RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11439
(91 letters)
>2ozl_A PDHE1-A type I, pyruvate dehydrogenase E1 component alpha subunit,
somatic form; pyruvate_dehydrogenase_complex, human,
multienzyme_complex_component; HET: TPP; 1.90A {Homo
sapiens} SCOP: c.36.1.11 PDB: 1ni4_A* 3exe_A* 3exi_A
3exh_A* 3exg_A 3exf_A*
Length = 365
Score = 151 bits (384), Expect = 1e-46
Identities = 57/88 (64%), Positives = 67/88 (76%)
Query: 1 MENKEVDGMDILAVREAARFAVNHCRSDKGPILLETATYRYSGHSMSDPGTSYRTRDEIQ 60
+ VDGMDIL VREA RFA +CRS KGPIL+E TYRY GH MSDPG SYRTR+EIQ
Sbjct: 224 IPGLRVDGMDILCVREATRFAAAYCRSGKGPILMELQTYRYHGHEMSDPGVSYRTREEIQ 283
Query: 61 EVRQTRDPISSLKDKILNASLVTPEELK 88
EVR DPI LKD+++N++L + EELK
Sbjct: 284 EVRSKSDPIMLLKDRMVNSNLASVEELK 311
>1umd_A E1-alpha, 2-OXO acid dehydrogenase alpha subunit; alpha(2)beta(2)
tetramer, structural genomics; HET: TDP; 1.90A {Thermus
thermophilus} SCOP: c.36.1.11 PDB: 1um9_A* 1umc_A*
1umb_A*
Length = 367
Score = 101 bits (253), Expect = 2e-27
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 1/84 (1%)
Query: 6 VDGMDILAVREAARFAVNHCRSDKGPILLETATYRYSGHSMSDPGTSYRTRDEIQEVRQT 65
VDGMD+LA + AV R +GP L+E YRY HS +D + YR ++E+ R+
Sbjct: 235 VDGMDVLASYYVVKEAVERARRGEGPSLVELRVYRYGPHSSADDDSRYRPKEEVAFWRK- 293
Query: 66 RDPISSLKDKILNASLVTPEELKR 89
+DPI + + L E +
Sbjct: 294 KDPIPRFRRFLEARGLWNEEWEED 317
>1qs0_A 2-oxoisovalerate dehydrogenase alpha-subunit; heterotetramer, THDP
cofactor, oxidoreductase; HET: TDP; 2.40A {Pseudomonas
putida} SCOP: c.36.1.11 PDB: 2bp7_A
Length = 407
Score = 94.8 bits (236), Expect = 6e-25
Identities = 31/84 (36%), Positives = 42/84 (50%), Gaps = 1/84 (1%)
Query: 6 VDGMDILAVREAARFAVNHCRSDKGPILLETATYRYSGHSMSDPGTSYRTRDEIQEVRQT 65
VDG D +AV A+R+A R GP L+E TYR HS SD + YR D+
Sbjct: 273 VDGNDFVAVYAASRWAAERARRGLGPSLIEWVTYRAGPHSTSDDPSKYRPADDWSHFPL- 331
Query: 66 RDPISSLKDKILNASLVTPEELKR 89
DPI+ LK ++ + EE +
Sbjct: 332 GDPIARLKQHLIKIGHWSEEEHQA 355
>1w85_A Pyruvate dehydrogenase E1 component, alpha subunit; dehydrogenase,
multienzyme complex, oxidoreductase; HET: TDP; 2.0A
{Geobacillus stearothermophilus} SCOP: c.36.1.11 PDB:
3duf_A* 3dv0_A* 3dva_A* 1w88_A*
Length = 368
Score = 94.2 bits (235), Expect = 6e-25
Identities = 31/86 (36%), Positives = 46/86 (53%), Gaps = 4/86 (4%)
Query: 6 VDGMDILAVREAARFAVNHCRSDKGPILLETATYRYSGHSMS--DPGTSYRTRDEIQEVR 63
VDGMD LAV A + A + +GP L+ET +RY H+MS DP T YR+++ E
Sbjct: 233 VDGMDPLAVYAAVKAARERAINGEGPTLIETLCFRYGPHTMSGDDP-TRYRSKELENEWA 291
Query: 64 QTRDPISSLKDKILNASLVTPEELKR 89
+ +DP+ + + L + EE
Sbjct: 292 K-KDPLVRFRKFLEAKGLWSEEEENN 316
>2bfd_A 2-oxoisovalerate dehydrogenase alpha subunit; oxidoreductase,
multi-enzyme complex, acylation, oxidative
decarboxylation, maple syrup urine disease; HET: TDP;
1.39A {Homo sapiens} SCOP: c.36.1.11 PDB: 1v16_A*
2bfc_A* 1v1r_A* 1olu_A* 2bfb_A* 1v1m_A* 2bew_A* 1dtw_A*
1olx_A* 1ols_A* 1wci_A* 1x80_A* 2beu_A* 1u5b_A* 2bev_A*
1v11_A* 1x7x_A* 1x7y_A* 1x7w_A* 1x7z_A* ...
