Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= Dr_sW_002_D03
(558 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P53033|RFC2_CHICK Activator 1 40 kDa subunit (Replicatio... 89 1e-17
sp|P35250|RFC2_HUMAN Activator 1 40 kDa subunit (Replicatio... 85 1e-16
sp|Q9WUK4|RFC2_MOUSE Activator 1 40 kDa subunit (Replicatio... 82 7e-16
sp|P53034|RFC2_DROME Activator 1 40 kDa subunit (Replicatio... 69 8e-12
sp|O94449|RFC4_SCHPO Probable activator 1 subunit 4 (Replic... 55 1e-07
sp|P40339|RFC4_YEAST Activator 1 37 kDa subunit (Replicatio... 50 4e-06
sp|Q58587|YB88_METJA Hypothetical protein MJ1188 32 0.81
sp|Q82W15|KSGA_NITEU Dimethyladenosine transferase (S-adeno... 29 6.9
sp|Q58817|RFCS_METJA Replication factor C small subunit (RF... 29 6.9
>sp|P53033|RFC2_CHICK Activator 1 40 kDa subunit (Replication factor C 40 kDa subunit)
(A1 40 kDa subunit) (RF-C 40 kDa subunit) (RFC40)
Length = 359
Score = 88.6 bits (218), Expect = 1e-17
Identities = 42/92 (45%), Positives = 65/92 (70%), Gaps = 1/92 (1%)
Frame = -3
Query: 460 GSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFKSWNHLVKCGYACEDIGGIIFRVT 281
G ++SENVFKVCDEPHPL +K M+++C+++ +EA+K HL + GY+ ED+ G IFRV
Sbjct: 249 GFINSENVFKVCDEPHPLLVKEMIQHCINANIDEAYKILAHLWRLGYSPEDVIGNIFRVC 308
Query: 280 KNHEGIPEFMKINFIK-V*FTNCDLYENATFL 188
K + +PE++K+ FIK + +T+ + E L
Sbjct: 309 KTFQ-MPEYLKLEFIKEIGYTHMKIAEGVNSL 339
Score = 40.8 bits (94), Expect = 0.002
Identities = 17/39 (43%), Positives = 28/39 (71%)
Frame = -1
Query: 210 FMKMRHF*EIGEVHMRIVDGLATHLQLGGLIARLCRASA 94
++K+ EIG HM+I +G+ + LQ+ GL+ARLC+ +A
Sbjct: 316 YLKLEFIKEIGYTHMKIAEGVNSLLQMAGLLARLCQKTA 354
>sp|P35250|RFC2_HUMAN Activator 1 40 kDa subunit (Replication factor C 40 kDa subunit)
(A1 40 kDa subunit) (RF-C 40 kDa subunit) (RFC40)
Length = 354
Score = 85.1 bits (209), Expect = 1e-16
Identities = 43/92 (46%), Positives = 63/92 (68%), Gaps = 1/92 (1%)
Frame = -3
Query: 460 GSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFKSWNHLVKCGYACEDIGGIIFRVT 281
G ++SENVFKVCDEPHPL +K M+++CV++ +EA+K HL GY+ EDI G IFRV
Sbjct: 244 GFINSENVFKVCDEPHPLLVKEMIQHCVNANIDEAYKILAHLWHLGYSPEDIIGNIFRVC 303
Query: 280 KNHEGIPEFMKINFIK-V*FTNCDLYENATFL 188
K + + E++K+ FIK + +T+ + E L
Sbjct: 304 KTFQ-MAEYLKLEFIKEIGYTHMKIAEGVNSL 334
Score = 40.0 bits (92), Expect = 0.004
Identities = 17/39 (43%), Positives = 28/39 (71%)
Frame = -1
Query: 219 IAIFMKMRHF*EIGEVHMRIVDGLATHLQLGGLIARLCR 103
+A ++K+ EIG HM+I +G+ + LQ+ GL+ARLC+
Sbjct: 308 MAEYLKLEFIKEIGYTHMKIAEGVNSLLQMAGLLARLCQ 346
