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_D20
(763 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) 123 6e-28
sp|P21573|YBOX1_XENLA Nuclease sensitive element binding pr... 114 3e-25
sp|Q9JKB3|DBPA_MOUSE DNA-binding protein A (Cold shock doma... 113 6e-25
sp|Q62764|DBPA_RAT DNA-binding protein A (Cold shock domain... 113 6e-25
sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock doma... 112 1e-24
sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding pr... 111 2e-24
sp|Q00436|YB3_XENLA B box binding protein (YB3 protein) 109 7e-24
sp|P62960|YBOX1_MOUSE Nuclease sensitive element binding pr... 108 1e-23
sp|P67809|YBOX1_HUMAN Nuclease sensitive element binding pr... 108 1e-23
sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmi... 108 2e-23
>sp|P41824|YBOXH_APLCA Y-box factor homolog (APY1)
Length = 253
Score = 123 bits (308), Expect = 6e-28
Identities = 57/109 (52%), Positives = 81/109 (74%), Gaps = 5/109 (4%)
Frame = +2
Query: 53 EKNDEYEGNAPDSS-----KQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSA 217
EK E E N PD K+K+++ + ++G VKWFNVK GYGF+ R+D +ED+F+HQ+A
Sbjct: 5 EKQPEVEENQPDQEQNEEQKEKKIIASQVSGTVKWFNVKSGYGFINRDDTKEDVFVHQTA 64
Query: 218 IVKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
IVK+NP +SVG+GE++ FD+V+G KGNEAANV+ +G V+GS+YA
Sbjct: 65 IVKNNPRKYLRSVGDGEKVEFDVVEGEKGNEAANVTGPEGSNVQGSKYA 113
>sp|P21573|YBOX1_XENLA Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 303
Score = 114 bits (285), Expect = 3e-25
Identities = 58/126 (46%), Positives = 82/126 (65%), Gaps = 10/126 (7%)
Frame = +2
Query: 29 AAEMANNQEKNDEYEGNAPDSSK----QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQED 196
++E+ Q++ D EG A K+V+ T + G VKWFNV+ GYGF+ RND +ED
Sbjct: 2 SSEVETQQQQPDALEGKAGQEPAATVGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKED 61
Query: 197 IFIHQSAIVKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL--- 367
+F+HQ+AI K+NP +SVG+GE + FD+V+G KG EAANV+ +G V+GS+YA
Sbjct: 62 VFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPEGVPVQGSKYAADRN 121
Query: 368 ---RYP 376
RYP
Sbjct: 122 HYRRYP 127
>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 = 113 bits (282), Expect = 6e-25
Identities = 57/108 (52%), Positives = 74/108 (68%), Gaps = 7/108 (6%)
Frame = +2
Query: 62 DEYEGNAPDSSK-------QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAI 220
D G AP SS +K+VL T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI
Sbjct: 56 DAAPGPAPASSAPAGGEDAEKKVLATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAI 115
Query: 221 VKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
K+NP +SVG+GE + FD+V+G KG EAANV+ DG V+GS YA
Sbjct: 116 KKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPDGVPVEGSRYA 163
>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 = 113 bits (282), Expect = 6e-25
Identities = 57/108 (52%), Positives = 74/108 (68%), Gaps = 7/108 (6%)
Frame = +2
Query: 62 DEYEGNAPDSSK-------QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAI 220
D G AP SS +K+VL T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI
Sbjct: 56 DAAPGPAPASSAPAGSEDAEKKVLATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAI 115
Query: 221 VKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
K+NP +SVG+GE + FD+V+G KG EAANV+ DG V+GS YA
Sbjct: 116 KKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPDGVPVEGSRYA 163
>sp|P16989|DBPA_HUMAN DNA-binding protein A (Cold shock domain protein A) (Single-strand
DNA binding protein NF-GMB)
Length = 372
Score = 112 bits (279), Expect = 1e-24
Identities = 52/95 (54%), Positives = 69/95 (72%)
Frame = +2
Query: 80 APDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSVG 259
A +K+VL T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP +SVG
