RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

Searching..................................................done

Query= gi|254780164|ref|YP_003064577.1| ATP-dependent Clp protease
adaptor protein ClpS [Candidatus Liberibacter asiaticus str. psy62]
         (138 letters)



>3dnj_A ATP-dependent CLP protease adapter protein CLPS; adaptor,
           protein-peptide complex, peptide binding protein; 1.15A
           {Caulobacter vibrioides} PDB: 3g19_A 3gq0_A 3gq1_A
           3gw1_A 3g1b_A
          Length = 85

 Score =  122 bits (309), Expect = 2e-29
 Identities = 50/81 (61%), Positives = 64/81 (79%)

Query: 57  PKLYRVLLVNDNYTPMEFVIHVLQNFFYKDHETAKCIMLKVHHQGIGECGVYAYEIAEMK 116
           P LYRVL++ND+YTPMEFV++VL+ FF K  E A  IML VH  G+G CGVY YE+AE K
Sbjct: 4   PSLYRVLILNDDYTPMEFVVYVLERFFNKSREDATRIMLHVHQNGVGVCGVYTYEVAETK 63

Query: 117 VNQVMNYSRQHQYPLQCIMEQ 137
           V QV++ +R+HQ+PLQC ME+
Sbjct: 64  VAQVIDSARRHQHPLQCTMEK 84


>2w9r_A YLJA, ATP-dependent CLP protease adapter protein CLPS; chaperone,
           adaptor protein, DNA condensation, iron, CLPS, CLPA,
           cytoplasm, N-END RULE; HET: DNA; 1.70A {Escherichia
           coli} PDB: 2wa9_A 1mbx_C* 1mbv_B 1mbu_C* 1r6o_C* 1r6q_C*
           2wa8_A 1mg9_A* 1lzw_A*
          Length = 108

 Score =  119 bits (299), Expect = 3e-28
 Identities = 48/99 (48%), Positives = 68/99 (68%), Gaps = 2/99 (2%)

Query: 39  EFDNCLDSEVRFSSKVRVPKLYRVLLVNDNYTPMEFVIHVLQNFFYKDHETAKCIMLKVH 98
           +FD   + +VR    ++ P +Y+V+LVND+YTPMEFVI VLQ FF  D E A  +ML VH
Sbjct: 9   DFDQLAEEKVR--DALKPPSMYKVILVNDDYTPMEFVIDVLQKFFSYDVERATQLMLAVH 66

Query: 99  HQGIGECGVYAYEIAEMKVNQVMNYSRQHQYPLQCIMEQ 137
           +QG   CGV+  E+AE KV  V  Y+R++++PL C +E+
Sbjct: 67  YQGKAICGVFTAEVAETKVAMVNKYARENEHPLLCTLEK 105


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 28.8 bits (64), Expect = 0.44
 Identities = 16/122 (13%), Positives = 43/122 (35%), Gaps = 33/122 (27%)

Query: 21  LMSFI-FMADSRMNKKGIAEFDNCLDSEVR-FSSK-VRVPKLYRVL--LVNDNYTPMEFV 75
           +  F+ +++   +    + +FD  L+  +  F +  +    ++ +   L+ +N T +   
Sbjct: 61  VGKFLGYVSS-LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119

Query: 76  IHVLQNFFY----------KDHETAKCIMLKVHHQGIGECGVYA----------Y--EIA 113
             +++N+            K   +A    L       G   + A          Y  E+ 
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSA----LFRAVGE-GNAQLVAIFGGQGNTDDYFEELR 174

Query: 114 EM 115
           ++
Sbjct: 175 DL 176



 Score = 26.8 bits (59), Expect = 1.8
 Identities = 23/139 (16%), Positives = 42/139 (30%), Gaps = 56/139 (40%)

Query: 37  IAEFDNCLDSEVRFSSKVRVPKLYR----VL--LVNDNYTP-MEF---------VIHVLQ 80
           I      L   +R  + +   K++     +L  L N + TP  ++         +I V+Q
Sbjct: 188 IKFSAETLSELIR--TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245

Query: 81  NFFYKDHETAKCIMLKVH-------------H-QGIGECGVYA------------YEIAE 114
                 H      +L                H QG+    V A            +    
Sbjct: 246 -LA---HYVVTAKLLGFTPGELRSYLKGATGHSQGL----VTAVAIAETDSWESFFVSVR 297

