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_007_J05
(680 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) 61 3e-09
sp|P21573|YBOX1_XENLA Nuclease sensitive element binding pr... 59 9e-09
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 59 9e-09
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 59 9e-09
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 59 9e-09
sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock doma... 59 2e-08
sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock doma... 59 2e-08
sp|Q62764|DBPA_RAT DNA-binding protein A (Cold shock domain... 59 2e-08
sp|Q9Y2T7|YBOX2_HUMAN Y-box binding protein 2 (Germ cell-sp... 58 2e-08
sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmi... 57 4e-08
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 60.8 bits (146), Expect = 3e-09
Identities = 34/74 (45%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Frame = +3
Query: 36 FSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQGAKGLEAR 203
F+ K+GYGFI+ DD +D+FVH DGE+V FD+V+G KG EA
Sbjct: 40 FNVKSGYGFINRDD--TKEDVFVHQTAIVKNNPRKYLRSVGDGEKVEFDVVEGEKGNEAA 97
Query: 204 NVTGPNGGDVIGGK 245
NVTGP G +V G K
Sbjct: 98 NVTGPEGSNVQGSK 111
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 59.3 bits (142), Expect = 9e-09
Identities = 35/82 (42%), Positives = 45/82 (54%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 36 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 93
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP G V G K
Sbjct: 94 GEKGAEAANVTGPEGVPVQGSK 115
>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 = 59.3 bits (142), Expect = 9e-09
Identities = 35/82 (42%), Positives = 45/82 (54%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 56 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 113
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP G V G K
Sbjct: 114 GEKGAEAANVTGPGGVPVQGSK 135
>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 = 59.3 bits (142), Expect = 9e-09
Identities = 35/82 (42%), Positives = 45/82 (54%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 58 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 115
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP G V G K
Sbjct: 116 GEKGAEAANVTGPGGVPVQGSK 137
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 59.3 bits (142), Expect = 9e-09
Identities = 35/82 (42%), Positives = 45/82 (54%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 55 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 112
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP G V G K
Sbjct: 113 GEKGAEAANVTGPGGVPVQGSK 134
>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 = 58.5 bits (140), Expect = 2e-08
Identities = 34/82 (41%), Positives = 46/82 (56%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 82 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 139
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP+G V G +
Sbjct: 140 GEKGAEAANVTGPDGVPVEGSR 161
>sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock domain protein A) (Single-strand
DNA binding protein NF-GMB)
Length = 372
Score = 58.5 bits (140), Expect = 2e-08
Identities = 34/82 (41%), Positives = 46/82 (56%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 90 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 147
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP+G V G +
Sbjct: 148 GEKGAEAANVTGPDGVPVEGSR 169
>sp|Q62764|DBPA_RAT DNA-binding protein A (Cold shock domain protein A) (Muscle Y-box
protein YB2) (Y-box binding protein-A) (RYB-A)
Length = 361
Score = 58.5 bits (140), Expect = 2e-08
Identities = 34/82 (41%), Positives = 46/82 (56%), Gaps = 4/82 (4%)
Frame = +3
Query: 12 KLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQ 179
K+L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V+
Sbjct: 82 KVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVE 139
Query: 180 GAKGLEARNVTGPNGGDVIGGK 245
G KG EA NVTGP+G V G +
Sbjct: 140 GEKGAEAANVTGPDGVPVEGSR 161
>sp|Q9Y2T7|YBOX2_HUMAN Y-box binding protein 2 (Germ cell-specific Y-box binding protein)
(Contrin) (MSY2 homolog)
Length = 364
Score = 58.2 bits (139), Expect = 2e-08
Identities = 35/87 (40%), Positives = 48/87 (55%), Gaps = 4/87 (4%)
Frame = +3
Query: 9 LKLLVMLSAFSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIV 176
+++L + F+ +NGYGFI+ +D +D+FVH DGE V FD+V
Sbjct: 92 IQVLGTVKWFNVRNGYGFINRND--TKEDVFVHQTAIKRNNPRKFLRSVGDGETVEFDVV 149
Query: 177 QGAKGLEARNVTGPNGGDVIGGKPYEP 257
+G KG EA NVTGP GG + G Y P
Sbjct: 150 EGEKGAEATNVTGP-GGVPVKGSRYAP 175
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
(mRNP3)
Length = 324
Score = 57.0 bits (136), Expect = 4e-08
Identities = 32/74 (43%), Positives = 42/74 (56%), Gaps = 4/74 (5%)
Frame = +3
Query: 36 FSSKNGYGFISVDDDNNSKDIFVHHXXXXXXXXXXXX----DGEEVLFDIVQGAKGLEAR 203
F+ +NGYGFI+ +D + +D+FVH DGE V FD+V+G KG EA
Sbjct: 49 FNVRNGYGFINRND--SKEDVFVHQTAIKKNNPRKFLRSVGDGETVEFDVVEGEKGAEAA 106
Query: 204 NVTGPNGGDVIGGK 245
NVTGP G V G +
Sbjct: 107 NVTGPGGVPVKGSR 120
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: 50,741,768
Number of Sequences: 369166
Number of extensions: 790516
Number of successful extensions: 2825
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2215
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): 2573
length of database: 68,354,980
effective HSP length: 107
effective length of database: 48,588,335
effective search space used: 5782011865
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)