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_015_H01
(704 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1) 99 1e-20
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 86 1e-16
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 86 1e-16
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 86 1e-16
sp|P21573|YBOX1_XENLA Nuclease sensitive element binding pr... 84 4e-16
sp|Q00436|YB3_XENLA B box binding protein (YB3 protein) 82 1e-15
sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmi... 80 7e-15
sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock doma... 79 9e-15
sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmi... 79 9e-15
sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock doma... 79 9e-15
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 98.6 bits (244), Expect = 1e-20
Identities = 57/122 (46%), Positives = 70/122 (57%), Gaps = 4/122 (3%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
S+V+G VKWFN KSGYGFI +D DVFVH + DGE+V FDV+EG
Sbjct: 31 SQVSGTVKWFNVKSGYGFINRDDTKEDVFVHQTAIVKNNPRKYLRSVGDGEKVEFDVVEG 90
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDNRSNMRRGGPRNDFRNQPYSRNGGGGGQPRRDY 351
KG EA NV+GP+G +V G K +R RRGG P R GG GG+PR+D
Sbjct: 91 EKGNEAANVTGPEGSNVQGSK---YAADRRRFRRGG------WYPRFRGGGRGGRPRQDM 141
Query: 352 ND 357
+D
Sbjct: 142 DD 143
>sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor) (YB-1) (CCAAT-binding
transcription factor I subunit A) (CBF-A) (Enhancer
factor I subunit A) (EFI-A) (DNA-binding protein B)
(DBPB)
sp|P62961|YBOX1_RAT Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor) (YB-1) (CCAAT-binding
transcription factor I subunit A) (CBF-A) (Enhancer
factor I subunit A) (EFI-A) (DNA-binding protein B)
(DBPB)
Length = 322
Score = 85.5 bits (210), Expect = 1e-16
Identities = 55/136 (40%), Positives = 68/136 (50%), Gaps = 16/136 (11%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 55 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 114
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDN--RSNMRRGGPRNDFRNQPYSRNG-------- 321
KG EA NV+GP G V G K ++ R RRG PRN +N S +G
Sbjct: 115 EKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQQNYQNSESGEKNEGSES 174
Query: 322 --GGGGQPRRDYNDRQ 363
G Q RR Y R+
Sbjct: 175 APEGQAQQRRPYRRRR 190
>sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor) (YB-1) (CCAAT-binding
transcription factor I subunit A) (CBF-A) (Enhancer
factor I subunit A) (EFI-A) (DNA-binding protein B)
(DBPB)
sp|P67808|YBOX1_BOVIN Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor) (YB-1) (CCAAT-binding
transcription factor I subunit A) (CBF-A) (Enhancer
factor I subunit A) (EFI-A) (DNA-binding protein B)
(DBPB)
Length = 324
Score = 85.5 bits (210), Expect = 1e-16
Identities = 55/136 (40%), Positives = 68/136 (50%), Gaps = 16/136 (11%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 57 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 116
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDN--RSNMRRGGPRNDFRNQPYSRNG-------- 321
KG EA NV+GP G V G K ++ R RRG PRN +N S +G
Sbjct: 117 EKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQQNYQNSESGEKNEGSES 176
Query: 322 --GGGGQPRRDYNDRQ 363
G Q RR Y R+
Sbjct: 177 APEGQAQQRRPYRRRR 192
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 85.5 bits (210), Expect = 1e-16
Identities = 55/136 (40%), Positives = 68/136 (50%), Gaps = 16/136 (11%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 54 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 113
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDN--RSNMRRGGPRNDFRNQPYSRNG-------- 321
KG EA NV+GP G V G K ++ R RRG PRN +N S +G
Sbjct: 114 EKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQQNYQNSESGEKNEGAEN 173
Query: 322 --GGGGQPRRDYNDRQ 363
G Q RR Y R+
Sbjct: 174 IPEGQAQQRRPYRRRR 189
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 84.0 bits (206), Expect = 4e-16
