RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 032810
(133 letters)
>1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5;
beta-strands, chaperone, heat shock, mitochondrion;
2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1
g.54.1.1
Length = 248
Score = 34.1 bits (79), Expect = 0.008
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECG 127
Q C+VC G+G ++ KD +C C
Sbjct: 80 QTECDVCHGTGDIIDPKD--RCKSCN 103
Score = 26.0 bits (58), Expect = 4.3
Identities = 7/35 (20%), Positives = 12/35 (34%), Gaps = 8/35 (22%)
Query: 101 AQRRCEVCGGSGLVLREKDYF--------KCPECG 127
A ++C C G G+ + +C C
Sbjct: 53 AVKKCTSCNGQGIKFVTRQMGPMIQRFQTECDVCH 87
>1h7b_A Anaerobic ribonucleotide-triphosphate reductase large chain;
oxidoreductase, allosteric regulation, substrate
specificity; 2.45A {Bacteriophage T4} SCOP: c.7.1.3 PDB:
1h79_A* 1h7a_A* 1h78_A 1hk8_A*
Length = 605
Score = 34.2 bits (78), Expect = 0.009
Identities = 8/48 (16%), Positives = 19/48 (39%)
Query: 81 AIAGVTPFVVAGIEFSKRIIAQRRCEVCGGSGLVLREKDYFKCPECGM 128
+ V + +++ + +C CG + + ++ F C CG
Sbjct: 519 GLEAVWDYAAQHLDYFGVNMPVDKCFTCGSTHEMTPTENGFVCSICGE 566
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.2 bits (65), Expect = 0.27
Identities = 6/39 (15%), Positives = 11/39 (28%), Gaps = 5/39 (12%)
Query: 94 EFSKRIIAQRRCEVCGGSGLVLREKDYFK----CPECGM 128
+ C C + E + + C CG+
Sbjct: 13 RRGPNLNIVLTCPECKVYPPKIVE-RFSEGDVVCALCGL 50
Score = 25.4 bits (55), Expect = 7.1
Identities = 9/21 (42%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 107 VCGGSGLVLREK--DYFKCPE 125
VC GLVL +K D E
Sbjct: 44 VCALCGLVLSDKLVDT--RSE 62
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA;
metallochaperone, metal-binding, metal- binding protein;
NMR {Helicobacter pylori}
Length = 119
Score = 27.1 bits (60), Expect = 1.2
Identities = 6/30 (20%), Positives = 9/30 (30%), Gaps = 1/30 (3%)
Query: 98 RIIAQRRCEVCGGSGLVLREKDYFKCPECG 127
+ C+ C DY C +C
Sbjct: 69 DEKVELECKDCSHVF-KPNALDYGVCEKCH 97
>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1210
Score = 27.1 bits (60), Expect = 1.9
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 105 CEVCGGSGLVLREKDYFKCPECG 127
C++CG + +KD ++C C
Sbjct: 1152 CDICGLIAIASYKKDSYECRSCQ 1174
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B
2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Length = 1131
Score = 27.1 bits (60), Expect = 1.9
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 105 CEVCGGSGLVLREKDYFKCPECG 127
C+ CG G + K+ + CP G
Sbjct: 1064 CDQCGYIGWYDKNKNKYVCPIHG 1086
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 26.6 bits (58), Expect = 2.4
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 9/37 (24%)
Query: 100 IAQRRCEVCGGSGLVL---------REKDYFKCPECG 127
I + + CGG + L D CP CG
Sbjct: 193 IVTIKKQACGGCFIRLNDKIYTEVLTSGDMITCPYCG 229
>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes
structural genomics, PSI-2, protein structure
initiative; 1.90A {Chromobacterium violaceum} SCOP:
b.171.1.1
Length = 68
Score = 24.9 bits (55), Expect = 3.6
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECGMSY 130
C +C G + + KD C +++
Sbjct: 10 VCPLCKGPLVFDKSKDELICKGDRLAF 36
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics
consortium, beta, PSI-2, protein structure initiative;
NMR {Bordetella bronchiseptica RB50}
Length = 70
Score = 24.5 bits (54), Expect = 4.5
Identities = 6/27 (22%), Positives = 10/27 (37%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECGMSY 130
C VC G R + C +++
Sbjct: 10 VCPVCKGRLEFQRAQAELVCNADRLAF 36
>2dlk_A Novel protein; ZF-C2H2 domain, zinc finger protein 692, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
g.37.1.1 g.37.1.1
Length = 79
Score = 24.8 bits (55), Expect = 4.7
Identities = 6/15 (40%), Positives = 7/15 (46%), Gaps = 1/15 (6%)
Query: 117 EKDYFKCPECGMSYG 131
+DY C G S G
Sbjct: 66 TRDY-ICEFSGPSSG 79
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_9
Length = 189
Score = 25.5 bits (55), Expect = 5.2
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 103 RRCEVCGGSGLVLREKDYFKCPECGMSY 130
+ C CG + + D C +C ++
Sbjct: 114 KGCPKCGPGIFMAKHYDRHYCGKCHLTL 141
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI,
structure initiative, northeast structural genomics
consort NESG; NMR {Neisseria meningitidis}
Length = 68
Score = 24.5 bits (54), Expect = 5.4
Identities = 5/27 (18%), Positives = 10/27 (37%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECGMSY 130
C V G ++K + ++Y
Sbjct: 10 VCPVTKGRLEYHQDKQELWSRQAKLAY 36
>2pk7_A Uncharacterized protein; NESG, PLR1, putative
tetraacyldisaccharide-1-P 4-kinase, Q4K structural
genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP:
b.171.1.1
Length = 69
Score = 24.2 bits (53), Expect = 6.4
Identities = 6/27 (22%), Positives = 11/27 (40%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECGMSY 130
C +C G + +K G++Y
Sbjct: 10 ACPICKGPLKLSADKTELISKGAGLAY 36
>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein,
nucleotide-binding, zinc-binding domain, SOS response,
metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans}
PDB: 2vf8_A*
Length = 842
Score = 25.6 bits (57), Expect = 7.2
Identities = 12/29 (41%), Positives = 13/29 (44%), Gaps = 5/29 (17%)
Query: 104 RCEVCGGSGLVLRE----KD-YFKCPECG 127
RCE C G G V+ E Y CP C
Sbjct: 640 RCEHCQGEGWVMVELLFLPSVYAPCPVCH 668
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics,
PSI-2, protein structure initiative; NMR
{Corynebacterium glutamicum} SCOP: b.171.1.1
Length = 67
Score = 24.1 bits (53), Expect = 7.7
Identities = 4/27 (14%), Positives = 7/27 (25%)
Query: 104 RCEVCGGSGLVLREKDYFKCPECGMSY 130
C G L + ++Y
Sbjct: 12 ACPKDKGPLRYLESEQLLVNERLNLAY 38
>2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 104
Score = 24.5 bits (54), Expect = 8.9
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 4/26 (15%)
Query: 102 QRRCEVCGGSGLVLREKDYFKCPECG 127
+ C CGG G ++ C C
Sbjct: 67 RSTCRRCGGRGSIIIS----PCVVCR 88
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
0.323 0.134 0.426
Gapped
Lambda K H
0.267 0.0776 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,058,471
Number of extensions: 114209
Number of successful extensions: 531
Number of sequences better than 10.0: 1
Number of HSP's gapped: 529
Number of HSP's successfully gapped: 66
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
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 (22.0 bits)
S2: 52 (23.7 bits)