RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy3458
(151 letters)
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
transcriptase) {Human immunodeficiency virus type 1
[TaxId: 11676]}
Length = 110
Score = 78.5 bits (193), Expect = 2e-20
Identities = 29/126 (23%), Positives = 46/126 (36%), Gaps = 24/126 (19%)
Query: 7 VVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKS 66
+ DGA R K+G AGY G TN E+Q AL+ +
Sbjct: 9 ETFYVDGAANRETKLGK-AGYVTNRGRQKV-----VTLTDTTNQKTELQAIYLALQDSG- 61
Query: 67 ANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKW 126
V I +DSQ+ + +Q + +S +++ Q+ + E V
Sbjct: 62 ---LEVNIVTDSQYALGIIQAQPDQSESELV--------------NQIIEQLIKKEKVYL 104
Query: 127 EFVPGH 132
+VP H
Sbjct: 105 AWVPAH 110
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
[TaxId: 274]}
Length = 147
Score = 73.4 bits (179), Expect = 5e-18
Identities = 38/145 (26%), Positives = 53/145 (36%), Gaps = 5/145 (3%)
Query: 5 NHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQA 64
V +FTDGAC N G A + L+ TNN E++ AI LK
Sbjct: 2 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGE---ACTTNNRMELKAAIEGLKAL 58
Query: 65 KSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESV 124
K V + +DS ++ K E + + +L E L V
Sbjct: 59 KEPC--EVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRV 116
Query: 125 KWEFVPGHGNSHGNMKADEMARDAA 149
++ FV GH N + D AR A
Sbjct: 117 RFHFVKGHTGHPENERVDREARRQA 141
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
562]}
Length = 152
Score = 71.6 bits (174), Expect = 3e-17
Identities = 47/144 (32%), Positives = 67/144 (46%), Gaps = 6/144 (4%)
Query: 6 HVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAK 65
V +FT G+ N G GYG R TNN E+ AI A
Sbjct: 2 QVEIFTAGSALGNPGPG---GYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVA--LEA 56
Query: 66 SANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVK 125
V + +DSQ++ + + +W+ W+ GW+ AD KPV+N + Q L + +K
Sbjct: 57 LKEHAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAAL-GQHQIK 115
Query: 126 WEFVPGHGNSHGNMKADEMARDAA 149
WE+V GH N +ADE+AR AA
Sbjct: 116 WEWVKGHAGHPENERADELARAAA 139
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus
halodurans [TaxId: 86665]}
Length = 132
Score = 66.1 bits (161), Expect = 3e-15
Identities = 22/136 (16%), Positives = 43/136 (31%), Gaps = 13/136 (9%)
Query: 9 VFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSAN 68
+ D N + Y + + + TNN E +H L+ K N
Sbjct: 7 LSVDVGSQGNPGIV---EYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERN 63
Query: 69 IDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQME--SVKW 126
I S+SQ IK V++ + + + + + + + +
Sbjct: 64 SR-KPIYSNSQTAIKWVKDK-------KAKSTLVRNEETALIWKLVDEAEEWLNTHTYET 115
Query: 127 EFVPGHGNSHGNMKAD 142
+ + G +KAD
Sbjct: 116 PILKWQTDKWGEIKAD 131
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
transcriptase) {Human immunodeficiency virus type 2
[TaxId: 11709]}
Length = 126
Score = 62.6 bits (151), Expect = 5e-14
Identities = 31/142 (21%), Positives = 53/142 (37%), Gaps = 24/142 (16%)
Query: 7 VVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKS 66
+TDG+C R K G AGY G++ K + TN AE++ AL +
Sbjct: 8 ETFYTDGSCNRQSKEGK-AGYVTDRGKDKV-----KKLEQTTNQQAELEAFAMALTDSGP 61
Query: 67 ANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKW 126
I DSQ+++ V + +S + + ++ E++
Sbjct: 62 KVN----IIVDSQYVMGIVASQPTESESKIVNQIIEEMIK--------------KEAIYV 103
Query: 127 EFVPGHGNSHGNMKADEMARDA 148
+VP H GN + D +
Sbjct: 104 AWVPAHKGIGGNQEVDHLVSQG 125
>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId:
10090]}
Length = 77
Score = 25.7 bits (56), Expect = 0.91
Identities = 8/46 (17%), Positives = 13/46 (28%), Gaps = 4/46 (8%)
Query: 107 NKEELQELLHQIGQMESVKWEFVPGHGNSHGN----MKADEMARDA 148
+E L+E Q G+++ P S G
Sbjct: 13 TQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 58
>d1vica_ c.68.1.13 (A:) CMP:2-keto-3-deoxy-manno-octonic acid
(CMP-KDO)synthetase {Haemophilus influenzae [TaxId:
727]}
Length = 255
Score = 27.0 bits (58), Expect = 0.92
Identities = 7/46 (15%), Positives = 17/46 (36%)
