RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5923
(88 letters)
>1g4m_A Beta-arrestin1; sensory transduction, alternative splicing,
signaling protein; 1.90A {Bos taurus} SCOP: b.1.18.11
b.1.18.11 PDB: 1g4r_A 3gd1_C 1jsy_A 1zsh_A* 2wtr_A
2wtr_B 3gc3_A 3p2d_A
Length = 393
Score = 94.4 bits (234), Expect = 7e-25
Identities = 26/67 (38%), Positives = 51/67 (76%)
Query: 14 LDGVVVFEEDYIQDRKVFGQVVCSFRYGREEDEILGLNFQKELYLASEQIYPRSEKQHTS 73
+DGVV+ + +Y+++R+V+ + C+FRYGRE+ ++LGL F+K+L++A+ Q +P + +
Sbjct: 37 VDGVVLVDPEYLKERRVYVTLTCAFRYGREDLDVLGLTFRKDLFVANVQSFPPAPEDKKP 96
Query: 74 LTKMQTQ 80
LT++Q +
Sbjct: 97 LTRLQER 103
>3ugu_A S-arrestin; arrestin fold, signal termination, GPCR, outer segment,
SIGN protein; 1.85A {Bos taurus} PDB: 3ugx_A 1cf1_A
1ayr_A
Length = 380
Score = 93.3 bits (231), Expect = 2e-24
Identities = 20/68 (29%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Query: 13 ELDGVVVFEEDYIQDRKVFGQVVCSFRYGREEDEILGLNFQKELYLASEQIYPRSEKQHT 72
+DGVV+ + + ++ ++V+ + C+FRYG+E+ +++GL+F+++LY + Q++P
Sbjct: 50 PVDGVVLVDPELVKGKRVYVSLTCAFRYGQEDIDVMGLSFRRDLYFSQVQVFPPVGAS-G 108
Query: 73 SLTKMQTQ 80
+ T++Q
Sbjct: 109 ATTRLQES 116
>1suj_A CONE arrestin; sensory transduction, signaling protein; 2.38A
{Ambystoma tigrinum}
Length = 392
Score = 87.1 bits (215), Expect = 4e-22
Identities = 28/67 (41%), Positives = 50/67 (74%), Gaps = 2/67 (2%)
Query: 14 LDGVVVFEEDYIQDRKVFGQVVCSFRYGREEDEILGLNFQKELYLASEQIYPRSEKQHTS 73
+DGVV+ + +Y++DRKVF + C+FRYGR++ +++G++F+K+LY + Q+YP K+
Sbjct: 36 VDGVVLIDPEYLKDRKVFVTLTCAFRYGRDDLDLIGMSFRKDLYSLATQVYPPETKE--P 93
Query: 74 LTKMQTQ 80
LT +Q +
Sbjct: 94 LTPLQEK 100
>2pg0_A Acyl-COA dehydrogenase; GK1316, geobacillus kaustophilus HTA
structural genomics, PSI, protein structure initiative;
HET: FAD; 1.80A {Geobacillus kaustophilus}
Length = 385
Score = 27.1 bits (61), Expect = 0.77
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 23 DYIQDRKVFGQVVCSF 38
Y++ R FG+ V F
Sbjct: 269 QYVKQRTAFGKRVSEF 284
>3r7k_A Probable acyl COA dehydrogenase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
oxidoreductase; HET: FDA; 2.50A {Mycobacterium
abscessus}
Length = 403
Score = 26.0 bits (58), Expect = 1.5
Identities = 3/16 (18%), Positives = 9/16 (56%)
Query: 23 DYIQDRKVFGQVVCSF 38
+ ++R+ FG+ +
Sbjct: 287 SWARERETFGRPLTGR 302
>3p4t_A Putative acyl-COA dehydrogenase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
oxidoreductase; HET: FAO; 1.70A {Mycobacterium
smegmatis} PDB: 3oib_A*
Length = 403
Score = 26.0 bits (58), Expect = 1.6
Identities = 4/16 (25%), Positives = 10/16 (62%)
Query: 23 DYIQDRKVFGQVVCSF 38
++ ++R FG+ + S
Sbjct: 284 EWCRNRDTFGRPLISR 299
>2ozb_B U4/U6 small nuclear ribonucleoprotein PRP31; RNA-protein complex,
ribonucleoprotein particle (RNP), PRE-M splicing, U4/U6
