RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11712
(123 letters)
>3mea_A SAGA-associated factor 29 homolog; structural genomics consortium,
SGC, nucleus, transcription, transcription regulation,
chromosomal protein, DNA-binding; HET: M3L; 1.26A {Homo
sapiens} PDB: 3meu_A* 3met_A* 3me9_A* 3mev_A* 3lx7_A
3mew_A
Length = 180
Score = 120 bits (302), Expect = 6e-36
Identities = 59/109 (54%), Positives = 73/109 (66%), Gaps = 1/109 (0%)
Query: 12 SSAHTLPLWVGKPGQKPAALVGAIPADPSHIANRGDMVAALVRNVEDNEDNWILAEVVNY 71
TLPLW+GKPG KP L GAIPA ++A GD VAA V D ++ WILAEVV+Y
Sbjct: 14 YFQGTLPLWIGKPGDKPPPLCGAIPASGDYVARPGDKVAARV-KAVDGDEQWILAEVVSY 72
Query: 72 NASTRTYEVIDIDDVQKGPHQLSRKQIIPLPTKRANPETEPEALFPIGS 120
+ +T YEV DID+ K H LSR+++IPLP +ANPET+PEALF
Sbjct: 73 SHATNKYEVDDIDEEGKERHTLSRRRVIPLPQWKANPETDPEALFQKEQ 121
>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 = 54.3 bits (130), Expect = 7e-10
Identities = 32/139 (23%), Positives = 51/139 (36%), Gaps = 36/139 (25%)
Query: 4 SAYMKMLKSSAHTLPL-----WVGKPGQKPAALVGAIPADPSHIANRGDMVA-------- 50
+A L S A + + V G + A+P D +N G M+A
Sbjct: 1768 AA----LASLADVMSIESLVEVVFYRGM---TMQVAVPRDELGRSNYG-MIAINPGRVAA 1819
Query: 51 -----ALVRNVED--NEDNWILAEVVNYNASTRTY----EVIDIDDVQKGPHQLSRKQI- 98
AL VE W++ E+VNYN + Y ++ +D V + + ++I
Sbjct: 1820 SFSQEALQYVVERVGKRTGWLV-EIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKID 1878
Query: 99 -IPLPTKRANPETEPEALF 116
I L + E LF
Sbjct: 1879 IIELQKS-LSLEEVEGHLF 1896
>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 = 42.1 bits (98), Expect = 1e-05
Identities = 21/120 (17%), Positives = 40/120 (33%), Gaps = 37/120 (30%)
Query: 8 KMLKSSAHTLPLWVGKPGQKPAALVGAIPADPSHIANRGDMVAALVRNVEDNEDNWILAE 67
K L LP L +P ++ ++A +R+ DNW +
Sbjct: 309 KYLDCRPQDLP---------REVLTT----NPRRLS----IIAESIRDGLATWDNW---K 348
Query: 68 VVNYNASTRT----YEVIDIDDVQKGPHQLSRKQIIP----LPTK------RANPETEPE 113
VN + T V++ + +K +LS + P +PT +++
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLS---VFPPSAHIPTILLSLIWFDVIKSDVM 405
>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 = 31.5 bits (70), Expect = 0.038
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 9/35 (25%)
Query: 3 KSAYMKMLKSSAHTLPLWVGKPGQKPAALVGAIPA 37
K A +K L++S L L+ PA L AI A
Sbjct: 19 KQA-LKKLQAS---LKLYA--DDSAPA-L--AIKA 44
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 28.2 bits (64), Expect = 0.78
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 79 EVIDIDDVQKGPHQLSRKQIIPLPTKRANPETEPE 113
+V+++D +G +LS K+ A PE
Sbjct: 681 KVLEVDR--QGRIRLSIKEATEQSQPAAAPEAPAA 713
>1w7j_A Myosin VA; motor protein, unconventional myosin, myosin V,
chicken, molecular motor, ATPase, ELC, IQ motif, muscle
protein, ATP-binding; HET: ADP; 2A {Gallus gallus}
SCOP: b.34.3.1 c.37.1.9 PDB: 1w7i_A* 1oe9_A* 1w8j_A
Length = 795
Score = 27.6 bits (62), Expect = 1.00
