RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy5651
(843 letters)
>d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress
(Arabidopsis thaliana) [TaxId: 3702]}
Length = 206
Score = 65.8 bits (160), Expect = 1e-12
Identities = 26/201 (12%), Positives = 58/201 (28%), Gaps = 33/201 (16%)
Query: 22 ITDVQEAQSAMATILNESK------VGLDLE---------GMDLGVDGKVSLVSLALQNG 66
+ + ++ I +S V D+ +S V L+ +N
Sbjct: 24 VGSSTDISPYLSLIREDSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRN- 82
Query: 67 KIFIFDVYSCPLIMFDGKLHEVLESDRILKVIHGAFGDAGGLLSNFNIRLKNVYDTQCAF 126
+ P L+ S + V D L N + ++N +
Sbjct: 83 LCLFLRLPK-PFHDNLKDLYRFFASKFVTFVGVQIEEDLDLLRENHGLVIRNAINVGKLA 141
Query: 127 TALQLSDPRLLSQDLVPHTIGLNDLLKFYKISPNNFKKNIQNLYRENPHIWKTRPLTSDM 186
+ LV +G +L S + + W+ + +
Sbjct: 142 AEAR--------GTLVLEFLGTRELAHRVLWSDLG-QLDSI---EAK---WE-KAGPEEQ 185
Query: 187 LLYAAADVESLLALFHRMTKE 207
L AA + ++ ++ +++ E
Sbjct: 186 LEAAAIEGWLIVNVWDQLSDE 206
>d2hbka2 c.55.3.5 (A:129-420) Exosome complex exonuclease RRP6
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 292
Score = 56.7 bits (136), Expect = 3e-09
Identities = 43/196 (21%), Positives = 79/196 (40%), Gaps = 25/196 (12%)
Query: 21 LITDVQEAQSAMATILNESKVGLDLEGMDLGV-DGKVSLVSLALQNGKIFIFDVYSCPLI 79
+ E +S + + N ++ +DLE D G V L+ ++ + ++ D
Sbjct: 87 WVDTSTELESMLEDLKNTKEIAVDLEHHDYRSYYGIVCLMQISTRER-DYLVDTLKLR-- 143
Query: 80 MFDGKLHEVLESDRILKVIHGAFGDAGGLLSNFNIRLKNVYDTQCAFTALQLSDPRLLSQ 139
L+EV + I+KV HGAF D L + + + ++DT A A+
Sbjct: 144 ENLHILNEVFTNPSIVKVFHGAFMDIIWLQRDLGLYVVGLFDTYHASKAIG--------- 194
Query: 140 DLVPHTIGLNDLLKFYKISPNNFKKNIQNLYRENPHIWKTRPLTSDMLLYAAADVESLLA 199
L LL+ + N + + W+ RPL+ M A AD LL
Sbjct: 195 ---LPRHSLAYLLENFA--------NFKTSKKYQLADWRIRPLSKPMTAAARADTHFLLN 243
Query: 200 LFHRMTKEYALKQNRL 215
++ ++ + ++ N+L
Sbjct: 244 IYDQLRNK-LIESNKL 258
>d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain
{Escherichia coli [TaxId: 562]}
Length = 193
Score = 45.3 bits (106), Expect = 8e-06
Identities = 35/195 (17%), Positives = 56/195 (28%), Gaps = 23/195 (11%)
Query: 21 LITDVQEAQSAMATILNESKVGLDLEGMDLGVDGKVSLVSLALQNGKIFIFDVYSCPLIM 80
+IT S + + LD E + + L + + +
Sbjct: 5 MITTDDALASLCEAVRAFPAIALDTEFVRT--RTYYPQLGLIQLFDGEHLALIDPLGITD 62
Query: 81 FDGKLHEVLESDRILKVIHGAFGDAGGLLSNFNIRLKNVYDTQCAFTALQLSDPRLLSQD 140
+ L +L I K +H D L+ F + + DTQ
Sbjct: 63 WS-PLKAILRDPSITKFLHAGSEDLEVFLNVFGELPQPLIDTQI---------------- 105
Query: 141 LVPHTIGLNDLLKFYKISPNNFKKNIQNLYRENPHIWKTRPLTSDMLLYAAADVESLLAL 200
+ + S + E+ W RPLT YAAADV LL +
Sbjct: 106 ---LAAFCGRPMSWGFASMVEEYSGVTLDKSESRTDWLARPLTERQCEYAAADVWYLLPI 162
Query: 201 FHRMTKEYALKQNRL 215
++ E L
Sbjct: 163 TAKLMVE-TEASGWL 176
>d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA
polymerase {Escherichia coli [TaxId: 562]}
Length = 195
Score = 39.6 bits (91), Expect = 5e-04
Identities = 31/196 (15%), Positives = 56/196 (28%), Gaps = 21/196 (10%)
Query: 21 LITDVQEAQSAMATILNESKVGLDLEGMDLGV-DGKVSLVSLALQNGKIFIFDVYSCPLI 79
I D + ++ +A + D E L + +S A++ G V L
Sbjct: 9 TILDEETLKAWIAKLEKAPVFAFDTETDSLDNISANLVGLSFAIEPGVAAYIPVAHDYLD 68
Query: 80 MFDG--------KLHEVLESDRILKVIHGAFGDAGGLLSNFNIRLKNVYDTQCAFTALQL 131
