>NUP98_HUMAN (P52948) Nuclear pore complex protein Nup98-Nup96 precursor|
            [Contains: Nuclear pore complex protein Nup98
            (Nucleoporin Nup98) (98 kDa nucleoporin); Nuclear pore
            complex protein Nup96 (Nucleoporin Nup96) (96 kDa
            nucleoporin)]
          Length = 1729

 Score = 37.4 bits (85), Expect = 0.023
 Identities = 28/90 (31%), Positives = 38/90 (42%), Gaps = 2/90 (2%)
 Frame = +3

Query: 240  STAKAQALPVPPSTKQSHSQVRGLLQVLH--PAPPPQRDRPVVEQLRLAIIGTADAATSC 413
            ST K +  P+PP+     SQ   L   L+  PAPPPQ   P VEQL   +   +D     
Sbjct: 900  STKKLKTAPLPPA-----SQTTPLQMALNGKPAPPPQSQSPEVEQLGRVVELDSDMVDIT 954

Query: 414  QPAVRALQCPGARPQRREDDHEPLHVHQRL 503
            Q  V       + P+ +E      H+   L
Sbjct: 955  QEPVLDTMLEESMPEDQEPVSASTHIASSL 984

>ZEP2_RAT (Q00900) Human immunodeficiency virus type I enhancer-binding|
           protein 2 homolog (DNA-binding protein AGIE-BP1)
           (Angiotensinogen gene-inducible enhancer-binding protein
           1) (Myc intron-binding protein 1)
          Length = 2437

 Score = 37.0 bits (84), Expect = 0.030
 Identities = 27/66 (40%), Positives = 36/66 (54%), Gaps = 8/66 (12%)
 Frame = +3

Query: 174 FPLSNPSLFK*VIHNSTDIRYNS--TAKAQALPVPPSTKQSHS---QVRGLLQVLHPAP- 335
           FP SNP L +  + +S  IR NS  T+ A  L +PPS + SHS   ++ G   V +P   
Sbjct: 523 FPGSNPILLEAPVDSSPLIRSNSMPTSSATNLSIPPSLRGSHSFDERMTGSDDVFYPGTV 582

Query: 336 --PPQR 347
             PPQR
Sbjct: 583 GIPPQR 588

>ZEP2_MOUSE (Q3UHF7) Human immunodeficiency virus type I enhancer-binding|
           protein 2 homolog (Myc intron-binding protein 1)
           (MIBP-1)
          Length = 2430

 Score = 34.3 bits (77), Expect = 0.20
 Identities = 26/63 (41%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
 Frame = +3

Query: 183 SNPSLFK*VIHNSTDIRYNS--TAKAQALPVPPSTKQSHS---QVRGLLQVLHPAP---P 338
           SNP L +  + +S  IR NS  T+ A  L VPPS + SHS   ++ G   V +P     P
Sbjct: 526 SNPMLLEAPVDSSPLIRSNSMPTSSATNLSVPPSLRGSHSFDERMTGSDDVFYPGTVGIP 585

Query: 339 PQR 347
           PQR
Sbjct: 586 PQR 588

>ZEP2_HUMAN (P31629) Human immunodeficiency virus type I enhancer-binding|
           protein 2 (HIV-EP2) (MHC-binding protein 2) (MBP-2)
          Length = 2446

 Score = 33.9 bits (76), Expect = 0.26
 Identities = 26/66 (39%), Positives = 35/66 (53%), Gaps = 8/66 (12%)
 Frame = +3

Query: 174 FPLSNPSLFK*VIHNSTDIRYNS--TAKAQALPVPPSTKQSHS---QVRGLLQVLHPAP- 335
           F  SNP L +  + +S  IR NS  T+ A  L +PPS + SHS   ++ G   V +P   
Sbjct: 523 FQGSNPVLLEAPVDSSPLIRSNSVPTSSATNLTIPPSLRGSHSFDERMTGSDDVFYPGTV 582

Query: 336 --PPQR 347
             PPQR
Sbjct: 583 GIPPQR 588

>BRD4_HUMAN (O60885) Bromodomain-containing protein 4 (HUNK1 protein)|
          Length = 1362

 Score = 32.0 bits (71), Expect = 0.97
 Identities = 15/42 (35%), Positives = 21/42 (50%)
 Frame = +3

Query: 243  TAKAQALPVPPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQ 368
            + K Q+ P PP     H  V+  LQ   P PPP + +P  +Q
Sbjct: 947  SVKVQSQPPPPLPPPPHPSVQQQLQQQPPPPPPPQPQPPPQQ 988