Identities = 7/42 (16%), Positives = 17/42 (40%)
Query: 56 VEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQ 97
+ D E+ W AE++ + +++ + + L K
Sbjct: 15 IPDPEEVWKSAELLKDYKPGDKVLQLRLEEGKDLEYCLDPKT 56
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 27.1 bits (61), Expect = 1.7
Identities = 6/34 (17%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 80 VIDIDDVQKGPHQLSRKQIIPLPTKRANPETEPE 113
++ DD +G +LS K + + + +
Sbjct: 692 LLGFDD--RGKTKLSMKVVDQETGEDLSKKEAAA 723
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 26.6 bits (59), Expect = 2.4
Identities = 7/42 (16%), Positives = 17/42 (40%)
Query: 56 VEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQ 97
+ D E+ W AE++ + +++ + + L K
Sbjct: 15 IPDPEEVWKSAELLKDYKPGDKVLQLRLEEGKDLEYCLDPKT 56
>3aa0_B F-actin-capping protein subunit beta isoforms 1 A; actin capping
protein, barbed END regulation, carmil family
conformational change; 1.70A {Gallus gallus} PDB:
3aa1_B* 3aa6_B 3aa7_B* 2kxp_B 3lk2_B
Length = 244
Score = 26.4 bits (58), Expect = 2.9
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 7/29 (24%)
Query: 34 AIPADPSHIANRGDMVAALVRNVEDNEDN 62
+ HIAN G + VED E+
Sbjct: 202 TVSDSSPHIANIGRL-------VEDMENK 223
>4akr_B F-actin-capping protein subunit beta; actin-binding protein; 2.20A
{Dictyostelium discoideum}
Length = 290
Score = 26.1 bits (57), Expect = 3.2
Identities = 8/29 (27%), Positives = 9/29 (31%), Gaps = 7/29 (24%)
Query: 34 AIPADPSHIANRGDMVAALVRNVEDNEDN 62
+H N G M VED E
Sbjct: 222 TFNEVDTHCVNIGKM-------VEDMESK 243
>3lk4_B F-actin-capping protein subunit beta isoforms 1 and 2; CAPZ, CD2AP,
actin filaments, uncapping, actin-filament regulators,
protein-protein comple, actin capping, actin- binding;
1.99A {Gallus gallus} PDB: 2kz7_B 3aaa_B 3aae_B 3lk3_B
1izn_B
Length = 277
Score = 26.0 bits (57), Expect = 3.4
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 7/29 (24%)
Query: 34 AIPADPSHIANRGDMVAALVRNVEDNEDN 62
+ HIAN G + VED E+
Sbjct: 202 TVSDSSPHIANIGRL-------VEDMENK 223
>2v26_A Myosin VI; calmodulin-binding, nucleotide-binding, membrane,
vanadate, transport, PRE- powerstroke, transition
state, protein transport; HET: ADP; 1.75A {Sus scrofa}
PDB: 2bki_A 2bkh_A 3l9i_A 2x51_A 2vb6_A* 2vas_A*
Length = 784
Score = 26.1 bits (58), Expect = 4.0
Identities = 4/27 (14%), Positives = 11/27 (40%)
Query: 56 VEDNEDNWILAEVVNYNASTRTYEVID 82
D + + +V+ + T E ++
Sbjct: 5 APHPTDGFQVGNIVDIGPDSLTIEPLN 31
>3m1a_A Putative dehydrogenase; short, PSI, MCSG, structural genomics,
midwest center for structural genomics, protein
structure initiative; 2.00A {Streptomyces avermitilis}
Length = 281
Score = 25.7 bits (57), Expect = 4.1
Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 3/48 (6%)
Query: 41 HIANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQK 88
GD V R E +D L A + +V D + +
