RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4482
(133 letters)
>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding
protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A
Length = 77
Score = 72.3 bits (177), Expect = 4e-18
Identities = 34/71 (47%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 14 NPRYKTEFCRNIDELGVCRYSLKCQFAHHPGELLPKFTHHPHYRTQLCRAYHKAGYCSFG 73
+ RYKTE CR E G CRY KCQFAH L + HP Y+T+LC + G C +G
Sbjct: 7 SSRYKTELCRTYSESGRCRYGAKCQFAH-GLGELRQANRHPKYKTELCHKFKLQGRCPYG 65
Query: 74 ARCIFIHEERE 84
+RC FIH E
Sbjct: 66 SRCHFIHNPTE 76
Score = 38.0 bits (88), Expect = 6e-05
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 48 PKFTHHPHYRTQLCRAYHKAGYCSFGARCIFIHEEREISPPDAKHNPR 95
T Y+T+LCR Y ++G C +GA+C F H E+ + +
Sbjct: 2 SHMTTSSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQANRHPKYK 49
>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1
Length = 98
Score = 42.8 bits (100), Expect = 1e-06
Identities = 18/110 (16%), Positives = 33/110 (30%), Gaps = 21/110 (19%)
Query: 14 NPRYKTEFCRNIDELGVCRYSLKCQFAHHPGELLPKFTHHPHYRTQLCRAYHKAGYCSFG 73
K E C+ G C + C + H C+ YH G C G
Sbjct: 8 ELPKKRELCKFYIT-GFCARAENCPYMHGDFP---------------CKLYHTTGNCING 51
Query: 74 ARCIFIHEEREISPPDAKHNPRIIYVNPEYEACCTRDTQHIRRYERHNAT 123
C+F H+ P + + + + D + + ++ +
Sbjct: 52 DDCMFSHD-----PLTEETRELLDKMLADDAEAGAEDEKEVEELKKSGPS 96
>2rhk_C Cleavage and polyadenylation specificity factor subunit 4;
influenza A, nonstructural protein, viral protein: HOST
complex, Zn finger; 1.95A {Homo sapiens}
Length = 72
Score = 34.1 bits (78), Expect = 0.002
Identities = 17/69 (24%), Positives = 26/69 (37%), Gaps = 12/69 (17%)
Query: 14 NPRYKTEFCRNIDELGVCRYSLKCQFAHHPGELLPKFTHHPHYRTQLCRAYHKAGYCSFG 73
KT C++ G+C+ +C+F H + C Y K G CS
Sbjct: 11 MSGEKTVVCKHWLR-GLCKKGDQCEFLHEY----------DMTKMSECYFYSKFGECS-N 58
Query: 74 ARCIFIHEE 82
C F+H +
Sbjct: 59 KECPFLHID 67
>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit;
CCCH zinc-finger, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 77
Score = 34.1 bits (78), Expect = 0.002
Identities = 18/76 (23%), Positives = 28/76 (36%), Gaps = 12/76 (15%)
Query: 14 NPRYKTEFCRNIDELGVCRYSLKCQFAHHPGELLPKFTHHPHYRTQLCRAYHKAGYCSFG 73
+ KT C++ G+C+ +C+F H + C Y K G C
Sbjct: 5 SSGEKTVVCKHW-LRGLCKKGDQCEFLHEY----------DMTKMPECYFYSKFGEC-SN 52
Query: 74 ARCIFIHEEREISPPD 89
C F+H + E D
Sbjct: 53 KECPFLHIDPESKIKD 68
>3ugj_A Phosphoribosylformylglycinamidine synthase; amidotransferase,
glutaminase, thioester intermediate, ligas; HET: ADP;
1.78A {Salmonella enterica subsp} PDB: 1t3t_A* 3ujn_A*
3umm_A*
Length = 1303
Score = 29.6 bits (66), Expect = 0.29
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 8/52 (15%)
Query: 9 KAILLNPRYKTEFCR---NID--ELGVCRYSLKCQFAHHPGELLPKFTHHPH 55
K+IL N R + EF LGVC CQ + EL+P P
Sbjct: 1116 KSILFNHRVRDEFETFFHRPQTLALGVCN---GCQMMSNLRELIPGSELWPR 1164
>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain,
alternative splicing, metal- binding, nucleus,
RNA-binding, zinc, zinc-finger, metal binding; 1.50A
{Homo sapiens} PDB: 3d2s_A
Length = 70
Score = 26.9 bits (59), Expect = 0.67
Identities = 12/58 (20%), Positives = 18/58 (31%), Gaps = 6/58 (10%)
Query: 29 GVC-RYSLKCQFAHHPGELLPKFTHHPHYRTQLCRAYHKAGYCSFGARCIFIHEEREI 85
G C R C+FAH + +C Y K +C + H +
Sbjct: 15 GNCNRGENDCRFAHPADSTM---IDTNDNTVTVCMDYIKGRCS--REKCKYFHPPAHL 67
>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH
zinc-finger, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 69
Score = 26.4 bits (58), Expect = 1.0
Identities = 10/32 (31%), Positives = 11/32 (34%), Gaps = 1/32 (3%)
Query: 15 PRYKTEFCRNIDELGVCRYSLKCQFAHHPGEL 46
P C G C C+FAH EL
Sbjct: 16 PTGYFSICDRYMN-GTCPEGNSCKFAHGNAEL 46
Score = 24.5 bits (53), Expect = 4.7
Identities = 9/26 (34%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 59 QLCRAYHKAGYCSFGARCIFIHEERE 84
+C Y G C G C F H E
Sbjct: 21 SICDRYMN-GTCPEGNSCKFAHGNAE 45
>3gk7_A 4-hydroxybutyrate COA-transferase; alpha/beta protein; HET: SPD;
1.85A {Clostridium aminobutyricum} PDB: 3qdq_A*
Length = 448
Score = 27.8 bits (62), Expect = 1.1
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 53 HPHYRTQLCRAYHKAGYCSFGA 74
