RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3492
(85 letters)
>1f2i_G Fusion of N-terminal 17-MER peptide extension to ZIF12; zinc
finger, dimer, protein-DNA complex, cooperativity,
transcription/DNA complex; 2.35A {Mus musculus} SCOP:
g.37.1.1 g.37.1.1
Length = 73
Score = 32.3 bits (74), Expect = 0.003
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 14 LKRHLNTH--IKPFNCALCEYKAARPERLATHVIKVH 48
L RH+ H KPF C +C +R + L TH I+ H
Sbjct: 37 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTH 72
Score = 26.9 bits (60), Expect = 0.33
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 14/68 (20%)
Query: 14 LKRHLNTHIKPFNCAL--CEYKAARPERLATHV-----IKVHNKRICSKCSFLADDQETL 66
L ++ ++P+ C + C+ + +R + L H+ K RIC + +D
Sbjct: 9 LLNYVVPKMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSD----- 63
Query: 67 NEHLQQHI 74
HL HI
Sbjct: 64 --HLTTHI 69
>2ebt_A Krueppel-like factor 5; C2H2-type zinc-finger, metal BIND,
transcription factor, kruppel-like factor, GC-box
promoter elements, structural genomics; NMR {Homo
sapiens}
Length = 100
Score = 32.2 bits (74), Expect = 0.004
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 14 LKRHLNTH--IKPFNCALCEYKAARPERLATHVIKVH 48
L RH H KPF C +C +R + LA H+ K H
Sbjct: 63 LTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHM-KRH 98
>2wbt_A B-129; zinc finger; 2.70A {Sulfolobus virus 1}
Length = 129
Score = 31.4 bits (70), Expect = 0.013
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 14 LKRHLNTHIKPFNCALCEYKAARPERLATHVIKVHN 49
LK+H+ C +C+ + + HV K HN
Sbjct: 90 LKQHIRYTEHTKVCPVCKKEFTSTDSALDHVCKKHN 125
Score = 28.0 bits (61), Expect = 0.24
Identities = 10/54 (18%), Positives = 20/54 (37%)
Query: 20 THIKPFNCALCEYKAARPERLATHVIKVHNKRICSKCSFLADDQETLNEHLQQH 73
I F C LC + L H+ + ++C C ++ +H+ +
Sbjct: 70 KAISQFVCPLCLMPFSSSVSLKQHIRYTEHTKVCPVCKKEFTSTDSALDHVCKK 123
>2ghf_A ZHX1, zinc fingers and homeoboxes protein 1; C2H2 zinc fingers,
4-stranded parallel/anti-parallel beta- sheet,
structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1
g.37.1.1
Length = 102
Score = 31.3 bits (70), Expect = 0.014
Identities = 12/65 (18%), Positives = 23/65 (35%), Gaps = 6/65 (9%)
Query: 15 KRHLNTHIKPFNCALCEYKAARPERLATHVIKVHNKRI------CSKCSFLADDQETLNE 68
+ + C C ++ HV H + C +C+FL + L+E
Sbjct: 9 NQQNKKVEGGYECKYCTFQTPDLNMFTFHVDSEHPNVVLNSSYVCVECNFLTKRYDALSE 68
Query: 69 HLQQH 73
H ++
Sbjct: 69 HNLKY 73
Score = 28.2 bits (62), Expect = 0.17
Identities = 12/55 (21%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 15 KRHLNTHIKP-FNCALCEYKAARPERLATHVIKVHNKRICSKCSFLADDQETLNE 68
H N + + C C + R + L+ H +K H K + + + +T+ E
Sbjct: 40 SEHPNVVLNSSYVCVECNFLTKRYDALSEHNLKYHPGEENFKLTMVKRNNQTIFE 94
>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic
acid binding, KIAA1227 protein, structural genomics;
NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1
Length = 107
Score = 30.3 bits (67), Expect = 0.031
Identities = 12/51 (23%), Positives = 18/51 (35%)
Query: 23 KPFNCALCEYKAARPERLATHVIKVHNKRICSKCSFLADDQETLNEHLQQH 73
+ + C LC K + +H N +C CS E EH +
Sbjct: 15 EVYQCRLCNAKLSSLLEQGSHERLCRNAAVCPYCSLRFFSPELKQEHESKC 65
>2d9h_A Zinc finger protein 692; ZF-C2H2 domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 78
Score = 28.9 bits (65), Expect = 0.062
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 5/40 (12%)
Query: 14 LKRHLNTH-----IKPFNCALCEYKAARPERLATHVIKVH 48
L H H F C C + +P+ +A H K H
Sbjct: 23 LNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSH 62
Score = 25.4 bits (56), Expect = 1.4
Identities = 8/57 (14%), Positives = 19/57 (33%), Gaps = 7/57 (12%)
Query: 23 KPFNCALCEYKAARPERLATHVIKVHNKRI------CSKCSFLADDQETLNEHLQQH 73
