RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15424
(153 letters)
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA,
isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo
sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A*
1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A*
1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A*
Length = 591
Score = 37.0 bits (85), Expect = 0.001
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 9/66 (13%)
Query: 11 EREGGKVRETEEEEEEEVEKWERLGERGGDTDLCGIKWRKLVHGDSAGTGYSPGSEPLED 70
K ++ ++EEE++ + WE GIKW+ L H G ++P EPL +
Sbjct: 12 PEPDNKKKKPKKEEEQKWKWWEEERYPE------GIKWKFLEH---KGPVFAPPYEPLPE 62
Query: 71 PVLASY 76
V Y
Sbjct: 63 NVKFYY 68
>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 = 35.7 bits (81), Expect = 0.002
Identities = 10/52 (19%), Positives = 16/52 (30%), Gaps = 29/52 (55%)
Query: 24 EEEEVEKWE-RLGERGGDTDLCGIKWRKLVHGDSAGTGYSPGSEPLEDPVLA 74
E++ ++K + L KL Y+ S P LA
Sbjct: 18 EKQALKKLQASL---------------KL---------YADDSA----PALA 41
Score = 29.5 bits (65), Expect = 0.31
Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 4/25 (16%)
Query: 106 LFDSIGL--PQVTSVPPLSLQAAKE 128
L S+ L S P L+++A E
Sbjct: 25 LQASLKLYADD--SAPALAIKATME 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 0.35
Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
Query: 19 ETEEEEEEEVEKW-----ERLGERGGDTDLCGIKWRK 50
+ +E E + KW +RL E + + +WR+
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWRE 114
Score = 26.7 bits (58), Expect = 3.1
Identities = 3/27 (11%), Positives = 13/27 (48%)
Query: 11 EREGGKVRETEEEEEEEVEKWERLGER 37
E + +++E + + ++W ++
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKK 118
Score = 25.9 bits (56), Expect = 4.9
Identities = 4/23 (17%), Positives = 12/23 (52%)
Query: 11 EREGGKVRETEEEEEEEVEKWER 33
+E E+ ++++E+W +
Sbjct: 103 AASKVMEQEWREKAKKDLEEWNQ 125
>2onf_A Hypothetical protein TA0195; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE COA; 1.70A {Thermoplasma acidophilum}
SCOP: d.227.1.1
Length = 140
Score = 27.9 bits (62), Expect = 0.97
Identities = 13/82 (15%), Positives = 19/82 (23%), Gaps = 16/82 (19%)
Query: 58 GTGYSPGSEPLEDPVLASYAKCLAGDILCVWRRVGTPQNG---------GSGGGGGGLFD 108
P E + A CL L R+G G G F
Sbjct: 38 EGQLYP-----ETLFPSVLASCLLTTFLEFKDRMGINLKSWNSHVTAELGPSPEKGFKFH 92
Query: 109 SIGL-PQVTSVPPLSLQAAKEL 129
I + ++ V +
Sbjct: 93 RIKIHVKIG-VNDEDKEKIPRA 113
>3kf6_A Protein STN1; OB fold, chromosomal protein, DNA-binding, nucleus,
telomere; 1.65A {Schizosaccharomyces pombe}
Length = 159
Score = 26.8 bits (59), Expect = 2.1
Identities = 3/27 (11%), Positives = 8/27 (29%)
Query: 70 DPVLASYAKCLAGDILCVWRRVGTPQN 96
P L+ + D+ + +
Sbjct: 12 FPTLSRWNPMFISDVHKISFHPHLQRY 38
>1ukk_A Osmotically inducible protein C; peroxidase, cysteinesulfinic acid,
riken structural genomics/proteomics initiative, RSGI;
HET: MSE; 1.60A {Thermus thermophilus} SCOP: d.227.1.1
Length = 142
Score = 27.0 bits (59), Expect = 2.1
Identities = 15/75 (20%), Positives = 25/75 (33%), Gaps = 9/75 (12%)
