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_012_A22
(608 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9JKN6|NOVA1_MOUSE RNA-binding protein Nova-1 (Neuro-onc... 57 5e-08
sp|P51513|NOVA1_HUMAN RNA-binding protein Nova-1 (Neuro-onc... 57 5e-08
sp|Q80WA4|NOVA1_RAT RNA-binding protein Nova-1 (Neuro-oncol... 54 2e-07
sp|Q9UNW9|NOVA2_HUMAN RNA-binding protein Nova-2 (Neuro-onc... 53 5e-07
sp|Q61990|PCBP2_MOUSE Poly(rC)-binding protein 2 (Alpha-CP2... 46 8e-05
sp|Q15366|PCBP2_HUMAN Poly(rC)-binding protein 2 (Alpha-CP2... 45 1e-04
sp|P60335|PCBP1_MOUSE Poly(rC)-binding protein 1 (Alpha-CP1... 45 1e-04
sp|P38199|YBD2_YEAST Hypothetical 41.7 kDa protein in RIB1-... 44 3e-04
sp|P57722|PCBP3_MOUSE Poly(rC)-binding protein 3 (Alpha-CP3) 43 7e-04
sp|P57721|PCBP3_HUMAN Poly(rC)-binding protein 3 (Alpha-CP3) 43 7e-04
>sp|Q9JKN6|NOVA1_MOUSE RNA-binding protein Nova-1 (Neuro-oncological ventral antigen 1)
(Ventral neuron-specific protein 1)
Length = 493
Score = 56.6 bits (135), Expect = 5e-08
Identities = 40/116 (34%), Positives = 57/116 (49%)
Frame = +3
Query: 150 TPGTNSHFPVSRSLTTSFSQMDYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEV 329
T TN +F + L S ++D S + + V E +GAILG G+++VE QE+
Sbjct: 378 TAATNGYFGAASPLAASAILGTEKSTDGSKDVVE-IAVPENLVGAILGKGGKTLVEYQEL 436
Query: 330 TDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKIQLEQARRAMASQE 497
T I++SKK N++ VTITG A LI +I EQ RA Q+
Sbjct: 437 TGARIQISKKGEFVPGTRNRK-VTITGTPAATQAAQYLITQRITYEQGVRAANPQK 491
Score = 33.5 bits (75), Expect = 0.43
Identities = 26/94 (27%), Positives = 47/94 (50%)
Frame = +3
Query: 180 SRSLTTSFSQMDYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKK 359
S TT S D + + ++ + + V + G I+G G ++ + E + +++S+K
Sbjct: 139 SSPTTTKSSPSDPMTTSRANQVK--IIVPNSTAGLIIGKGGATVKAIMEQSGAWVQLSQK 196
Query: 360 PTENSDKNNKRIVTITGLYENVSKAYLLINDKIQ 461
P + +R+VT++G E KA LI KIQ
Sbjct: 197 P--DGINLQERVVTVSGEPEQNRKAVELIIQKIQ 228
>sp|P51513|NOVA1_HUMAN RNA-binding protein Nova-1 (Neuro-oncological ventral antigen 1)
(Onconeural ventral antigen 1) (Paraneoplastic Ri
antigen) (Ventral neuron-specific protein 1)
Length = 510
Score = 56.6 bits (135), Expect = 5e-08
Identities = 40/116 (34%), Positives = 57/116 (49%)
Frame = +3
Query: 150 TPGTNSHFPVSRSLTTSFSQMDYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEV 329
T TN +F + L S ++D S + + V E +GAILG G+++VE QE+
Sbjct: 395 TAATNGYFGAASPLAASAILGTEKSTDGSKDVVE-IAVPENLVGAILGKGGKTLVEYQEL 453
Query: 330 TDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKIQLEQARRAMASQE 497
T I++SKK N++ VTITG A LI +I EQ RA Q+
Sbjct: 454 TGARIQISKKGEFVPGTRNRK-VTITGTPAATQAAQYLITQRITYEQGVRAANPQK 508
Score = 33.1 bits (74), Expect = 0.57
Identities = 26/94 (27%), Positives = 47/94 (50%)
Frame = +3
Query: 180 SRSLTTSFSQMDYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKK 359
S TT S D + + ++ + + V + G I+G G ++ + E + +++S+K
