RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10429
(207 letters)
>2ozl_B PDHE1-B, pyruvate dehydrogenase E1 component subunit beta;
pyruvate_dehydrogenase_complex, human,
multienzyme_complex_component; HET: TPP; 1.90A {Homo
sapiens} SCOP: c.36.1.7 c.48.1.2 PDB: 1ni4_B* 3exe_B*
3exf_B* 3exg_B 3exh_B* 3exi_B
Length = 341
Score = 389 bits (1002), Expect = e-138
Identities = 157/201 (78%), Positives = 181/201 (90%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
+TVRDA+N +DEE+ RDEKVFLLGEEVA YDGAYKVSRGLWKKYGDKR++DTPI+E+GF
Sbjct: 15 VTVRDAINQGMDEELERDEKVFLLGEEVAQYDGAYKVSRGLWKKYGDKRIIDTPISEMGF 74
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
AGIAVGAAMAGLRP+CEFMTFNFSMQAID +INSAAKT+YMS G VPIVFRGPNGA++
Sbjct: 75 AGIAVGAAMAGLRPICEFMTFNFSMQAIDQVINSAAKTYYMSGGLQPVPIVFRGPNGASA 134
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
GVAAQHSQCF AW+ CPGLKVVSP+NSEDAKGL+K+AIRD +PVV LENEL+YGV +
Sbjct: 135 GVAAQHSQCFAAWYGHCPGLKVVSPWNSEDAKGLIKSAIRDNNPVVVLENELMYGVPFEF 194
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
EA SKDF++PIGKAK+E+Q
Sbjct: 195 PPEAQSKDFLIPIGKAKIERQ 215
>1w85_B Pyruvate dehydrogenase E1 component, beta subunit; dehydrogenase,
multienzyme complex, oxidoreductase; HET: TDP; 2.0A
{Geobacillus stearothermophilus} SCOP: c.36.1.7 c.48.1.2
PDB: 1w88_B* 3dva_B* 3dv0_B* 3duf_B*
Length = 324
Score = 298 bits (765), Expect = e-102
Identities = 77/201 (38%), Positives = 109/201 (54%), Gaps = 3/201 (1%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
MT+ A+ AL E+ D V + GE+V + G ++ + GL ++G+ RV DTP+ E G
Sbjct: 3 MTMVQAITDALRIELKNDPNVLIFGEDVGVNGGVFRATEGLQAEFGEDRVFDTPLAESGI 62
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
G+A+G A+ G RPV E F F + +D I A+ Y + G ++PI R P G
Sbjct: 63 GGLAIGLALQGFRPVPEIQFFGFVYEVMDSICGQMARIRYRTGGRYHMPITIRSPFGGGV 122
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
HS Q PGLKVV P DAKGLL +AIRD DPV+FLE+ LY
Sbjct: 123 HTPELHSDSLEGLVAQQPGLKVVIPSTPYDAKGLLISAIRDNDPVIFLEHLKLYR---SF 179
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
E ++ +PIGKA ++++
Sbjct: 180 RQEVPEGEYTIPIGKADIKRE 200
>1umd_B E1-beta, 2-OXO acid dehydrogenase beta subunit; alpha(2)beta(2)
tetramer, structural genomics; HET: TDP; 1.90A {Thermus
thermophilus} SCOP: c.36.1.7 c.48.1.2 PDB: 1um9_B*
1umc_B* 1umb_B*
Length = 324
Score = 295 bits (757), Expect = e-101
Identities = 91/201 (45%), Positives = 119/201 (59%), Gaps = 3/201 (1%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
MT+ ALN ALDEEMA+D +V +LGE+V G + V+ GL +KYG RV+DTP++E
Sbjct: 4 MTMVQALNRALDEEMAKDPRVVVLGEDVGKRGGVFLVTEGLLQKYGPDRVMDTPLSEAAI 63
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
