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_019_O21
(529 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P41848|SSRP_CAEEL Probable structure-specific recognitio... 38 0.017
sp|Q05153|SSRP_ARATH Structure-specific recognition protein... 37 0.038
sp|Q09390|HG12_CAEEL High mobility group protein 1.2 32 1.2
sp|Q24537|HMG2_DROME High mobility group protein DSP1 (Dors... 32 1.2
sp|P53297|PBP1_YEAST PAB1-binding protein 1 31 2.1
sp|P11633|NHP6B_YEAST Nonhistone chromosomal protein 6B 30 2.8
sp|P10103|HMG1_BOVIN High mobility group protein 1 (HMG-1) ... 30 3.6
sp|P09429|HMG1_HUMAN High mobility group protein 1 (HMG-1) ... 30 3.6
sp|P11632|NHP6A_YEAST Nonhistone chromosomal protein 6A 30 3.6
sp|P63159|HMG1_RAT High mobility group protein 1 (HMG-1) (H... 30 3.6
>sp|P41848|SSRP_CAEEL Probable structure-specific recognition protein 1 (SSRP1)
(Recombination signal sequence recognition protein)
Length = 697
Score = 37.7 bits (86), Expect = 0.017
Identities = 20/55 (36%), Positives = 33/55 (60%)
Frame = +3
Query: 3 SCTDKEKYEKKSEADKQRYEEQMSQFRAGQYVPPVKRPRADSNGSALIAGSSSTE 167
S DK+K+E+K+E DK RYE++M ++R +P + S S +G SS++
Sbjct: 596 SSDDKKKWEEKAEEDKSRYEKEMKEYRKNGPPSSSSKP-SSSKTSKKSSGPSSSK 649
>sp|Q05153|SSRP_ARATH Structure-specific recognition protein 1 homolog (HMG protein)
Length = 646
Score = 36.6 bits (83), Expect = 0.038
Identities = 17/43 (39%), Positives = 27/43 (62%)
Frame = +3
Query: 3 SCTDKEKYEKKSEADKQRYEEQMSQFRAGQYVPPVKRPRADSN 131
S DKE YE K++ DKQRY++++S ++ Q + +DSN
Sbjct: 604 SADDKEPYEAKAQVDKQRYKDEISDYKNPQPMNVDSGNDSDSN 646
>sp|Q09390|HG12_CAEEL High mobility group protein 1.2
Length = 235
Score = 31.6 bits (70), Expect = 1.2
Identities = 11/24 (45%), Positives = 19/24 (79%)
Frame = +3
Query: 15 KEKYEKKSEADKQRYEEQMSQFRA 86
K+ YE+K++ADK RY ++M ++A
Sbjct: 181 KDMYEQKAQADKDRYADEMRNYKA 204
>sp|Q24537|HMG2_DROME High mobility group protein DSP1 (Dorsal switch protein 1)
Length = 393
Score = 31.6 bits (70), Expect = 1.2
Identities = 11/23 (47%), Positives = 18/23 (78%)
Frame = +3
Query: 15 KEKYEKKSEADKQRYEEQMSQFR 83
K+KYE +E DK RYE +M++++
Sbjct: 317 KQKYESMAERDKARYEREMTEYK 339
Score = 30.0 bits (66), Expect = 3.6
Identities = 13/31 (41%), Positives = 20/31 (64%)
Frame = +3
Query: 12 DKEKYEKKSEADKQRYEEQMSQFRAGQYVPP 104
+K+++ + +E DKQRYE +M YVPP
Sbjct: 226 EKKRFHEMAEKDKQRYEAEMQ-----NYVPP 251
>sp|P53297|PBP1_YEAST PAB1-binding protein 1
Length = 722
Score = 30.8 bits (68), Expect = 2.1
Identities = 14/37 (37%), Positives = 22/37 (59%)
Frame = +3
Query: 81 RAGQYVPPVKRPRADSNGSALIAGSSSTEDPTAVSTD 191
+ +YVPP R + A+I+ S+S ++ AVSTD
Sbjct: 316 KGNRYVPPTLRQQPHHMDPAIISSSNSNKNENAVSTD 352
>sp|P11633|NHP6B_YEAST Nonhistone chromosomal protein 6B
Length = 99
Score = 30.4 bits (67), Expect = 2.8