>POLN_SAGV (Q9JGL0) Nonstructural polyprotein (Polyprotein nsP1234) (P1234)|
            [Contains: P123; P123'; mRNA capping enzyme nsP1 (EC
            2.1.1.-) (EC 2.7.7.-) (Nonstructural protein 1);
            Protease/triphosphatase/NTPase/helicase nsP2 (EC
            3.4.22.-) (EC 3.1.3.33) (EC
          Length = 2466

 Score = 31.2 bits (69), Expect = 1.7
 Identities = 26/103 (25%), Positives = 38/103 (36%), Gaps = 21/103 (20%)
 Frame = +3

Query: 237  NSTAKAQALPVPPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQLR-------------- 374
            ++T+   A  +P  T     +V   +    P PPP+R R  V QLR              
Sbjct: 1671 STTSTGSAWSLPSETTYETMEVVAEVHTEPPIPPPRRRRAAVAQLRQDLEVTEEIEPYVI 1730

Query: 375  -------LAIIGTADAATSCQPAVRALQCPGARPQRREDDHEP 482
                   +  + T D      PA RA+  P   P+ R+   EP
Sbjct: 1731 QQAEIMVMERVATTDIRAIPVPARRAITMPVPAPRVRKVATEP 1773

>CR1_HORVU (P23251) Cold-regulated protein 1 (Fragment)|
          Length = 127

 Score = 31.2 bits (69), Expect = 1.7
 Identities = 18/46 (39%), Positives = 24/46 (52%)
 Frame = +3

Query: 327 PAPPPQRDRPVVEQLRLAIIGTADAATSCQPAVRALQCPGARPQRR 464
           PAP P R  P      LA   +A AA++C+P +  L  P  R +RR
Sbjct: 46  PAPLPARLFPGRASSPLARTPSAGAASACKPLLERLPTPSRRRRRR 91

>ARID2_HUMAN (Q68CP9) AT-rich interactive domain-containing protein 2 (ARID|
            domain-containing protein 2) (BRG1-associated factor 200)
            (BAF200)
          Length = 1835

 Score = 30.8 bits (68), Expect = 2.2
 Identities = 21/64 (32%), Positives = 31/64 (48%)
 Frame = +3

Query: 177  PLSNPSLFK*VIHNSTDIRYNSTAKAQALPVPPSTKQSHSQVRGLLQVLHPAPPPQRDRP 356
            P S+PS      +N      +S++  Q+   PP+  Q  S  R   Q   PAPPPQ+ + 
Sbjct: 970  PSSSPSPVP-ATNNQVPTAMSSSSTPQSQGPPPTVSQMLSVKRQQQQQHSPAPPPQQVQV 1028

Query: 357  VVEQ 368
             V+Q
Sbjct: 1029 QVQQ 1032

>EP400_MOUSE (Q8CHI8) E1A-binding protein p400 (EC 3.6.1.-) (p400 kDa|
            SWI2/SNF2-related protein) (Domino homolog) (mDomino)
          Length = 3072

 Score = 30.4 bits (67), Expect = 2.8
 Identities = 25/74 (33%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
 Frame = +3

Query: 249  KAQALPV----PPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQLRLAIIGTADAATSCQ 416
            KAQ  PV    P   +Q   Q +   Q   P PPPQ+  P V Q          AA+S  
Sbjct: 2450 KAQQPPVTQPPPQQQQQQQQQQQQQQQQQQPPPPPQQPPPPVPQ--------PQAASSQT 2501

Query: 417  PAVRALQCPGARPQ 458
            PA +    P  +PQ
Sbjct: 2502 PAGQPAVQPQPQPQ 2515

>POLN_GETV (Q5Y389) Nonstructural polyprotein (Polyprotein nsP1234) (P1234)|
            [Contains: P123; P123'; mRNA capping enzyme nsP1 (EC
            2.1.1.-) (EC 2.7.7.-) (Nonstructural protein 1);
            Protease/triphosphatase/NTPase/helicase nsP2 (EC
            3.4.22.-) (EC 3.1.3.33) (EC
          Length = 2466

 Score = 30.4 bits (67), Expect = 2.8
 Identities = 26/103 (25%), Positives = 37/103 (35%), Gaps = 21/103 (20%)
 Frame = +3

Query: 237  NSTAKAQALPVPPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQLR-------------- 374
            ++T+   A   P  T     +V   +    P PPP+R R  V QLR              
Sbjct: 1671 STTSTGSAWSFPSETTYETMEVVAEVHTEPPIPPPRRRRAAVAQLRQDLEVTEEIEPYVT 1730

