEFHRAT--PGGAGGVKAISNYAPVLKAISRAKNRGFSDVLYL 150
N+FK+ G + L++ V + T GG G + NY+ ++ +
Sbjct: 1651 NHFKDTYGFSILDI-VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIF-- 1707
Query: 151 DSVNKKNLEEVSSCNIFIL-KGNIIST----PA---TSGTILAGITRKSII--------- 193
K + E S+ F KG + +T PA + K +I
Sbjct: 1708 -----KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGH 1762
Query: 194 ---E---IASDCG---FQ-----VEERAIPVDELLEADEVFCTGTAVV-VAPVGSITYRG 238
E +AS + V R + + + DE+ + ++ + P G +
Sbjct: 1763 SLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP-GRVAASF 1821
Query: 239 KRIEFKTGAQSVSRELYSTLVGIQTGLIKDNKGWTVEI-N 277
+ + + V + GW VEI N
Sbjct: 1822 SQEALQYVVERVGKR----------------TGWLVEIVN 1845
Score = 29.2 bits (65), Expect = 1.7
Identities = 30/144 (20%), Positives = 46/144 (31%), Gaps = 48/144 (33%)
Query: 36 SIDQFIDAVKQTALANKRWVPPPGKG-SLY----IRPLLVGSGPILGLAP--------AP 82
SI+ ++ V + + VP G S Y I P V +
Sbjct: 1778 SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAAS--FSQEALQYVVERVGK 1835
Query: 83 EYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATPGG----AGGVKAISNYAPVLKAISR 138
+LV V NY N AG ++A+ VL I +
Sbjct: 1836 RTGWLV--EIV-NY--------N----------VENQQYVAAGDLRALDTVTNVLNFI-K 1873
Query: 139 AKNRGFSDVLYL-DSVNKKNLEEV 161
+ D++ L S+ +LEEV
Sbjct: 1874 LQK---IDIIELQKSL---SLEEV 1891
>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 = 32.7 bits (74), Expect = 0.076
Identities = 9/59 (15%), Positives = 20/59 (33%), Gaps = 15/59 (25%)
Query: 155 KKNLEEVSSC-NIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 212
NL V +C + I+ + G + + + CG + ++ + D
Sbjct: 15 GPNLNIVLTCPECKVYPPKIVERFS-EGDV-----------VCALCGLVLSDKLV--DT 59
>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 = 31.1 bits (69), Expect = 0.20
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 20/46 (43%)
Query: 2 KAYRKEDGQLVLFRPDQNAIRLQTGAERMCMPSPSIDQFIDAVKQT 47
+A +K L L+ D +P++ A+K T
Sbjct: 20 QALKKLQASLKLYADDS---------------APAL-----AIKAT 45
Score = 27.2 bits (59), Expect = 4.5
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 10/32 (31%)
Query: 98 KEGL----APLNLYVEDEFHRATPGGAGGVKA 125
K+ L A L LY +D + P A +KA
Sbjct: 19 KQALKKLQASLKLYADD----SAP--ALAIKA 44
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing
proteins); PSI-2, midwest center for structural
genomics; 1.65A {Chromobacterium violaceum}
Length = 113
Score = 29.8 bits (68), Expect = 0.33
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 188 TRKSIIEIASDCGF 201
T KSI++I CGF
Sbjct: 71 TSKSIVQIGLACGF 84
>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 = 30.7 bits (70), Expect = 0.47
Identities = 15/64 (23%), Positives = 21/64 (32%), Gaps = 16/64 (25%)
Query: 178 ATSGTILAGITRKSIIEIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAV 226
T G + + EIA S V E A+PV L D + G +
Sbjct: 221 PTRGGLATTLN-----EIAGQSQAVCHVLETAVPVRESVRNGCSFLGLDPLYLANEGKLI 275
Query: 227 VVAP 230
+ P
Sbjct: 276 CILP 279
>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 = 31.0 bits (69), Expect = 0.53
Identities = 25/150 (16%), Positives = 41/150 (27%), Gaps = 39/150 (26%)
Query: 55 VPPPGKGSLYIRPLLVGSGP-----ILGLAPAPEYTFLVFASPVGNYFKEGLAPLNLYVE 109
G+L + L+ + Y FL SP+ ++ +Y+E
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL--MSPIKTEQRQPSMMTRMYIE 114
Query: 110 --DEFH------------RATPGGAGGVKAISNYAPVLKAISRAKN------RGF--SDV 147
D + R P + L + AKN G +
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQP-----YLKLRQ---ALLELRPAKNVLIDGVLGSGKT-W 165
Query: 148 LYLDSVNKKNLEEVSSCNIFILK-GNIIST 176
+ LD ++ IF L N S
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
>3vti_C Hydrogenase maturation factor; transferase, carbamoyltransfer,
maturation of [NIFE]-hydroge nitrIle synthesis, iron;
2.56A {Thermoanaerobacter tengcongensis}
Length = 314
Score = 30.7 bits (70), Expect = 0.54
Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 16/64 (25%)
