RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy1176
(232 letters)
>d2apoa2 d.265.1.2 (A:17-246) Pseudouridine synthase II TruB
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 230
Score = 154 bits (389), Expect = 3e-47
Identities = 69/208 (33%), Positives = 102/208 (49%), Gaps = 13/208 (6%)
Query: 4 KLNVRTNHYTPLPFGKSPLQRTIQEYIRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGH 63
+L V+ T +G +P +R I++ I+ G V +DKP P+SHEV W+K+IL +K GH
Sbjct: 1 ELIVKEEVETNWDYGCNPYERKIEDLIKYGVVVVDKPRGPTSHEVSTWVKKILNLDKAGH 60
Query: 64 SGTLDPKTSGCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAKASKKKMMIKQGL 123
GTLDPK +G L V ++RAT+ + KEY+ + LH + I +
Sbjct: 61 GGTLDPKVTGVLPVALERATKTIPMWHIPPKEYVCLMHLHR--------DASEEDILRVF 112
Query: 124 LDKHGKPNENTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYC 183
+ G+ + P + K L D + +KCQ+GTY+R C
Sbjct: 113 KEFTGRIYQRPPLKAAVKRRLRIRKIH-----ELELLDKDGKDVLFRVKCQSGTYIRKLC 167
Query: 184 VHMGLVLGVGAQMIELRRNRSGIQSEED 211
+G LG A M ELRR +SG E+D
Sbjct: 168 EDIGEALGTSAHMQELRRTKSGCFEEKD 195
>d2ey4a2 d.265.1.2 (A:8-252) Pseudouridine synthase II TruB
{Archaeon Pyrococcus furiosus [TaxId: 2261]}
Length = 245
Score = 146 bits (370), Expect = 3e-44
Identities = 81/206 (39%), Positives = 112/206 (54%), Gaps = 13/206 (6%)
Query: 13 TPLPFGKSPLQRTIQEYIRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTS 72
T +G P +R I+ +I+ G +NLDKP P+SHEVVAWIK+IL EK GH GTLDPK S
Sbjct: 23 TNPDWGFPPEKRPIEMHIQFGVINLDKPPGPTSHEVVAWIKKILNLEKAGHGGTLDPKVS 82
Query: 73 GCLIVCIDRATRLVKSQQSAGKEYISIFKLHSAVENVAKASKKKMMIKQGLLDKHGKPNE 132
G L V +++ATR+V++ AGKEY+++ LH + I Q + + G+ +
Sbjct: 83 GVLPVALEKATRVVQALLPAGKEYVALMHLHG--------DVPEDKIIQVMKEFEGEIIQ 134
Query: 133 NTPASYLAELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHMGLVLGV 192
P + K + DV G +AGTY+R+ H+GL LGV
Sbjct: 135 RPPLRSAVKRRLRTRKVYYIEVLEIEGRDVLFRVG-----VEAGTYIRSLIHHIGLALGV 189
Query: 193 GAQMIELRRNRSGIQSEEDGLVTFRQ 218
GA M ELRR RSG E++ L+T
Sbjct: 190 GAHMSELRRTRSGPFKEDETLITLHD 215
>d1sgva2 d.265.1.2 (A:3-235) Pseudouridine synthase II TruB
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 233
Score = 123 bits (310), Expect = 1e-35
Identities = 49/205 (23%), Positives = 80/205 (39%), Gaps = 26/205 (12%)
Query: 33 GYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSA 92
G V +DKP+ +SH+VV +RI + GH+GTLDP +G L++ I+RAT+++ +A
Sbjct: 5 GIVVIDKPAGMTSHDVVGRCRRIFATRRVGHAGTLDPMATGVLVIGIERATKILGLLTAA 64
Query: 93 GKEYISIFKLHSAVENVAKASKKKM---------------------MIKQGLLDKHGKPN 131
K Y + +L + I+Q
Sbjct: 65 PKSYAATIRLGQTTSTEDAEGQVLQSVPAKHLTIEAIDAAMERLRGEIRQVPSSVSAIKV 124
Query: 132 ENTPASYLAELEAAPNKKPTYMKSN-----LISSDVTLSTGIIWLKCQAGTYVRTYCVHM 186
A LA + + ++ + L + + C +GTY+R +
Sbjct: 125 GGRRAYRLARQGRSVQLEARPIRIDRFELLAARRRDQLIDIDVEIDCSSGTYIRALARDL 184
Query: 187 GLVLGVGAQMIELRRNRSGIQSEED 211
G LGVG + LRR R G +
Sbjct: 185 GDALGVGGHVTALRRTRVGRFELDQ 209
>d1r3ea2 d.265.1.2 (A:10-237) Pseudouridine synthase II TruB
{Thermotoga maritima [TaxId: 2336]}
Length = 228
Score = 121 bits (303), Expect = 2e-34
