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_004_P16
(561 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) 78 2e-14
sp|P21573|YBOX1_XENLA Nuclease sensitive element binding pr... 78 2e-14
sp|Q00436|YB3_XENLA B box binding protein (YB3 protein) 77 4e-14
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 76 6e-14
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 76 6e-14
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 76 6e-14
sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmi... 72 1e-12
sp|P62169|CSPC_BACAN Cold shock-like protein cspC >gi|49061... 70 3e-12
sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmi... 70 3e-12
sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock doma... 70 4e-12
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 77.8 bits (190), Expect = 2e-14
Identities = 41/70 (58%), Positives = 50/70 (71%), Gaps = 4/70 (5%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
II S+VSG VKWFN KSGYGFI R+D + DVFVH ++I N S+ DGE+V+FD
Sbjct: 28 IIASQVSGTVKWFNVKSGYGFINRDDTKE-DVFVHQTAIVKNNPRKYLRSVGDGEKVEFD 86
Query: 213 VVQGSKGLEA 242
VV+G KG EA
Sbjct: 87 VVEGEKGNEA 96
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 77.8 bits (190), Expect = 2e-14
Identities = 46/114 (40%), Positives = 61/114 (53%), Gaps = 4/114 (3%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
+I ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 32 VIATKVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFD 90
Query: 213 VVQGSKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 374
VV+G KG EA K +N R Y R G +Y+ Q+Y N
Sbjct: 91 VVEGEKGAEAANVTGPEGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNN 143
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
Length = 305
Score = 76.6 bits (187), Expect = 4e-14
Identities = 45/114 (39%), Positives = 62/114 (54%), Gaps = 4/114 (3%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
+I ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 32 VIATKVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFD 90
Query: 213 VVQGSKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 374
VV+G KG EA K +N+ R Y R G +Y+ Q+Y +
Sbjct: 91 VVEGEKGAEAANVTGPGPVPVQGSKYAADRNNYRRYPRRRGPPRNYQ-QNYQNS 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 = 75.9 bits (185), Expect = 6e-14
Identities = 45/114 (39%), Positives = 61/114 (53%), Gaps = 4/114 (3%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
+I ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 52 VIATKVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFD 110
Query: 213 VVQGSKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 374
VV+G KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 111 VVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-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 = 75.9 bits (185), Expect = 6e-14
Identities = 45/114 (39%), Positives = 61/114 (53%), Gaps = 4/114 (3%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
+I ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 54 VIATKVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFD 112
Query: 213 VVQGSKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 374
VV+G KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 113 VVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNS 165
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 75.9 bits (185), Expect = 6e-14
Identities = 45/114 (39%), Positives = 61/114 (53%), Gaps = 4/114 (3%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
+I ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 51 VIATKVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFD 109
Query: 213 VVQGSKGLEARXXXXXXXXXXXXXKPFFQQNDNRSYGNRGGDRSDYRNQSYSGN 374
VV+G KG EA K +N R Y R G +Y+ Q+Y +
Sbjct: 110 VVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQ-QNYQNS 162
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
(mRNP3)
Length = 324
Score = 71.6 bits (174), Expect = 1e-12
Identities = 36/74 (48%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Frame = +3
Query: 33 IMSNIIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEE 200
I ++ ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE
Sbjct: 33 INKKLLATQVQGTVKWFNVRNGYGFINRNDSKE-DVFVHQTAIKKNNPRKFLRSVGDGET 91
Query: 201 VQFDVVQGSKGLEA 242
V+FDVV+G KG EA
Sbjct: 92 VEFDVVEGEKGAEA 105
>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 = 3e-12
Identities = 31/61 (50%), Positives = 46/61 (75%)
Frame = +3
Query: 60 VSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLE 239
+ G VKWFN++ G+GFI+REDG+ DVFVH S+I SL +G++V+FD+V G++G +
Sbjct: 1 MQGRVKWFNAEKGFGFIEREDGD--DVFVHFSAIQQDGYKSLEEGQQVEFDIVDGARGPQ 58
Query: 240 A 242
A
Sbjct: 59 A 59
>sp|P21574|YBX2A_XENLA Y-box binding protein 2-A (Cytoplasmic RNA-binding protein p56)
(mRNP4)
Length = 336
Score = 70.5 bits (171), Expect = 3e-12
Identities = 35/70 (50%), Positives = 47/70 (67%), Gaps = 4/70 (5%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
++ ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 37 VLATQVQGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKFLRSVGDGETVEFD 95
Query: 213 VVQGSKGLEA 242
VV+G KG EA
Sbjct: 96 VVEGEKGAEA 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 = 70.1 bits (170), Expect = 4e-12
Identities = 35/70 (50%), Positives = 47/70 (67%), Gaps = 4/70 (5%)
Frame = +3
Query: 45 IIESRVSGHVKWFNSKSGYGFIQREDGNDSDVFVHHSSIAATN----ANSLADGEEVQFD 212
++ ++V G VKWFN ++GYGFI R D + DVFVH ++I N S+ DGE V+FD
Sbjct: 78 VLATKVLGTVKWFNVRNGYGFINRNDTKE-DVFVHQTAIKKNNPRKYLRSVGDGETVEFD 136
Query: 213 VVQGSKGLEA 242
VV+G KG EA
Sbjct: 137 VVEGEKGAEA 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: 54,322,332
Number of Sequences: 369166
Number of extensions: 960427
Number of successful extensions: 2584
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2470
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): 2511
length of database: 68,354,980
effective HSP length: 104
effective length of database: 49,142,540
effective search space used: 4029688280
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)