HP ++ +L + K +F A
Sbjct: 419 HPDFKDELKAEFEKRFNAAFSA 440
>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH
domain, member 1(nuclear), structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: g.66.1.1
Length = 50
Score = 25.9 bits (56), Expect = 1.2
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 47 LPKFTHHPHYRTQLCRAYHKAGYCSFGARCIFIHE 81
LP TH PH T +C + G+C G +C H+
Sbjct: 10 LPPATHRPH-PTSICDNFSAYGWCPLGPQCPQSHD 43
>3ut2_A Catalase-peroxidase 2; KATG, fungal, heme enzyme, oxidoreducta;
HET: TOX HEM; 1.55A {Magnaporthe oryzae 70-15}
Length = 764
Score = 27.0 bits (60), Expect = 2.0
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 81 EEREISPPDAKHNPRIIYVNPE 102
++ P A + +IYVNPE
Sbjct: 234 RADKLEKPLAATHMGLIYVNPE 255
>3qli_A Coenzyme A transferase; COEN transferase; 1.90A {Yersinia pestis}
PDB: 3qlk_A 3s8d_A
Length = 455
Score = 26.6 bits (59), Expect = 2.8
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 53 HPHYRTQLCRAYHKAGY 69
HP +R +L +A K
Sbjct: 438 HPDFRDELTQAAKKMHL 454
>1ub2_A Catalase-peroxidase; KATG, cyanobacteria, oxidoreductase; HET: HEM;
2.40A {Synechococcus elongatus} SCOP: a.93.1.3 a.93.1.3
Length = 720
Score = 26.6 bits (59), Expect = 3.2
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 80 HEEREISPPDAKHNPRIIYVNPE 102
+RE+ P A +IYVNPE
Sbjct: 203 TGDRELENPLAAVTMGLIYVNPE 225
>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 = 26.4 bits (57), Expect = 4.3
Identities = 22/154 (14%), Positives = 48/154 (31%), Gaps = 47/154 (30%)
Query: 1 MESLSQRTKAILLNPRYKT----------EFCRNIDELG------VCRYSLKCQFAHHPG 44
M +++ K L+ + K E ++ V Y++ F
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF--DSD 462
Query: 45 ELLPK-----FTHHPHYRTQLCRAYHKAG-----YCSFGARCIFIHEEREISPPDAKHNP 94
+L+P F H + + + + F F+ + K
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR----FL---------EQK--- 506
Query: 95 RIIYVNPEYEACCT-RDT-QHIRRYERHNATNQP 126
I + + + A + +T Q ++ Y+ + N P
Sbjct: 507 -IRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
>4acr_A Glypican-1; proteoglycan, glycosaminoglycans, heparan sulfate,
helical B glycoprotein, membrane protein; HET: NAG;
2.55A {Homo sapiens} PDB: 4ad7_A*
Length = 478
Score = 25.9 bits (56), Expect = 6.0
Identities = 12/72 (16%), Positives = 24/72 (33%), Gaps = 7/72 (9%)
Query: 48 PKFTHHPHYRTQLCRAYHKAGYCSFGAR-CIFIH---EEREISPPDAKHNP---RIIYVN 100
P+ HH H+ + + +R C + + S D + +
Sbjct: 2 PQLHHHHHHDLYENLYFQGKLDPASKSRSCGEVRQIYGAKGFSLSDVPQAEISGEHLRIC 61
Query: 101 PEYEACCTRDTQ 112
P+ CCT + +
Sbjct: 62 PQGYTCCTSEME 73
>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse,
cytoplastic, hydrolase; 2.00A {Homo sapiens}
Length = 223
Score = 25.5 bits (55), Expect = 6.1
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 45 ELLPKFTHHPHYRTQLCRAYHKAGYCSFGARCIFIHEER 83
L K +R Q C K C++G +C F H ER
Sbjct: 179 NFLRKKPLTLEHRKQPCPYGRK---CTYGIKCRFFHPER 214
>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform
1, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 98
Score = 24.5 bits (52), Expect = 7.8
Identities = 15/68 (22%), Positives = 21/68 (30%), Gaps = 5/68 (7%)
Query: 18 KTEFCRNIDELGVCRYSLKCQFAHHPGELLPKFTHHPHYRTQLCRAYHKAGYCSFGARCI 77
K E CR R C+FAH + +C Y K C +C
Sbjct: 19 KLEVCREFQRGNCARGETDCRFAHPADSTM---IDTSDNTVTVCMDYIKGR-CM-REKCK 73
Query: 78 FIHEEREI 85
+ H +
Sbjct: 74 YFHPPAHL 81
>2oas_A ATOA, 4-hydroxybutyrate coenzyme A transferase; alpha beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: COA; 2.40A {Shewanella oneidensis}
Length = 436
Score = 25.0 bits (55), Expect = 9.9
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 53 HPHYRTQLCRAYHKAGYCSFGAR 75
HP +R QL R + +
Sbjct: 409 HPDFREQLSRDAFEVWGLNLLEH 431
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
0.324 0.137 0.449
Gapped
Lambda K H
0.267 0.0577 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,158,934
Number of extensions: 121044
Number of successful extensions: 407
Number of sequences better than 10.0: 1
Number of HSP's gapped: 394
Number of HSP's successfully gapped: 32
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: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.1 bits)