RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9254
(167 letters)
>2jyn_A UPF0368 protein YPL225W; novel fold, YST0336, YT51, ontario centre
for structural proteomics, OCSP, PSI, protein structure
initiative; NMR {Saccharomyces cerevisiae}
Length = 146
Score = 199 bits (506), Expect = 1e-66
Identities = 66/139 (47%), Positives = 82/139 (58%), Gaps = 4/139 (2%)
Query: 24 AEEYVNDPSVEAMWVSKAVDHAEVYFNILCSVDPKILRLTAHDDEILKSFRADFPDLK-- 81
AE N +E + AV+ AE Y+ +L SV LRLT DDEI ++F FP+ K
Sbjct: 6 AETADNLEDIEKQFAVVAVEQAETYWKLLTSVPGSKLRLTKFDDEIYENFMERFPEYKDV 65
Query: 82 --VDVLNEEEMKSPEGKAKWREFCEKFKDMIEDYNFGTLLRLDAKGEYSEANTMLSTRIQ 139
V EEE+K+ E K +WR+F F+ IEDYNFGTLLR DA EY + T R+Q
Sbjct: 66 ERVKKFTEEELKTKEAKERWRKFFTIFEKKIEDYNFGTLLRTDASAEYGQFTTCFVVRLQ 125
Query: 140 FYAIELARNKEGLNDSIRD 158
FYA E+ARNK GLND I
Sbjct: 126 FYAFEIARNKHGLNDWIVG 144
>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 = 42.7 bits (100), Expect = 2e-05
Identities = 32/169 (18%), Positives = 58/169 (34%), Gaps = 61/169 (36%)
Query: 25 EEYVNDPSVEAMWVSKAVDH-AEVY-FNILCSV--DPKILRLTAH-DDEILKSFRADFPD 79
+ Y + + +W ++A +H + Y F+IL V +P LT H E K R ++
Sbjct: 1634 DLYKTSKAAQDVW-NRADNHFKDTYGFSILDIVINNPV--NLTIHFGGEKGKRIRENYSA 1690
Query: 80 LKVDVLNEEEMKSPEGKAKWREFCEKFKDMIEDYNF----GTL----------------- 118
+ + +GK K + ++ + Y F G L
Sbjct: 1691 MIFE-------TIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA 1743
Query: 119 ---LR------LDAK------GEYS----EANTM-LSTRIQFYAIELAR 147
L+ DA GEY+ A+ M + + +E+
Sbjct: 1744 FEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIES-----LVEVVF 1787
Score = 29.2 bits (65), Expect = 0.67
Identities = 25/136 (18%), Positives = 43/136 (31%), Gaps = 61/136 (44%)
Query: 11 GE---LVAGASVLS----------R--------PAEEY---------VNDPSV------E 34
GE L + A V+S R P +E +N V E
Sbjct: 1765 GEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 35 AMWVSKAVDHAE---------VYFN-----ILCSVDPKIL-RLTAHDDEILKSFRA---D 76
A + V+ V +N + + D + L +T +L + D
Sbjct: 1825 A--LQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVT----NVLNFIKLQKID 1878
Query: 77 FPDLKVDVLNEEEMKS 92
+L+ L+ EE++
Sbjct: 1879 IIELQKS-LSLEEVEG 1893
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 33.6 bits (76), Expect = 0.017
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 21/76 (27%)
Query: 81 KVDVLNEEEMKSPEGKAKWREFCEKFKDMIEDYNFGTLLRLDAKGEYSEANTMLSTRI-- 138
+ D L +E PE KWR E+ + ++ LDA + E +
Sbjct: 76 QADRLTQE----PESIRKWR---EEQRKRLQ--------ELDAASKVMEQEWREKAKKDL 120
Query: 139 -QFYAI---ELARNKE 150
++ ++ +NK
Sbjct: 121 EEWNQRQSEQVEKNKI 136
>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 = 34.1 bits (77), Expect = 0.021
Identities = 19/120 (15%), Positives = 42/120 (35%), Gaps = 31/120 (25%)
Query: 70 LKSFRADF-----PDLKVDVLNEEE----MKSPEGKAKWRE----FCEKFKDMIEDYNFG 116
+F +F D+ +L++EE + S + + K ++M++ +
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF-VE 84
Query: 117 TLLRLDAKGEYSEANTMLSTRIQFYAIELARNKEGLNDSI----RDN--FKP---SRTKK 167
+LR++ Y L + I+ + + + DN F SR +
Sbjct: 85 EVLRIN----YK----FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Score = 30.2 bits (67), Expect = 0.38