G A+G A GLRPV E ++ D +++ AK Y S G P+V R P+G
Sbjct: 64 VGAALGMAAHGLRPVAEIQFADYIFPGFDQLVSQVAKLRYRSGGQFTAPLVVRMPSGGGV 123
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
HSQ A F GLKVV+ DAKGLLKAAIRD DPVVFLE + LY +
Sbjct: 124 RGGHHHSQSPEAHFVHTAGLKVVAVSTPYDAKGLLKAAIRDEDPVVFLEPKRLYR---SV 180
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
+E +D+ LPIGKA + ++
Sbjct: 181 KEEVPEEDYTLPIGKAALRRE 201
>1ik6_A Pyruvate dehydrogenase; E1BETA, tetramer, GXXXG, oxidoreductase;
2.00A {Pyrobaculum aerophilum} SCOP: c.36.1.7 c.48.1.2
Length = 369
Score = 286 bits (733), Expect = 4e-97
Identities = 88/201 (43%), Positives = 119/201 (59%), Gaps = 3/201 (1%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
+ A+N AL EEM RDE+V +LGE+V G + V+ GL++++G +RV+DTP+ E G
Sbjct: 51 ANMAKAINMALHEEMERDERVVVLGEDVGKKGGVFLVTEGLYERFGPERVIDTPLNEGGI 110
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
G A+G AMAGL+PV E +F D ++N AK Y S G P+V R P G+ +
Sbjct: 111 LGFAMGMAMAGLKPVAEIQFVDFIWLGADELLNHIAKLRYRSGGNYKAPLVVRTPVGSGT 170
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
HS A F PGL VV P +AKGLLKAAIR DPVVFLE ++LY
Sbjct: 171 RGGLYHSNSPEAIFVHTPGLVVVMPSTPYNAKGLLKAAIRGDDPVVFLEPKILYRA---P 227
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
+E D+V+ IGKA+V ++
Sbjct: 228 REEVPEGDYVVEIGKARVARE 248
>1qs0_B 2-oxoisovalerate dehydrogenase beta-subunit; heterotetramer, THDP
cofactor, oxidoreductase; HET: TDP; 2.40A {Pseudomonas
putida} SCOP: c.36.1.7 c.48.1.2 PDB: 2bp7_B
Length = 338
Score = 272 bits (699), Expect = 2e-92
Identities = 78/214 (36%), Positives = 107/214 (50%), Gaps = 13/214 (6%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
MT+ AL SA+D + RD+ V + G++V + G ++ + GL KYG RV D PI+E G
Sbjct: 5 MTMIQALRSAMDVMLERDDNVVVYGQDVGYFGGVFRCTEGLQTKYGKSRVFDAPISESGI 64
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
G AVG GLRPV E ++ A D I++ A+ Y SAG P+ R P G
Sbjct: 65 VGTAVGMGAYGLRPVVEIQFADYFYPASDQIVSEMARLRYRSAGEFIAPLTLRMPCGGGI 124
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
HSQ A FTQ GL+ V P N DAKGLL A+I DPV+FLE + LY +
Sbjct: 125 YGGQTHSQSPEAMFTQVCGLRTVMPSNPYDAKGLLIASIECDDPVIFLEPKRLYNGPFDG 184
Query: 181 GDEALSK-------------DFVLPIGKAKVEKQ 201
+ + +P+ KA + +
Sbjct: 185 HHDRPVTPWSKHPHSAVPDGYYTVPLDKAAITRP 218
>2bfd_B 2-oxoisovalerate dehydrogenase beta subunit; oxidoreductase,
multi-enzyme complex, acylation, oxidative
decarboxylation, maple syrup urine disease; HET: TDP;
1.39A {Homo sapiens} SCOP: c.36.1.7 c.48.1.2 PDB:
1dtw_B* 1olu_B* 1ols_B* 1v11_B* 1v16_B* 1v1m_B* 1u5b_B*
1wci_B* 1v1r_B* 1x7x_B* 1x7w_B* 1x7z_B* 1x80_B* 2beu_B*
2bev_B* 2bew_B* 2bfb_B* 2bfc_B* 1x7y_B* 2bfe_B* ...
