RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 027718
(219 letters)
>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Methanococcus jannaschii [TaxId: 2190]}
Length = 225
Score = 90.7 bits (224), Expect = 4e-23
Identities = 62/199 (31%), Positives = 92/199 (46%), Gaps = 17/199 (8%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
I+GIDEAGRGPVLGPMV ++ L L DSK L + KR L + L+ V
Sbjct: 3 IIGIDEAGRGPVLGPMVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYLKKLLENLGYV 62
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGD---- 131
+ + +N N I +N + + LNI E+Y+D
Sbjct: 63 EKRILEAEEINQLMNSINLNDIEIN--AFSKVAKNLIEKLNIRDDEIEIYIDACSTNTKK 120
Query: 132 -----AEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAE 186
+K + + +R +IK + KAD+ YPVVS ASI+AK RD + + +
Sbjct: 121 FEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASIIAKAERDEIIDYY------K 174
Query: 187 NMHRNFGSGYPGGARCLKL 205
++ + GSGYP + +K
Sbjct: 175 KIYGDIGSGYPSDPKTIKF 193
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Thermococcus kodakaraensis [TaxId: 311400]}
Length = 213
Score = 89.4 bits (221), Expect = 9e-23
Identities = 61/205 (29%), Positives = 95/205 (46%), Gaps = 19/205 (9%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
I GIDEAGRGPV+GPMV + + L L DSK L ++RE+LF ++
Sbjct: 3 IAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEIL-GVLD 61
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEK 134
+ + + P + ++ ++ + ++ + +Y D D E+
Sbjct: 62 DYVILELPPDVIGSRE--------GTLNEFEVENFAKALNSLKVKPDVIYADAADVDEER 113
Query: 135 YQAKLSQRFPSIKFVVSK-KADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFG 193
+ +L +R VV+K KAD ++PVVS ASI+AKVTRDR + E + G
Sbjct: 114 FARELGERLNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVEKLKEE------YGEIG 167
Query: 194 SGYPGGARCLKLSIVCNNFQSFGGL 218
SGYP R + N ++ G
Sbjct: 168 SGYPSDPRTRA--FLENYYREHGEF 190
>d1uaxa_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Pyrococcus horikoshii [TaxId: 53953]}
Length = 211
Score = 83.0 bits (204), Expect = 2e-20
Identities = 54/189 (28%), Positives = 89/189 (47%), Gaps = 17/189 (8%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
+ G+DEAGRGPV+GP+V G + L + DSK L +RE+ ++
Sbjct: 3 VAGVDEAGRGPVIGPLVIGVAVIDEKNIERLRDIGVKDSKQLTPGQREK-LFSKLIDILD 61
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 135
+ V ++ P+E+ + + N++ + + ++ I ++Y+D+ K
Sbjct: 62 DYYVLLVTPKEIDERHHSMNELEAEKFVV--------ALNSLRIKPQKIYVDSADVDPKR 113
Query: 136 QAKLSQRFPSIKFVVS--KKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFG 193
A L + + V KAD+ Y +VS ASI+AKVTRDR + + + FG
Sbjct: 114 FASLIKAGLKYEATVIAEHKADAKYEIVSAASIIAKVTRDREIEKL------KQKYGEFG 167
Query: 194 SGYPGGARC 202
SGYP R
Sbjct: 168 SGYPSDPRT 176
>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Archaeoglobus fulgidus [TaxId: 2234]}
Length = 200
Score = 69.9 bits (170), Expect = 2e-15
Identities = 51/182 (28%), Positives = 82/182 (45%), Gaps = 18/182 (9%)
Query: 18 GIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGW 77
GIDEAG+G V+GP+V + C + L L DSK L + +REEL E+++
Sbjct: 4 GIDEAGKGCVIGPLVVAGVACS--DEDRLRKLGVKDSKKLSQGRREELAEEIRKICR--T 59
Query: 78 AVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQA 137
V + P L +M K + + + I + Y+D+ + +
Sbjct: 60 EVLKVSPENLDERMAAKTINEILKECYAEIILRLKP--------EIAYVDSPDVIPERLS 111
Query: 138 KLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYP 197
+ + ++ V KAD YP+V+ ASI+AKV R+R + + +FGSGY
Sbjct: 112 RELEEITGLRVVAEHKADEKYPLVAAASIIAKVEREREIERL------KEKFGDFGSGYA 165
Query: 198 GG 199
Sbjct: 166 SD 167
>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII)
{Thermotoga maritima [TaxId: 2336]}
Length = 221
Score = 68.9 bits (168), Expect = 5e-15
Identities = 42/182 (23%), Positives = 72/182 (39%), Gaps = 31/182 (17%)
Query: 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