Length = 400
Score = 93.5 bits (233), Expect = 2e-24
Identities = 27/84 (32%), Positives = 42/84 (50%)
Query: 6 VDGMDILAVREAARFAVNHCRSDKGPILLETATYRYSGHSMSDPGTSYRTRDEIQEVRQT 65
VDG D+ AV A + A ++ P L+E TYR S SD +++R+ DE+ +
Sbjct: 253 VDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHASTSDDSSAFRSVDEVNYWDKQ 312
Query: 66 RDPISSLKDKILNASLVTPEELKR 89
PIS L+ +L+ E+ K
Sbjct: 313 DHPISRLRHYLLSQGWWDEEQEKA 336
>3aal_A Probable endonuclease 4; endoiv, DNA repair, base excision repair,
TIM barrel, DNA DA endonuclease, hydrolase,
metal-binding; 1.60A {Geobacillus kaustophilus} PDB:
1xp3_A
Length = 303
Score = 27.1 bits (60), Expect = 0.82
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 16 EAARFAVNHCRSDKGPILLETATYRYSGHSMSDPGTSYRTRDEIQEVR-QTRDPISSLKD 74
A + V+H + + P +LET ++ P Y + EI +R Q+ D L +
Sbjct: 244 AALNYIVHHPQLEDIPKILETPYVGEDKNNKKPP---Y--KHEIAMLRAQSFDD--QLLE 296
Query: 75 KILNAS 80
KI +
Sbjct: 297 KINAGA 302
>1ed1_A GAG polyprotein, SIV MA; trimeric association, viral protein;
2.10A {Simian immunodeficiency virus - mac} SCOP:
a.61.1.1 PDB: 1ecw_A 2k4e_A 2k4h_A* 2k4i_A*
Length = 135
Score = 25.8 bits (57), Expect = 1.6
Identities = 7/25 (28%), Positives = 8/25 (32%), Gaps = 7/25 (28%)
Query: 13 AVREAARFAVNHCRSDKGPILLETA 37
A E RF + LLE
Sbjct: 37 AANELDRFGLA-------ESLLENK 54
>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 = 26.2 bits (57), Expect = 1.7
Identities = 21/91 (23%), Positives = 42/91 (46%), Gaps = 19/91 (20%)
Query: 8 GMDILAVREAARFAVNHCRSDKGPILLETATYRYSGHSMSD-----PG--TSYRTRDEIQ 60
GMD+ +AA+ N R+D + TY G S+ D P T + ++ +
Sbjct: 1632 GMDLYKTSKAAQDVWN--RADN--HFKD--TY---GFSILDIVINNPVNLTIHFGGEKGK 1682
Query: 61 EVRQTRDPISSLKDKILNASLVTPEELKREL 91
+R+ + + + I++ L T E++ +E+
Sbjct: 1683 RIRENYSAM--IFETIVDGKLKT-EKIFKEI 1710
>2gol_A Matrix protein P17 (MA); viral maturation, immature, GAG, HIV-1,
viral protein; 2.20A {Human immunodeficiency virus 1}
SCOP: a.61.1.1 PDB: 1hiw_A 2hmx_A 2h3f_A 2h3i_A*
2h3q_A* 2h3v_A* 2h3z_A* 1uph_A* 2nv3_A* 2jmg_A* 1tam_A
Length = 133
Score = 25.8 bits (57), Expect = 1.7
Identities = 13/25 (52%), Positives = 14/25 (56%), Gaps = 7/25 (28%)
Query: 13 AVREAARFAVNHCRSDKGPILLETA 37
A RE RFAVN P LLET+
Sbjct: 38 ASRELERFAVN-------PGLLETS 55
>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics,
nysgxrc T18, GTPase, PSI, protein structure initiative;
HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8
Length = 282
Score = 25.3 bits (56), Expect = 3.0
Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 23/64 (35%)
Query: 49 PGTSYRTRDEIQ----------EVRQTRDPISS--------LKDK----ILN-ASLVTPE 85
PG + R E+ E+ R P+SS LK+K +LN A
Sbjct: 7 PGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDILKNKPRIMLLNKADKADAA 66
Query: 86 ELKR 89
++
Sbjct: 67 VTQQ 70
>3p8k_A Hydrolase, carbon-nitrogen family; HET: PGE; 1.70A {Staphylococcus
aureus subsp}
Length = 281
Score = 24.2 bits (53), Expect = 8.6
Identities = 12/68 (17%), Positives = 17/68 (25%), Gaps = 22/68 (32%)
Query: 21 AVNHCRSDKGPILLETATYRYSGHSM-------------SDPGTSYRTRDEIQEVRQTRD 67
N D Y+GHS+ + + EV Q R+
Sbjct: 217 GTNSTGFDGN--------TEYAGHSIVINPNGDLVGELNESADILTVDLN-LNEVEQQRE 267
Query: 68 PISSLKDK 75
I K
Sbjct: 268 NIPVFKSI 275
>2x7v_A Probable endonuclease 4; DNA repair protein, metal-binding,
hydrolase, DNA damage, DN; 2.30A {Thermotoga maritima
MSB8} PDB: 2x7w_A*
Length = 287
Score = 24.0 bits (52), Expect = 9.2
Identities = 5/21 (23%), Positives = 8/21 (38%)
Query: 16 EAARFAVNHCRSDKGPILLET 36
E + + P +LET
Sbjct: 241 EGFAVFFSFKEIQEVPWILET 261
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
0.313 0.130 0.357
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,375,809
Number of extensions: 67110
Number of successful extensions: 149
Number of sequences better than 10.0: 1
Number of HSP's gapped: 145
Number of HSP's successfully gapped: 17
Length of query: 91
Length of database: 6,701,793
Length adjustment: 58
Effective length of query: 33
Effective length of database: 5,082,375
Effective search space: 167718375
Effective search space used: 167718375
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.4 bits)