C +C + + L H + H + + C C + +++ H +
Sbjct: 6 SGLQCEICGFTCRQKASLNWH-QRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKS 61
>2wbs_A Krueppel-like factor 4; transcription-DNA complex, DNA-binding,
transcription, metal-binding, DNA, protein, nucleus,
activator; 1.70A {Mus musculus} PDB: 2wbu_A
Length = 89
Score = 29.0 bits (66), Expect = 0.063
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 14 LKRHLNTH--IKPFNCALCEYKAARPERLATHVIKVH 48
L RH H +PF C C+ +R + LA H+ K H
Sbjct: 53 LTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHM-KRH 88
>2ct1_A Transcriptional repressor CTCF; CCCTC-BINDING factor, zinc
finger, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: g.37.1.1 g.37.1.1
Length = 77
Score = 28.6 bits (65), Expect = 0.066
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 14 LKRHLNTH----IKPFNCALCEYKAARPERLATHVIKVH 48
+K H+ + F+C C+ AR L H+ K H
Sbjct: 31 MKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQH 69
>2owy_A Recombination-associated protein RDGC; homologous recombination,
RECA shaped DNA binding proteins, DNA binding protein;
2.50A {Pseudomonas aeruginosa}
Length = 306
Score = 29.1 bits (65), Expect = 0.14
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 59 LADDQETLNEHLQQHIFWECSFQDAQT 85
L D ++L + L + C+ Q+ T
Sbjct: 15 LQLDADSLEKALGEKSARPCASQELTT 41
>1paa_A Yeast transcription factor ADR1; transcription regulation; NMR
{Saccharomyces cerevisiae} SCOP: g.37.1.1
Length = 30
Score = 27.1 bits (60), Expect = 0.15
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 23 KPFNCALCEYKAARPERLATHVIKVHN 49
K + C LC R + L H K+H+
Sbjct: 1 KAYACGLCNRAFTRRDLLIRHAQKIHS 27
>2owl_A Recombination-associated protein RDGC; replication, RECA; 2.40A
{Escherichia coli}
Length = 303
Score = 28.7 bits (64), Expect = 0.20
Identities = 6/27 (22%), Positives = 10/27 (37%)
Query: 59 LADDQETLNEHLQQHIFWECSFQDAQT 85
++ E + + L F C QD
Sbjct: 16 ISLRAEEMEKQLASMAFTPCGSQDMAK 42
>1x5w_A Zinc finger protein 64, isoforms 1; ZNF338, nuclear protein, DNA
binding, transcription, C2H2 type zinc finger,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.37.1.1 g.37.1.1
Length = 70
Score = 27.5 bits (62), Expect = 0.21
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 14/59 (23%)
Query: 23 KPFNCALCEYKAARPERLATHVIKVHNKRI--------CSKCSFLADDQETLNEHLQQH 73
P C+ C Y + L H +RI C+ CSF L++H+++
Sbjct: 8 HPEKCSECSYSCSSKAALRIH------ERIHCTDRPFKCNYCSFDTKQPSNLSKHMKKF 60
Score = 26.7 bits (60), Expect = 0.36
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 14 LKRHLNTHI--KPFNCALCEYKAARPERLATH 43
L+ H H +PF C C + +P L+ H
Sbjct: 25 LRIHERIHCTDRPFKCNYCSFDTKQPSNLSKH 56
>2elt_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 36
Score = 26.7 bits (58), Expect = 0.21
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 23 KPFNCALCEYKAARPERLATHVIK 46
KP+ C C Y +A L H+ K
Sbjct: 8 KPYKCPQCSYASAIKANLNVHLRK 31
>1klr_A Zinc finger Y-chromosomal protein; transcription; NMR {Synthetic}
SCOP: g.37.1.1 PDB: 5znf_A 1kls_A 1xrz_A* 7znf_A
Length = 30
Score = 26.3 bits (57), Expect = 0.27
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 23 KPFNCALCEYKAARPERLATHVIKVHNK 50
K + C CE+++A L TH+ H+K
Sbjct: 1 KTYQCQYCEFRSADSSNLKTHIKTKHSK 28
>2epq_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc
finger domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.37.1.1
Length = 45
Score = 26.0 bits (56), Expect = 0.44
Identities = 9/34 (26%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 19 NTHIKPFNCALCEYKAARPERLATHVIKVHNKRI 52
++ KP++C +C + R +R++ HV + H+ +
Sbjct: 5 SSGEKPYSCPVCGLRFKRKDRMSYHV-RSHDGSV 37
>1p7a_A BF3, BKLF, kruppel-like factor 3; classical zinc finger,
transcription factor, DNA binding protein; NMR {Mus