+ G+DEAGRG + GP+V + + DSK L KRE L +++ +V
Sbjct: 14 VAGVDEAGRGCLAGPVVAAAVVLEKEIE------GINDSKQLSPAKRERLLDEIMEKAAV 67
Query: 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 135
G + + + N I + + + + + N+ + + V +D G
Sbjct: 68 GIGIASPEEID-----------LYN-IFNATKLAMNRALENLSVKPSFVLVDGKGI---- 111
Query: 136 QAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSG 195
S+ K D ++ ASIVAKV RDR + + + H++ G
Sbjct: 112 -------ELSVPGTCLVKGDQKSKLIGAASIVAKVFRDRLMSEFHRMYPQFSFHKH--KG 162
Query: 196 YP 197
Y
Sbjct: 163 YA 164
>d1vzya2 g.81.1.1 (A:234-290) HSP33, C-terminal domain {Bacillus
subtilis [TaxId: 1423]}
Length = 57
Score = 25.8 bits (57), Expect = 0.99
Identities = 6/32 (18%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 37 YCPCSYQQTLATLNFADSKTLKEEKREELFED 68
+CPCS ++ + L +++ +++ E+
Sbjct: 1 HCPCSKERFETAI-----LGLGKKEIQDMIEE 27
>d1jhga_ a.4.12.1 (A:) Trp repressor, TrpR {Escherichia coli [TaxId:
562]}
Length = 101
Score = 25.1 bits (55), Expect = 3.5
Identities = 13/78 (16%), Positives = 31/78 (39%), Gaps = 17/78 (21%)
Query: 54 SKTLKEEKREE---LFEDLKVNDSVGWAVDIID----PRELS--------AKMLNKNKIN 98
S + E++ +E + LK + +++ P E + L + +++
Sbjct: 1 SAAMAEQRHQEWLRFVDLLKNAYQNDLHLPLLNLMLTPDEREALGTRVRIIEELLRGEMS 60
Query: 99 LNEISHDSAIGL--ITRV 114
E+ ++ G+ ITR
Sbjct: 61 QRELKNELGAGIATITRG 78
>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a
[TaxId: 10090]}
Length = 349
Score = 25.7 bits (55), Expect = 4.6
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 38 CPCSYQQTLATLNFAD 53
+Y +TL+TL +AD
Sbjct: 331 ADINYDETLSTLRYAD 346
>d1xjha_ g.81.1.1 (A:) HSP33, C-terminal domain {Escherichia coli
[TaxId: 562]}
Length = 62
Score = 23.9 bits (52), Expect = 5.2
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 5/32 (15%)
Query: 37 YCPCSYQQTLATLNFADSKTLKEEKREELFED 68
C CS ++ L KTL +E+ + + +
Sbjct: 6 KCTCSRERCADAL-----KTLPDEEVDSILAE 32
>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional)
{Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId:
4932]}
Length = 342
Score = 25.7 bits (55), Expect = 5.2
Identities = 5/16 (31%), Positives = 7/16 (43%)
Query: 38 CPCSYQQTLATLNFAD 53
+TL +L FA
Sbjct: 319 SSSHINETLNSLRFAS 334
>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId:
10090]}
Length = 362
Score = 25.2 bits (54), Expect = 7.1
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 38 CPCSYQQTLATLNFAD 53
S + TL TL +AD
Sbjct: 341 GISSCEYTLNTLRYAD 356
>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional)
{Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Length = 368
Score = 25.3 bits (54), Expect = 7.6
Identities = 4/16 (25%), Positives = 9/16 (56%)
Query: 38 CPCSYQQTLATLNFAD 53
+Q+++ +L FA
Sbjct: 348 FQDCFQESVKSLRFAA 363
>d1bg2a_ c.37.1.9 (A:) Kinesin {Human (Homo sapiens) [TaxId: 9606]}
Length = 323
Score = 24.9 bits (53), Expect = 8.0
Identities = 4/16 (25%), Positives = 7/16 (43%)
Query: 38 CPCSYQQTLATLNFAD 53
+ +T +TL F
Sbjct: 303 SSYNESETKSTLLFGQ 318
>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}
Length = 354
Score = 24.9 bits (53), Expect = 9.4
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 38 CPCSYQQTLATLNFAD 53
+ +TL+TL F
Sbjct: 309 SSYNDAETLSTLRFGM 324
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
0.319 0.136 0.408
Gapped
Lambda K H
0.267 0.0433 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 785,798
Number of extensions: 33761
Number of successful extensions: 73
Number of sequences better than 10.0: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 16
Length of query: 219
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 137
Effective length of database: 1,281,736
Effective search space: 175597832
Effective search space used: 175597832
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 (21.7 bits)
S2: 51 (24.2 bits)