RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy960
(83 letters)
>1v54_D Cytochrome C oxidase subunit IV isoform 1; oxidoreductase; HET: FME
TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
SCOP: f.23.1.1 PDB: 1oco_D* 1occ_D* 1ocz_D* 1ocr_D*
1v55_D* 2dyr_D* 2dys_D* 2eij_D* 2eik_D* 2eil_D* 2eim_D*
2ein_D* 2occ_D* 2ybb_O* 2zxw_D* 3abk_D* 3abl_D* 3abm_D*
3ag1_D* 3ag2_D* ...
Length = 147
Score = 69.9 bits (171), Expect = 3e-17
Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 8 IFPEKAETLSEEHRQEMLQKMIDLRWNPITGTASKWDYEKNDWKK 52
++ T EE + ++M+D++ PI G ++KWDY+KN+WKK
Sbjct: 103 VYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 147
>2y69_D Cytochrome C oxidase subunit 4 isoform 1; electron transport,
complex IV, proton pumps, membrane prote; HET: TPO HEA
CHD PEK PGV DMU; 1.95A {Bos taurus}
Length = 169
Score = 70.4 bits (172), Expect = 4e-17
Identities = 17/45 (37%), Positives = 29/45 (64%)
Query: 8 IFPEKAETLSEEHRQEMLQKMIDLRWNPITGTASKWDYEKNDWKK 52
++ T EE + ++M+D++ PI G ++KWDY+KN+WKK
Sbjct: 125 VYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 169
>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 = 26.9 bits (59), Expect = 0.73
Identities = 19/82 (23%), Positives = 27/82 (32%), Gaps = 30/82 (36%)
Query: 2 EEKVKKIFPEKAETLSE---EHRQEML------QKMIDLRWNP-ITGTASKWDYEKNDWK 51
+ K +KIF E E + + +L Q P +T K +E D K
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ--------PALT-LMEKAAFE--DLK 1748
Query: 52 -KGDSINSHVITKETNIHARGH 72
KG + A GH
Sbjct: 1749 SKG-------LIPADATFA-GH 1762
>3h05_A Uncharacterized protein VPA0413; nucleotidylyl, transferase,
MCSG, midwest center for structu genomics, PSI; 1.65A
{Vibrio parahaemolyticus}
Length = 177
Score = 26.4 bits (59), Expect = 0.85
Identities = 3/22 (13%), Positives = 6/22 (27%)
Query: 8 IFPEKAETLSEEHRQEMLQKMI 29
L R +++ I
Sbjct: 38 AHAWGKNMLDYPIRCKLVDAFI 59
>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 = 25.3 bits (54), Expect = 2.2
Identities = 3/17 (17%), Positives = 8/17 (47%)
Query: 1 MEEKVKKIFPEKAETLS 17
++ +K + A L+
Sbjct: 25 LQASLKLYADDSAPALA 41
>2c42_A Pyruvate-ferredoxin oxidoreductase; 4Fe-4S, iron, iron-sulfur,
iron-sulfur cluster, pyruvate catabolism, TPP-dependent
enzyme; HET: TPP; 1.78A {Desulfovibrio africanus} SCOP:
c.36.1.8 c.36.1.12 c.48.1.3 c.64.1.1 d.58.1.5 PDB:
1b0p_A* 1kek_A* 2c3o_A* 2c3p_A* 2c3u_A* 2c3y_A* 2c3m_A*
2pda_A* 2uza_A*
Length = 1231
Score = 25.6 bits (56), Expect = 2.2
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 4 KVKKIFPEKAETLSEE------HRQEMLQKM 28
+ + FPE A+ L + R + L+ M
Sbjct: 1135 VLDRSFPEDAKRLRAQVAHELDVRFKELEHM 1165
>3eg5_B Protein diaphanous homolog 1; protein-protein complex, RHO
proteins, formins, armadillo repeat, G-protein, GTPase,
alternative splicing; HET: GNP; 2.70A {Mus musculus}
PDB: 1z2c_B*
Length = 383
Score = 25.6 bits (55), Expect = 2.2
Identities = 9/37 (24%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 2 EEKVKKIFPEKAET--LSEEHRQEMLQKMIDLRWNPI 36
+E+V +F + L+EE +Q + +K I ++ +