musculus} SCOP: g.37.1.1 PDB: 1u85_A 1u86_A
Length = 37
Score = 25.8 bits (57), Expect = 0.46
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 3/34 (8%)
Query: 17 HLNTH--IKPFNCALCEYKAARPERLATHVIKVH 48
IKPF C C+ +R + LA H K H
Sbjct: 2 STRGSTGIKPFQCPDCDRSFSRSDHLALH-RKRH 34
>2drp_A Protein (tramtrack DNA-binding domain); protein-DNA complex,
double helix, transcription/DNA complex; HET: DNA;
2.80A {Drosophila melanogaster} SCOP: g.37.1.1 g.37.1.1
Length = 66
Score = 26.0 bits (58), Expect = 0.65
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 5/41 (12%)
Query: 14 LKRHLNTHI----KPFNCALCEYKAARPERLATHVIKVHNK 50
RH T K + C C + R + + H +K+ +K
Sbjct: 26 FCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAH-VKIIHK 65
>2elq_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 36
Score = 25.2 bits (54), Expect = 0.83
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 23 KPFNCALCEYKAARPERLATHVIKVHNK 50
KPF C+LCEY L H+ + H+
Sbjct: 8 KPFKCSLCEYATRSKSNLKAHMNR-HST 34
>1bbo_A Human enhancer-binding protein MBP-1; DNA-binding protein; HET:
ABA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 PDB:
3znf_A 4znf_A
Length = 57
Score = 25.1 bits (54), Expect = 1.2
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 9 SYNWCLKRHLNTHI--KPFNCALCEYKAARPERLATHV 44
LK+H+ TH +P++C C + L H+
Sbjct: 12 KKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHM 49
>2epa_A Krueppel-like factor 10; transforming growth
factor-beta-inducible early growth response protein 1,
TGFB-inducible early growth response protein 1; NMR
{Homo sapiens}
Length = 72
Score = 25.0 bits (55), Expect = 1.6
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 14 LKRHLNTHI--KPFNCAL--CEYKAARPERLATH 43
LK H TH KPF+C+ CE + AR + L+ H
Sbjct: 35 LKAHTRTHTGEKPFSCSWKGCERRFARSDELSRH 68
>1pg4_A Acetyl-COA synthetase; AMP-forming, adenylate-forming,
thioester-forming, ligase; HET: COA PRX; 1.75A
{Salmonella enterica} SCOP: e.23.1.1 PDB: 1pg3_A*
2p2f_A* 2p2b_A* 2p2q_A* 2p2j_A* 2p20_A* 2p2m_A*
Length = 652
Score = 25.6 bits (57), Expect = 2.4
Identities = 6/14 (42%), Positives = 9/14 (64%), Gaps = 1/14 (7%)
Query: 8 ISYNWCLKRHLNTH 21
++ N CL RHL +
Sbjct: 77 LAAN-CLDRHLQEN 89
>1ry2_A Acetyl-coenzyme A synthetase 1, acyl-activating enzyme 1; AMP
forming, related to firefly luciferase, ligase; HET:
AMP; 2.30A {Saccharomyces cerevisiae} SCOP: e.23.1.1
Length = 663
Score = 25.2 bits (56), Expect = 2.8
Identities = 5/14 (35%), Positives = 6/14 (42%), Gaps = 1/14 (7%)
Query: 8 ISYNWCLKRHLNTH 21
YN C+ RH
Sbjct: 83 ACYN-CVDRHALKT 95
>2j7j_A Transcription factor IIIA; zinc finger module, alternative
initiation, nuclear protein, phosphorylation,
hydrophobic core, zinc, RNA-binding; 1.65A {Xenopus
laevis} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1un6_B
2hgh_A
Length = 85
Score = 24.5 bits (54), Expect = 3.0
Identities = 9/37 (24%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 14 LKRHLNTH--IKPFNCALCEYKAARPERLATHVIKVH 48
LKRH H C + HV + H
Sbjct: 49 LKRHEKVHAGYPCKKDDSCSFVGKTWTLYLKHVAECH 85
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
0.327 0.135 0.456
Gapped
Lambda K H
0.267 0.0541 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,229,234
Number of extensions: 56124
Number of successful extensions: 202
Number of sequences better than 10.0: 1
Number of HSP's gapped: 196
Number of HSP's successfully gapped: 43
Length of query: 85
Length of database: 6,701,793
Length adjustment: 53
Effective length of query: 32
Effective length of database: 5,221,980
Effective search space: 167103360
Effective search space used: 167103360
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.9 bits)