RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780954|ref|YP_003065367.1| hypothetical protein
CLIBASIA_04265 [Candidatus Liberibacter asiaticus str. psy62]
         (380 letters)



>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 = 49.2 bits (117), Expect = 2e-06
 Identities = 75/388 (19%), Positives = 116/388 (29%), Gaps = 178/388 (45%)

Query: 6   LIGLGFL--FSVV--------------LVGAFT-------VPLFI----DWTDFREDFER 38
           LIG+  L  + V               L GA T         + I     W    E F  
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGA-TGHSQGLVTAVAIAETDSW----ESFFV 294

Query: 39  QATLIVGKKIAVKG----GIKIHI------LPFPSVFFKDIRIDQKEDGSFESKIEGL-S 87
                   + A+      G++ +       LP PS     I  D  E+       EG+ S
Sbjct: 295 SV------RKAITVLFFIGVRCYEAYPNTSLP-PS-----ILEDSLENN------EGVPS 336

Query: 88  MRAEFLPLLSGEIR-----VFDMYIDQPHLNFYL-SSKGVS----NWFQRKS------TM 131
                 P+LS  I          Y+++   N +L + K V     N    K+        
Sbjct: 337 ------PMLS--ISNLTQEQVQDYVNK--TNSHLPAGKQVEISLVN--GAKNLVVSGPPQ 384

Query: 132 DMIH-NVILEKIHVKGGRIKIIDQESDQVYFLSDLNLQISARFLNIISP-----LS--ID 183
            +   N+ L K     G    +DQ   ++ F S+  L+ S RFL + SP     L    D
Sbjct: 385 SLYGLNLTLRKAKAPSG----LDQ--SRIPF-SERKLKFSNRFLPVASPFHSHLLVPASD 437

Query: 184 SIKGSVIAEGTGNFDNKRSAFKITANFPAKNKAISLKIQLFPLAY--------------- 228
            I   ++                 A          ++I   P+ Y               
Sbjct: 438 LINKDLVKNN----------VSFNAK--------DIQI---PV-YDTFDGSDLRVLSGSI 475

Query: 229 -PIIIDL--FGNLFWNEKQPIYSGVFSV--AGDF-----SKLLNLELSAKKSRLSGNFKI 278
              I+D      + W E     +  F      DF     S L  L     +++       
Sbjct: 476 SERIVDCIIRLPVKW-ET----TTQFKATHILDFGPGGASGLGVL---THRNK------- 520

Query: 279 SDGN-VRISRYKLQSILP---NSSTDED 302
            DG  VR+       I+    + + D+D
Sbjct: 521 -DGTGVRV-------IVAGTLDINPDDD 540


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 32.2 bits (72), Expect = 0.22
 Identities = 16/72 (22%), Positives = 36/72 (50%), Gaps = 7/72 (9%)

Query: 306 KVSQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKKDDIQYSVNKKEEKDNSH 365
           +++Q+ E++  + E   + + +L+      E+E + K    KKD  ++  N+++ +    
Sbjct: 79  RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREK---AKKDLEEW--NQRQSEQVEK 133

Query: 366 DKENQENFSGDK 377
           +K N  N   DK
Sbjct: 134 NKIN--NRIADK 143


>1ia5_A Polygalacturonase; glycosylhydrolase; HET: MAN NAG; 2.00A
           {Aspergillus aculeatus} SCOP: b.80.1.3 PDB: 1ib4_A*
          Length = 339

 Score = 28.0 bits (62), Expect = 3.9
 Identities = 18/118 (15%), Positives = 36/118 (30%), Gaps = 23/118 (19%)

Query: 100 IRVFDMYIDQPHLNFYLSSKGVSNWFQRKSTMDMIHNVILEKIHV----KGGRIK----- 150
           + V           +     G+S       + + + NV      +     G RIK     
Sbjct: 183 VAVNSGENIYFSGGYCSGGHGLSIGSVGGRSDNTVKNVTFVDSTIINSDNGVRIKTNIDT 242

Query: 151 -----------IIDQESDQVYFLSDLNLQISARFLNIISPLS---IDSIKGSVIAEGT 194
                      I      +   +   N   ++       P++   +D++ GSV++ GT
Sbjct: 243 TGSVSDVTYKDITLTSIAKYGIVVQQNYGDTSSTPTTGVPITDFVLDNVHGSVVSSGT 300