Query: 375  -------LAIIGTADAATSCQPAVRALQCPGARPQRREDDHEP 482
                   +  + T D      PA RA+  P   P+ R+   EP
Sbjct: 1731 QQAEIMVMERVATTDIRAIPVPARRAITMPVPAPRVRKVATEP 1773

>RIN4_ARATH (Q8GYN5) RPM1-interacting protein 4|
          Length = 211

 Score = 30.0 bits (66), Expect = 3.7
 Identities = 14/31 (45%), Positives = 19/31 (61%)
 Frame = +3

Query: 210 IHNSTDIRYNSTAKAQALPVPPSTKQSHSQV 302
           I N  D  YNS +++QA P PPS++    QV
Sbjct: 37  IMNPNDPEYNSDSQSQAPPHPPSSRTKPEQV 67

>SUPT3_HUMAN (O75486) Transcription initiation protein SPT3 homolog (SPT3-like|
           protein)
          Length = 399

 Score = 29.6 bits (65), Expect = 4.8
 Identities = 17/42 (40%), Positives = 20/42 (47%)
 Frame = +3

Query: 243 TAKAQALPVPPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQ 368
           TA+A A    P    SHS+V   L  LH   PP R  P V +
Sbjct: 12  TAEATANSPSPPIAPSHSRVTFSLSTLHTLSPPPRPFPSVSR 53

>MPPA_BLAEM (P97997) Mitochondrial-processing peptidase alpha subunit,|
           mitochondrial precursor (EC 3.4.24.64) (Alpha-MPP)
          Length = 474

 Score = 29.6 bits (65), Expect = 4.8
 Identities = 17/61 (27%), Positives = 27/61 (44%)
 Frame = +3

Query: 156 LIVNSFFPLSNPSLFK*VIHNSTDIRYNSTAKAQALPVPPSTKQSHSQVRGLLQVLHPAP 335
           L+  +F P S  +    V H+  +  Y   +    +P PP T  ++ Q    +QV  P P
Sbjct: 211 LVSKAFVPSSTRAPSS-VTHSDIETAYVGGSHQLVIPKPPPTHPNYEQTLTHVQVAFPVP 269

Query: 336 P 338
           P
Sbjct: 270 P 270

>WIF1_DROME (Q9W3W5) Protein shifted precursor (WIF-1-like protein)|
          Length = 456

 Score = 29.6 bits (65), Expect = 4.8
 Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 9/29 (31%)
 Frame = +1

Query: 253 HKHCQCHP---------QRSSHIHR*GDS 312
           HKHC+CHP         ++  H+HR  DS
Sbjct: 426 HKHCKCHPGFYGRHCNGRKRRHVHRNDDS 454

>LIMK1_DROME (Q8IR79) LIM domain kinase 1 (EC 2.7.11.1) (LIMK-1) (dLIMK)|
          Length = 1257

 Score = 29.3 bits (64), Expect = 6.3
 Identities = 37/147 (25%), Positives = 55/147 (37%), Gaps = 15/147 (10%)
 Frame = +3

Query: 81   FQILEATFYAGNGG*NCRPRRASSYLIVNS-FFPLSNPSLF---K*VIHNST--DIRYNS 242
            FQ LE    A NGG NC P    +  I  +  F   NP +    + + H  +  D+  + 
Sbjct: 949  FQRLEHEAAALNGGNNCPPPPPRTQRINQTPIFGRKNPPVAIVGQKLQHAESLEDLASSG 1008

Query: 243  TAKAQALPVPPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQLRLAIIGTADAATSCQPA 422
             AK  A P P  +K + +   G         PP  +  V       +  T +  +SC P+
Sbjct: 1009 VAKQLATPAPKRSKATATTKGGQSSNPPLFLPPSLNISVALNSNGNVTTTTNTNSSCPPS 1068

Query: 423  VR---------ALQCPGARPQRREDDH 476
                        L  P A+ QR   +H
Sbjct: 1069 ASDWLPKKHKLTLPLPSAQQQRTSSNH 1095

>SEY1_YARLI (Q6C3B0) Protein SEY1|
          Length = 938

 Score = 29.3 bits (64), Expect = 6.3
 Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 6/76 (7%)
 Frame = +3

Query: 276 STKQSHSQVRGLLQVLHPAPPPQRDRPVVEQLRLAIIGTADAATSCQPAVRALQCPGAR- 452
           S   SHS    +    HPAPPP   RPV E   +A +   +   + +P       P    
Sbjct: 33  SVSSSHSSHSPVTTHHHPAPPPPASRPVRES-GVAPVTAPEPIAAPEPIAAPEPIPAPEP 91