>sp|Q9WUK4|RFC2_MOUSE Activator 1 40 kDa subunit (Replication factor C 40 kDa subunit)
(A1 40 kDa subunit) (RF-C 40 kDa subunit) (RFC40)
Length = 349
Score = 82.4 bits (202), Expect = 7e-16
Identities = 39/76 (51%), Positives = 54/76 (71%)
Frame = -3
Query: 460 GSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFKSWNHLVKCGYACEDIGGIIFRVT 281
G ++SENVFKVCDEPHPL +K M+++CV + +EA+K HL GY+ ED+ G IFRV
Sbjct: 239 GYINSENVFKVCDEPHPLLVKEMIQHCVDANIDEAYKILAHLWHLGYSPEDVIGNIFRVC 298
Query: 280 KNHEGIPEFMKINFIK 233
K + E++K+ FIK
Sbjct: 299 KTFP-MAEYLKLEFIK 313
Score = 39.7 bits (91), Expect = 0.005
Identities = 16/39 (41%), Positives = 28/39 (71%)
Frame = -1
Query: 219 IAIFMKMRHF*EIGEVHMRIVDGLATHLQLGGLIARLCR 103
+A ++K+ EIG HM++ +G+ + LQ+ GL+ARLC+
Sbjct: 303 MAEYLKLEFIKEIGYTHMKVAEGVNSLLQMAGLLARLCQ 341
>sp|P53034|RFC2_DROME Activator 1 40 kDa subunit (Replication factor C 40 kDa subunit)
(A1 40 kDa subunit) (RF-C 40 kDa subunit) (RFC40)
Length = 331
Score = 68.9 bits (167), Expect = 8e-12
Identities = 35/79 (44%), Positives = 51/79 (64%)
Frame = -3
Query: 469 QRSGSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFKSWNHLVKCGYACEDIGGIIF 290
Q G +++ENVFKVCDEPHP ++ M+ +C + ++A+K L K GY+ EDI IF
Sbjct: 221 QGFGDITAENVFKVCDEPHPKLLEEMIHHCAANDIHKAYKILAKLWKLGYSPEDIIANIF 280
Query: 289 RVTKNHEGIPEFMKINFIK 233
RV K I E +K++FI+
Sbjct: 281 RVCK-RINIDEHLKLDFIR 298
Score = 37.0 bits (84), Expect = 0.033
Identities = 17/37 (45%), Positives = 26/37 (70%)
Frame = -1
Query: 207 MKMRHF*EIGEVHMRIVDGLATHLQLGGLIARLCRAS 97
+K+ EIG HM+I+DG+ + LQL L+A+LC A+
Sbjct: 292 LKLDFIREIGITHMKIIDGINSLLQLTALLAKLCIAA 328
>sp|O94449|RFC4_SCHPO Probable activator 1 subunit 4 (Replication factor C subunit 4)
(Replication factor C4)
Length = 342
Score = 55.1 bits (131), Expect = 1e-07
Identities = 27/76 (35%), Positives = 41/76 (53%)
Frame = -3
Query: 460 GSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFKSWNHLVKCGYACEDIGGIIFRVT 281
G V+ ENVF+V D+P P+ I ML C + A + + G++ DI +FRV
Sbjct: 229 GLVNGENVFRVADQPSPVAIHAMLTACQSGNIDVALEKLQGIWDLGFSAVDIVTNMFRVV 288
Query: 280 KNHEGIPEFMKINFIK 233
K + IPEF ++ +K
Sbjct: 289 KTMDSIPEFSRLEMLK 304
Score = 37.7 bits (86), Expect = 0.019
Identities = 19/43 (44%), Positives = 28/43 (65%)
Frame = -1
Query: 210 FMKMRHF*EIGEVHMRIVDGLATHLQLGGLIARLCRASAVSPE 82
F ++ EIG+ HM I++G+ T LQL GL+ RL + S + PE
Sbjct: 297 FSRLEMLKEIGQTHMIILEGVQTLLQLSGLVCRLAK-SQMKPE 338
>sp|P40339|RFC4_YEAST Activator 1 37 kDa subunit (Replication factor C subunit 4)
(Replication factor C4)
Length = 323
Score = 50.1 bits (118), Expect = 4e-06
