RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6686
(131 letters)
>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 = 31.1 bits (69), Expect = 0.054
Identities = 11/53 (20%), Positives = 16/53 (30%), Gaps = 23/53 (43%)
Query: 5 EKAHKAKFEELIRKYRVRPTALLPFWNVAGFVLGAGSALLGPKGAMACTVAVE 57
EK K + ++ Y A SA P A+A +E
Sbjct: 18 EKQALKKLQASLKLY-----A--D-----------DSA---P--ALAIKATME 47
>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 = 28.7 bits (63), Expect = 0.61
Identities = 15/62 (24%), Positives = 19/62 (30%), Gaps = 7/62 (11%)
Query: 55 AVESVIVDHYNEQLRALMSDPAANRELMDV-IHKFRDEEQEHHDTGLEHGAEQAPFYKLM 113
A+ IVDHYN D D + HH +EH F +
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYL--DQYFYSHIG----HHLKNIEHPERMTLFRMVF 497
Query: 114 TD 115
D
Sbjct: 498 LD 499
>3c5e_A Acyl-coenzyme A synthetase ACSM2A, mitochondrial; middle-chain
acyl-COA synthetase, xenobiotic/medium-chain FA COA
ligase; HET: ATP; 1.60A {Homo sapiens} PDB: 2vze_A
3b7w_A* 3day_A* 3eq6_A* 3eyn_A* 3gpc_A* 2wd9_A*
Length = 570
Score = 26.8 bits (60), Expect = 2.3
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 29 FWNVA--GFVLGAGSALLGPKGAMACTVAVE 57
W ++ G++L +L+ P ACT
Sbjct: 250 MWTISDTGWILNILCSLMEPWALGACTFVHL 280
>1g6h_A High-affinity branched-chain amino acid transport ATP-binding
protein; beta-core domain; HET: ADP; 1.60A
{Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB:
1gaj_A 1g9x_A*
Length = 257
Score = 26.7 bits (60), Expect = 2.5
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 19/47 (40%)
Query: 69 RALMSD--------PAA--NR----ELMDVIHKFRDEEQ-----EHH 96
RALM++ P A ++ + + + + + EH
Sbjct: 166 RALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHR 212
>2y3s_A TAML; oxidoreductase; HET: FAD TIR; 1.67A {Streptomyces SP} PDB:
2y3r_A* 2y08_A* 2y4g_A*
Length = 530
Score = 26.4 bits (58), Expect = 3.3
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 4/54 (7%)
Query: 32 VAGFVLGAGSALLGPKGAMAC--TVAVESVIVDHYNEQL-RALMSDPAA-NREL 81
G +LG G L AVE V+VD + +P+ N +L
Sbjct: 157 AGGHILGGGYGPLSRMHGSIVDYLHAVEVVVVDASGDARTVIATREPSDPNHDL 210
>2qyu_A Secreted effector protein; ubiquitin E3 ligase, ligase; HET: B3P;
2.10A {Salmonella typhimurium} PDB: 3sy2_A 2qza_A
Length = 627
Score = 26.2 bits (57), Expect = 3.9
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 41 SALLGPKGAMACTVAVESVIVDHYNEQLRALMS 73
G GA CT V + H + +++S
Sbjct: 587 DRFHGLHGAFTCTSVVADSMQRHARKYFPSVLS 619
>1zpy_A Hypothetical protein NE0167; structural genomics, MCSG, PSI,
protein structure initiative; 2.20A {Nitrosomonas
europaea atcc 19718} SCOP: a.25.1.5 PDB: 3k6c_A
Length = 95
Score = 25.0 bits (54), Expect = 5.7
Identities = 14/39 (35%), Positives = 15/39 (38%), Gaps = 5/39 (12%)
Query: 57 ESVIVDHYNEQLRALMSDPAANRELMDVIHKFRDEEQEH 95
E VD YN Q D L RDEE+EH
Sbjct: 30 ELEAVDLYN-QRVNACKDKELKAILAHN----RDEEKEH 63