D L +LE ++ LKV D G L + +DT L
Sbjct: 69 APDQISRERALELLKPLLEDEKALKVGQNLKYDRGILANYGIELRGIAFDTMLESYILN- 127
Query: 132 SDPRLLSQDLVPHTIGLNDLLKFYKISPNNFKKNIQNLYRENPHIWKTRPLTSDMLLYAA 191
+ + + + + + + + YAA
Sbjct: 128 -----------SVAGRHDMDSLAERWLKHKTITFEEIAGKGKNQLTFNQIALEEAGRYAA 176
Query: 192 ADVESLLALFHRMTKE 207
D + L L +M +
Sbjct: 177 EDADVTLQLHLKMWPD 192
>d2veaa1 d.110.2.1 (A:131-326) Phytochrome-like protein Cph1
{Synechocystis sp. pcc 6803 [TaxId: 1148]}
Length = 196
Score = 28.8 bits (64), Expect = 1.8
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 347 QIHISMSVVGHLRDHLNALLTAHQNTPRH 375
+ S+++ HL L+ H TP+
Sbjct: 138 GVGASLTISLIKDGHLWGLIACHHQTPKV 166
>d2oola1 d.110.2.1 (A:140-333) Sensor protein PhyB2
{Rhodopseudomonas palustris [TaxId: 1076]}
Length = 194
Score = 28.8 bits (64), Expect = 2.0
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 347 QIHISMSVVGHLRDHLNALLTAHQNTPRH 375
+H +MS+ + L +++ H TPR
Sbjct: 138 GMHAAMSISIVRDNRLWGMISCHNLTPRF 166
>d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus
[TaxId: 274]}
Length = 1504
Score = 28.2 bits (62), Expect = 5.3
Identities = 27/246 (10%), Positives = 91/246 (36%), Gaps = 24/246 (9%)
Query: 479 MRISEISTPSKVLTNIGIKSNIKTDTNIRTNNINVKMKTNIIIKMKRRINIITTMKRSNI 538
+R ++ ++ L ++ + ++ TN I+V + + + KR++I
Sbjct: 1085 LRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPL-----FQPDEVTRSLRLRKRADI 1139
Query: 539 IKMKRRTNIITKMKMSNIKMKINTIKMKMKTNNITKAKMKTSIKMKINIITKMKMEIIAK 598
+ ++++ ++++ + + KA I+ ++ + + + +
Sbjct: 1140 EAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLLIKAAEAGEIQ-EVPVRSPLTCQTRYG 1198
Query: 599 MKMNNTKMKISVTTKMESVKMVNI---------FTRMEMKTNIIARVKRMTNVKMKINII 649
+ +S+ + + V I T++ M+T V ++ + +
Sbjct: 1199 VCQKCYGYDLSMARPVSIGEAVGIVAAQSIGEPGTQLTMRTFHTGGVAGAADITQGLPRV 1258
Query: 650 IKIMMAKTSIK--MTTNII-------IKMKISMIMKAKIHINKVKVNITKMIMTKIITKV 700
I++ A+ + + I + K+S+ ++++ + K+ ++ K V
Sbjct: 1259 IELFEARRPKAKAVISEIDGVVRIEETEEKLSVFVESEGFSKEYKLPKEARLLVKDGDYV 1318
Query: 701 KMKTSI 706
+ +
Sbjct: 1319 EAGQPL 1324
>d2o9ca1 d.110.2.1 (A:135-321) Bacteriophytochrome BphP {Deinococcus
radiodurans [TaxId: 1299]}
Length = 187
Score = 27.3 bits (60), Expect = 6.9
Identities = 9/64 (14%), Positives = 17/64 (26%), Gaps = 2/64 (3%)
Query: 312 KMYQCFNKKFYFDIKQSKSTKFIKISEVNMDQTRNQIHISMSVVGHLRDHLNALLTAHQN 371
+ + + + +S+SVV + L L+ H
Sbjct: 101 DPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVV--VGGQLWGLIACHHQ 158
Query: 372 TPRH 375
TP
Sbjct: 159 TPYV 162
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
0.321 0.133 0.370
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,940,360
Number of extensions: 142504
Number of successful extensions: 499
Number of sequences better than 10.0: 1
Number of HSP's gapped: 495
Number of HSP's successfully gapped: 53
Length of query: 843
Length of database: 2,407,596
Length adjustment: 93
Effective length of query: 750
Effective length of database: 1,130,706
Effective search space: 848029500
Effective search space used: 848029500
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 (21.9 bits)
S2: 57 (25.7 bits)