Identities = 47/205 (22%), Positives = 80/205 (39%), Gaps = 21/205 (10%)
Query: 30 IRAGYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQ 89
++ G + KP P+SH+VV +++ L+ K GH GTLDP G LI+ +++ TR+++
Sbjct: 1 MKHGILVAYKPKGPTSHDVVDEVRKKLKTRKVGHGGTLDPFACGVLIIGVNQGTRILEFY 60
Query: 90 QSAGKEYISIFKLHSAVENVAKASKKKMM--------------------IKQGLLDKHGK 129
+ K Y +L E + Q K
Sbjct: 61 KDLKKVYWVKMRLGLITETFDITGEVVEERECNVTEEEIREAIFSFVGEYDQVPPAYSAK 120
Query: 130 PNENTPASYLA-ELEAAPNKKPTYMKSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHMGL 188
+ LA E + + ++ ++ GTY+R+ C+ +G
Sbjct: 121 KYKGERLYKLAREGKIINLPPKRVKIFKIWDVNIEGRDVSFRVEVSPGTYIRSLCMDIGY 180
Query: 189 VLGVGAQMIELRRNRSGIQSEEDGL 213
LG GA +EL R G + E+ L
Sbjct: 181 KLGCGATAVELVRESVGPHTIEESL 205
>d1k8wa5 d.265.1.2 (A:9-250) Pseudouridine synthase II TruB
{Escherichia coli [TaxId: 562]}
Length = 242
Score = 117 bits (294), Expect = 6e-33
Identities = 45/200 (22%), Positives = 73/200 (36%), Gaps = 21/200 (10%)
Query: 33 GYVNLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKTSGCLIVCIDRATRLVKSQQSA 92
G + LDKP SS++ + +KRI + GH+G LDP +G L +C+ AT+ + +
Sbjct: 5 GVLLLDKPQGMSSNDALQKVKRIYNANRAGHTGALDPLATGMLPICLGEATKFSQYLLDS 64
Query: 93 GKEYISIFKLHSAVENVAKASKKKM--------------------MIKQGLLDKHGKPNE 132
K Y I +L + + I+Q +
Sbjct: 65 DKRYRVIARLGQRTDTSDADGQIVEERPVTFSAEQLAAALDTFRGDIEQIPSMYSALKYQ 124
Query: 133 NTPASYLAELEAAPNKKPTYM-KSNLISSDVTLSTGIIWLKCQAGTYVRTYCVHMGLVLG 191
A ++ + L+ + + + C GTY+RT +G LG
Sbjct: 125 GKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHCSKGTYIRTIIDDLGEKLG 184
Query: 192 VGAQMIELRRNRSGIQSEED 211
GA +I LRR E
Sbjct: 185 CGAHVIYLRRLAVSKYPVER 204
>d1exta1 g.24.1.1 (A:13-71) Tumor necrosis factor (TNF) receptor
{Human (Homo sapiens) [TaxId: 9606]}
Length = 59
Score = 24.9 bits (54), Expect = 2.1
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 165 STGIIWLKCQAGTYVRTYC 183
+ I KC GTY+ C
Sbjct: 13 NNSICCTKCHKGTYLYNDC 31
>d1jmab1 g.24.1.1 (B:4-59) Cellular receptor HveA {Human (Homo
sapiens) [TaxId: 9606]}
Length = 56
Score = 24.5 bits (53), Expect = 2.8
Identities = 5/20 (25%), Positives = 6/20 (30%)
Query: 164 LSTGIIWLKCQAGTYVRTYC 183
KC G V+ C
Sbjct: 7 PVGSECCPKCSPGYRVKEAC 26
>d2heyr3 g.24.1.1 (R:29-82) Tumor necrosis factor receptor
superfamily member 4, OX40L receptor {Human (Homo
sapiens) [TaxId: 9606]}
Length = 54
Score = 24.0 bits (52), Expect = 3.8
Identities = 4/20 (20%), Positives = 8/20 (40%)
Query: 164 LSTGIIWLKCQAGTYVRTYC 183
S +C+ G + + C
Sbjct: 9 PSNDRCCHECRPGNGMVSRC 28
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
0.318 0.132 0.395
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 841,289
Number of extensions: 36659
Number of successful extensions: 81
Number of sequences better than 10.0: 1
Number of HSP's gapped: 77
Number of HSP's successfully gapped: 14
Length of query: 232
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 150
Effective length of database: 1,281,736
Effective search space: 192260400
Effective search space used: 192260400
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: 51 (23.7 bits)