RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8908
(137 letters)
>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 = 31.4 bits (70), Expect = 0.078
Identities = 21/114 (18%), Positives = 38/114 (33%), Gaps = 31/114 (27%)
Query: 39 NMFKKTADYLIGELSSTQADYEVLE-KMNNATIT---------------KYSDMKQITVN 82
+F+ +L D+ LE K+ + + Y I N
Sbjct: 491 TLFRMV--FL---------DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK--PYICDN 537
Query: 83 ISFSSARVPAYKQLIPQLEQIDQIYDSVLKLEQAAYKLDHYAKRLEAKFKQLEK 136
V A +P++E+ + I L + A + A EA KQ+++
Sbjct: 538 DPKYERLVNAILDFLPKIEE-NLICSKYTDLLRIALMAEDEAIFEEA-HKQVQR 589
Score = 27.1 bits (59), Expect = 2.2
Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 37/117 (31%)
Query: 41 FKKTADYLIGELSSTQAD---------------YEVLEKMNNATITKYSDMKQITVNISF 85
K D LS + D + L + K+ + + + +N F
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE-EVLRINYKF 93
Query: 86 SSARVPAYKQLIPQL------EQIDQIYDS--------------VLKLEQAAYKLDH 122
+ + +Q P + EQ D++Y+ LKL QA +L
Sbjct: 94 LMSPI-KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP 149
>2otd_A Glycerophosphodiester phosphodiesterase; structural genomics PSI-2,
protein structure initiative, midwest center for STR
genomics, hydrolase; 2.60A {Shigella flexneri}
Length = 247
Score = 29.1 bits (66), Expect = 0.36
Identities = 16/95 (16%), Positives = 31/95 (32%), Gaps = 3/95 (3%)
Query: 31 PRLNELATNMFKKTADYLIGELSSTQADYEVLEKMNNATITKYSDMKQITVNISFSSARV 90
P L+++A + I E+ T + KM + + SF +
Sbjct: 95 PLLSQVAERCREHGMMANI-EIKPTTGTGPLTGKMVALAARQLWAGMTPPLLSSFEIDAL 153
Query: 91 PAYKQLIPQLEQIDQIYDSVLK-LEQAAYKLDHYA 124
A +Q P+L + D + +L +
Sbjct: 154 EAAQQAAPEL-PRGLLLDEWRDDWRELTARLGCVS 187
>2a3n_A Putative glucosamine-fructose-6-phosphate aminotr; structural
genomics, joint center for structural genomics; HET:
MSE; 1.23A {Salmonella typhimurium}
Length = 355
Score = 28.7 bits (65), Expect = 0.52
Identities = 12/79 (15%), Positives = 29/79 (36%), Gaps = 6/79 (7%)
Query: 54 STQADYEVLEKMNNATITKYSDMKQITVNISFSSARVPAYKQLIPQLEQIDQIYDSVLKL 113
+ A + + + N +Y + + + + +Y + QLE + L
Sbjct: 144 AQAATWHIPMRHKNGVEYEYMLLYWLFFRVLSRNNEFASYDRFASQLEILPA------NL 197
Query: 114 EQAAYKLDHYAKRLEAKFK 132
+A K D A + +++
Sbjct: 198 LKAKQKFDPQADAIASRYH 216
>3no3_A Glycerophosphodiester phosphodiesterase; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: MSE; 1.89A {Parabacteroides distasonis}
Length = 238
Score = 27.9 bits (63), Expect = 0.88
Identities = 15/94 (15%), Positives = 31/94 (32%), Gaps = 6/94 (6%)
Query: 31 PRLNE-LATNMFKKTADYLIGEL--SSTQADYEVLEKMNNATITKYSDMKQITVNISFSS 87
P L + L K + EL T +++ + + K+ ISF+
Sbjct: 83 PTLEQYLKRAKKLKNIRLIF-ELKSHDTPERNRDAARLSVQMVKRMKLAKRTDY-ISFNM 140
Query: 88 ARVPAYKQLIPQLEQIDQIYDSVLKLEQAAYKLD 121
+ +L P+ E + + + +E
Sbjct: 141 DACKEFIRLCPKSE-VSYLNGELSPMELKELGFT 173
>3qvq_A Phosphodiesterase OLEI02445; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, alpha-beta
hydrolase, hydrolase; HET: MSE G3P; 1.60A {Oleispira
antarctica}
Length = 252
Score = 26.8 bits (60), Expect = 2.2
Identities = 12/102 (11%), Positives = 28/102 (27%), Gaps = 10/102 (9%)
Query: 31 PRLNELATNMFKKTADYLIGEL-SSTQADYEVLEKMNNATITKYSDMKQITVNISFSSAR 89
P L E + + + EL + E + + + SF+
Sbjct: 98 PTLLEAIEVISQYGMGLNL-ELKPCEGLEEETIAASVEVLKQHWPQDLPLLF-SSFNYFA 155
Query: 90 VPAYKQLIPQLEQIDQIYDSVLKLEQAAYKLDHYAKRLEAKF 131
+ + K L P++ ++ + L+
Sbjct: 156 LVSAKALWPEI-ARGYNVSAIPSA------WQERLEHLDCAG 190
>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 = 27.3 bits (60), Expect = 2.3