Sbjct: 156 SSPTTTKSSPSDPMTTSRANQVK--IIVPNSTAGLIIGKGGATVKAVMEQSGAWVQLSQK 213
Query: 360 PTENSDKNNKRIVTITGLYENVSKAYLLINDKIQ 461
P + +R+VT++G E KA LI KIQ
Sbjct: 214 P--DGINLQERVVTVSGEPEQNRKAVELIIQKIQ 245
>sp|Q80WA4|NOVA1_RAT RNA-binding protein Nova-1 (Neuro-oncological ventral antigen 1)
Length = 474
Score = 54.3 bits (129), Expect = 2e-07
Identities = 38/110 (34%), Positives = 54/110 (49%)
Frame = +3
Query: 150 TPGTNSHFPVSRSLTTSFSQMDYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEV 329
T TN +F + L S ++D S + + V E +GAILG G+++VE QE+
Sbjct: 367 TAATNGYFGAASPLAASAILGTEKSTDGSKDVVE-IAVPENLVGAILGKGGKTLVEYQEL 425
Query: 330 TDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKIQLEQARR 479
T I++SKK N++ VTITG A LI +I EQ R
Sbjct: 426 TGARIQISKKGEFVPGTRNRK-VTITGTPAATQAAQYLITQRITYEQGVR 474
Score = 32.3 bits (72), Expect = 0.97
Identities = 20/61 (32%), Positives = 34/61 (55%)
Frame = +3
Query: 279 GAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKI 458
G I+G G ++ + E + +++S+KP + +R+VT++G E KA LI KI
Sbjct: 159 GLIIGKGGATVKAIMEQSGAWVQLSQKP--DGINLQERVVTVSGEPEQNRKAVELIIQKI 216
Query: 459 Q 461
Q
Sbjct: 217 Q 217
>sp|Q9UNW9|NOVA2_HUMAN RNA-binding protein Nova-2 (Neuro-oncological ventral antigen 2)
(Astrocytic NOVA1-like RNA-binding protein)
Length = 492
Score = 53.1 bits (126), Expect = 5e-07
Identities = 35/99 (35%), Positives = 54/99 (54%)
Frame = +3
Query: 201 FSQMDYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDK 380
F + +A++S+ + + V E +GAILG G+++VE QE+T I++SKK
Sbjct: 394 FLTAEKLAAESAKELVE-IAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGT 452
Query: 381 NNKRIVTITGLYENVSKAYLLINDKIQLEQARRAMASQE 497
N+R VTITG A LI+ ++ EQ RA Q+
Sbjct: 453 RNRR-VTITGSPAATQAAQYLISQRVTYEQGVRASNPQK 490
Score = 32.7 bits (73), Expect = 0.74
Identities = 21/69 (30%), Positives = 36/69 (52%)
Frame = +3
Query: 255 LEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKA 434
L V + G I+G G ++ + E + +++S+KP +R+VT++G E V KA
Sbjct: 135 LIVPNSTAGLIIGKGGATVKAVMEQSGAWVQLSQKP--EGINLQERVVTVSGEPEQVHKA 192
Query: 435 YLLINDKIQ 461
I K+Q
Sbjct: 193 VSAIVQKVQ 201
>sp|Q61990|PCBP2_MOUSE Poly(rC)-binding protein 2 (Alpha-CP2) (Putative heterogeneous
nuclear ribonucleoprotein X) (hnRNP X) (CTBP) (CBP)
Length = 362
Score = 45.8 bits (107), Expect = 8e-05
Identities = 41/145 (28%), Positives = 68/145 (46%)
Frame = +3
Query: 33 SYTIPDYFGVPIGTTPYNHTNSFENSTFSYSDNRNYGYYTPGTNSHFPVSRSLTTSFSQM 212
+YTI + +P H + + S F + N G+ G S P + ++ +
Sbjct: 225 AYTIQGQYAIPQPDLTKLHQLAMQQSHFPMTHG-NTGF--SGIESSSPEVKGY---WAGL 278
Query: 213 DYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKR 392
D A +SH +T + IG I+G +G I E+++++ IK++ P E S R
Sbjct: 279 DASAQTTSHELT----IPNDLIGCIIGRQGAKINEIRQMSGAQIKIA-NPVEGS---TDR 330
Query: 393 IVTITGLYENVSKAYLLINDKIQLE 467
VTITG ++S A LIN ++ E
Sbjct: 331 QVTITGSAASISLAQYLINVRLSSE 355
