RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11220
(127 letters)
>2jgd_A 2-oxoglutarate dehydrogenase E1 component; flavoprotein,
oxidoreductase, thiamine diphosphate, thiamine
pyrophosphate, adenosine monophosphate; HET: AMP; 2.6A
{Escherichia coli} PDB: 2jgd_B*
Length = 933
Score = 155 bits (394), Expect = 3e-45
Identities = 36/89 (40%), Positives = 46/89 (51%), Gaps = 2/89 (2%)
Query: 9 GRLNVLANVCRKPLEQIFTQFAALEAADDGSGDVKYHLGTYIERLNRVTNKNIRLAVVAN 68
GRLNVL NV K + +F +FA G+GDVKYH+G + + + LA+ N
Sbjct: 262 GRLNVLVNVLGKKPQDLFDEFAGKHKEHLGTGDVKYHMGFSSDF--QTDGGLVHLALAFN 319
Query: 69 PSHLEAVDPVVQGKTRAEQFYRGDNEGKK 97
PSHLE V PVV G RA + K
Sbjct: 320 PSHLEIVSPVVIGSVRARLDRLDEPSSNK 348
>2yic_A 2-oxoglutarate decarboxylase; lyase; HET: TPP; 1.96A {Mycobacterium
smegmatis} PDB: 2xta_A* 2y0p_A* 2xt9_A* 2yid_A*
Length = 868
Score = 145 bits (368), Expect = 8e-42
Identities = 42/95 (44%), Positives = 55/95 (57%), Gaps = 2/95 (2%)
Query: 9 GRLNVLANVCRKPLEQIFTQFA--ALEAADDGSGDVKYHLGTYIERLNRVTNKNIRLAVV 66
GRLNVLAN+ KP QIF++F + GSGDVKYHLG + + +I +++
Sbjct: 182 GRLNVLANIVGKPYSQIFSEFEGNLNPSQAHGSGDVKYHLGATGTYIQMFGDNDIEVSLT 241
Query: 67 ANPSHLEAVDPVVQGKTRAEQFYRGDNEGKKLEYS 101
ANPSHLEAVDPV++G RA+Q E
Sbjct: 242 ANPSHLEAVDPVLEGLVRAKQDLLDTGEEGSDNRF 276
>2xt6_A 2-oxoglutarate decarboxylase; lyase, KDH, KGD; HET: TPP; 2.74A
{Mycobacterium smegmatis}
Length = 1113
Score = 145 bits (367), Expect = 1e-41
Identities = 42/95 (44%), Positives = 55/95 (57%), Gaps = 2/95 (2%)
Query: 9 GRLNVLANVCRKPLEQIFTQFA--ALEAADDGSGDVKYHLGTYIERLNRVTNKNIRLAVV 66
GRLNVLAN+ KP QIF++F + GSGDVKYHLG + + +I +++
Sbjct: 427 GRLNVLANIVGKPYSQIFSEFEGNLNPSQAHGSGDVKYHLGATGTYIQMFGDNDIEVSLT 486
Query: 67 ANPSHLEAVDPVVQGKTRAEQFYRGDNEGKKLEYS 101
ANPSHLEAVDPV++G RA+Q E
Sbjct: 487 ANPSHLEAVDPVLEGLVRAKQDLLDTGEEGSDNRF 521
>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 = 35.2 bits (80), Expect = 0.004
Identities = 20/169 (11%), Positives = 46/169 (27%), Gaps = 56/169 (33%)
Query: 1 MVSF--SILAGRLNVLANV-----------------CRKP------LEQIFTQFAA-LEA 34
++ + +A L+V + C P L+++ Q +
Sbjct: 158 VLGSGKTWVA--LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS 215
Query: 35 ADDGSGDVKYHLGTYIERLNR-VTNKNIR--LAV---VANPSHLEAVDP----------- 77
D S ++K + + L R + +K L V V N A +
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFK 275
Query: 78 ----VVQGKTRA----EQFYRGDNEGKKLEY---SVNIKIKSMARRQCS 115
+ T + + ++ + + + R +
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324
Score = 26.7 bits (58), Expect = 2.4
Identities = 23/140 (16%), Positives = 46/140 (32%), Gaps = 44/140 (31%)
Query: 17 VCRKPLEQIFTQF-------------AALEAAD-DGSGDVKYHLGTYIERLNRVTNKNIR 62
+ K E++ +F + ++ S + YIE+ +R+ N N
