>CB4B_ARATH (Q9XF88) Chlorophyll a-b binding protein CP29.2, chloroplast|
           precursor (LHCII protein 4.2) (LHCB4.2)
          Length = 287

 Score = 60.1 bits (144), Expect = 1e-09
 Identities = 30/63 (47%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
 Frame = +1

Query: 112 TFLGTRL-ADPAPQNGRIVARFGFGXXXXXXXXXXXXXTTDRPLWSPGAQAPEYLDGTLV 288
           + +GTR+ +D +  + R  ARFGFG             + DRPLW PGA++PEYLDG+LV
Sbjct: 12  SIMGTRVVSDISSNSSRFTARFGFGTKKASPKKAKTVIS-DRPLWFPGAKSPEYLDGSLV 70

Query: 289 GDY 297
           GDY
Sbjct: 71  GDY 73

>CB4A_ARATH (Q07473) Chlorophyll a-b binding protein CP29.1, chloroplast|
           precursor (LHCII protein 4.1) (LHCB4.1)
          Length = 290

 Score = 58.9 bits (141), Expect = 3e-09
 Identities = 31/64 (48%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
 Frame = +1

Query: 112 TFLGTRLADPA-PQNGRIVARFGFGXXXXX-XXXXXXXXTTDRPLWSPGAQAPEYLDGTL 285
           + +GTR+A    P +GR  A FGFG              TTDRPLW PGA +P++LDG+L
Sbjct: 13  SIMGTRVAPGIHPGSGRFTAVFGFGKKKAAPKKSAKKTVTTDRPLWYPGAISPDWLDGSL 72

Query: 286 VGDY 297
           VGDY
Sbjct: 73  VGDY 76

>CB4C_ARATH (Q9S7W1) Chlorophyll a-b binding protein CP29.3, chloroplast|
           precursor (LHCII protein 4.3) (LHCB4.3)
          Length = 276

 Score = 50.1 bits (118), Expect = 1e-06
 Identities = 25/63 (39%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
 Frame = +1

Query: 121 GTRLADPAPQNGRIVARFGFGXXXXXXX-----XXXXXXTTDRPLWSPGAQAPEYLDGTL 285
           G R+ DP P  GR+ ARFGF                     DR +W PGA  PE+LDG++
Sbjct: 14  GIRIQDPRPGTGRVQARFGFSFGKKKPAPPPKKSRQVQDDGDRLVWFPGANPPEWLDGSM 73

Query: 286 VGD 294
           +GD
Sbjct: 74  IGD 76

>CB12_PETHY (P13869) Chlorophyll a-b binding protein, chloroplast precursor|
           (LHCI type II CAB)
          Length = 270

 Score = 39.7 bits (91), Expect = 0.002
 Identities = 15/23 (65%), Positives = 19/23 (82%)
 Frame = +1

Query: 229 DRPLWSPGAQAPEYLDGTLVGDY 297
           DRPLW PG+  PE+LDG+L GD+
Sbjct: 64  DRPLWFPGSTPPEWLDGSLPGDF 86

>CB12_LYCES (P10708) Chlorophyll a-b binding protein 7, chloroplast precursor|
           (LHCI type II CAB-7)
          Length = 270

 Score = 37.4 bits (85), Expect = 0.010
 Identities = 14/23 (60%), Positives = 18/23 (78%)
 Frame = +1

Query: 229 DRPLWSPGAQAPEYLDGTLVGDY 297
           DRPLW PG+  P +LDG+L GD+
Sbjct: 64  DRPLWFPGSTPPPWLDGSLPGDF 86

>VNUA_PRVKA (P33485) Probable nuclear antigen|
          Length = 1733

 Score = 33.9 bits (76), Expect = 0.11
 Identities = 21/53 (39%), Positives = 23/53 (43%)
 Frame = +3

Query: 21   RHPNARKGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRL 179
            R    R GRGG+             GR G   PR   GGPG   RA RG VR+
Sbjct: 1442 RGRGGRGGRGGR-------------GRGGGRAPRGGGGGPGGGGRAGRGEVRV 1481

>COHA1_HUMAN (Q9UMD9) Collagen alpha-1(XVII) chain (Bullous pemphigoid antigen|
           2) (180 kDa bullous pemphigoid antigen 2)
          Length = 1497

 Score = 30.8 bits (68), Expect = 0.92
 Identities = 17/48 (35%), Positives = 22/48 (45%)
 Frame = +3

Query: 27  PNARKGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGA 170
           P   KG+ G   +  +       GR G   PR  AG PG+ E+  RGA
Sbjct: 601 PQGPKGQKGSVGDPGMEGPMGQRGREGPMGPRGEAGPPGSGEKGERGA 648

>CO3A1_MOUSE (P08121) Collagen alpha-1(III) chain precursor|
          Length = 1464