Query: 178 ATSGTILAGITRKSIIEIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAV 226
T G + + EI+ S G ++ E +PV E + D + G V
Sbjct: 200 PTRGGVAEVL-----YEISKMSGVGIKIYEEKLPVKESVKSACEFMGIDFLHLANEGKVV 254
Query: 227 VVAP 230
VV
Sbjct: 255 VVVE 258
>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 = 29.2 bits (66), Expect = 0.75
Identities = 4/15 (26%), Positives = 9/15 (60%)
Query: 188 TRKSIIEIASDCGFQ 202
+ + I+ +A GF+
Sbjct: 75 SNEPILYLAERYGFE 89
>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 = 29.6 bits (67), Expect = 0.98
Identities = 18/64 (28%), Positives = 24/64 (37%), Gaps = 16/64 (25%)
Query: 178 ATSGTILAGITRKSIIEIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAV 226
AT G + A + E A CG ++ E A+PV ELL D G V
Sbjct: 220 ATRGGVNAVVH-----EFAAACGCGIEISESALPVKPAVRGVCELLGLDALNFANEGKLV 274
Query: 227 VVAP 230
+
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 = 29.5 bits (67), Expect = 1.1
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 11/48 (22%)
Query: 194 EIA--SDCGFQVEERAIPVD-------ELLEAD--EVFCTGTAVVVAP 230
EIA S+ G V E IP+ E+L +V G V+V
Sbjct: 233 EIARKSNVGILVREADIPIRPEVRAASEMLGISPYDVANEGKVVMVVA 280
>1c3c_A Protein (adenylosuccinate lyase); purine biosynthesis; 1.80A
{Thermotoga maritima} SCOP: a.127.1.1 PDB: 1c3u_A
Length = 429
Score = 28.0 bits (63), Expect = 3.4
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 153 VNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 212
VN++ +++ NI + KG + S I G+TRK +I + E
Sbjct: 335 VNEERMKK----NIDLTKGLVFSQRVLLKLIEKGLTRKEAYDIVQRNALKTWNSEKHFLE 390
Query: 213 LLEADE 218
L DE
Sbjct: 391 YLLEDE 396
>3vg8_G Hypothetical protein TTHB210; alpha and beta proteins (A+B),
unknown function; 2.20A {Thermus thermophilus}
Length = 116
Score = 27.1 bits (59), Expect = 3.5
Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 5/72 (6%)
Query: 58 PGKGSLYIRPLLVGSGPILGLAPAPEYTFLVFASPVGNYFKEGLAPLNLYVEDEFHRATP 117
PG G+LY+ P + GP L A +VF P+ + L + YV+
Sbjct: 16 PGLGTLYVDPSTLPEGPFLAYDRAGNLVKVVFMVPL-----KKLNESHKYVDIGTKTLRA 70
Query: 118 GGAGGVKAISNY 129
G + ++
Sbjct: 71 LGITRIDHVNMI 82
>2pfm_A Adenylosuccinate lyase; PURB, purine biosynthesis, B anthracis;
2.00A {Bacillus anthracis} PDB: 1f1o_A 2x75_A*
Length = 444
Score = 28.1 bits (63), Expect = 3.6
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 4/66 (6%)
Query: 153 VNKKNLEEVSSCNIFILKGNIISTPATSGTILAGITRKSIIEIASDCGFQVEERAIPVDE 212
V +N++ N+ G I S I G+ R+ +I + E + E
Sbjct: 347 VYPENMKR----NMTRTYGLIYSQRVMLTLIDKGMVREEAYDIVQPKAMEAWETQVQFKE 402
Query: 213 LLEADE 218
L+EADE
Sbjct: 403 LVEADE 408
>3mn2_A Probable ARAC family transcriptional regulator; structural
genomics, PSI-2, protein structure initiative; 1.80A
{Rhodopseudomonas palustris}
Length = 108
Score = 26.4 bits (59), Expect = 4.4
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 184 LAGITRKSIIEIASDCGF 201
G T ++ A CGF
Sbjct: 64 SDGATPTTVTAAALSCGF 81
>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 = 27.6 bits (61), Expect = 4.8
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 188 TRKSIIEIASDCGFQ 202
I +IA GF
Sbjct: 232 GEFKIKQIAYQSGFA 246
>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 = 5.8
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 188 TRKSIIEIASDCGFQ 202
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 0.137 0.397
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: 4,327,492
Number of extensions: 269314
Number of successful extensions: 632
Number of sequences better than 10.0: 1
Number of HSP's gapped: 596
Number of HSP's successfully gapped: 42
Length of query: 277
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 185
Effective length of database: 4,133,061
Effective search space: 764616285
Effective search space used: 764616285
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: 57 (25.7 bits)