>2e0z_A Virus-like particle; bacteriophage, HK97; 3.60A {Pyrococcus
furiosus}
Length = 345
Score = 25.4 bits (55), Expect = 6.5
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 5/42 (11%)
Query: 54 VAVESVIVDHYNEQLRALMSDPAANRELMDVIHKFRDEEQEH 95
+ E ++ Y EQ+ D + L+DV EE+ H
Sbjct: 28 IIAELDAINLY-EQMARYSEDENVRKILLDV----AREEKAH 64
>2exr_A Cytokinin dehydrogenase 7; AT5G21482.1, cytokinin
oxidase/dehydrogenase, CKX, structura genomics, protein
structure initiative; HET: MSE FAD; 1.70A {Arabidopsis
thaliana} PDB: 2q4w_A*
Length = 524
Score = 25.4 bits (55), Expect = 6.6
Identities = 11/74 (14%), Positives = 24/74 (32%), Gaps = 5/74 (6%)
Query: 12 FEELIRKYRVRPTALLPFWN--VAGFVLGAGSALLGPKGAMACTVAVESVIVDHYNEQLR 69
+ + +Y + P + + V G + AG + + + E +V + +
Sbjct: 146 LKRCVSEYGLAPRSWTDYLGLTVGGTLSNAGVSGQAFRYGPQTSNVTELDVVTGNGDVVT 205
Query: 70 ALMSDPAANRELMD 83
N EL
Sbjct: 206 C---SEIENSELFF 216
>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell
membrane, cobalt transport, hydrolase, ION transport;
2.30A {Clostridium perfringens atcc 13124}
Length = 275
Score = 25.2 bits (56), Expect = 7.2
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 72 MSDPAANRELMDVIHKFRDEE 92
DP E+M ++ + + E
Sbjct: 173 GLDPMGVSEIMKLLVEMQKEL 193
>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt
transport, TM02 hydrolase, inner membrane, membrane,
nucleotide-binding; 2.30A {Thermotoga maritima}
Length = 266
Score = 24.9 bits (55), Expect = 9.1
Identities = 3/20 (15%), Positives = 9/20 (45%)
Query: 72 MSDPAANRELMDVIHKFRDE 91
D +L+ ++ K++
Sbjct: 168 GLDREGKTDLLRIVEKWKTL 187
>1vjx_A Putative ferritin-like DIIRON-carboxylate protein; structural
genomics, joint center for structural genomics, J
protein structure initiative; 2.30A {Thermotoga
maritima} SCOP: a.25.1.1
Length = 157
Score = 24.6 bits (53), Expect = 9.4
Identities = 19/100 (19%), Positives = 38/100 (38%), Gaps = 10/100 (10%)
Query: 1 MWDQEKAHKAKFEELIRKYRVRPTALLPFWNVAGFVLGAGSAL-----LGPKGAMACTVA 55
+ DQE+ H F ++ + V S + L K + ++
Sbjct: 51 LADQERIHAEIFRKMSDQENWDEVDSYLAGYAFYEVFPDTSEILRRKDLTLKEVLDIAIS 110
Query: 56 VESVIVDHYNEQLRALMSDPAANRELMDVIHKFRDEEQEH 95
VE + Y +L+ + + A + + +I D+E+EH
Sbjct: 111 VEKDSIILY-YELKDGLVNSDAQKTVKKII----DQEKEH 145
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
0.321 0.135 0.407
Gapped
Lambda K H
0.267 0.0579 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,121,127
Number of extensions: 122009
Number of successful extensions: 360
Number of sequences better than 10.0: 1
Number of HSP's gapped: 358
Number of HSP's successfully gapped: 28
Length of query: 131
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 48
Effective length of database: 4,384,350
Effective search space: 210448800
Effective search space used: 210448800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.1 bits)