Identities = 20/154 (12%), Positives = 44/154 (28%), Gaps = 50/154 (32%)
Query: 53 CSVDPKILRLTAHDDEILKSFRA--------DFPDLK------VDVLNEEEMKS------ 92
+ +P+ L + A E ++ A + L ++VL E +
Sbjct: 323 LTTNPRRLSIIA---ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 93 --PEGKAK---------WRE-----------FCEKFKDMIEDYNFGTL----LRLDAKGE 126
P A W + K+ + + T+ + L+ K +
Sbjct: 380 VFPPS-AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438
Query: 127 YSEANTMLSTRIQFYAIELARNKEGLNDSIRDNF 160
+ + + Y I + + L D +
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472
>2nwu_A UPF0201 protein SSO1042; conserved hypothetical protein, sulfolobus
solfataricus P2, structural genomics, PSI-2; 2.40A
{Sulfolobus solfataricus} SCOP: d.77.1.2
Length = 155
Score = 28.0 bits (62), Expect = 0.96
Identities = 8/52 (15%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 61 RLTAHDDE--ILKSFRADFPDLKVDVLNEEEMKSPEGKAKWREFCEKFKDMI 110
+ +D +L + F K++ E + +A+ + KF ++
Sbjct: 11 EVRPSEDVNKVLSAISNFFDFEKMNTRKEGIIDILVLEARTLKSLLKFHRVL 62
>3d7a_A UPF0201 protein PH1010; DUF54 family, unknown function; 1.90A
{Pyrococcus horikoshii}
Length = 138
Score = 27.9 bits (62), Expect = 1.0
Identities = 7/52 (13%), Positives = 21/52 (40%), Gaps = 2/52 (3%)
Query: 61 RLTAHDDE--ILKSFRADFPDLKVDVLNEEEMKSPEGKAKWREFCEKFKDMI 110
+ +D + K+ P L+ + ++ E G+ K + ++ ++
Sbjct: 13 YVYPTEDIRKVKKAMLNLIPGLQFEAFDKGEYVILVGRTKDKRALQRLYELF 64
>1vqz_A Lipoate-protein ligase, putative; class II AARS and biotin
synthetases fold, SUFE/NIFU fold, S genomics; HET: MSE;
1.99A {Streptococcus pneumoniae} SCOP: d.224.1.3
d.104.1.3
Length = 341
Score = 27.4 bits (61), Expect = 2.2
Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 7/80 (8%)
Query: 37 WVSKAVDHAEVYFNILCSVDPKILRLTAHDDEILKSFRADFPDLKVDVLNEEEMKSPEGK 96
+ SK V + + PK + + D +L+ + ++P++ V +EEE+
Sbjct: 181 FESKGVKSVRARVTNIINELPKKITVEKFRDLLLEYMKKEYPEMTEYVFSEEELAEINRI 240
Query: 97 AKWREFCEKFKDMIEDYNFG 116
KF D+N+G
Sbjct: 241 KD-----TKFGT--WDWNYG 253
>1vk4_A PFKB carbohydrate kinase TM0415; structural genomics, JCSG, protein
structure initiative, joint center for structural G
transferase; 1.91A {Thermotoga maritima} SCOP: c.72.1.1
Length = 298
Score = 27.0 bits (60), Expect = 2.7
Identities = 8/60 (13%), Positives = 20/60 (33%), Gaps = 4/60 (6%)
Query: 54 SVDPKILRLTAHDDEILKSFRADFPDL--KVDVL--NEEEMKSPEGKAKWREFCEKFKDM 109
S D + +++++ +D+ + E ++ G RE C +
Sbjct: 149 SADAQGFVRVPENEKLVYRDWEMKEKYLKYLDLFKVDSREAETLTGTNDLRESCRIIRSF 208
>2h9b_A HTH-type transcriptional regulator BENM; LTTR, transcriptional
activator, LYSR-type transcripti regulator; 1.80A
{Acinetobacter SP} PDB: 2h99_A 3k1m_A 3k1n_A 3k1p_A
2f7a_A* 2f6p_A 2f78_A 2f6g_A* 2f8d_A 2f97_A*
Length = 312
Score = 26.4 bits (59), Expect = 4.4
Identities = 6/27 (22%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 68 EILKSFRADFPDLKVDVLNEEEMKSPE 94
I+ +R P+L++++ EM +
Sbjct: 107 RIIHLYRQAHPNLRIEL---YEMGTKA 130
>2h98_A HTH-type transcriptional regulator CATM; BENM, LTTR; 1.80A
{Acinetobacter SP} PDB: 2h9q_A* 2f7b_A 2f7c_A* 3glb_A*
3m1e_A
Length = 313
Score = 26.4 bits (59), Expect = 4.6
