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_023_F06
(502 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... 74 1e-13
sp|Q00436|YB3_XENLA B box binding protein (YB3 protein) 73 3e-13
sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1) 73 3e-13
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 72 6e-13
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 72 6e-13
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 72 6e-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 6e-12
sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmi... 68 1e-11
sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock doma... 67 2e-11
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 74.3 bits (181), Expect = 1e-13
Identities = 45/109 (41%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 37 VLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGE 95
Query: 169 KGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 315
KG EA K +N R Y R G +Y+ Q+Y N
Sbjct: 96 KGAEAANVTGPEGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNN 143
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
Length = 305
Score = 73.2 bits (178), Expect = 3e-13
Identities = 44/109 (40%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 37 VLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGE 95
Query: 169 KGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 315
KG EA K +N+ R Y R G +Y+ Q+Y +
Sbjct: 96 KGAEAANVTGPGPVPVQGSKYAADRNNYRRYPRRRGPPRNYQ-QNYQNS 143
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 73.2 bits (178), Expect = 3e-13
Identities = 38/65 (58%), Positives = 46/65 (70%), Gaps = 4/65 (6%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
VSG VKWFN KSGYGFI R+D + DVFVH ++I N S+ DGE+V+FDVV+G
Sbjct: 33 VSGTVKWFNVKSGYGFINRDDTKE-DVFVHQTAIVKNNPRKYLRSVGDGEKVEFDVVEGE 91
Query: 169 KGLEA 183
KG EA
Sbjct: 92 KGNEA 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 = 72.4 bits (176), Expect = 6e-13
Identities = 44/109 (40%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 57 VLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGE 115
Query: 169 KGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 315
KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 116 KGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-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 = 72.4 bits (176), Expect = 6e-13
Identities = 44/109 (40%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 59 VLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGE 117
Query: 169 KGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 315
KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 118 KGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNS 165
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 72.4 bits (176), Expect = 6e-13
Identities = 44/109 (40%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 56 VLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGE 114
Query: 169 KGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 315
KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 115 KGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-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: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLE 180
+ G VKWFN++ G+GFI+REDG+ DVFVH S+I SL +G++V+FD+V G++G +
Sbjct: 1 MQGRVKWFNAEKGFGFIEREDGD--DVFVHFSAIQQDGYKSLEEGQQVEFDIVDGARGPQ 58
Query: 181 A 183
A
Sbjct: 59 A 59
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
(mRNP3)
Length = 324
Score = 68.9 bits (167), Expect = 6e-12
Identities = 35/65 (53%), Positives = 43/65 (66%), Gaps = 4/65 (6%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 42 VQGTVKWFNVRNGYGFINRNDSKE-DVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEGE 100
Query: 169 KGLEA 183
KG EA
Sbjct: 101 KGAEA 105
>sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmic RNA-binding protein p56)
(mRNP4)
Length = 336
Score = 68.2 bits (165), Expect = 1e-11
Identities = 35/65 (53%), Positives = 43/65 (66%), Gaps = 4/65 (6%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 42 VQGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEGE 100
Query: 169 KGLEA 183
KG EA
Sbjct: 101 KGAEA 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 = 67.4 bits (163), Expect = 2e-11
Identities = 35/65 (53%), Positives = 43/65 (66%), Gaps = 4/65 (6%)
Frame = +1
Query: 1 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFDVVQGS 168
V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FDVV+G
Sbjct: 83 VLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGE 141
Query: 169 KGLEA 183
KG EA
Sbjct: 142 KGAEA 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: 47,997,013
Number of Sequences: 369166
Number of extensions: 827261
Number of successful extensions: 2177
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2070
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): 2104
length of database: 68,354,980
effective HSP length: 102
effective length of database: 49,512,010
effective search space used: 3168768640
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)