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_003_A15
(505 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P21573|YBOX1_XENLA Nuclease sensitive element binding pr... 75 9e-14
sp|Q00436|YB3_XENLA B box binding protein (YB3 protein) 74 2e-13
sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1) 74 3e-13
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 73 3e-13
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 73 3e-13
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 73 3e-13
sp|P62169|CSPC_BACAN Cold shock-like protein cspC >gi|49061... 70 2e-12
sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmi... 69 5e-12
sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmi... 69 8e-12
sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock doma... 68 1e-11
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 75.1 bits (183), Expect = 9e-14
Identities = 45/110 (40%), Positives = 58/110 (52%), Gaps = 4/110 (3%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 36 KVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 94
Query: 169 SKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 318
KG EA K +N R Y R G +Y+ Q+Y N
Sbjct: 95 EKGAEAANVTGPEGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNN 143
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
Length = 305
Score = 73.9 bits (180), Expect = 2e-13
Identities = 44/110 (40%), Positives = 59/110 (53%), Gaps = 4/110 (3%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 36 KVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 94
Query: 169 SKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 318
KG EA K +N+ R Y R G +Y+ Q+Y +
Sbjct: 95 EKGAEAANVTGPGPVPVQGSKYAADRNNYRRYPRRRGPPRNYQ-QNYQNS 143
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 73.6 bits (179), Expect = 3e-13
Identities = 38/66 (57%), Positives = 47/66 (71%), Gaps = 4/66 (6%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+VSG VKWFN KSGYGFI R+D + DVFVH ++I N S+ DGE+V+FDVV+G
Sbjct: 32 QVSGTVKWFNVKSGYGFINRDDTKE-DVFVHQTAIVKNNPRKYLRSVGDGEKVEFDVVEG 90
Query: 169 SKGLEA 186
KG EA
Sbjct: 91 EKGNEA 96
>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 = 73.2 bits (178), Expect = 3e-13
Identities = 44/110 (40%), Positives = 58/110 (52%), Gaps = 4/110 (3%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 56 KVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 114
Query: 169 SKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 318
KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 115 EKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNS 163
>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 = 73.2 bits (178), Expect = 3e-13
Identities = 44/110 (40%), Positives = 58/110 (52%), Gaps = 4/110 (3%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 58 KVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 116
Query: 169 SKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 318
KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 117 EKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNS 165
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 73.2 bits (178), Expect = 3e-13
Identities = 44/110 (40%), Positives = 58/110 (52%), Gaps = 4/110 (3%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 55 KVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 113
Query: 169 SKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 318
KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 114 EKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNS 162
>sp|P62169|CSPC_BACAN Cold shock-like protein cspC
sp|P62170|CSPC_BACCE Cold shock-like protein cspC
sp|P62171|CSPC_BACCR Cold shock-like protein cspC
Length = 65
Score = 70.5 bits (171), Expect = 2e-12
Identities = 31/61 (50%), Positives = 46/61 (75%)
Frame = +1
Query: 4 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLE 183
+ G VKWFN++ G+GFI+REDG+ DVFVH S+I SL +G++V+FD+V G++G +
Sbjct: 1 MQGRVKWFNAEKGFGFIEREDGD--DVFVHFSAIQQDGYKSLEEGQQVEFDIVDGARGPQ 58
Query: 184 A 186
A
Sbjct: 59 A 59
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
(mRNP3)
Length = 324
Score = 69.3 bits (168), Expect = 5e-12
Identities = 35/66 (53%), Positives = 44/66 (66%), Gaps = 4/66 (6%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 41 QVQGTVKWFNVRNGYGFINRNDSKE-DVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEG 99
Query: 169 SKGLEA 186
KG EA
Sbjct: 100 EKGAEA 105
>sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmic RNA-binding protein p56)
(mRNP4)
Length = 336
Score = 68.6 bits (166), Expect = 8e-12
Identities = 35/66 (53%), Positives = 44/66 (66%), Gaps = 4/66 (6%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 41 QVQGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEG 99
Query: 169 SKGLEA 186
KG EA
Sbjct: 100 EKGAEA 105
>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 = 68.2 bits (165), Expect = 1e-11
Identities = 35/66 (53%), Positives = 44/66 (66%), Gaps = 4/66 (6%)
Frame = +1
Query: 1 RVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQG 168
+V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 82 KVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEG 140
Query: 169 SKGLEA 186
KG EA
Sbjct: 141 EKGAEA 146
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: 48,192,216
Number of Sequences: 369166
Number of extensions: 832387
Number of successful extensions: 2210
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2101
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): 2137
length of database: 68,354,980
effective HSP length: 102
effective length of database: 49,512,010
effective search space used: 3218280650
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)