>1ej6_B Lambda1; icosahedral, non-equivalence, dsRNA virus, methylase,
           methyltransferase, guanylyltransferase, zinc finger,
           icosahedral virus; 3.60A {Reovirus SP} SCOP: i.7.1.1
           PDB: 2cse_V
          Length = 1275

 Score = 27.7 bits (61), Expect = 4.1
 Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 8/61 (13%)

Query: 294 LPNSSTDEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKKDDIQY 353
           LP  + DE    K      +L+N      +           E  +K+ K+ D  K  + Y
Sbjct: 71  LPMKNNDEGTPDKKGNTRGDLVNEHSEAKDEAD--------EATQKQAKDTDKSKAQVTY 122

Query: 354 S 354
           S
Sbjct: 123 S 123


>2waq_A DNA-directed RNA polymerase RPO1N subunit; multi-subunit,
           transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_A
           2pmz_A 3hkz_A
          Length = 880

 Score = 27.8 bits (61), Expect = 4.7
 Identities = 19/107 (17%), Positives = 33/107 (30%), Gaps = 1/107 (0%)

Query: 274 GNFKISDGNVRISRYKLQSILPNSSTDEDNKTKVSQDEENLLNFSEN-GAESMHDLNETD 332
           G  KIS+  +        +I     +     T+  +          + G +      E  
Sbjct: 102 GRVKISEDEIEKYSRIYNAIKKRWPSAARRLTEYVKKTAMKAQVCPHCGEKQFKIKLEKP 161

Query: 333 FFEEEEKKNKNDDLKKDDIQYSVNKKEEKDNSHDKENQENFSGDKMI 379
           +   EE+K     L   DI+  + K  E D      +      + MI
Sbjct: 162 YNFYEERKEGVAKLTPSDIRERLEKVPESDVEILGYDPTTSRPEWMI 208


>1xpn_A Hypothetical protein PA1324; B-barrel, structural genomics,
           northeast structural genomics consortium, NESG; NMR
           {Pseudomonas aeruginosa PAO1} SCOP: b.3.7.1
          Length = 170

 Score = 27.6 bits (61), Expect = 4.8
 Identities = 8/43 (18%), Positives = 15/43 (34%)

Query: 11  FLFSVVLVGAFTVPLFIDWTDFREDFERQATLIVGKKIAVKGG 53
           F F  +  G + +   + W+   +         V K + V G 
Sbjct: 119 FDFDHIPNGTYYISSELTWSAQSDGKTITEGGTVTKLVTVSGS 161


>2ktr_A Sequestosome-1; autophagy, NF-KB signaling, HOMO-oligomer, PB1
           dimer, signaling protein, transport protein; NMR {Rattus
           norvegicus}
          Length = 117

 Score = 27.1 bits (59), Expect = 6.4
 Identities = 21/104 (20%), Positives = 36/104 (34%), Gaps = 11/104 (10%)

Query: 71  IDQKEDGSFESK---IEGLSMRAEFL--PLLSGEIRVFDMYIDQPHLNFYLSSKGVSNWF 125
           +D   DG++E     +  L+++A  L     + EIR F             +  G S   
Sbjct: 3   VDTNNDGAYEGDELHMGSLTVKAYLLGKEEAAREIRRFSFCFSPEPEAEAAAGPGPSERL 62

Query: 126 QRKSTMDMIHNVILEKIHVKGGRIKIIDQESDQVYFLSDLNLQI 169
             +        V+   +   G +     +  D V F SD  L +
Sbjct: 63  LSRVA------VLFPALRPGGFQAHYRAERGDLVAFSSDEELTM 100


>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
           structure initiative, eukaryotic initiation factor;
           2.10A {Leishmania major} SCOP: c.124.1.5
          Length = 383

 Score = 26.7 bits (58), Expect = 8.5
 Identities = 8/24 (33%), Positives = 13/24 (54%)

Query: 131 MDMIHNVILEKIHVKGGRIKIIDQ 154
           M   H+  LE I    G ++++DQ
Sbjct: 10  MSKPHHATLESIKYTPGSLRLLDQ 33


  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
   0.318    0.137    0.387 

Gapped
Lambda     K      H
   0.267   0.0450    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,186,416
Number of extensions: 151812
Number of successful extensions: 373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 19
Length of query: 380
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 286
Effective length of database: 3,414,294
Effective search space: 976488084
Effective search space used: 976488084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.4 bits)