RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 022427
(297 letters)
>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Methanococcus jannaschii [TaxId: 2190]}
Length = 225
Score = 123 bits (308), Expect = 2e-34
Identities = 71/221 (32%), Positives = 103/221 (46%), Gaps = 17/221 (7%)
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 NMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTC 227
++ + GSGYP DP+T +L D+ P + R W TC
Sbjct: 175 KIYGDIGSGYPSDPKTIKFLEDYFKKHKKLPDIARTHWKTC 215
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Thermococcus kodakaraensis [TaxId: 311400]}
Length = 213
Score = 119 bits (298), Expect = 4e-33
Identities = 69/214 (32%), Positives = 105/214 (49%), Gaps = 17/214 (7%)
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 SGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTC 227
SGYP DP T+A+L ++ FP +VR W T
Sbjct: 168 SGYPSDPRTRAFLENYYREHGEFPPIVRKGWKTL 201
>d1uaxa_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Pyrococcus horikoshii [TaxId: 53953]}
Length = 211
Score = 112 bits (280), Expect = 2e-30
Identities = 65/214 (30%), Positives = 104/214 (48%), Gaps = 17/214 (7%)
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 SGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTC 227
SGYP DP TK WL ++ FP +VR +W T
Sbjct: 168 SGYPSDPRTKEWLEEYYKQYGDFPPIVRRTWETA 201
>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon
Archaeoglobus fulgidus [TaxId: 2234]}
Length = 200
Score = 95.3 bits (236), Expect = 3e-24
Identities = 61/210 (29%), Positives = 94/210 (44%), Gaps = 19/210 (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 GDPETKAWLTDHKHIIFGFPSLVRFSWGTC 227
DP T+ L + PS VR W T
Sbjct: 166 SDPRTREVLKEWIA-SGRIPSCVRMRWKTV 194
>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII)
{Thermotoga maritima [TaxId: 2336]}
Length = 221
Score = 91.6 bits (227), Expect = 1e-22
Identities = 49/245 (20%), Positives = 87/245 (35%), Gaps = 38/245 (15%)
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 YPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHF-KDIVEVLWESDEMDEDVSSRRSG 254
Y G + R S+ D++ +E + E+ R
Sbjct: 163 YATKEHLNEIRK------NGVLPIHRLSFEPVLELLTDDLLREFFEKGLISENRFERILN 216
Query: 255 KRQLK 259
+
Sbjct: 217 LLGAR 221
>d1vzya2 g.81.1.1 (A:234-290) HSP33, C-terminal domain {Bacillus
subtilis [TaxId: 1423]}
Length = 57
Score = 25.0 bits (55), Expect = 2.1
Identities = 6/32 (18%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 37 YCPCSYQQTLATLNFADSKTLKEEKREELFED 68
+CPCS ++ + L +++ +++ E+
Sbjct: 1 HCPCSKERFETAI-----LGLGKKEIQDMIEE 27
>d1xjha_ g.81.1.1 (A:) HSP33, C-terminal domain {Escherichia coli
[TaxId: 562]}
Length = 62
Score = 23.5 bits (51), Expect = 9.4
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
>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a
[TaxId: 10090]}
Length = 349
Score = 25.3 bits (54), Expect = 9.8
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 38 CPCSYQQTLATLNFAD 53
+Y +TL+TL +AD
Sbjct: 331 ADINYDETLSTLRYAD 346
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
0.317 0.134 0.401
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: 1,111,524
Number of extensions: 50744
Number of successful extensions: 106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 10
Length of query: 297
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 212
Effective length of database: 1,240,546
Effective search space: 262995752
Effective search space used: 262995752
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: 53 (24.9 bits)