Length = 342
Score = 260 bits (667), Expect = 1e-87
Identities = 70/202 (34%), Positives = 107/202 (52%), Gaps = 5/202 (2%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
M + ++ SALD +A+D + GE+VA + G ++ + GL KYG RV +TP+ E G
Sbjct: 21 MNLFQSVTSALDNSLAKDPTAVIFGEDVA-FGGVFRCTVGLRDKYGKDRVFNTPLCEQGI 79
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNV-PIVFRGPNGAA 119
G +G A+ G + E ++ A D I+N AAK Y S N + R P G
Sbjct: 80 VGFGIGIAVTGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGDLFNCGSLTIRSPWGCV 139
Query: 120 SGVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYP 179
A HSQ A+F CPG+KVV P + AKGLL + I D +P +F E ++LY
Sbjct: 140 GHGALYHSQSPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFFEPKILY---RA 196
Query: 180 MGDEALSKDFVLPIGKAKVEKQ 201
+E + + +P+ +A+V ++
Sbjct: 197 AAEEVPIEPYNIPLSQAEVIQE 218
>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 = 30.8 bits (69), Expect = 0.32
Identities = 33/172 (19%), Positives = 44/172 (25%), Gaps = 62/172 (36%)
Query: 1 MTVRDALNSALDEEMARDEKVFL----LGEEVALYDGAYKVSRGLWKKYGDKRVLDTPIT 56
+ A L + LGE AL S V+
Sbjct: 1737 TLMEKAAFEDLKSKGLIPADATFAGHSLGEYAAL------ASLA--------DVMS---- 1778
Query: 57 EIGFA-GIAV----GAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIV 111
+ V G M P E N+ M AI+ A +F A V V
Sbjct: 1779 ---IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN--PGRVAASFSQEALQYVVERV 1833
Query: 112 FRGPNGAASGVAAQHSQCFGAWFTQCPGLKVVSP--YNSED----AKGLLKA 157
G +G +V YN E+ A G L+A
Sbjct: 1834 -----GKRTG-------------------WLVEIVNYNVENQQYVAAGDLRA 1861
Score = 29.6 bits (66), Expect = 0.91
Identities = 24/111 (21%), Positives = 36/111 (32%), Gaps = 30/111 (27%)
Query: 81 FNFSMQAIDHI----INSAAKTFYMSAGTVNVPIVFRGPNGAASGVAA-----Q----HS 127
N + A + +N A K +S G P G N A Q S
Sbjct: 356 TNSHLPAGKQVEISLVNGA-KNLVVS-GP---PQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 128 Q---CFGAWFTQCPGLKVVSPYNS---EDAKGLLKAAIRDPDPVVFLENEL 172
+ F F L V SP++S A L+ + + V F ++
Sbjct: 411 ERKLKFSNRF-----LPVASPFHSHLLVPASDLINKDLVKNN-VSFNAKDI 455
Score = 26.9 bits (59), Expect = 5.5
Identities = 36/206 (17%), Positives = 61/206 (29%), Gaps = 60/206 (29%)
Query: 4 RDALNSAL---DEEMARDEKVFLLGEEVALYDG--AYKVSRGLWKKYGDKRVLDTPITEI 58
++ N L E A D++ E V + G + V ++ VL+ +TE
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ--VLNLCLTEF 91
Query: 59 --GF-AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGP 115
+ G + A A L + ++ +I K + + P +
Sbjct: 92 ENCYLEGNDIHALAAKLLQENDT-----TLVKTKELI----KNYITARIMAKRPFDKKSN 142
Query: 116 ----NGAASGVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENE 171
G A + FG Q G N++D + E E
Sbjct: 143 SALFRAVGEGNAQLVAI-FGG---Q--G-------NTDD----------------YFE-E 172
Query: 172 L--LYGVQYPMGDEALSKDFVLPIGK 195
L LY Y L D + +
Sbjct: 173 LRDLYQT-YH----VLVGDLIKFSAE 193
>2o1x_A 1-deoxy-D-xylulose-5-phosphate synthase; thiamin, isoprenoid, DXS,
transferase; HET: TDP; 2.90A {Deinococcus radiodurans}
Length = 629
Score = 30.2 bits (69), Expect = 0.56
Identities = 40/170 (23%), Positives = 66/170 (38%), Gaps = 45/170 (26%)
Query: 48 KRVLDTPITE---IGFAGIAVGAAMAGLRPVCE-FMTFNFSMQ-AIDHIINSAAKTFYMS 102
R LD I E + A G A+ G+RPV + TF +Q A D +++ A