Identities = 30/77 (38%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Frame = -3
Query: 460 GSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFKSW-NHLVKCGYACEDIGGIIFRV 284
G V+++NVFK+ D PHPL +K ML + S ++ + L K GY+ DI FRV
Sbjct: 217 GLVNADNVFKIVDSPHPLIVKKML---LASNLEDSIQILRTDLWKKGYSSIDIVTTSFRV 273
Query: 283 TKNHEGIPEFMKINFIK 233
TKN + E +++ IK
Sbjct: 274 TKNLAQVKESVRLEMIK 290
Score = 33.9 bits (76), Expect = 0.28
Identities = 13/26 (50%), Positives = 21/26 (80%)
Frame = -1
Query: 186 EIGEVHMRIVDGLATHLQLGGLIARL 109
EIG HMRI++G+ T+LQL ++A++
Sbjct: 291 EIGLTHMRILEGVGTYLQLASMLAKI 316
>sp|Q58587|YB88_METJA Hypothetical protein MJ1188
Length = 270
Score = 32.3 bits (72), Expect = 0.81
Identities = 22/90 (24%), Positives = 39/90 (43%), Gaps = 6/90 (6%)
Frame = +2
Query: 203 FIKIAISKLDLYKINFHKFWNSLVILCHPKYNPTNILTSITTFY*MVPRFERLVEF*VHT 382
+++ A+ K L+ I KF+ +I HP PTN + + +R +E ++
Sbjct: 79 YVREAVIKETLWSIELAKFYRCKLITIHPGKRPTNRSPTDEEYEAFFKYLDRTLEVAINK 138
Query: 383 IFQHCFNE--ERV----WFIAHLEYVLTRY 454
C ER+ W +E++L RY
Sbjct: 139 NITICVENMPERINRIGWSPEEMEWILKRY 168
>sp|Q82W15|KSGA_NITEU Dimethyladenosine transferase (S-adenosylmethionine-6-N',
N'-adenosyl(rRNA) dimethyltransferase) (16S rRNA
dimethylase) (High level kasugamycin resistance protein
ksgA) (Kasugamycin dimethyltransferase)
Length = 257
Score = 29.3 bits (64), Expect = 6.9
Identities = 17/38 (44%), Positives = 22/38 (57%)
Frame = -1
Query: 510 NVLVNQSVIYLDCYRDLVQYLVRTYSRCAMNHTLSSLK 397
NVL VI +D RD+V YL RTY + H + +LK
Sbjct: 51 NVLDELQVIEID--RDIVDYLSRTYPGKLVIHNIDALK 86
>sp|Q58817|RFCS_METJA Replication factor C small subunit (RFC small subunit) (Clamp loader
small subunit) [Contains: Mja RFC-1 intein; Mja RFC-2
intein; Mja RFC-3 intein]
Length = 1847
Score = 29.3 bits (64), Expect = 6.9
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Frame = -3
Query: 463 SGSVSSENVFKVCDEPHPLFIKTMLENCVHSKFNEAFK-SWNHLVKCGYACEDIGGIIFR 287
S + E V+KV P +K M+E + KF EA + +V+ G + EDI +FR
Sbjct: 1740 SDVIDDEIVYKVSSRARPEEVKKMMELALDGKFMEARDLLYKLMVEWGMSGEDILNQMFR 1799
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 60,332,370
Number of Sequences: 369166
Number of extensions: 1176025
Number of successful extensions: 2461
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 2413
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 2455
length of database: 68,354,980
effective HSP length: 104
effective length of database: 49,142,540
effective search space used: 3980545740
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)