Score = 36.6 bits (83), Expect = 0.051
Identities = 20/73 (27%), Positives = 41/73 (56%)
Frame = +3
Query: 243 ITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKRIVTITGLYEN 422
+T L ++ +G+I+G KG S+ +++E + I +S+ +RI+T+ G
Sbjct: 14 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCP------ERIITLAGPTNA 67
Query: 423 VSKAYLLINDKIQ 461
+ KA+ +I DK++
Sbjct: 68 IFKAFAMIIDKLE 80
>sp|Q15366|PCBP2_HUMAN Poly(rC)-binding protein 2 (Alpha-CP2) (hnRNP-E2)
Length = 365
Score = 45.1 bits (105), Expect = 1e-04
Identities = 41/145 (28%), Positives = 67/145 (46%)
Frame = +3
Query: 33 SYTIPDYFGVPIGTTPYNHTNSFENSTFSYSDNRNYGYYTPGTNSHFPVSRSLTTSFSQM 212
+YTI + +P H + + S F + N G+ G S P + + +
Sbjct: 229 AYTIQGQYAIPQPDLTKLHQLAMQQSHFPMTHG-NTGF--SGIESSSPEVKG----YWGL 281
Query: 213 DYIASDSSHGITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKR 392
D A +SH +T + IG I+G +G I E+++++ IK++ P E S R
Sbjct: 282 DASAQTTSHELT----IPNDLIGCIIGRQGAKINEIRQMSGAQIKIA-NPVEGS---TDR 333
Query: 393 IVTITGLYENVSKAYLLINDKIQLE 467
VTITG ++S A LIN ++ E
Sbjct: 334 QVTITGSAASISLAQYLINVRLSSE 358
Score = 36.6 bits (83), Expect = 0.051
Identities = 20/73 (27%), Positives = 41/73 (56%)
Frame = +3
Query: 243 ITRTLEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKRIVTITGLYEN 422
+T L ++ +G+I+G KG S+ +++E + I +S+ +RI+T+ G
Sbjct: 14 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCP------ERIITLAGPTNA 67
Query: 423 VSKAYLLINDKIQ 461
+ KA+ +I DK++
Sbjct: 68 IFKAFAMIIDKLE 80
>sp|P60335|PCBP1_MOUSE Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1)
sp|Q15365|PCBP1_HUMAN Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1) (Nucleic
acid-binding protein SUB2.3)
sp|O19048|PCBP1_RABIT Poly(rC)-binding protein 1 (Alpha-CP1) (hnRNP-E1)
Length = 356
Score = 45.1 bits (105), Expect = 1e-04
Identities = 37/111 (33%), Positives = 58/111 (52%), Gaps = 9/111 (8%)
Frame = +3
Query: 165 SHFPVSRSLTTSFSQMD--------YIAS-DSSHGITRTLEVNETYIGAILGAKGRSIVE 317
SHF + T F+ +D Y AS D+S T L + IG I+G +G +I E
Sbjct: 246 SHFAMMHG-GTGFAGIDSSSPEVKGYWASLDASTQTTHELTIPNNLIGCIIGRQGANINE 304
Query: 318 LQEVTDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKIQLEQ 470
+++++ IK++ P E S + R VTITG ++S A LIN ++ E+
Sbjct: 305 IRQMSGAQIKIA-NPVEGS---SGRQVTITGSAASISLAQYLINARLSSEK 351
Score = 40.0 bits (92), Expect = 0.005
Identities = 24/86 (27%), Positives = 47/86 (54%), Gaps = 2/86 (2%)
Frame = +3
Query: 210 MDYIASDSSHGITRTLEV--NETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKN 383
MD ++S +T T+ + + +G+I+G KG S+ ++E + I +S+
Sbjct: 1 MDAGVTESGLNVTLTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNCP----- 55
Query: 384 NKRIVTITGLYENVSKAYLLINDKIQ 461
+RI+T+TG + KA+ +I DK++
Sbjct: 56 -ERIITLTGPTNAIFKAFAMIIDKLE 80
>sp|P38199|YBD2_YEAST Hypothetical 41.7 kDa protein in RIB1-AAC2 intergenic region
Length = 381
Score = 43.9 bits (102), Expect = 3e-04