Query: 63 PGSEPLEDPVLASYAKCLAGDILCVWRRVGTPQNG--------GSGGGGGGLFDSIGLPQ 114
G+ P E+ + A++A + + R G P G I L
Sbjct: 42 EGTNP-EELIAAAHAGAFSMALAASLEREGFPPKRVSTEARVHLEVVDGKPTLTRIELLT 100
Query: 115 VTSVPPLSLQAAKEL 129
VP +S + E+
Sbjct: 101 EAEVPGISSEKFLEI 115
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA
complex; HET: DNA; 2.27A {Leishmania donovani}
Length = 432
Score = 26.2 bits (57), Expect = 5.9
Identities = 6/30 (20%), Positives = 8/30 (26%), Gaps = 5/30 (16%)
Query: 26 EEVEKW--ERLGERGGDTDLCGIKWRKLVH 53
EE W + +W L H
Sbjct: 1 EEDLNWWEQENLRIAMKG---ERRWETLAH 27
>2fek_A Low molecular weight protein-tyrosine- phosphatase WZB; phosphate
binding, hydrolase; NMR {Escherichia coli K12}
Length = 167
Score = 25.6 bits (57), Expect = 6.3
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 5/26 (19%)
Query: 49 RKLVHG---DSAGTGYSPGSEPLEDP 71
++ +SAG G G DP
Sbjct: 44 QRYHPELKVESAGLGALVGKGA--DP 67
>2bgs_A Aldose reductase; holoenzyme, aldo/keto reductase, oxidoreductase;
HET: NDP; 1.64A {Hordeum vulgare} PDB: 2bgq_A* 2vdg_A*
Length = 344
Score = 26.0 bits (58), Expect = 6.4
Identities = 8/24 (33%), Positives = 9/24 (37%), Gaps = 4/24 (16%)
Query: 59 TGYSP----GSEPLEDPVLASYAK 78
T YSP DPV+ A
Sbjct: 236 TAYSPLGSSEKNLAHDPVVEKVAN 259
>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 = 26.2 bits (57), Expect = 6.7
Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 16/47 (34%)
Query: 117 SVPPLSLQAAKELW------------IFWYGEEPDLSSIVTPELFSS 151
VP S A +L F +EP ++ EL
Sbjct: 21 LVPTASFFIASQLQEQFNKILPEPTEGFAADDEP--TTPA--ELVGK 63
>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1,
RACK1); translation, ribosome, ribosomal, ribosomal R
ribosomal protein, eukaryotic ribosome, RNA-protein C;
3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B
3o2z_B 3u5g_C 3jyv_E* 1s1h_E
Length = 254
Score = 25.6 bits (56), Expect = 6.7
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 2 RGRGGGGGGEREGGKVRETEEEEEEEVEKWERLG 35
+ RGG GG R R EE+ +LG
Sbjct: 9 QKRGGFGGRNRGRPNRRGPRNTEEKGWVPVTKLG 42
>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial;
active site phosphohistidine residue; HET: NEP GTP;
2.08A {Sus scrofa} SCOP: c.23.4.1 d.142.1.4 PDB:
2fpg_B* 2fpi_B* 2fpp_B* 1euc_B* 1eud_B*
Length = 395
Score = 25.5 bits (57), Expect = 9.7
Identities = 7/36 (19%), Positives = 15/36 (41%), Gaps = 2/36 (5%)
Query: 2 RGRGGGGGGEREGGKVRETEEEEEEEVEKWERLGER 37
RG+G G + G + + E + ++ +G
Sbjct: 54 RGKGVFSSGLKGGVHLTKDPEVVGQLAKQM--IGYN 87
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
0.311 0.139 0.436
Gapped
Lambda K H
0.267 0.0560 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,599,082
Number of extensions: 155545
Number of successful extensions: 406
Number of sequences better than 10.0: 1
Number of HSP's gapped: 401
Number of HSP's successfully gapped: 27
Length of query: 153
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 68
Effective length of database: 4,328,508
Effective search space: 294338544
Effective search space used: 294338544
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 (21.7 bits)
S2: 53 (24.6 bits)