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_J23
(453 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... 49 7e-06
sp|Q00436|YB3_XENLA B box binding protein (YB3 protein) 47 1e-05
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 47 3e-05
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 47 3e-05
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 47 3e-05
sp|P72366|CSPA_STIAU Cold shock-like protein cspA 46 3e-05
sp|P62169|CSPC_BACAN Cold shock-like protein cspC >gi|49061... 45 7e-05
sp|Q9S170|CSPG_SHEVI Cold shock-like protein cspG 45 7e-05
sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1) 44 2e-04
sp|P48859|CSPF_STRCO Cold shock protein scoF 44 2e-04
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 48.5 bits (114), Expect = 7e-06
Identities = 31/84 (36%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Frame = +3
Query: 27 DVFVHHSSIAATNAN----SLADGEEVQFDVVQGSKGLEARXXXXXXXXXXXXXKPFFQQ 194
DVFVH ++I N S+ DGE V+FDVV+G KG EA K +
Sbjct: 61 DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPEGVPVQGSKYAADR 120
Query: 195 NDNRSYGNRGGDRSDYRNQSYSGN 266
N R Y R G +Y+ Q+Y N
Sbjct: 121 NHYRRYPRRRGPPRNYQ-QNYQNN 143
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
Length = 305
Score = 47.4 bits (111), Expect = 1e-05
Identities = 30/84 (35%), Positives = 41/84 (48%), Gaps = 4/84 (4%)
Frame = +3
Query: 27 DVFVHHSSIAATNAN----SLADGEEVQFDVVQGSKGLEARXXXXXXXXXXXXXKPFFQQ 194
DVFVH ++I N S+ DGE V+FDVV+G KG EA K +
Sbjct: 61 DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGPVPVQGSKYAADR 120
Query: 195 NDNRSYGNRGGDRSDYRNQSYSGN 266
N+ R Y R G +Y+ Q+Y +
Sbjct: 121 NNYRRYPRRRGPPRNYQ-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 = 46.6 bits (109), Expect = 3e-05
Identities = 30/84 (35%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Frame = +3
Query: 27 DVFVHHSSIAATNAN----SLADGEEVQFDVVQGSKGLEARXXXXXXXXXXXXXKPFFQQ 194
DVFVH ++I N S+ DGE V+FDVV+G KG EA K +
Sbjct: 81 DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADR 140
Query: 195 NDNRSYGNRGGDRSDYRNQSYSGN 266
N R Y R G +Y+ Q+Y +
Sbjct: 141 NHYRRYPRRRGPPRNYQ-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 = 46.6 bits (109), Expect = 3e-05
Identities = 30/84 (35%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Frame = +3
Query: 27 DVFVHHSSIAATNAN----SLADGEEVQFDVVQGSKGLEARXXXXXXXXXXXXXKPFFQQ 194
DVFVH ++I N S+ DGE V+FDVV+G KG EA K +
Sbjct: 83 DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADR 142
Query: 195 NDNRSYGNRGGDRSDYRNQSYSGN 266
N R Y R G +Y+ Q+Y +
Sbjct: 143 NHYRRYPRRRGPPRNYQ-QNYQNS 165
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 46.6 bits (109), Expect = 3e-05
Identities = 30/84 (35%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Frame = +3
Query: 27 DVFVHHSSIAATNAN----SLADGEEVQFDVVQGSKGLEARXXXXXXXXXXXXXKPFFQQ 194
DVFVH ++I N S+ DGE V+FDVV+G KG EA K +
Sbjct: 80 DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADR 139
Query: 195 NDNRSYGNRGGDRSDYRNQSYSGN 266
N R Y R G +Y+ Q+Y +
Sbjct: 140 NHYRRYPRRRGPPRNYQ-QNYQNS 162
>sp|P72366|CSPA_STIAU Cold shock-like protein cspA
Length = 68
Score = 46.2 bits (108), Expect = 3e-05
Identities = 19/43 (44%), Positives = 30/43 (69%)
Frame = +3
Query: 9 EDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLEAR 137
+DG DVF HHS+I +L +G++V+F+V +G KGL+A+
Sbjct: 20 QDGGGEDVFCHHSAINMDGFRTLQEGQKVEFEVTRGPKGLQAQ 62
>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 = 45.1 bits (105), Expect = 7e-05
Identities = 21/44 (47%), Positives = 32/44 (72%)
Frame = +3
Query: 3 QREDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLEA 134
+REDG+D VFVH S+I SL +G++V+FD+V G++G +A
Sbjct: 18 EREDGDD--VFVHFSAIQQDGYKSLEEGQQVEFDIVDGARGPQA 59
>sp|Q9S170|CSPG_SHEVI Cold shock-like protein cspG
Length = 70
Score = 45.1 bits (105), Expect = 7e-05
Identities = 20/42 (47%), Positives = 28/42 (66%)
Frame = +3
Query: 9 EDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLEA 134
+D DVFVH SI + +LA+G++V F+V QG KGL+A
Sbjct: 23 QDNGGDDVFVHFRSITSDGFKTLAEGQKVSFEVEQGQKGLQA 64
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 43.5 bits (101), Expect = 2e-04
Identities = 22/45 (48%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Frame = +3
Query: 12 DGNDSDVFVHHSSIAATNAN----SLADGEEVQFDVVQGSKGLEA 134
D DVFVH ++I N S+ DGE+V+FDVV+G KG EA
Sbjct: 52 DDTKEDVFVHQTAIVKNNPRKYLRSVGDGEKVEFDVVEGEKGNEA 96
>sp|P48859|CSPF_STRCO Cold shock protein scoF
Length = 67
Score = 43.5 bits (101), Expect = 2e-04
Identities = 19/42 (45%), Positives = 26/42 (61%)
Frame = +3
Query: 9 EDGNDSDVFVHHSSIAATNANSLADGEEVQFDVVQGSKGLEA 134
+DG DVF H+S+I A L +G+ V FD+ QG KG +A
Sbjct: 20 QDGGGPDVFAHYSNINAQGYRELQEGQAVTFDITQGQKGPQA 61
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: 42,190,003
Number of Sequences: 369166
Number of extensions: 692093
Number of successful extensions: 1716
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1689
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): 1714
length of database: 68,354,980
effective HSP length: 101
effective length of database: 49,696,745
effective search space used: 2435140505
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)