RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8783
(74 letters)
>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 = 28.5 bits (63), Expect = 0.15
Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 20/56 (35%)
Query: 8 VFNNSHFLDVHFSHQDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHETATDGK 63
V NN L +HF + ++IR++ + ET DGK
Sbjct: 1665 VINNPVNLTIHFGGEKG----------KRIRENYSAM----------IFETIVDGK 1700
Score = 26.6 bits (58), Expect = 0.89
Identities = 15/67 (22%), Positives = 20/67 (29%), Gaps = 24/67 (35%)
Query: 3 DVVTSVFNN--SHFLDVH-FSHQDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHETA 59
V+N +HF D + FS D V P + T H
Sbjct: 1640 KAAQDVWNRADNHFKDTYGFSILD-----IVINNPVNL----------------TIHFGG 1678
Query: 60 TDGKELR 66
GK +R
Sbjct: 1679 EKGKRIR 1685
>3efc_A OMP85, outer membrane protein assembly factor YAET; potra fold,
cell membrane, cell outer membrane, ME protein; 3.30A
{Escherichia coli}
Length = 395
Score = 25.3 bits (56), Expect = 1.6
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 2 QDVVTSVFNNSHFLDVHFSHQDQDLFYFVKELP 34
+ + ++F +F DV L VKE P
Sbjct: 43 SNTIRALFATGNFEDVRVLRDGDTLLVQVKERP 75
>2qdf_A OMP85, outer membrane protein assembly factor YAET; potra domain,
protein transport; 2.20A {Escherichia coli K12} PDB:
2qcz_A 2v9h_A
Length = 335
Score = 25.4 bits (56), Expect = 1.6
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 2 QDVVTSVFNNSHFLDVHFSHQDQDLFYFVKELP 34
+ + ++F +F DV L VKE P
Sbjct: 44 SNTIRALFATGNFEDVRVLRDGDTLLVQVKERP 76
>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 = 2.9
Identities = 16/58 (27%), Positives = 19/58 (32%), Gaps = 21/58 (36%)
Query: 14 FLDVHFSHQDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHETATDGKELRLQKAH 71
FLD F L QKIR D GS+ N T L+ K +
Sbjct: 497 FLDFRF-------------LEQKIRHDSTAWNASGSILN-----TLQQ---LKFYKPY 533
>2oka_A Hypothetical protein; PAR82, NESG, structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium; 2.50A {Pseudomonas aeruginosa}
PDB: 2obk_A
Length = 104
Score = 24.3 bits (53), Expect = 3.1
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 27 FYFVKELPQKIRDDLDELKRLG 48
F K L Q++RD +D + LG
Sbjct: 68 FPEAKALKQRVRDRIDPQRDLG 89
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase,
disease mutation, DNA replication, DNA-binding,
DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo
sapiens}
Length = 1172
Score = 24.5 bits (52), Expect = 4.0
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 5 VTSVFNNSHFLDVHFSH------QDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHE 57
++SV +NS +VH + + + FVK + IR++ +L + + THE
Sbjct: 281 ISSVNSNS-LAEVHRLYVGGPPLEKEPRELFVKGTMKDIRENFQDLMQYCAQDVWATHE 338
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 24.4 bits (54), Expect = 4.3
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 49 SMFNITTHETATDGKELRL 67
MF+I GK L L
Sbjct: 14 PMFDIKRKTIEWGGKTLVL 32
>2fa8_A Hypothetical protein ATU0228; ALPH-beta structure, 4 helix
bundle, structural genomics, PS protein structure
initiative; 1.90A {Agrobacterium tumefaciens str} SCOP:
c.47.1.23
Length = 105
Score = 24.0 bits (52), Expect = 4.8
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 27 FYFVKELPQKIRDDLDELKRLG 48
F KEL Q+IRD +D + LG
Sbjct: 70 FPGPKELKQRIRDLIDPERDLG 91
>3dex_A SAV_2001; alpha-beta protein, structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; 2.70A {Streptomyces avermitilis}
Length = 107
Score = 24.0 bits (52), Expect = 5.0
Identities = 5/19 (26%), Positives = 9/19 (47%)
Query: 30 VKELPQKIRDDLDELKRLG 48
+ + +RD + K LG
Sbjct: 77 PTAVKRLVRDRVAPEKSLG 95
>2wsk_A Glycogen debranching enzyme; carbohydrate metabolism, hydrolase,
glycosidase, ISO-amylase glycosyl hydrolase, glycogen
metabolism; 2.25A {Escherichia coli k-12}
Length = 657
Score = 24.1 bits (53), Expect = 5.3
Identities = 7/29 (24%), Positives = 11/29 (37%), Gaps = 5/29 (17%)
Query: 10 NNSHFLD-----VHFSHQDQDLFYFVKEL 33
NN++ D + +S L F L
Sbjct: 526 NNAYCQDNQLTWLDWSQASSGLTAFTAAL 554
>2ojl_A Hypothetical protein; BPR68, NESG, Q7WAF1, structural genomics,
PSI-2, protein STR initiative, northeast structural
genomics consortium; 2.10A {Bordetella parapertussis}
Length = 108
Score = 23.6 bits (51), Expect = 5.4
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 27 FYFVKELPQKIRDDLDELKRLG 48
F K L Q++RD LD + LG
Sbjct: 71 FPEAKVLKQRVRDHLDPGRPLG 92
>2aze_A Transcription factor DP-1; coiled coil, beta sandwich, cell cycle,
transcription; 2.55A {Homo sapiens} SCOP: e.63.1.1
Length = 155
Score = 23.8 bits (51), Expect = 6.3
Identities = 9/40 (22%), Positives = 20/40 (50%)
Query: 22 QDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHETATD 61
D+ + F + +I DD++ LKR+G + + + +
Sbjct: 83 NDKFEYLFNFDNTFEIHDDIEVLKRMGMACGLESGSCSAE 122
>2p0g_A Selenoprotein W-related protein; VCR75, structural genomics,
PSI-2, protein structure initiative, northeast
structural genomics consortium, NESG; 2.30A {Vibrio
cholerae}
Length = 105
Score = 23.5 bits (51), Expect = 7.0
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 30 VKELPQKIRDDLDELKRLG 48
K L Q++RD +D + LG
Sbjct: 69 AKVLKQRVRDLIDPERDLG 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
0.320 0.134 0.379
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,105,822
Number of extensions: 54255
Number of successful extensions: 161
Number of sequences better than 10.0: 1
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 17
Length of query: 74
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 30
Effective length of database: 5,473,269
Effective search space: 164198070
Effective search space used: 164198070
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 (21.8 bits)
S2: 51 (23.2 bits)