Query: 115 MKVNQVMNY--SRQHQ-YP 130
             +  V+ +   R ++ YP
Sbjct: 298 KAI-TVLFFIGVRCYEAYP 315


>2j5l_A Apical membrane antigen 1; malaria vaccine candidate, apical
           membrane antigen 1, hypothetical protein, immunoglobulin
           domain; 2.9A {Plasmodium falciparum} SCOP: g.61.1.1 PDB:
           1hn6_A
          Length = 581

 Score = 25.7 bits (56), Expect = 4.2
 Identities = 5/18 (27%), Positives = 8/18 (44%)

Query: 83  FYKDHETAKCIMLKVHHQ 100
              D+   KC +L +  Q
Sbjct: 206 AVYDYNDKKCHILYIAAQ 223


>3eqz_A Response regulator; structural genomics, unknown function, PSI-2,
           protein structure initiative; 2.15A {Colwellia
           psychrerythraea 34H}
          Length = 135

 Score = 25.3 bits (55), Expect = 5.3
 Identities = 10/76 (13%), Positives = 27/76 (35%)

Query: 60  YRVLLVNDNYTPMEFVIHVLQNFFYKDHETAKCIMLKVHHQGIGECGVYAYEIAEMKVNQ 119
            RV +V+D+      +  +++  F                    +  +    + +M   +
Sbjct: 4   NRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLSLNKQDIIILDLMMPDMDGIE 63

Query: 120 VMNYSRQHQYPLQCIM 135
           V+ +  +H+ P   I+
Sbjct: 64  VIRHLAEHKSPASLIL 79


>2x2z_A AMA1, apical membrane antigen 1, putative; membrane protein,
           invasion, moving junction; HET: NAG; 2.00A {Toxoplasma
           gondii}
          Length = 456

 Score = 25.2 bits (54), Expect = 5.6
 Identities = 6/18 (33%), Positives = 8/18 (44%)

Query: 83  FYKDHETAKCIMLKVHHQ 100
           F  D +   C +L V  Q
Sbjct: 154 FVYDSKKRLCHILYVSMQ 171


>1w8k_A Apical membrane antigen 1; plasmodium antigen, malaria vaccine
           candidate; 1.8A {Plasmodium vivax} PDB: 1w81_A 2j4w_D
          Length = 447

 Score = 25.3 bits (55), Expect = 5.6
 Identities = 5/18 (27%), Positives = 7/18 (38%)

Query: 83  FYKDHETAKCIMLKVHHQ 100
              D +   C ML +  Q
Sbjct: 143 AVYDEKEKTCHMLYLSAQ 160


>2x1d_A Acyl-coenzyme A\:6-aminopenicillanic-acid-acyltransferase 40 kDa
           form; zymogen, NTN-hydrolase, penicillin biosynthesis;
           1.64A {Penicillium chrysogenum} PDB: 2x1e_A* 2x1c_A
          Length = 357

 Score = 24.4 bits (52), Expect = 9.0
 Identities = 10/81 (12%), Positives = 28/81 (34%), Gaps = 5/81 (6%)

Query: 4   FDDGSMYHRVKRDG---ILALMSFIFMADSRMNKKGIAEFDNCLDSEVRFSSKVRVPKLY 60
             +  +   +++ G   I  +     +     N  G+A   N L    +      VP   
Sbjct: 126 TKENLIRLTIRQAGLPTIKFITEAGIIGKVGFNSAGVAVNYNALHL--QGLRPTGVPSHI 183

Query: 61  RVLLVNDNYTPMEFVIHVLQN 81
            + +  ++ +P +    +++ 
Sbjct: 184 ALRIALESTSPSQAYDRIVEQ 204


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.327    0.139    0.421 

Gapped
Lambda     K      H
   0.267   0.0483    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,167,138
Number of extensions: 48549
Number of successful extensions: 181
Number of sequences better than 10.0: 1
Number of HSP's gapped: 181
Number of HSP's successfully gapped: 24
Length of query: 138
Length of database: 5,693,230
Length adjustment: 83
Effective length of query: 55
Effective length of database: 3,680,978
Effective search space: 202453790
Effective search space used: 202453790
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.4 bits)