RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy1555
(271 letters)
>gi|150401221|ref|YP_001324987.1|(10-76:78) DNA-directed RNA
polymerase subunit H [Methanococcus aeolicus Nankai-3]
gi|166229324|sp|A6UV53.1|RPOH_META3 RecName:
Full=DNA-directed RNA polymerase subunit H
gi|150013924|gb|ABR56375.1| RNA polymerase Rpb5
[Methanococcus aeolicus Nankai-3] E=2e-17 s/c=1.37
id=62% cov=100%
Length = 67
Score = 28.5 bits (64), Expect = 0.14
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 9/76 (11%)
Query: 47 PEYKFLTTEEVEKLKEEAYNRAIKKMQMPPIVPARDDSKLEVLSNDKELLGHDVCKYVFT 106
P+++ ++ EEV+KL + Y+ IK Q+P I D +E + DV K
Sbjct: 1 PKHEVISKEEVQKLLAK-YD--IKIQQLPKIF--DIDPVIEEI----GAKPGDVVKISRD 51
Query: 107 DITFGISDAKRIIVVR 122
T G + R++V +
Sbjct: 52 SPTSGHATYYRLVVKK 67
>d1p9ya_ d.241.2.1 (A:) Trigger factor ribosome-binding domain
{Escherichia coli [TaxId: 562]}
Length = 117
Score = 27.2 bits (60), Expect = 1.1
Identities = 12/75 (16%), Positives = 26/75 (34%), Gaps = 2/75 (2%)
Query: 15 FKPEVQELLLKLTRIDLSKVFRKQKYGQELKPPEY-KFLTTEEVEKLKEEAYNRAIKKMQ 73
+ V+ L+ + + RK K + Y + + + L + AI K +
Sbjct: 24 IETAVKSELVNVAKKVRIDGLRKGKVPMNIVAQRYGASVRQDVLGDLMSRNFIDAIIKEK 83
Query: 74 MPPIV-PARDDSKLE 87
+ P P + +
Sbjct: 84 INPAGAPTYVPGEYK 98
>d2q37a1 a.288.1.1 (A:6-160) OHCU decarboxylase, UraD {Thale cress
(Arabidopsis thaliana) [TaxId: 3702]}
Length = 155
Score = 27.1 bits (60), Expect = 1.4
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 5/50 (10%)
Query: 52 LTTEEVEKLKE--EAYNRAIKKMQMPPIVPARDDSKLEVLSNDKELLGHD 99
+ +++L E Y KK I+ A + E+L KE +
Sbjct: 83 TSASALQELAEWNVLYK---KKFGFIFIICASGRTHAEMLHALKERYENR 129
>d1vioa1 d.265.1.3 (A:58-231) Ribosomal small subunit pseudouridine
516 synthase RsuA {Haemophilus influenzae [TaxId: 727]}
Length = 174
Score = 26.0 bits (56), Expect = 3.5
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 24 LKLTRIDLSKVFRKQKYGQELKPPEYKFLTTEEVEKL 60
+ L R + V + L+ EY+ LT E+EKL
Sbjct: 141 VGLHRWKIGDV----VLDESLEEGEYRPLTQSEIEKL 173
>d1dzfa2 d.78.1.1 (A:144-215) Eukaryotic RPB5 C-terminal domain
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 72
Score = 24.7 bits (54), Expect = 3.5
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 9/74 (12%)
Query: 47 PEYKFLTTEEVEKLKEEAYNRAIKKMQMPPIVPARDDSKLEVLSNDKELLGHDVCKYVFT 106
P++ L+++E +L + Y +K+ Q+P I R D L L +V K +
Sbjct: 8 PKHIRLSSDEKRELLKR-YR--LKESQLPRIQ--RADPVALYL----GLKRGEVVKIIRK 58
Query: 107 DITFGISDAKRIIV 120
T G + RI +
Sbjct: 59 SETSGRYASYRICM 72
>d1p2za2 b.121.2.2 (A:651-962) Adenovirus hexon {Human adenovirus
type 2 [TaxId: 10515]}
Length = 312
Score = 25.9 bits (57), Expect = 5.5
Identities = 8/23 (34%), Positives = 9/23 (39%)
Query: 184 PDDQLYHNILNTTFTHIHENNGF 206
DD Y H H N+GF
Sbjct: 171 VDDTKYKEYQQVGILHQHNNSGF 193
>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I,
N-terminal DNA-binding fragment {Human (Homo sapiens)
[TaxId: 9606]}
Length = 230
Score = 25.8 bits (57), Expect = 5.6
Identities = 11/50 (22%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 14 FFKPEVQELLLKLTRIDLSKVFRKQKYGQELKPPEYKFLTTEEVEKLKEE 63
E + ++ L++ D +++ +Y + K ++ EE K+KEE
Sbjct: 85 EMTNEEKNIITNLSKCDFTQMS---QYFKAQTE-ARKQMSKEEKLKIKEE 130
>d1fh9a_ c.1.8.3 (A:) Xylanase A, catalytic core {Cellulomonas fimi
[TaxId: 1708]}
Length = 312
Score = 25.9 bits (56), Expect = 5.8
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 169 KEYVFILDRAATQYEPDDQLYHNILNTTFTHIHENNGFDHLRSTRHFGCLVFFLA 223
Y+ RAA +P +L N N + N+ +D ++ + G + +
Sbjct: 147 NGYIETAFRAARAADPTAKLCINDYNVEGINAKSNSLYDLVKDFKARGVPLDCVG 201
>d1q8ka2 d.58.51.1 (A:186-302) eIF-2-alpha, C-terminal domain {Human
(Homo sapiens) [TaxId: 9606]}
Length = 117
Score = 24.7 bits (54), Expect = 8.4
Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 14/65 (21%)
Query: 44 LKPPEYKFLTTEEVEKLKEEAYNRAIKKM-------------QMPP-IVPARDDSKLEVL 89
+ PP Y TT ++A+ + QM P +V D+++L
Sbjct: 44 IAPPRYVMTTTTLERTEGLSVLSQAMAVIKEKIEEKRGVFNVQMEPKVVTDTDETELARQ 103
Query: 90 SNDKE 94
E
Sbjct: 104 MERLE 108
>d1r89a3 d.58.16.2 (A:258-437) tRNA nucleotidyltransferase,
C-terminal domain {Archaeon Archaeoglobus fulgidus
[TaxId: 2234]}
Length = 180
Score = 25.1 bits (55), Expect = 8.8
Identities = 14/61 (22%), Positives = 21/61 (34%), Gaps = 2/61 (3%)
Query: 153 HPDMFEEENLKALCDRKEYVFILDRAATQYEPDDQLYHNI--LNTTFTHIHENNGFDHLR 210
HP E E L+ + + + + DD LY + + E F LR
Sbjct: 1 HPLEIEPERLRKIVEERGTAVFAVKFRKPDIVDDNLYPQLERASRKIFEFLERENFMPLR 60
Query: 211 S 211
S
Sbjct: 61 S 61
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
0.320 0.137 0.400
Gapped
Lambda K H
0.267 0.0651 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,038,681
Number of extensions: 50695
Number of successful extensions: 159
Number of sequences better than 10.0: 1
Number of HSP's gapped: 158
Number of HSP's successfully gapped: 15
Length of query: 271
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 187
Effective length of database: 1,254,276
Effective search space: 234549612
Effective search space used: 234549612
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 (21.8 bits)
S2: 52 (24.0 bits)