RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 009707
(528 letters)
>d1sgva2 d.265.1.2 (A:3-235) Pseudouridine synthase II TruB
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 233
Score = 206 bits (525), Expect = 4e-64
Identities = 93/213 (43%), Positives = 128/213 (60%), Gaps = 2/213 (0%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
V+++KP G TS V G+ RR+ ++VGHAGTLDPMATG+L++ + +ATK++ K
Sbjct: 7 VVIDKPAGMTSHDVVGRCRRIFATRRVGHAGTLDPMATGVLVIGIERATKILGLLTAAPK 66
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y+ RLG+ TST DA+ V+Q P +H+ E I A RGEI QVP SAIKVGG
Sbjct: 67 SYAATIRLGQTTSTEDAEGQVLQSVPAKHLTIEAIDAAMERLRGEIRQVPSSVSAIKVGG 126
Query: 432 EKMYDKARRGESIELS--PRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGK 489
+ Y AR+G S++L P RI F+ R + ++ + CS GTYIR+L D G
Sbjct: 127 RRAYRLARQGRSVQLEARPIRIDRFELLAARRRDQLIDIDVEIDCSSGTYIRALARDLGD 186
Query: 490 ALGSCAHLTALRRDSIGQYSADDAWEFKELEEA 522
ALG H+TALRR +G++ D A +L E
Sbjct: 187 ALGVGGHVTALRRTRVGRFELDQARSLDDLAER 219
>d1k8wa5 d.265.1.2 (A:9-250) Pseudouridine synthase II TruB
{Escherichia coli [TaxId: 562]}
Length = 242
Score = 189 bits (480), Expect = 3e-57
Identities = 74/212 (34%), Positives = 119/212 (56%), Gaps = 3/212 (1%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
+L++KP+G +S K++R+ + GH G LDP+ATG+L +C+G+ATK K
Sbjct: 7 LLLDKPQGMSSNDALQKVKRIYNANRAGHTGALDPLATGMLPICLGEATKFSQYLLDSDK 66
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y + RLG+ T T DAD +++ P E + A +FRG+I Q+P M+SA+K G
Sbjct: 67 RYRVIARLGQRTDTSDADGQIVEERPV-TFSAEQLAAALDTFRGDIEQIPSMYSALKYQG 125
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
+K+Y+ AR+G + R I +++ + L + CSKGTYIR++ D G+ L
Sbjct: 126 KKLYEYARQGIEVPREARP--ITVYELLFIRHEGNELELEIHCSKGTYIRTIIDDLGEKL 183
Query: 492 GSCAHLTALRRDSIGQYSADDAWEFKELEEAI 523
G AH+ LRR ++ +Y + + L E +
Sbjct: 184 GCGAHVIYLRRLAVSKYPVERMVTLEHLRELV 215
>d1r3ea2 d.265.1.2 (A:10-237) Pseudouridine synthase II TruB
{Thermotoga maritima [TaxId: 2336]}
Length = 228
Score = 177 bits (450), Expect = 5e-53
Identities = 84/216 (38%), Positives = 124/216 (57%), Gaps = 3/216 (1%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
++ KPKG TS V ++R+ +K +KVGH GTLDP A G+LI+ V + T++++ Y+ + K
Sbjct: 6 LVAYKPKGPTSHDVVDEVRKKLKTRKVGHGGTLDPFACGVLIIGVNQGTRILEFYKDLKK 65
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y RLG T T+D V++ ++ +E+IR+A SF GE QVPP +SA K G
Sbjct: 66 VYWVKMRLGLITETFDITGEVVEEREC-NVTEEEIREAIFSFVGEYDQVPPAYSAKKYKG 124
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
E++Y AR G+ I L P+R+ IF+ + FRV S GTYIRSLC D G L
Sbjct: 125 ERLYKLAREGKIINLPPKRVKIFKIWDVNIEGRDVS--FRVEVSPGTYIRSLCMDIGYKL 182
Query: 492 GSCAHLTALRRDSIGQYSADDAWEFKELEEAITKNY 527
G A L R+S+G ++ +++ E +N
Sbjct: 183 GCGATAVELVRESVGPHTIEESLNVFEAAPEEIENR 218
>d2ey4a2 d.265.1.2 (A:8-252) Pseudouridine synthase II TruB
{Archaeon Pyrococcus furiosus [TaxId: 2261]}
Length = 245
Score = 156 bits (396), Expect = 5e-45