Query: 59 HALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKP 104
H ++A + RV I +D++ + + + + G
Sbjct: 31 HVFEKALQSGASRVIIATDNENVADVAKSFGAEVCMTSVNHNSGTE 76
>d1tkia_ d.144.1.7 (A:) Titin, kinase domain {Human (Homo sapiens)
[TaxId: 9606]}
Length = 321
Score = 25.8 bits (56), Expect = 2.6
Identities = 10/70 (14%), Positives = 24/70 (34%), Gaps = 7/70 (10%)
Query: 26 GYG-VYFGENNPLN--VAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRV--CIKSDSQF 80
+G V+ K + ++ I L A+ NI + +S +
Sbjct: 17 EFGIVHRCVETSSKKTYMAKFVKVKGTDQVLVKKEISILNIARHRNILHLHESFESMEEL 76
Query: 81 MIKCVQEWMP 90
++ + E++
Sbjct: 77 VM--IFEFIS 84
>d1pbua_ d.58.46.1 (A:) Elongation factor 1-gamma C-terminal domain
{Human (Homo sapiens) [TaxId: 9606]}
Length = 162
Score = 25.1 bits (55), Expect = 2.8
Identities = 17/70 (24%), Positives = 26/70 (37%), Gaps = 19/70 (27%)
Query: 48 TNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQN 107
TNN++ I G V + F + +W ++S WRK D
Sbjct: 90 TNNSSSISGVW-------------VFRGQELAFPLSP--DWQVDYESYTWRKLDP----G 130
Query: 108 KEELQELLHQ 117
EE Q L+ +
Sbjct: 131 SEETQTLVRE 140
>d2bgxa2 d.118.1.1 (A:7-179) Probable N-acetylmuramoyl-L-alanine
amidase YbjR, N-terminal domain {Escherichia coli
[TaxId: 562]}
Length = 173
Score = 24.0 bits (51), Expect = 7.5
Identities = 18/100 (18%), Positives = 26/100 (26%), Gaps = 1/100 (1%)
Query: 44 TGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQ-FMIKCVQEWMPKWQSNGWRKADG 102
N I + + A A I + I E +S G +
Sbjct: 56 VPPRYNGKPRIWQLVPEQELAWHAGISAWRGATRLNDTSIGIELENRGWQKSAGVKYFAP 115
Query: 103 KPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKAD 142
+ L L I +K E V H + K D
Sbjct: 116 FEPAQIQALIPLAKDIIARYHIKPENVVAHADIAPQRKDD 155
>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone
fold domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 74
Score = 23.1 bits (50), Expect = 8.1
Identities = 6/20 (30%), Positives = 13/20 (65%)
Query: 105 VQNKEELQELLHQIGQMESV 124
V K++LQ+L+ ++ E +
Sbjct: 3 VLTKKKLQDLVREVDPNEQL 22
>d2r8oa2 c.36.1.10 (A:2-332) Transketolase (TK), PP module
{Escherichia coli [TaxId: 562]}
Length = 331
Score = 24.4 bits (52), Expect = 8.3
Identities = 11/98 (11%), Positives = 29/98 (29%), Gaps = 15/98 (15%)
Query: 69 IDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQ---------IG 119
D I D + ++++ GW + ++ + + +
Sbjct: 181 YDDNGISIDGHVEGWFTDDTAMRFEAYGWHVIRDIDGHDAASIKRAVEEARAVTDKPSLL 240
Query: 120 QMESVKWEFVPGHGNSH----GNMKADEM--ARDAAGW 151
+++ P +H + E+ R+ GW
Sbjct: 241 MCKTIIGFGSPNKAGTHDSHGAPLGDAEIALTREQLGW 278
>d1iz0a2 c.2.1.1 (A:99-269) Quinone oxidoreductase {Thermus
thermophilus [TaxId: 274]}
Length = 171
Score = 23.9 bits (50), Expect = 8.8
Identities = 10/90 (11%), Positives = 26/90 (28%)
Query: 57 AIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLH 116
A ALK+A++ ++V +++ + + + A
Sbjct: 16 AYLALKRAQARPGEKVLVQAAAGALGTAAVQVARAMGLRVLAAASRPEKLALPLALGAEE 75
Query: 117 QIGQMESVKWEFVPGHGNSHGNMKADEMAR 146
E + G + ++ E+
Sbjct: 76 AATYAEVPERAKAWGGLDLVLEVRGKEVEE 105
>d1vh1a_ c.68.1.13 (A:) CMP:2-keto-3-deoxy-manno-octonic acid
(CMP-KDO)synthetase {Escherichia coli, KdsB [TaxId:
562]}
Length = 246
Score = 23.9 bits (50), Expect = 9.4
Identities = 7/44 (15%), Positives = 20/44 (45%)
Query: 59 HALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADG 102
H L++A+ + +R+ + +D + + + V+ + G
Sbjct: 31 HVLERARESGAERIIVATDHEDVARAVEAAGGEVCMTRADHQSG 74
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.315 0.131 0.414
Gapped
Lambda K H
0.267 0.0497 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 597,430
Number of extensions: 25466
Number of successful extensions: 78
Number of sequences better than 10.0: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 15
Length of query: 151
Length of database: 2,407,596
Length adjustment: 78
Effective length of query: 73
Effective length of database: 1,336,656
Effective search space: 97575888
Effective search space used: 97575888
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: 42 (22.0 bits)
S2: 49 (23.2 bits)