Identities = 27/97 (27%), Positives = 50/97 (51%), Gaps = 1/97 (1%)
Frame = +3
Query: 225 SDSSHGITRT-LEVNETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKNNKRIVT 401
S S+ TR L++ E Y+GAI+G I L+ T TNI V +K ++ D+N ++ +
Sbjct: 252 SPSTSSNTRIELKIPELYVGAIIGRGMNRIKNLKTFTKTNIVVERKDDDDKDENFRKFII 311
Query: 402 ITGLYENVSKAYLLINDKIQLEQARRAMASQETDLSE 512
+ +NV A ++ + E +R ++ + +E
Sbjct: 312 TSKFPKNVKLAESMLLKNLNTEIEKRENYKRKLEAAE 348
>sp|P57722|PCBP3_MOUSE Poly(rC)-binding protein 3 (Alpha-CP3)
Length = 339
Score = 42.7 bits (99), Expect = 7e-04
Identities = 33/109 (30%), Positives = 52/109 (47%), Gaps = 6/109 (5%)
Frame = +3
Query: 159 TNSHFPVSRSLTTSFSQMDYIASDSSH------GITRTLEVNETYIGAILGAKGRSIVEL 320
TN FP + S + + SS T L + IG I+G +G I E+
Sbjct: 228 TNPAFPGEKLPLHSSEEAQNLMGQSSGLDASPPASTHELTIPNDLIGCIIGRQGTKINEI 287
Query: 321 QEVTDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKIQLE 467
++++ IK++ TE S ++R +TITG N+S A LIN ++ E
Sbjct: 288 RQMSGAQIKIA-NATEGS---SERQITITGTPANISLAQYLINARLTSE 332
Score = 35.8 bits (81), Expect = 0.088
Identities = 23/86 (26%), Positives = 46/86 (53%), Gaps = 2/86 (2%)
Frame = +3
Query: 210 MDYIASDSSHGITRTLEV--NETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKN 383
M+ S+ +T T+ + + +G+I+G KG ++ +++E + I +S+
Sbjct: 1 MESKVSEGGLNVTLTIRLLMHGKEVGSIIGKKGETVKKMREESGARINISEGNCP----- 55
Query: 384 NKRIVTITGLYENVSKAYLLINDKIQ 461
+RIVTITG + + KA+ +I K +
Sbjct: 56 -ERIVTITGPTDAIFKAFAMIAYKFE 80
>sp|P57721|PCBP3_HUMAN Poly(rC)-binding protein 3 (Alpha-CP3)
Length = 339
Score = 42.7 bits (99), Expect = 7e-04
Identities = 33/109 (30%), Positives = 52/109 (47%), Gaps = 6/109 (5%)
Frame = +3
Query: 159 TNSHFPVSRSLTTSFSQMDYIASDSSH------GITRTLEVNETYIGAILGAKGRSIVEL 320
TN FP + S + + SS T L + IG I+G +G I E+
Sbjct: 228 TNPAFPGEKLPLHSSEEAQNLMGQSSGLDASPPASTHELTIPNDLIGCIIGRQGTKINEI 287
Query: 321 QEVTDTNIKVSKKPTENSDKNNKRIVTITGLYENVSKAYLLINDKIQLE 467
++++ IK++ TE S ++R +TITG N+S A LIN ++ E
Sbjct: 288 RQMSGAQIKIA-NATEGS---SERQITITGTPANISLAQYLINARLTSE 332
Score = 35.8 bits (81), Expect = 0.088
Identities = 23/86 (26%), Positives = 46/86 (53%), Gaps = 2/86 (2%)
Frame = +3
Query: 210 MDYIASDSSHGITRTLEV--NETYIGAILGAKGRSIVELQEVTDTNIKVSKKPTENSDKN 383
M+ S+ +T T+ + + +G+I+G KG ++ +++E + I +S+
Sbjct: 1 MESKVSEGGLNVTLTIRLLMHGKEVGSIIGKKGETVKKMREESGARINISEGNCP----- 55
Query: 384 NKRIVTITGLYENVSKAYLLINDKIQ 461
+RIVTITG + + KA+ +I K +
Sbjct: 56 -ERIVTITGPTDAIFKAFAMIAYKFE 80
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: 64,247,542
Number of Sequences: 369166
Number of extensions: 1215687
Number of successful extensions: 3566
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3448
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): 3552
length of database: 68,354,980
effective HSP length: 105
effective length of database: 48,957,805
effective search space used: 4748907085
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)