Identities = 7/54 (12%), Positives = 19/54 (35%), Gaps = 14/54 (25%)
Query: 65 MNNATITKYSDMKQITVNISFSSARVPAY------------KQLIPQLEQIDQI 106
+ A+ D+ + V+ + ++P Y + ++ +D I
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI--VDCI 483
>2oqm_A Hypothetical protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 1.83A {Shewanella denitrificans} SCOP: a.213.1.3
Length = 192
Score = 26.4 bits (58), Expect = 2.7
Identities = 5/39 (12%), Positives = 13/39 (33%)
Query: 65 MNNATITKYSDMKQITVNISFSSARVPAYKQLIPQLEQI 103
M + I + + + V + +++ L I
Sbjct: 1 MGSDKIHHHHHHENLYFQGMLYDLTVVQFSKMLKNLNAI 39
>1zjc_A Aminopeptidase AMPS; metallopeptidase, hydrolase; 1.80A
{Staphylococcus aureus subsp} SCOP: e.60.1.1
Length = 418
Score = 26.7 bits (58), Expect = 2.9
Identities = 14/103 (13%), Positives = 33/103 (32%), Gaps = 1/103 (0%)
Query: 26 MISHDPRLNELATNMFKKTADYLIGELSSTQADYEVLEKMNNATITKYSDMKQITVNISF 85
M ++ +L + A + K + + ++ E LE + + + + V + +
Sbjct: 4 MTNYKEKLQQYAELLVKVGMNVQPKQPVFIRSSVETLE-LTHLIVEEAYHCGASDVRVVY 62
Query: 86 SSARVPAYKQLIPQLEQIDQIYDSVLKLEQAAYKLDHYAKRLE 128
S + K +E +E + A L
Sbjct: 63 SDPTLKRLKFENESVEHFANHEIKSYDVEARMDYVKRGAANLA 105
>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 = 26.1 bits (56), Expect = 3.8
Identities = 6/18 (33%), Positives = 11/18 (61%), Gaps = 2/18 (11%)
Query: 94 KQLIPQLEQIDQIY--DS 109
KQ + +L+ ++Y DS
Sbjct: 19 KQALKKLQASLKLYADDS 36
>2bto_A Tubulin btuba; bacterial tubulin, polymerization, cytoskeleton,
protein COM cytoskeletal protein; HET: GTP; 2.5A
{Prosthecobacter dejongeii} SCOP: c.32.1.1 d.79.2.1 PDB:
2btq_A*
Length = 473
Score = 26.3 bits (58), Expect = 4.2
Identities = 9/34 (26%), Positives = 17/34 (50%)
Query: 7 NSLSNKMTSLSTSTSSFEPMISHDPRLNELATNM 40
N L + + T++ F ++ + L EL TN+
Sbjct: 230 NLLITEALAGITASMRFSGFLTVEISLRELLTNL 263
>1obb_A Maltase, alpha-glucosidase; glycosidase, sulfinic acid, NAD+,
maltose, hydrolase; HET: MAL NAD; 1.90A {Thermotoga
maritima} SCOP: c.2.1.5 d.162.1.2
Length = 480
Score = 26.4 bits (57), Expect = 4.4
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 96 LIPQLEQIDQIYDSVLKLEQAAYKLDHYAKR 126
EQ++++ + +L L + HY KR
Sbjct: 450 RTKSDEQVEKVIEEILALPENEEMRKHYLKR 480
>3ahq_A ERO1-like protein alpha; disulfide bond, PDI, redox, hyperactive
human ERO1, oxidored; HET: FAD; 2.35A {Homo sapiens}
PDB: 3ahr_A*
Length = 465
Score = 25.6 bits (55), Expect = 7.7
Identities = 8/46 (17%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 50 GELSSTQADYEVLEKMNNATITKYSDMKQITVNISFSSARVPAYKQ 95
G L D E +++ NN + + ++++ + F +V +
Sbjct: 38 GYLDDCTCDVETIDRFNNYRL--FPRLQKLLESDYFRYYKVNLKRP 81
>3ax1_A Serrate RNA effector molecule; miRNA processing, protein binding;
2.74A {Arabidopsis thaliana}
Length = 358
Score = 25.3 bits (54), Expect = 8.8
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 93 YKQLIPQLEQIDQIYDSVLKLEQAAYKLDHYAKRLEAKFKQ 133
YKQ I +LE D I S + YK ++ + A F
Sbjct: 5 YKQFIQELE--DDILPSEAERRYQEYKSEYITTQKRAFFNT 43
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
0.310 0.123 0.319
Gapped
Lambda K H
0.267 0.0663 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,837,610
Number of extensions: 95711
Number of successful extensions: 222
Number of sequences better than 10.0: 1
Number of HSP's gapped: 222
Number of HSP's successfully gapped: 26
Length of query: 137
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 53
Effective length of database: 4,356,429
Effective search space: 230890737
Effective search space used: 230890737
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 (21.8 bits)
S2: 52 (23.9 bits)