Identities = 49/113 (43%), Positives = 62/113 (54%), Gaps = 5/113 (4%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHHXXXXXXXXXX----LADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 35 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 94
Query: 172 SKGLEARNVSGPDGGDVIGGK-PFQQNDNRSNMRRGGPRNDFRNQPYSRNGGG 327
KG EA NV+GP+G V G K +N R RR GP +++ Q Y N G
Sbjct: 95 EKGAEAANVTGPEGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNNESG 146
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
Length = 305
Score = 82.4 bits (202), Expect = 1e-15
Identities = 49/112 (43%), Positives = 60/112 (53%), Gaps = 6/112 (5%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 35 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 94
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDN--RSNMRRGGPRNDFRNQPYSRNG 321
KG EA NV+GP V G K +N R RRG PRN +N S +G
Sbjct: 95 EKGAEAANVTGPGPVPVQGSKYAADRNNYRRYPRRRGPPRNYQQNYQNSESG 146
>sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmic RNA-binding protein p56)
(mRNP4)
Length = 336
Score = 79.7 bits (195), Expect = 7e-15
Identities = 49/125 (39%), Positives = 63/125 (50%), Gaps = 4/125 (3%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
++V G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 40 TQVQGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEG 99
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDNRSNMRRGGPRNDFRNQPYSRNGGGGGQPRRDY 351
KG EA NV+GP GG + G F N R R PR D + +GG G P +
Sbjct: 100 EKGAEAANVTGP-GGVPVKGSRFAPNRRRFRRRFYRPRADTAGE----SGGEGVSPEQMS 154
Query: 352 NDRQG 366
+G
Sbjct: 155 EGERG 159
>sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock domain protein A) (Y-box protein
3)
sp|Q5PQD5|DBPA_XENLA DNA-binding protein A (Cold shock domain protein A)
Length = 361
Score = 79.3 bits (194), Expect = 9e-15
Identities = 49/120 (40%), Positives = 60/120 (50%), Gaps = 10/120 (8%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHHXXXXXXXXXX----LADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 81 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 140
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDNRS------NMRRGGPRNDFRNQPYSRNGGGGG 333
KG EA NV+GPDG V G + D R RRG PRN + +G G
Sbjct: 141 EKGAEAANVTGPDGVPVEGSR--YAADRRRYRRGYYGRRRGPPRNYAGEEEEEGSGSSEG 198
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
(mRNP3)
Length = 324
Score = 79.3 bits (194), Expect = 9e-15
Identities = 48/125 (38%), Positives = 63/125 (50%), Gaps = 4/125 (3%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHH----XXXXXXXXXXLADGEEVLFDVIEG 171
++V G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 40 TQVQGTVKWFNVRNGYGFINRNDSKEDVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEG 99
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDNRSNMRRGGPRNDFRNQPYSRNGGGGGQPRRDY 351
KG EA NV+GP GG + G F N R + PR D + +GG G P +
Sbjct: 100 EKGAEAANVTGP-GGVPVKGSRFAPNSTRFRRQFYRPRADTAGE----SGGEGVSPEQMS 154
Query: 352 NDRQG 366
+G
Sbjct: 155 EGEKG 159
>sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock domain protein A) (Single-strand
DNA binding protein NF-GMB)
Length = 372
Score = 79.3 bits (194), Expect = 9e-15
Identities = 49/120 (40%), Positives = 60/120 (50%), Gaps = 10/120 (8%)
Frame = +1
Query: 4 SKVTGHVKWFNTKSGYGFIKKDSDGADVFVHHXXXXXXXXXX----LADGEEVLFDVIEG 171
+KV G VKWFN ++GYGFI ++ DVFVH + DGE V FDV+EG
Sbjct: 89 TKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 148
Query: 172 SKGLEARNVSGPDGGDVIGGKPFQQNDNRS------NMRRGGPRNDFRNQPYSRNGGGGG 333
KG EA NV+GPDG V G + D R RRG PRN + +G G
Sbjct: 149 EKGAEAANVTGPDGVPVEGSR--YAADRRRYRRGYYGRRRGPPRNYAGEEEEEGSGSSEG 206
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: 72,256,306
Number of Sequences: 369166
Number of extensions: 1406830
Number of successful extensions: 4273
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3913
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): 4167
length of database: 68,354,980
effective HSP length: 107
effective length of database: 48,588,335
effective search space used: 6170718545
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)