RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16775
(306 letters)
>2dmi_A Teashirt homolog 3; zinc finger protein 537, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 115
Score = 32.4 bits (73), Expect = 0.053
Identities = 16/105 (15%), Positives = 26/105 (24%), Gaps = 12/105 (11%)
Query: 132 VKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVC 191
K++ + C+ C + T L H M E + D
Sbjct: 7 GKLYGSIFTGASKFRCKDCSAAYDTLVELTVH-----------MNETGHYRDDNHETDNN 55
Query: 192 GRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENH 236
W + + A KC C +F + H
Sbjct: 56 NPKR-WSKPRKRSLLEMEGKEDAQKVLKCMYCGHSFESLQDLSVH 99
>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 = 29.7 bits (66), Expect = 0.38
Identities = 19/85 (22%), Positives = 23/85 (27%), Gaps = 6/85 (7%)
Query: 178 AANKGKDGGRCPVCGRVYQ--WKLLNHVARDH-NMSLKPAHLSYKCTVCTATFGMYRQFE 234
K + G C C HV +H N+ L SY C C Y
Sbjct: 11 QNKKVEGGYECKYCTFQTPDLNMFTFHVDSEHPNVVLNS---SYVCVECNFLTKRYDALS 67
Query: 235 NHVYSAHSVAPRRPATDKKPQGQST 259
H H T K Q+
Sbjct: 68 EHNLKYHPGEENFKLTMVKRNNQTI 92
Score = 26.3 bits (57), Expect = 5.9
Identities = 15/62 (24%), Positives = 18/62 (29%), Gaps = 4/62 (6%)
Query: 15 LLNHVARDH-NMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQ 73
HV +H N+ L SY C C Y H H T K Q
Sbjct: 34 FTFHVDSEHPNVVLNS---SYVCVECNFLTKRYDALSEHNLKYHPGEENFKLTMVKRNNQ 90
Query: 74 ST 75
+
Sbjct: 91 TI 92
>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 = 30.8 bits (69), Expect = 0.67
Identities = 28/136 (20%), Positives = 47/136 (34%), Gaps = 31/136 (22%)
Query: 95 PRPTASSSSSTSSSNNNKVKITP-------DLEQLRNHMQWIHKVKIH-P--KMIY---- 140
P + S S NN+ +P EQ++++ ++K H P K +
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY---VNKTNSHLPAGKQVEISLV 371
Query: 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGR--VYQWK 198
N + G + L +GL + + A G D R P R + +
Sbjct: 372 NGA---------KNLVVSGPPQSL---YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
Query: 199 LLNHVARDHNMSLKPA 214
L + H+ L PA
Sbjct: 420 FLPVASPFHSHLLVPA 435
>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 = 28.7 bits (63), Expect = 0.80
Identities = 15/108 (13%), Positives = 23/108 (21%), Gaps = 20/108 (18%)
Query: 135 HPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRV 194
+ N+ C+ C + + H + CP C
Sbjct: 7 GASPVENKEVYQCRLCNAKLSSLLEQGSHERLCR---------------NAAVCPYCSLR 51
Query: 195 YQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHS 242
+ L K C C TF H H+
Sbjct: 52 FFSPELKQEHESKCEYKK-----LTCLECMRTFKSSFSIWRHQVEVHN 94
>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 = 28.1 bits (63), Expect = 0.95
Identities = 17/70 (24%), Positives = 23/70 (32%), Gaps = 5/70 (7%)
Query: 187 RCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSVA 244
+C +CG + K L H R H + A L + C C F H +H
Sbjct: 9 QCEICGFTCRQKASLNWHQ-RKH--AETVAALRFPCEFCGKRFEKPDSVAAHRSKSHPAL 65
Query: 245 PRRPATDKKP 254
P P
Sbjct: 66 LLAPQESSGP 75
>2gqj_A Zinc finger protein KIAA1196; ZF-C2H2 like domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 98
Score = 28.4 bits (62), Expect = 0.97