 Score = 30.0 bits (66), Expect = 1.6
 Identities = 16/36 (44%), Positives = 18/36 (50%)
 Frame = +3

Query: 39  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGA 146
           KG GG      ++      G RGEH P  PAG PGA
Sbjct: 778 KGEGGSPGLPGIAGPRGGPGERGEHGPPGPAGFPGA 813

>CO3A1_RAT (P13941) Collagen alpha-1(III) chain precursor|
          Length = 1463

 Score = 29.6 bits (65), Expect = 2.0
 Identities = 16/36 (44%), Positives = 18/36 (50%)
 Frame = +3

Query: 39  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGA 146
           KG GG      ++      G RGEH P  PAG PGA
Sbjct: 778 KGEGGAPGLPGIAGPRGGPGERGEHGPPGPAGFPGA 813

>HNRL1_MOUSE (Q8VDM6) Heterogeneous nuclear ribonucleoprotein U-like protein 1|
          Length = 859

 Score = 29.6 bits (65), Expect = 2.0
 Identities = 16/43 (37%), Positives = 20/43 (46%)
 Frame = +3

Query: 39  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRG 167
           +GRGG    +R  + G  GG RG    R   GG G     +RG
Sbjct: 618 RGRGGGGGFQRYDNRGPPGGNRGGFQNRGGGGGSGGGGGNYRG 660

>CB24_ARATH (P27521) Chlorophyll a-b binding protein 4, chloroplast precursor|
           (LHCI type III CAB-4) (LHCP)
          Length = 251

 Score = 29.3 bits (64), Expect = 2.7
 Identities = 13/48 (27%), Positives = 19/48 (39%)
 Frame = +1

Query: 151 NGRIVARFGFGXXXXXXXXXXXXXTTDRPLWSPGAQAPEYLDGTLVGD 294
           +GR+     F                 +  W PG  +P+YL G+L GD
Sbjct: 27  SGRLNRDLSFTSIGSSAKTSSFKVEAKKGEWLPGLASPDYLTGSLAGD 74

>CO6A3_CHICK (P15989) Collagen alpha-3(VI) chain precursor|
          Length = 3137

 Score = 29.3 bits (64), Expect = 2.7
 Identities = 20/49 (40%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
 Frame = +3

Query: 30   NARKGRGGQS*EERVSSHGFVG--GRRGEHVPRDPAGGPG-AAERAHRG 167
            + R G GG   + R    GFVG  G +G    R  AGGPG    R  RG
Sbjct: 2301 DGRDGIGGPGPKGRKGERGFVGYPGPKGGPGDRGGAGGPGPKGNRGRRG 2349

>PP1RA_RAT (O55000) Serine/threonine-protein phosphatase 1 regulatory subunit|
           10 (Phosphatase 1 nuclear targeting subunit) (PNUTS
           protein) (MHC class I region proline-rich protein CAT53)
          Length = 872

 Score = 28.9 bits (63), Expect = 3.5
 Identities = 19/48 (39%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
 Frame = +3

Query: 27  PNARKGRGGQS*EERVSSHGFVGGRRGEHVPRD-PAGGPGAAERAHRG 167
           PN R G GG          G VGG  G H P + P G  G+  R+H G
Sbjct: 734 PNGRGGPGGG---------GMVGG--GGHRPHEGPGGSMGSGHRSHEG 770

>CB11_LYCES (P12360) Chlorophyll a-b binding protein 6A, chloroplast precursor|
           (LHCI type I CAB-6A) (Light-harvesting complex I 26 kDa
           protein)
          Length = 246

 Score = 28.9 bits (63), Expect = 3.5
 Identities = 10/19 (52%), Positives = 12/19 (63%)
 Frame = +1

Query: 241 WSPGAQAPEYLDGTLVGDY 297
           W PG   P YLDG+  GD+
Sbjct: 49  WMPGQPRPSYLDGSAPGDF 67

>CB29_CHLRE (Q93WD2) Chlorophyll a-b binding protein CP29|
          Length = 279

 Score = 28.9 bits (63), Expect = 3.5
 Identities = 11/19 (57%), Positives = 13/19 (68%)
 Frame = +1

Query: 238 LWSPGAQAPEYLDGTLVGD 294
           LW P    PE+LDG+L GD
Sbjct: 51  LWLPNTTRPEWLDGSLPGD 69


  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
   0.317    0.141    0.443 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,377,603
Number of Sequences: 219361
Number of extensions: 408767
Number of successful extensions: 1475
Number of sequences better than 10.0: 15
Number of HSP's better than 10.0 without gapping: 1241
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): 1469
length of database: 80,573,946
effective HSP length: 74
effective length of database: 64,341,232
effective search space used: 1544189568
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 (21.6 bits)