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

 Score = 67.8 bits (164), Expect = 7e-12
 Identities = 33/65 (50%), Positives = 43/65 (66%), Gaps = 1/65 (1%)
 Frame = +1

Query: 112 TFLGTRL-ADPAPQNGRIVARFGFGXXXXXXXXXXXXXTTDRPLWFPGAQAPEYLDGTLV 288
           + +GTR+ +D +  + R  ARFGFG             + DRPLWFPGA++PEYLDG+LV
Sbjct: 12  SIMGTRVVSDISSNSSRFTARFGFGTKKASPKKAKTVIS-DRPLWFPGAKSPEYLDGSLV 70

Query: 289 GDYGF 303
           GDYGF
Sbjct: 71  GDYGF 75

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

 Score = 65.5 bits (158), Expect = 3e-11
 Identities = 33/66 (50%), Positives = 42/66 (63%), Gaps = 2/66 (3%)
 Frame = +1

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

Query: 286 VGDYGF 303
           VGDYGF
Sbjct: 73  VGDYGF 78

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

 Score = 57.0 bits (136), Expect = 1e-08
 Identities = 28/66 (42%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
 Frame = +1

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

Query: 286 VGDYGF 303
           +GD GF
Sbjct: 74  IGDRGF 79

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

 Score = 47.4 bits (111), Expect = 9e-06
 Identities = 18/25 (72%), Positives = 22/25 (88%)
 Frame = +1

Query: 229 DRPLWFPGAQAPEYLDGTLVGDYGF 303
           DRPLWFPG+  PE+LDG+L GD+GF
Sbjct: 64  DRPLWFPGSTPPEWLDGSLPGDFGF 88

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

 Score = 45.1 bits (105), Expect = 5e-05
 Identities = 17/25 (68%), Positives = 21/25 (84%)
 Frame = +1

Query: 229 DRPLWFPGAQAPEYLDGTLVGDYGF 303
           DRPLWFPG+  P +LDG+L GD+GF
Sbjct: 64  DRPLWFPGSTPPPWLDGSLPGDFGF 88

>CB13_LYCES (P27522) Chlorophyll a-b binding protein 8, chloroplast precursor|
           (LHCI type III CAB-8)
          Length = 273

 Score = 34.7 bits (78), Expect = 0.063
 Identities = 14/25 (56%), Positives = 17/25 (68%)
 Frame = +1

Query: 229 DRPLWFPGAQAPEYLDGTLVGDYGF 303
           +R LWF   Q+  YLDG L GD+GF
Sbjct: 52  NRQLWFASKQSLSYLDGRLPGDFGF 76

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

 Score = 33.9 bits (76), Expect = 0.11
 Identities = 15/51 (29%), Positives = 21/51 (41%)
 Frame = +1

Query: 151 NGRIVARFGFGXXXXXXXXXXXXXTTDRPLWFPGAQAPEYLDGTLVGDYGF 303
           +GR+     F                 +  W PG  +P+YL G+L GD GF
Sbjct: 27  SGRLNRDLSFTSIGSSAKTSSFKVEAKKGEWLPGLASPDYLTGSLAGDNGF 77

>LH18_EUGGR (P08976) Light-harvesting complex I LH38 proteins precursor|
           [Contains: LH38 protein 1; LH38 protein 2; LH38 protein
           3] (Fragment)
          Length = 530

 Score = 33.9 bits (76), Expect = 0.11
 Identities = 13/23 (56%), Positives = 15/23 (65%)
 Frame = +1

Query: 235 PLWFPGAQAPEYLDGTLVGDYGF 303
           PLWFP   AP +L+G   GD GF
Sbjct: 3   PLWFPNTLAPSWLNGEYYGDRGF 25



 Score = 32.3 bits (72), Expect = 0.31
 Identities = 13/25 (52%), Positives = 14/25 (56%)
 Frame = +1