Identities = 11/25 (44%), Positives = 18/25 (72%)
Frame = +3
Query: 12 DKEKYEKKSEADKQRYEEQMSQFRA 86
+K+ YE K++ADK+RYE + + A
Sbjct: 72 EKQPYESKAQADKKRYESEKELYNA 96
>sp|P10103|HMG1_BOVIN High mobility group protein 1 (HMG-1) (High mobility group protein
B1)
Length = 215
Score = 30.0 bits (66), Expect = 3.6
Identities = 14/34 (41%), Positives = 20/34 (58%)
Frame = +3
Query: 3 SCTDKEKYEKKSEADKQRYEEQMSQFRAGQYVPP 104
S +K K+E ++ADK RYE +M Y+PP
Sbjct: 53 SAKEKGKFEDMAKADKARYEREMK-----TYIPP 81
Score = 29.3 bits (64), Expect = 6.1
Identities = 11/25 (44%), Positives = 19/25 (76%)
Frame = +3
Query: 12 DKEKYEKKSEADKQRYEEQMSQFRA 86
DK+ YEKK+ K++YE+ ++ +RA
Sbjct: 140 DKQPYEKKAAKLKEKYEKDIAAYRA 164
>sp|P09429|HMG1_HUMAN High mobility group protein 1 (HMG-1) (High mobility group protein
B1)
sp|Q6YKA4|HMG1_CANFA High mobility group protein 1 (HMG-1) (High mobility group protein
B1)
Length = 215
Score = 30.0 bits (66), Expect = 3.6
Identities = 14/34 (41%), Positives = 20/34 (58%)
Frame = +3
Query: 3 SCTDKEKYEKKSEADKQRYEEQMSQFRAGQYVPP 104
S +K K+E ++ADK RYE +M Y+PP
Sbjct: 53 SAKEKGKFEDMAKADKARYEREMK-----TYIPP 81
Score = 29.3 bits (64), Expect = 6.1
Identities = 11/25 (44%), Positives = 19/25 (76%)
Frame = +3
Query: 12 DKEKYEKKSEADKQRYEEQMSQFRA 86
DK+ YEKK+ K++YE+ ++ +RA
Sbjct: 140 DKQPYEKKAAKLKEKYEKDIAAYRA 164
>sp|P11632|NHP6A_YEAST Nonhistone chromosomal protein 6A
Length = 93
Score = 30.0 bits (66), Expect = 3.6
Identities = 11/25 (44%), Positives = 18/25 (72%)
Frame = +3
Query: 12 DKEKYEKKSEADKQRYEEQMSQFRA 86
+K+ YE K++ADK+RYE + + A
Sbjct: 66 EKQPYEAKAQADKKRYESEKELYNA 90
>sp|P63159|HMG1_RAT High mobility group protein 1 (HMG-1) (High mobility group protein
B1) (Amphoterin) (Heparin-binding protein p30)
sp|P63158|HMG1_MOUSE High mobility group protein 1 (HMG-1) (High mobility group protein
B1)
Length = 215
Score = 30.0 bits (66), Expect = 3.6
Identities = 14/34 (41%), Positives = 20/34 (58%)
Frame = +3
Query: 3 SCTDKEKYEKKSEADKQRYEEQMSQFRAGQYVPP 104
S +K K+E ++ADK RYE +M Y+PP
Sbjct: 53 SAKEKGKFEDMAKADKARYEREMK-----TYIPP 81
Score = 29.3 bits (64), Expect = 6.1
Identities = 11/25 (44%), Positives = 19/25 (76%)
Frame = +3
Query: 12 DKEKYEKKSEADKQRYEEQMSQFRA 86
DK+ YEKK+ K++YE+ ++ +RA
Sbjct: 140 DKQPYEKKAAKLKEKYEKDIAAYRA 164
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: 48,220,017
Number of Sequences: 369166
Number of extensions: 764136
Number of successful extensions: 2752
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2636
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): 2748
length of database: 68,354,980
effective HSP length: 103
effective length of database: 49,327,275
effective search space used: 3551563800
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)