DI-snRNA, U4/U6 DI-snRNP; 2.60A {Homo sapiens} SCOP:
a.183.1.1 PDB: 3siu_B 3siv_B
Length = 260
Score = 25.1 bits (54), Expect = 3.3
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 1/57 (1%)
Query: 6 YGETFPMELDGVVVFEEDYIQDRKVFGQVVCSFRYGREEDEILGLNFQKELYLASEQ 62
Y + FP EL+ +V DYI+ K G + + +IL + + +
Sbjct: 45 YSKRFP-ELESLVPNALDYIRTVKELGNSLDKCKNNENLQQILTNATIMVVSVTAST 100
>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 = 25.0 bits (54), Expect = 3.7
Identities = 20/111 (18%), Positives = 39/111 (35%), Gaps = 33/111 (29%)
Query: 1 MDRGTYGETFPMELDGVV--VFEE--DYIQDRKVFG--QVV------CSFRYGREEDEIL 48
M Y +T V+ ++ +D F +V + +G E+ + +
Sbjct: 1631 MGMDLY-KTSK-----AAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 49 GLNFQKELY-------LASEQIYPRSEKQHTSLTK-------MQTQNSQHP 85
N+ ++ L +E+I+ + TS T TQ +Q P
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ-P 1734
Score = 24.6 bits (53), Expect = 6.1
Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 9/58 (15%)
Query: 20 FEEDYIQDRKVFGQVVCSFRYGREEDEILGLNFQKEL---YLASEQIYPRS-EKQHTS 73
FE Y++ + + ++ L KEL Y+ + + R +K+ S
Sbjct: 91 FENCYLEGNDIHA-LAAKL----LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS 143
Score = 24.2 bits (52), Expect = 8.5
Identities = 7/27 (25%), Positives = 10/27 (37%), Gaps = 6/27 (22%)
Query: 32 GQVVCSFRYGREED-EILG--LNFQKE 55
Q V + G + + LNF K
Sbjct: 1851 QQYVAA---GDLRALDTVTNVLNFIKL 1874
>1evh_A WH1 domain, protein (MENA EVH1 domain); molecular recognition,
actin dynamics, contractIle protein; 1.80A {Mus
musculus} SCOP: b.55.1.4 PDB: 2xqn_M 2iyb_A
Length = 112
Score = 24.2 bits (52), Expect = 5.2
Identities = 9/42 (21%), Positives = 16/42 (38%)
Query: 14 LDGVVVFEEDYIQDRKVFGQVVCSFRYGREEDEILGLNFQKE 55
+ V I + Q +F R+ ++ GLNF +
Sbjct: 53 IQDHQVVINCAIPKGLKYNQATQTFHQWRDARQVYGLNFGSK 94
>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 = 24.8 bits (53), Expect = 5.7
Identities = 9/55 (16%), Positives = 19/55 (34%), Gaps = 21/55 (38%)
Query: 8 ETFPMEL---DGVVVFEEDYIQD----------RKVFGQVVCSFRYGREEDEILG 49
ET + D + VFE+ ++ + + + + E D I+
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSK--------EEIDHIIM 56
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 0.136 0.401
Gapped
Lambda K H
0.267 0.0513 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,327,724
Number of extensions: 66446
Number of successful extensions: 136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 136
Number of HSP's successfully gapped: 12
Length of query: 88
Length of database: 6,701,793
Length adjustment: 56
Effective length of query: 32
Effective length of database: 5,138,217
Effective search space: 164422944
Effective search space used: 164422944
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 (23.9 bits)