Identities = 58/212 (27%), Positives = 95/212 (44%), Gaps = 38/212 (17%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
+ ++KP G TS V +++++ ++K GH GTLDP +G+L V + KAT++V K
Sbjct: 45 INLDKPPGPTSHEVVAWIKKILNLEKAGHGGTLDPKVSGVLPVALEKATRVVQALLPAGK 104
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y + L + ++ I + F GEI Q PP+ SA+K
Sbjct: 105 EYVALMHL------------------HGDVPEDKIIQVMKEFEGEIIQRPPLRSAVKRRL 146
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
R ++ ++ + ++++FRV GTYIRSL G AL
Sbjct: 147 -----------------RTRKVYYIEVLE--IEGRDVLFRVGVEAGTYIRSLIHHIGLAL 187
Query: 492 GSCAHLTALRRDSIGQYSADDA-WEFKELEEA 522
G AH++ LRR G + D+ +L +
Sbjct: 188 GVGAHMSELRRTRSGPFKEDETLITLHDLVDY 219
>d2apoa2 d.265.1.2 (A:17-246) Pseudouridine synthase II TruB
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 230
Score = 153 bits (387), Expect = 6e-44
Identities = 65/213 (30%), Positives = 100/213 (46%), Gaps = 37/213 (17%)
Query: 312 VLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIK 371
V+V+KP+G TS V +++++ + K GH GTLDP TG+L V + +ATK + + K
Sbjct: 32 VVVDKPRGPTSHEVSTWVKKILNLDKAGHGGTLDPKVTGVLPVALERATKTIPMWHIPPK 91
Query: 372 GYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVGG 431
Y + L +EDI + F G I+Q PP+ +A+K
Sbjct: 92 EYVCLMHL------------------HRDASEEDILRVFKEFTGRIYQRPPLKAAVKRRL 133
Query: 432 EKMYDKARRGESIELSPRRISIFQFDIERSLEDRQNLIFRVTCSKGTYIRSLCADFGKAL 491
++E +D ++++FRV C GTYIR LC D G+AL
Sbjct: 134 RIRK-------------------IHELELLDKDGKDVLFRVKCQSGTYIRKLCEDIGEAL 174
Query: 492 GSCAHLTALRRDSIGQYSADDAWEFKELEEAIT 524
G+ AH+ LRR G + DA ++L +A
Sbjct: 175 GTSAHMQELRRTKSGCFEEKDAVYLQDLLDAYV 207
>d1c3ya_ a.39.2.1 (A:) Thp12-carrier protein {Yellow mealworm
(Tenebrio molitor) [TaxId: 7067]}
Length = 108
Score = 28.1 bits (62), Expect = 1.1
Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 6/76 (7%)
Query: 207 DPSADQNVKK----MRKKAGGKSEEKKYNKEDDKRLVFFDDQEKKSEKDSILGEDVNVKG 262
+ D +K+ + K+AG ++ D F + + EK L VK
Sbjct: 32 EEVDDPKLKEHAFCILKRAGFIDASGEFQL--DHIKTKFKENSEHPEKVDDLVAKCAVKK 89
Query: 263 EVSEKKVEEFFKCLKK 278
+ + +FFKC+
Sbjct: 90 DTPQHSSADFFKCVHD 105
>d1nc7a_ b.123.1.1 (A:) Hypothetical protein TM1070 {Thermotoga
maritima [TaxId: 2336]}
Length = 116
Score = 25.4 bits (56), Expect = 7.6
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 154 PEVVEFNRLHKREEELYFYDTFAYPWE 180
P V++ +RL + T Y E
Sbjct: 89 PVVMQLSRLDVGKNHYTLMTTIGYWEE 115
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 0.134 0.394
Gapped
Lambda K H
0.267 0.0578 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,012,168
Number of extensions: 97941
Number of successful extensions: 233
Number of sequences better than 10.0: 1
Number of HSP's gapped: 223
Number of HSP's successfully gapped: 17
Length of query: 528
Length of database: 2,407,596
Length adjustment: 89
Effective length of query: 439
Effective length of database: 1,185,626
Effective search space: 520489814
Effective search space used: 520489814
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 (21.6 bits)
S2: 55 (25.3 bits)