Sbjct: 77 AGSEDAEKKVLATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVG 136
Query: 260 EGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
+GE + FD+V+G KG EAANV+ DG V+GS YA
Sbjct: 137 DGETVEFDVVEGEKGAEAANVTGPDGVPVEGSRYA 171
>sp|Q06066|YBOX1_CHICK Nuclease sensitive element binding protein 1 (Y-box binding protein
1) (Y-box transcription factor)
Length = 321
Score = 111 bits (278), Expect = 2e-24
Identities = 54/105 (51%), Positives = 73/105 (69%), Gaps = 6/105 (5%)
Frame = +2
Query: 80 APDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSVG 259
AP + K+V+ T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP +SVG
Sbjct: 42 APPAGGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVG 101
Query: 260 EGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL------RYP 376
+GE + FD+V+G KG EAANV+ G V+GS+YA RYP
Sbjct: 102 DGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYP 146
>sp|Q00436|YB3_XENLA B box binding protein (YB3 protein)
Length = 305
Score = 109 bits (273), Expect = 7e-24
Identities = 56/126 (44%), Positives = 81/126 (64%), Gaps = 10/126 (7%)
Frame = +2
Query: 29 AAEMANNQEKNDEYEGNAPDSSK----QKQVLHTAITGKVKWFNVKRGYGFVCRNDNQED 196
++E+ +++ D EG A +K+V+ T + G VKWFNV+ GYGF+ RND +ED
Sbjct: 2 SSEVETQEQQPDALEGKAGQEPAATVGEKKVIATKVLGTVKWFNVRNGYGFINRNDTKED 61
Query: 197 IFIHQSAIVKSNPEHPRKSVGEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL--- 367
+F+HQ+AI K+NP +SVG+GE + FD+V+G KG EAANV+ V+GS+YA
Sbjct: 62 VFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGPVPVQGSKYAADRN 121
Query: 368 ---RYP 376
RYP
Sbjct: 122 NYRRYP 127
>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 = 108 bits (271), Expect = 1e-23
Identities = 53/106 (50%), Positives = 73/106 (68%), Gaps = 6/106 (5%)
Frame = +2
Query: 77 NAPDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSV 256
+A + K+V+ T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP +SV
Sbjct: 42 SAAPAGGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSV 101
Query: 257 GEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL------RYP 376
G+GE + FD+V+G KG EAANV+ G V+GS+YA RYP
Sbjct: 102 GDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYP 147
>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 = 108 bits (271), Expect = 1e-23
Identities = 53/106 (50%), Positives = 73/106 (68%), Gaps = 6/106 (5%)
Frame = +2
Query: 77 NAPDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSV 256
+A + K+V+ T + G VKWFNV+ GYGF+ RND +ED+F+HQ+AI K+NP +SV
Sbjct: 44 SAAPAGGDKKVIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSV 103
Query: 257 GEGEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYAL------RYP 376
G+GE + FD+V+G KG EAANV+ G V+GS+YA RYP
Sbjct: 104 GDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYP 149
>sp|P45441|YBX2B_XENLA Y-box binding protein 2-B (Cytoplasmic RNA-binding protein p54)
(mRNP3)
Length = 324
Score = 108 bits (269), Expect = 2e-23
Identities = 50/94 (53%), Positives = 69/94 (73%)
Frame = +2
Query: 83 PDSSKQKQVLHTAITGKVKWFNVKRGYGFVCRNDNQEDIFIHQSAIVKSNPEHPRKSVGE 262
P + K++L T + G VKWFNV+ GYGF+ RND++ED+F+HQ+AI K+NP +SVG+
Sbjct: 29 PRNQINKKLLATQVQGTVKWFNVRNGYGFINRNDSKEDVFVHQTAIKKNNPRKFLRSVGD 88
Query: 263 GEEILFDIVKGAKGNEAANVSAIDGKCVKGSEYA 364
GE + FD+V+G KG EAANV+ G VKGS +A
Sbjct: 89 GETVEFDVVEGEKGAEAANVTGPGGVPVKGSRFA 122
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: 74,463,377
Number of Sequences: 369166
Number of extensions: 1418569
Number of successful extensions: 4469
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4292
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): 4426
length of database: 68,354,980
effective HSP length: 108
effective length of database: 48,403,600
effective search space used: 7018522000
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)