Sbjct: 364 HRYLDVGIAEEVAVTTAA---GMALQGMRPVVAIYSTF---LQRAYDQVLHDVAIE---- 413
Query: 103 AGTVNVPIVF---R----GPNGAASGVAAQHSQCFGAWFTQC-PGLKVVSPYNSEDAKGL 154
++ + F R G +GA H+ F F + PG+++ P ++ + +G+
Sbjct: 414 ----HLNVTFCIDRAGIVGADGAT------HNGVFDLSFLRSIPGVRIGLPKDAAELRGM 463
Query: 155 LKAAIRDPDPVVFLENELLYGVQYPMG---DEALSKDFVLPIGKAKVEKQ 201
LK A P ++YP G L G+ + K
Sbjct: 464 LKYAQTHDGPFA---------IRYPRGNTAQVPAGTWPDLKWGEWERLKG 504
>2cay_A VPS36 PH domain, vacuolar protein sorting protein 36; transport,
ESCRT-II, lipid-binding, multivesicular bodies,
membrane; 1.9A {Saccharomyces cerevisiae} SCOP:
b.55.1.12
Length = 145
Score = 27.6 bits (61), Expect = 2.0
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 7 LNSALDEEMARDEKVFLLGEEVALYDGAYKVSR 39
S+ + EK + + V LY G K+ +
Sbjct: 17 TTSSGQPLLREGEKDIFIDQSVGLYHGKSKILQ 49
>2o1s_A 1-deoxy-D-xylulose-5-phosphate synthase; DXS, thiamine, isoprenoid,
transferase; HET: TDP; 2.40A {Escherichia coli}
Length = 621
Score = 27.5 bits (62), Expect = 3.3
Identities = 39/171 (22%), Positives = 68/171 (39%), Gaps = 46/171 (26%)
Query: 48 KRVLDTPITE---IGFAGIAVGAAMAGLRPVCE-FMTFNFSMQ-AIDHIINSAAKTFYMS 102
R D I E + FA G A+ G +P+ + TF +Q A D +++ A
Sbjct: 361 DRYFDVAIAEQHAVTFAA---GLAIGGYKPIVAIYSTF---LQRAYDQVLHDVAIQ---- 410
Query: 103 AGTVNVPIVF---R----GPNGAASGVAAQHSQCFGAWFTQC-PGLKVVSPYNSEDAKGL 154
+P++F R G +G H F + +C P + +++P + + + +
Sbjct: 411 ----KLPVLFAIDRAGIVGADGQT------HQGAFDLSYLRCIPEMVIMTPSDENECRQM 460
Query: 155 LKAAIR-DPDPVVFLENELLYGVQYPMG---DEALSKDFVLPIGKAKVEKQ 201
L + P V+YP G L+ LPIGK V+++
Sbjct: 461 LYTGYHYNDGPSA---------VRYPRGNAVGVELTPLEKLPIGKGIVKRR 502
>1zu0_A Chitin oligosaccharide binding protein; alpha helix/beta sheet,
sugar binding protein, signaling protein; HET: CBS;
2.20A {Vibrio cholerae} PDB: 1zty_A*
Length = 529
Score = 27.0 bits (60), Expect = 5.0
Identities = 16/75 (21%), Positives = 24/75 (32%), Gaps = 13/75 (17%)
Query: 86 QAIDHIINSAA--KTFYMSAGTVNVPIVFRGPNGAASGVAAQHSQCFGAWFTQCPGLKVV 143
+A ++ + +GTVN G A A H + G
Sbjct: 270 RAFSMALDRQTIIDIAFYGSGTVNDFASGLGYAFEAWSDEATHKKYKGFN---------- 319
Query: 144 SPYNSEDAKGLLKAA 158
Y+ E +K LL A
Sbjct: 320 -TYDVEGSKKLLAKA 333
>1q5x_A Regulator of RNAse E activity A; 3-layer sandwich, alpha-beta
structure, parallel beta sheet, antiparallel beta sheet,
hydrolase inhibitor; 2.00A {Escherichia coli} SCOP:
c.8.7.1
Length = 161
Score = 26.5 bits (59), Expect = 5.1
Identities = 10/56 (17%), Positives = 20/56 (35%), Gaps = 6/56 (10%)
Query: 59 GFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRG 114
+ G+ + A+ R V + + +QA+ G +V + F G
Sbjct: 86 EWEGLVIYGAV---RQVDDLEELDIGIQAMAA---IPVGAAGEGIGESDVRVNFGG 135
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
0.320 0.137 0.403
Gapped
Lambda K H
0.267 0.0789 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,298,400
Number of extensions: 203260
Number of successful extensions: 436
Number of sequences better than 10.0: 1
Number of HSP's gapped: 425
Number of HSP's successfully gapped: 22
Length of query: 207
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,216,824
Effective search space: 497585232
Effective search space used: 497585232
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.8 bits)