Identities = 6/27 (22%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 68 EILKSFRADFPDLKVDVLNEEEMKSPE 94
EI+ FR P++ +++ E + +
Sbjct: 107 EIIYLFRQQNPEIHIEL---IECGTKD 130
>7a3h_A Endoglucanase; hydrolase, cellulose degradation, glycoside H family
5, michaelis complex, SKEW-BOAT, distortion; 0.95A
{Bacillus agaradhaerens} SCOP: c.1.8.3 PDB: 1h2j_A*
1hf6_A* 1ocq_A* 1w3k_A* 1h11_A* 4a3h_A* 5a3h_A* 6a3h_A*
1w3l_A 8a3h_A* 2v38_A* 1qhz_A 1qi0_A* 1e5j_A* 1qi2_A*
1h5v_A* 1a3h_A 2a3h_A* 3a3h_A* 1lf1_A
Length = 303
Score = 26.3 bits (58), Expect = 5.0
Identities = 6/45 (13%), Positives = 20/45 (44%)
Query: 75 ADFPDLKVDVLNEEEMKSPEGKAKWREFCEKFKDMIEDYNFGTLL 119
D+P++ ++ NE + + + E+ +I + + ++
Sbjct: 127 GDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNII 171
>3onm_A Transcriptional regulator LRHA; LYSR, ROVM, transcription factor,
virulence factor; 2.40A {Yersinia pseudotuberculosis}
Length = 238
Score = 26.1 bits (58), Expect = 5.4
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 7/32 (21%)
Query: 60 LRLTAHDD-------EILKSFRADFPDLKVDV 84
L + A DD +L +P L +DV
Sbjct: 29 LIIGASDDTADTLLPFLLNRVATLYPRLAIDV 60
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 26.4 bits (58), Expect = 6.4
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 16/63 (25%)
Query: 29 NDP---SVEAMWVSKAVDHAEVYFNILCSVDPKILRLTAHDDEILKSFRADF-------P 78
N+ +E M V + E+ FN+L + P+++ L + AD P
Sbjct: 682 NNIIAEGIEKMGV-RTFSQKEMAFNLLGLLTPEVVELCQ--KSPVM---ADLNGGLQFVP 735
Query: 79 DLK 81
+LK
Sbjct: 736 ELK 738
>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 = 25.8 bits (56), Expect = 7.4
Identities = 6/20 (30%), Positives = 10/20 (50%), Gaps = 5/20 (25%)
Query: 84 VLNEEEM-KSPEGKAKWREF 102
VL+++ + E WR F
Sbjct: 51 VLSDKLVDTRSE----WRTF 66
>1ixc_A CBNR, LYSR-type regulatory protein; long alpha helix connecting DNA
binding and regulatory domai binding protein; 2.20A
{Cupriavidus necator} SCOP: a.4.5.37 c.94.1.1 PDB:
1iz1_A
Length = 294
Score = 26.0 bits (58), Expect = 7.6
Identities = 6/27 (22%), Positives = 10/27 (37%), Gaps = 3/27 (11%)
Query: 68 EILKSFRADFPDLKVDVLNEEEMKSPE 94
+L++F P V + M E
Sbjct: 108 LLLRAFLTSTPTATVSL---THMTKDE 131
>2o55_A Putative glycerophosphodiester phosphodiesterase; beta barrel,
structural genomics, protein structure initiati 2; 2.81A
{Galdieria sulphuraria}
Length = 258
Score = 25.7 bits (57), Expect = 8.0
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 58 KILRLTAHDDEILKSFRADFPDLKVDVLNEEEMKSPEGKAKWREFCEKFKDMIEDYNF 115
I L +E+ + +LK+++ E+K E K K ++ ++E Y+
Sbjct: 91 TIPSL----EELFVAIEEQKFNLKLNL----ELKGEEWKRKESGDHQRLLLLVEKYHM 140
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
0.316 0.132 0.378
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,592,944
Number of extensions: 152570
Number of successful extensions: 410
Number of sequences better than 10.0: 1
Number of HSP's gapped: 406
Number of HSP's successfully gapped: 38
Length of query: 167
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 80
Effective length of database: 4,272,666
Effective search space: 341813280
Effective search space used: 341813280
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 (21.6 bits)
S2: 54 (24.8 bits)