Sbjct: 12 DEQVLVLFEQMLVDMNLNEEKQQPLREKDIVIKREMV 48
>3uqy_S Hydrogenase-1 small chain; membrane-bound hydrogenase,
oxidoreductase; HET: LMT; 1.47A {Escherichia coli} PDB:
3usc_S* 3use_S*
Length = 335
Score = 24.3 bits (52), Expect = 5.8
Identities = 4/26 (15%), Positives = 12/26 (46%)
Query: 23 EMLQKMIDLRWNPITGTASKWDYEKN 48
+++ +I L ++ A+ E+
Sbjct: 34 DVILSLISLDYDDTLMAAAGTQAEEV 59
>3s98_A Interferon alpha/beta receptor 1; human, type I interferons,
receptor chain, ifnar1, fibronect III, type I interferon
receptor chain; HET: NAG; 1.90A {Homo sapiens}
Length = 306
Score = 24.1 bits (51), Expect = 7.2
Identities = 9/59 (15%), Positives = 16/59 (27%), Gaps = 7/59 (11%)
Query: 29 IDLRWNPITGTASKWD-------YEKNDWKKGDSINSHVITKETNIHARGHKIRTRHEL 80
I + +P T + W Y WK + + + T + L
Sbjct: 116 IVIHISPGTKDSVMWALDGLSFTYSLVIWKNSSGVEERIENIYSRHKIYKLSPETTYCL 174
>1z84_A Galactose-1-phosphate uridyl transferase-like protein; GALT,
zinc, AMP, structural genomics, protein structure
initiative, CESG; HET: AMP; 1.83A {Arabidopsis
thaliana} SCOP: d.13.1.2 d.13.1.2 PDB: 1zwj_A 2q4h_A*
2q4l_A 2h39_A*
Length = 351
Score = 24.1 bits (51), Expect = 7.7
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 10 PEKAETLSEEHRQEMLQKMIDLRWNPITGT 39
P A + + +LR +P+T
Sbjct: 4 PSHASDRGGGDGDSVENQSPELRKDPVTNR 33
>2bba_A Ephrin type-B receptor 4; EPHB4, tumorigenesis, angiogenesis,
peptide mimetics, signal protein, structural genomics,
PSI-2; 1.65A {Homo sapiens} SCOP: b.18.1.4 PDB: 2hle_A
Length = 185
Score = 23.9 bits (51), Expect = 7.9
Identities = 8/49 (16%), Positives = 19/49 (38%)
Query: 30 DLRWNPITGTASKWDYEKNDWKKGDSINSHVITKETNIHARGHKIRTRH 78
DL+W +W+ ++ S+ ++ + + H +RT
Sbjct: 18 DLKWVTFPQVDGQWEELSGLDEEQHSVRTYEVCDVQRAPGQAHWLRTGW 66
>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A
1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A
Length = 77
Score = 23.0 bits (50), Expect = 9.6
Identities = 5/24 (20%), Positives = 13/24 (54%)
Query: 1 MEEKVKKIFPEKAETLSEEHRQEM 24
K+ + +KA L E++ +++
Sbjct: 48 TAADDKQPYEKKAAKLKEKYEKDI 71
>1nup_A FKSG76; NAD biosynthesis, mitochondria, pyridine
adenylyltransferase catalysis, transferase; HET: NMN;
1.90A {Homo sapiens} SCOP: c.26.1.3 PDB: 1nuq_A* 1nur_A
1nus_A* 1nut_A* 1nuu_A*
Length = 252
Score = 23.7 bits (51), Expect = 9.9
Identities = 4/18 (22%), Positives = 7/18 (38%)
Query: 9 FPEKAETLSEEHRQEMLQ 26
K + + HR M +
Sbjct: 52 TYGKKDLAASHHRVAMAR 69
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 0.127 0.385
Gapped
Lambda K H
0.267 0.0696 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,268,726
Number of extensions: 60138
Number of successful extensions: 170
Number of sequences better than 10.0: 1
Number of HSP's gapped: 170
Number of HSP's successfully gapped: 47
Length of query: 83
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 32
Effective length of database: 5,277,822
Effective search space: 168890304
Effective search space used: 168890304
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 (23.5 bits)