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 9/51 (17%)
Query: 119 LEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHG 169
L L+ HM+ K + L CQ C+ +F + GL H + H
Sbjct: 38 LVGLKKHMEVCQK---------LQDALKCQHCRKQFKSKAGLNYHTMAEHS 79
>2k5c_A Uncharacterized protein PF0385; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; NMR {Pyrococcus furiosus}
Length = 95
Score = 28.1 bits (62), Expect = 1.2
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 11/52 (21%)
Query: 187 RCPVCGRVYQWKLL----------NHVARDHNMSLKPAH-LSYKCTVCTATF 227
+CP+CG +W+ L + +D L +KC VC F
Sbjct: 10 KCPICGSPLKWEELIEEMLIIENFEEIVKDRERFLAQVEEFVFKCPVCGEEF 61
>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 = 1.3
Identities = 9/61 (14%), Positives = 14/61 (22%), Gaps = 27/61 (44%)
Query: 187 RCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGM------------YRQFE 234
CP C + + C +C G+ +R F
Sbjct: 23 TCPECKVYPP-----KIVERF------SEGDVVCALC----GLVLSDKLVDTRSEWRTFS 67
Query: 235 N 235
N
Sbjct: 68 N 68
>2eps_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 = 54
Score = 26.8 bits (60), Expect = 1.4
Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 7/43 (16%)
Query: 187 RCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATF 227
C CG+ + L H+ + H +P +KC V +
Sbjct: 14 ICQSCGKGFSRPDHLNGHIKQVHTSE-RP----HKCQVWVSGP 51
>2wbt_A B-129; zinc finger; 2.70A {Sulfolobus virus 1}
Length = 129
Score = 27.6 bits (60), Expect = 2.5
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 10/59 (16%)
Query: 187 RCPVCGRVYQW--KLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSV 243
CP+C + L H ++ + C VC F +HV H++
Sbjct: 76 VCPLCLMPFSSSVSLKQH--------IRYTEHTKVCPVCKKEFTSTDSALDHVCKKHNI 126
>1srk_A Zinc finger protein ZFPM1; classical zinc finger, transcription;
NMR {Mus musculus} SCOP: g.37.1.1
Length = 35
Score = 25.9 bits (56), Expect = 2.6
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 144 PLNCQKCQFRFFTDQGLERHL 164
P C+ C F T RHL
Sbjct: 7 PFVCRICLSAFTTKANCARHL 27
>2gnr_A Conserved hypothetical protein; 13815350, structural genomics, PSI,
protein structure initiative; 1.80A {Sulfolobus
solfataricus P2} SCOP: b.40.4.15 PDB: 3irb_A
Length = 145
Score = 27.6 bits (61), Expect = 3.2
Identities = 8/44 (18%), Positives = 14/44 (31%), Gaps = 1/44 (2%)
Query: 153 RFFTDQGLERHLLGSHGLVTSSMQEAANKGK-DGGRCPVCGRVY 195
+ D + G + K G +C CGR++
Sbjct: 14 LRWYDVMEAERYEYTVGPAGEQFFNGLKQNKIIGSKCSKCGRIF 57
>2fdr_A Conserved hypothetical protein; SAD, structural genomics,
agrobacter tumefaciens, HAD-superfamily hydrolase; 2.00A
{Agrobacterium tumefaciens str} SCOP: c.108.1.6
Length = 229
Score = 28.0 bits (63), Expect = 3.3
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 4/30 (13%)
Query: 41 ATFGMYRQFENHVYSAHSVAPRRPATDKKP 70
G+ F H+YSA + R KP
Sbjct: 119 TKVGLKPYFAPHIYSAKDLGADRV----KP 144
Score = 28.0 bits (63), Expect = 3.3
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 4/30 (13%)
Query: 225 ATFGMYRQFENHVYSAHSVAPRRPATDKKP 254
G+ F H+YSA + R KP
Sbjct: 119 TKVGLKPYFAPHIYSAKDLGADRV----KP 144