Sbjct: 71 LLSKQ-EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR----MYIEQRDRLYNDNQV 125
Query: 63 LA--VVANP-------SHLEAVDP----VVQ-----GKTR-AEQFYRGDNEGKKLEYSVN 103
A V+ L + P ++ GKT A K+++ +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 104 -IKIKSMARRQCSEAEVRLE 122
+ + + C+ E LE
Sbjct: 186 WLNL-----KNCNSPETVLE 200
>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 = 33.1 bits (75), Expect = 0.019
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 19/89 (21%)
Query: 3 SFSILA---GRLNVLANVCRKPLEQIFTQFAA-----LEAADD---G-----SGDVKYHL 46
++ ++A GR V A+ ++ L+ + + +E + +GD++ L
Sbjct: 1806 NYGMIAINPGR--VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLR-AL 1862
Query: 47 GTYIERLNRVTNKNIRLAVVANPSHLEAV 75
T LN + + I + + LE V
Sbjct: 1863 DTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.9 bits (56), Expect = 3.7
Identities = 7/45 (15%), Positives = 17/45 (37%), Gaps = 10/45 (22%)
Query: 80 QGKTRAEQFYRGDNEGKKLEYSVNIKIKSMARRQCSEAEVRLEER 124
+ K E++ + +E ++E K K R + ++
Sbjct: 115 KAKKDLEEWNQRQSE--QVE-----KNKINNRI---ADKAFYQQP 149
>2gb3_A Aspartate aminotransferase; TM1698, structural genomics, PSI
structure initiative, joint center for structural
genomics; HET: LLP; 2.50A {Thermotoga maritima} SCOP:
c.67.1.1
Length = 409
Score = 25.6 bits (57), Expect = 4.8
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 2/47 (4%)
Query: 25 IFTQFAALEAADDGSGDVKYHLGTYIERLNRVTN--KNIRLAVVANP 69
+ Q ++ + + TY ER+ V + L P
Sbjct: 279 LLEQIGSVGLLNLDDSFFDFVRETYRERVETVLKKLEEHGLKRFTKP 325
>3nra_A Aspartate aminotransferase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: LLP; 2.15A {Rhodobacter sphaeroides}
Length = 407
Score = 25.6 bits (57), Expect = 5.5
Identities = 3/32 (9%), Positives = 12/32 (37%)
Query: 25 IFTQFAALEAADDGSGDVKYHLGTYIERLNRV 56
++Q D+ G ++ + + + +
Sbjct: 288 GYSQAVLRGWFDEAPGWMEDRIARHQAIRDEL 319
>1xi9_A Putative transaminase; alanine aminotransferase, southeast
collaboratory for structural genomics, secsg; HET: PLP;
2.33A {Pyrococcus furiosus} SCOP: c.67.1.1
Length = 406
Score = 24.8 bits (55), Expect = 8.8
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 26 FTQFAALEAADDGSGDVKYHLGTYIERLNRV 56
QFAA+ +K ++ ER + +
Sbjct: 286 PAQFAAIAGLTGPMDYLKEYMKKLKERRDYI 316
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 0.133 0.368
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,940,678
Number of extensions: 108881
Number of successful extensions: 166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 17
Length of query: 127
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 44
Effective length of database: 4,384,350
Effective search space: 192911400
Effective search space used: 192911400
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: 51 (23.3 bits)