Query: 229 DRPLWFPGAQAPEYLDGTLVGDYGF 303
           +R LWFP    P YL G   GD GF
Sbjct: 370 ERELWFPNIVPPRYLTGEAYGDKGF 394

>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

>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 = 33.9 bits (76), Expect = 0.11
 Identities = 12/21 (57%), Positives = 14/21 (66%)
 Frame = +1

Query: 241 WFPGAQAPEYLDGTLVGDYGF 303
           W PG   P YLDG+  GD+GF
Sbjct: 49  WMPGQPRPSYLDGSAPGDFGF 69

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

 Score = 33.5 bits (75), Expect = 0.14
 Identities = 13/22 (59%), Positives = 15/22 (68%)
 Frame = +1

Query: 238 LWFPGAQAPEYLDGTLVGDYGF 303
           LW P    PE+LDG+L GD GF
Sbjct: 51  LWLPNTTRPEWLDGSLPGDRGF 72

>LH15_EUGGR (P08975) Light-harvesting complex I LH35 proteins precursor|
           [Contains: LH35 protein 1; LH35 protein 2] (Fragment)
          Length = 331

 Score = 30.8 bits (68), Expect = 0.91
 Identities = 12/22 (54%), Positives = 14/22 (63%)
 Frame = +1

Query: 238 LWFPGAQAPEYLDGTLVGDYGF 303
           +WFPGAQ P +L G    D GF
Sbjct: 161 VWFPGAQPPAHLTGEYPADRGF 182

>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 = 0.91
 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 = 1.5
 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

>CB4A_LYCES (P27524) Chlorophyll a-b binding protein CP24 10A, chloroplast|
           precursor (CAB-10A) (LHCP)
          Length = 256

 Score = 30.0 bits (66), Expect = 1.5
 Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 6/27 (22%)
 Frame = +1

Query: 241 WFPGAQA------PEYLDGTLVGDYGF 303
           W P  +       PE+LDG+L GDYGF
Sbjct: 55  WIPAVRGGGNLVDPEWLDGSLPGDYGF 81

>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

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

 Score = 29.3 bits (64), Expect = 2.6
 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

>CB4B_LYCES (P27525) Chlorophyll a-b binding protein CP24 10B, chloroplast|
           precursor (CAB-10B) (LHCP)
          Length = 256

 Score = 28.9 bits (63), Expect = 3.4
 Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 6/27 (22%)
 Frame = +1

Query: 241 WFPGAQA------PEYLDGTLVGDYGF 303
           W P  ++      PE+LDG+L GD+GF
Sbjct: 55  WIPAVKSGGNLVDPEWLDGSLPGDFGF 81

>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 = 3.4
 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

>CB4_SPIOL (P36494) Chlorophyll a-b binding protein CP24, chloroplast|
           precursor
          Length = 261

 Score = 28.5 bits (62), Expect = 4.5
 Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 6/27 (22%)
 Frame = +1

Query: 241 WFPGAQA------PEYLDGTLVGDYGF 303
           W P  +       PE+LDG+L GD+GF
Sbjct: 60  WIPAVKGGGNFLDPEWLDGSLPGDFGF 86

>CB26_ARATH (Q9XF89) Chlorophyll a-b binding protein CP26, chloroplast|
           precursor (Light-harvesting complex II protein 5)
           (LHCB5) (LHCIIc)
          Length = 280

 Score = 28.5 bits (62), Expect = 4.5
 Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
 Frame = +1

Query: 229 DRPLWFPG-----AQAPEYLDGTLVGDYGF 303
           DR ++ P      ++ PEYL+G + GDYG+
Sbjct: 66  DRRIFLPDGLLDRSEIPEYLNGEVAGDYGY 95


  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: 29,456,807
Number of Sequences: 219361
Number of extensions: 454949
Number of successful extensions: 1648
Number of sequences better than 10.0: 22
Number of HSP's better than 10.0 without gapping: 1411
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): 1642
length of database: 80,573,946
effective HSP length: 77
effective length of database: 63,683,149
effective search space used: 1528395576
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)