>1vyh_C Platelet-activating factor acetylhydrolase IB alpha subunit;
lissencephaly, platelet activacting factor, regulator of
cytoplasmic dynein; 3.4A {Mus musculus} SCOP: b.69.4.1
Length = 410
Score = 27.9 bits (63), Expect = 4.5
Identities = 8/39 (20%), Positives = 12/39 (30%), Gaps = 4/39 (10%)
Query: 102 SSSTSSSNNNKVKI----TPDLEQLRNHMQWIHKVKIHP 136
+S K P+ L H + +V HP
Sbjct: 80 TSGGPLGQKRDPKEWIPRPPEKYALSGHRSPVTRVIFHP 118
>3iyl_X VP3; non-enveloped virus, membrane penetration protein, autocleav
myristol group, icosahedral virus; HET: MYR; 3.30A
{Grass carp reovirus} PDB: 3k1q_C 3k1q_B
Length = 1214
Score = 27.9 bits (61), Expect = 6.3
Identities = 10/31 (32%), Positives = 11/31 (35%)
Query: 29 PAHLSYKCTVCTATFGMYRQFENHVYSAHSV 59
SY C VC A F H+ S H
Sbjct: 112 VNPSSYVCNVCNARFSTMSALSEHLRSDHRD 142
Score = 27.9 bits (61), Expect = 6.3
Identities = 10/31 (32%), Positives = 11/31 (35%)
Query: 213 PAHLSYKCTVCTATFGMYRQFENHVYSAHSV 243
SY C VC A F H+ S H
Sbjct: 112 VNPSSYVCNVCNARFSTMSALSEHLRSDHRD 142
>1e7l_A GP49, recombination endonuclease VII; resolvase, holliday junction,
DNAse; HET: SO4; 1.32A {Bacteriophage T4} SCOP:
a.140.4.1 d.4.1.5 PDB: 2qnc_A* 1en7_A 1e7d_A 2qnf_A*
Length = 157
Score = 26.7 bits (58), Expect = 6.6
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 185 GGRCPVCGR-VYQWKLLNHVARDHNMSLKPAHL--SYKCTVCTATFGMYR 231
G+C +C R + NH+ DH ++ A C +C A G +
Sbjct: 20 NGKCLICQRELNPDVQANHLDHDHELNGPKAGKVRGLLCNLCDAAEGQMK 69
>2k0a_A PRE-mRNA-splicing factor RDS3; zinc finger, topological knot, mRNA
processing, nucleus, spliceosome, RNA binding protein;
NMR {Saccharomyces cerevisiae}
Length = 109
Score = 26.1 bits (57), Expect = 7.6
Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 4/47 (8%)
Query: 183 KDGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGM 229
K G+CP+C + K V + + + C +C G+
Sbjct: 27 KCDGKCPICDSYVRPKRKVRVCENCSFG----KQAKNCIICNLNVGV 69
>3gox_A Restriction endonuclease HPY99I; endonuclease-DNA complex,
restriction enzyme, HPY99I, pseudopalindrome; HET: 1PE;
1.50A {Helicobacter pylori} PDB: 3fc3_A*
Length = 200
Score = 26.8 bits (58), Expect = 7.9
Identities = 14/85 (16%), Positives = 26/85 (30%), Gaps = 9/85 (10%)
Query: 147 CQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWKLLNHVARD 206
C++C+ + M E A CP+C + + ++ D
Sbjct: 107 CRECRKN--------IDGVKLSSTEKKKMDEIAPPKGSVFTCPICEKRSIVGVTANLVHD 158
Query: 207 HNMSLKPAHLSYKCTVCTATFGMYR 231
HN + C C G ++
Sbjct: 159 HNHDTG-WGREWICDSCNTGLGRFK 182
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
0.316 0.129 0.397
Gapped
Lambda K H
0.267 0.0487 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,462,369
Number of extensions: 243296
Number of successful extensions: 817
Number of sequences better than 10.0: 1
Number of HSP's gapped: 812
Number of HSP's successfully gapped: 35
Length of query: 306
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 213
Effective length of database: 4,105,140
Effective search space: 874394820
Effective search space used: 874394820
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.3 bits)