Sbjct: 24 AAVAAGDTVIGTARRTEALDD---LVAAYPDRAEAISLDVTDGERIDV 68
>1lgt_A Biphenyl-2,3-DIOL 1,2-dioxygenase; extradiol dioxygenase,
2,3-dihydroxybiphenyl, non-heme iron, anaerobic, PCB
biodegradation; HET: BP3; 1.70A {Burkholderia
xenovorans} SCOP: d.32.1.3 d.32.1.3 PDB: 1kmy_A* 1knd_A
1knf_A 1han_A* 1lkd_A*
Length = 297
Score = 25.6 bits (56), Expect = 4.8
Identities = 6/22 (27%), Positives = 10/22 (45%)
Query: 78 YEVIDIDDVQKGPHQLSRKQII 99
EV +DDV ++ +I
Sbjct: 212 LEVASLDDVGFAFDRVDADGLI 233
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV;
2.25A {Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 25.8 bits (57), Expect = 4.9
Identities = 3/27 (11%), Positives = 8/27 (29%)
Query: 56 VEDNEDNWILAEVVNYNASTRTYEVID 82
V + A + + E+ +
Sbjct: 13 VPSELHGFEAAALRDEGEEEAEVELAE 39
>1vs1_A 3-deoxy-7-phosphoheptulonate synthase; (beta/alpha)8 barrel,
transferase; HET: PEP; 2.30A {Aeropyrum pernix}
Length = 276
Score = 25.3 bits (56), Expect = 5.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 38 DPSHIANRGDMVAALVR 54
DPSH A R +V AL +
Sbjct: 213 DPSHPAGRRSLVPALAK 229
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 25.6 bits (56), Expect = 6.4
Identities = 4/27 (14%), Positives = 9/27 (33%)
Query: 56 VEDNEDNWILAEVVNYNASTRTYEVID 82
V + + A + T E+ +
Sbjct: 36 VPSEKHGFEAASIKEEKGDEVTVELQE 62
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA
binding protein; NMR {Bacillus subtilis}
Length = 130
Score = 24.7 bits (54), Expect = 6.7
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 80 VIDIDDVQKGPHQLSRKQIIPLPTKRANPETEPEA 114
V+ +D+ +KG LS + P K+ + +P+A
Sbjct: 62 VLAVDE-EKGKISLSIRATQAAPEKKESKPRKPKA 95
>3nvt_A 3-deoxy-D-arabino-heptulosonate 7-phosphate synth; bifunctional
3-deoxy-7-phosphoheptulonate synthase/chorismat listeria
monocytogenes EGD-E; 1.95A {Listeria monocytogenes} PDB:
3tfc_A*
Length = 385
Score = 25.1 bits (55), Expect = 6.7
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 38 DPSHIANRGDMVAALVR 54
D +H R D++ +
Sbjct: 317 DVTHSTGRKDLLLPCAK 333
>1zco_A 2-dehydro-3-deoxyphosphoheptonate aldolase; arabino-heptulosonate,
synthase, shikimate, DAHP, DAH7P, DAH DAH7PS, lyase;
HET: PEP; 2.25A {Pyrococcus furiosus}
Length = 262
Score = 24.9 bits (55), Expect = 8.3
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 38 DPSHIANRGDMVAALVR 54
DPSH A R +V L +
Sbjct: 198 DPSHPAGRRSLVIPLAK 214
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
0.314 0.131 0.386
Gapped
Lambda K H
0.267 0.0564 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,853,781
Number of extensions: 101599
Number of successful extensions: 195
Number of sequences better than 10.0: 1
Number of HSP's gapped: 194
Number of HSP's successfully gapped: 26
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
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 (23.8 bits)