Query: 453 -----PQRREDDHEPL 485
                P+  + +H+P+
Sbjct: 92  IAAPVPEGLKSEHKPV 107

>THAP8_HUMAN (Q8NA92) THAP domain-containing protein 8|
          Length = 274

 Score = 28.9 bits (63), Expect = 8.2
 Identities = 20/57 (35%), Positives = 26/57 (45%)
 Frame = +3

Query: 309 LLQVLHPAPPPQRDRPVVEQLRLAIIGTADAATSCQPAVRALQCPGARPQRREDDHE 479
           LL  L PAP P+R +P V            A T   P + ALQ    R QR ++ H+
Sbjct: 147 LLTPLAPAPTPERSQPEVP--------AQQAQTGLGPVLGALQRRVRRLQRCQERHQ 195

>SFPQ_MOUSE (Q8VIJ6) Splicing factor, proline- and glutamine-rich|
           (Polypyrimidine tract-binding protein-associated
           splicing factor) (PTB-associated splicing factor) (PSF)
           (DNA-binding p52/p100 complex, 100 kDa subunit)
          Length = 699

 Score = 28.9 bits (63), Expect = 8.2
 Identities = 21/62 (33%), Positives = 26/62 (41%)
 Frame = +3

Query: 270 PPSTKQSHSQVRGLLQVLHPAPPPQRDRPVVEQLRLAIIGTADAATSCQPAVRALQCPGA 449
           PP  +  H Q         P PPPQ  +PVV Q      G+A   +S  P   A+  P A
Sbjct: 86  PPPHQPPHQQ---------PPPPPQESKPVVPQGP----GSAPGVSSAPPP--AVSAPPA 130

Query: 450 RP 455
            P
Sbjct: 131 NP 132

>MMPLB_MYCTU (P65374) Putative membrane protein mmpL11|
          Length = 966

 Score = 28.9 bits (63), Expect = 8.2
 Identities = 23/63 (36%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
 Frame = +3

Query: 225 DIRYNSTAKAQALPVPPSTKQSHSQVRGLLQVLHPAP-PPQRDRPVVEQLRLAI--IGTA 395
           D  Y     A AL      +Q  S++ G+ +  +P   PPQ DRP V  LRL     GT+
Sbjct: 77  DASYQDIDNAVAL-----LRQIASELPGVTEAPNPTQRPPQPDRPYVVSLRLDARNAGTS 131

Query: 396 DAA 404
           D A
Sbjct: 132 DVA 134

>MMPLB_MYCBO (P65375) Putative membrane protein mmpL11|
          Length = 966

 Score = 28.9 bits (63), Expect = 8.2
 Identities = 23/63 (36%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
 Frame = +3

Query: 225 DIRYNSTAKAQALPVPPSTKQSHSQVRGLLQVLHPAP-PPQRDRPVVEQLRLAI--IGTA 395
           D  Y     A AL      +Q  S++ G+ +  +P   PPQ DRP V  LRL     GT+
Sbjct: 77  DASYQDIDNAVAL-----LRQIASELPGVTEAPNPTQRPPQPDRPYVVSLRLDARNAGTS 131

Query: 396 DAA 404
           D A
Sbjct: 132 DVA 134

>SMI1_DEBHA (Q6BW41) KNR4/SMI1 homolog 1|
          Length = 451

 Score = 28.9 bits (63), Expect = 8.2
 Identities = 12/39 (30%), Positives = 22/39 (56%)
 Frame = -2

Query: 283 FVEGGTGSACAFAVELYRMSVELWMTYLNKLGLERGKKL 167
           FVE GT     +   L +  +E W++ LN+L  E+ +++
Sbjct: 329 FVEKGTNKEIPYLEVLKKRCIEKWLSSLNELNSEKSEEI 367


  Database: uniprot_sprot.fasta
    Posted date:  May 25, 2006  5:36 PM
  Number of letters in database: 80,573,946
  Number of sequences in database:  219,361
  
Lambda     K      H
   0.318    0.135    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: 70,166,809
Number of Sequences: 219361
Number of extensions: 1452692
Number of successful extensions: 4553
Number of sequences better than 10.0: 21
Number of HSP's better than 10.0 without gapping: 4344
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): 4539
length of database: 80,573,946
effective HSP length: 104
effective length of database: 57,760,402
effective search space used: 3638905326
frameshift window, decay const: 50,  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)