>POLN_RRVN (P13887) Nonstructural polyprotein (Polyprotein nsP1234) (P1234)|
            [Contains: 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 3.6.1.1
          Length = 2479

 Score = 31.6 bits (70), Expect = 0.51
 Identities = 20/48 (41%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
 Frame = +1

Query: 1    TKPYPTPLPKP-SHRRLPRSAHLRERASGLHLSPSPGRRTSRAQRICS 141
            T  Y TP+P P + R +P  A   +RAS   +SP+P  R  RA  +CS
Sbjct: 1753 TSEYATPIPTPRAVRVVPVPAPRIQRASTYRVSPTPTPRVLRAS-VCS 1799

>POLN_RRVT (P13888) Nonstructural polyprotein (Polyprotein nsP1234) (P1234)|
           [Contains: Nonstructural protein 3 (nsP3); RNA-directed
           RNA polymerase nsP4 (EC 2.7.7.48) (Nonstructural protein
           4) (nsP4)] (Fragment)
          Length = 1148

 Score = 29.6 bits (65), Expect = 1.9
 Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
 Frame = +1

Query: 1   TKPYPTPLPKPSHRRL-PRSAHLRERASGLHLSPSPGRRTSRAQRICS 141
           T  Y  P+P P   R+ P  A   +RAS   +SP+P  R  RA  +CS
Sbjct: 422 TSEYAKPIPAPRAARVVPVPAPRIQRASTYRVSPTPTPRVLRAS-VCS 468

>CHQB_NOCSI (Q5PXQ6) Hydroxyquinol 1,2-dioxygenase (EC 1.13.11.37) (1,2-HQD)|
          Length = 293

 Score = 29.3 bits (64), Expect = 2.5
 Identities = 17/38 (44%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
 Frame = +1

Query: 7   PYPTPLPKPSHRRLPRSAHLRERASGLH-LSPSPGRRT 117
           PYP P   P  R L  +     RAS LH +  +PGRRT
Sbjct: 196 PYPIPHDGPVGRMLAATGRSPMRASHLHFMVTAPGRRT 233

>PFER_PSEAE (Q04803) Transcriptional activator protein pfeR|
          Length = 305

 Score = 28.9 bits (63), Expect = 3.3
 Identities = 16/34 (47%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
 Frame = +1

Query: 13  PTPLPKPSHRRLPRSAH-LRERASGLHLSPSPGR 111
           P P PKP  RRL R    LR R   L   P PG+
Sbjct: 28  PKPEPKPKQRRLCRKVFPLRARCGALAHCPIPGK 61

>VL2_HPV17 (P36751) Minor capsid protein L2|
          Length = 524

 Score = 28.5 bits (62), Expect = 4.3
 Identities = 13/30 (43%), Positives = 18/30 (60%)
 Frame = +2

Query: 41  VVFLGQPTYASAPPAYISRPRLGGEPAERS 130
           VV LG+PTY+  P  Y+   RLG   + R+
Sbjct: 330 VVRLGRPTYSETPQGYLRVSRLGRRASIRT 359

>ZN263_HUMAN (O14978) Zinc finger protein 263 (Zinc finger protein FPM315)|
          Length = 683

 Score = 28.5 bits (62), Expect = 4.3
 Identities = 16/44 (36%), Positives = 20/44 (45%)
 Frame = +1

Query: 13  PTPLPKPSHRRLPRSAHLRERASGLHLSPSPGRRTSRAQRICSG 144
           P P P PS    P ++HLR R      +  P    SR Q +C G
Sbjct: 29  PPPDPGPS----PEASHLRFRRFRFQEAAGPREALSRLQELCHG 68

>VL2_HPV15 (P36750) Minor capsid protein L2|
          Length = 533

 Score = 28.5 bits (62), Expect = 4.3
 Identities = 12/23 (52%), Positives = 15/23 (65%)
 Frame = +2

Query: 41  VVFLGQPTYASAPPAYISRPRLG 109
           VV LG+PTY+  P  Y+   RLG
Sbjct: 329 VVRLGRPTYSETPQGYVRVSRLG 351

>VL2_HPV63 (Q07863) Minor capsid protein L2|
          Length = 504

 Score = 28.1 bits (61), Expect = 5.7
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
 Frame = +2

Query: 26  QNPRIVVFLGQPTYASAPPAYISRPRLGGEP--AERSGYARGLEA 154
           Q+ R +V+L +PTY+ AP   +   RLG     + RSG   G ++
Sbjct: 297 QDFRDIVYLSRPTYSRAPDGRMRLSRLGRRATISTRSGVTIGAQS 341

>UFD2_YEAST (P54860) Ubiquitin conjugation factor E4 (Ubiquitin fusion|
           degradation protein 2) (UB fusion protein 2)
          Length = 961

 Score = 28.1 bits (61), Expect = 5.7
 Identities = 13/35 (37%), Positives = 19/35 (54%)
 Frame = +2

Query: 11  TLPLFQNPRIVVFLGQPTYASAPPAYISRPRLGGE 115
           T P+F+NPR+  F+   T     P  +S P L G+
Sbjct: 546 TSPIFRNPRLGSFVEFTTMVLRCPELVSNPHLKGK 580

>MAST2_HUMAN (Q6P0Q8) Microtubule-associated serine/threonine-protein kinase 2 (EC|
            2.7.11.1)
          Length = 1798

 Score = 27.7 bits (60), Expect = 7.4
 Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
 Frame = +1

Query: 13   PTPLPKPSHRRLPRSAHLRER-ASGLHLSPSPGRRTSR 123
            P P   P     P S H+ +   + LHLSP  GR+ SR
Sbjct: 1353 PPPTASPQRSPSPLSGHVAQAFPTKLHLSPPLGRQLSR 1390

>BRD4_MOUSE (Q9ESU6) Bromodomain-containing protein 4 (Mitotic|
            chromosome-associated protein) (MCAP)
          Length = 1400

 Score = 27.7 bits (60), Expect = 7.4
 Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
 Frame = +1

Query: 7    PYPTPLPKPSHRRLPRSAHLRERASGLHLS---PSPGRR 114
            P P P P+  H+  PR  HL       H+    P PG++
Sbjct: 983  PQPQPPPQQQHQPPPRPVHLPSMPFSAHIQQPPPPPGQQ 1021

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

 Score = 27.7 bits (60), Expect = 7.4
 Identities = 11/33 (33%), Positives = 15/33 (45%)
 Frame = +1

Query: 7    PYPTPLPKPSHRRLPRSAHLRERASGLHLSPSP 105
            P P P P+  H+  PR  HL+      H+   P
Sbjct: 980  PQPQPPPQQQHQPPPRPVHLQPMQFSTHIQQPP 1012

>VL2_HPV37 (Q80905) Minor capsid protein L2|
          Length = 534

 Score = 27.3 bits (59), Expect = 9.7
 Identities = 12/23 (52%), Positives = 15/23 (65%)
 Frame = +2

Query: 41  VVFLGQPTYASAPPAYISRPRLG 109
           V+ LG+PT A  P AY+   RLG
Sbjct: 330 VIRLGRPTVAETPQAYLRVSRLG 352

>MDC1_PIG (Q767L8) Mediator of DNA damage checkpoint protein 1|
          Length = 2042

 Score = 27.3 bits (59), Expect = 9.7
 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
 Frame = +1

Query: 13   PTPLPKPSHRRLPRSAHLRERASG------LHLSPSPGRRTSRAQRI 135
            P P+P+ S  R PR+   RE  +           P P  R+SR Q +
Sbjct: 1675 PEPIPRASCSRRPRATRKRESLTAHVGPDPCSAPPEPNSRSSRTQSL 1721

>AIR2_YEAST (Q12476) Protein AIR2 (Arginine methyltransferase-interacting RING|
           finger protein 2)
          Length = 344

 Score = 27.3 bits (59), Expect = 9.7
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
 Frame = +1

Query: 19  PLPKPSHRRLPRSAHL-----RERASGLHLSPSPGRRTSRAQRICSG 144
           PLP+PSH+R  ++ H      + RAS  H  P P ++++  Q    G
Sbjct: 231 PLPRPSHKRHSQNDHSHSGRNKRRASNFH--PPPYQKSNVIQPTIRG 275

>CTRO_HUMAN (O14578) Citron Rho-interacting kinase (EC 2.7.11.1) (CRIK)|
            (Rho-interacting, serine/threonine-protein kinase 21)
          Length = 2027

 Score = 27.3 bits (59), Expect = 9.7
 Identities = 16/38 (42%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
 Frame = +1

Query: 13   PTPLPKPSHRRLPRSAH-LRERASGLHLSPSPGRRTSR 123
            P P   PSH R P + H  RE  + L    SPGR   R
Sbjct: 1941 PAPPEGPSHPREPSTPHRYREGRTELRRDKSPGRPLER 1978

>ALK_MOUSE (P97793) ALK tyrosine kinase receptor precursor (EC 2.7.10.1)|
            (Anaplastic lymphoma kinase) (CD246 antigen)
          Length = 1621

 Score = 27.3 bits (59), Expect = 9.7
 Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 3/35 (8%)
 Frame = +2

Query: 50   LGQPTYAS---APPAYISRPRLGGEPAERSGYARG 145
            L  PTY S   A PA  + P  G EP  R+G A G
Sbjct: 1511 LWNPTYGSWFTAKPAKKTHPPPGAEPQARAGAAEG 1545


  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: 30,274,706
Number of Sequences: 219361
Number of extensions: 376898
Number of successful extensions: 1691
Number of sequences better than 10.0: 17
Number of HSP's better than 10.0 without gapping: 1552
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): 1685
length of database: 80,573,946
effective HSP length: 88
effective length of database: 61,270,178
effective search space used: 1470484272
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)