RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780727|ref|YP_003065140.1| putative pilus assembly
protein [Candidatus Liberibacter asiaticus str. psy62]
         (474 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 = 53.4 bits (128), Expect = 1e-07
 Identities = 71/426 (16%), Positives = 123/426 (28%), Gaps = 169/426 (39%)

Query: 148 HGMVRT-----IQDSQRAVELSETFLSQ--------SGRNQYANSSSKKVMNLLN-IAGE 193
           HG +             A +L E F           +  ++   + ++ V   L  ++  
Sbjct: 13  HGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT-TPAELVGKFLGYVSSL 71

Query: 194 ---------DQVTLKVTIAEVRRDILKQ--IGFQHSITGSSSGPSKSFAADFGGKFVSEG 242
                    DQV L + + E     L+   I   H++       + +             
Sbjct: 72  VEPSKVGQFDQV-LNLCLTEFENCYLEGNDI---HALAAKLLQENDTTLV---------- 117

Query: 243 GDFSVKGVLDRFSFETVLHALERATAIRTLAEPTL--TAISGQS---ASFTSGGQ----- 292
                K ++ +          +R       +   L      G +   A F  GGQ     
Sbjct: 118 ---KTKELI-KNYITAR-IMAKRP--FDKKSNSALFRAVGEGNAQLVAIF--GGQGNTDD 168

Query: 293 ------HLYKT--------VSSSTG------ATSVTTHDY---GV-VLHF------TPTV 322
                  LY+T        +  S         T++        G+ +L +      TP  
Sbjct: 169 YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228

Query: 323 ---LS-PGRIGLRIQTEVSEPVIGVNAGDMPSYRV--RKADTTVELP-------SGGT-- 367
              LS P          +S P+IGV    +  Y V  +    T   P        G T  
Sbjct: 229 DYLLSIP----------ISCPLIGV--IQLAHYVVTAKLLGFT---PGELRSYLKGATGH 273

Query: 368 ---IVLA-------------GLLKDDIQQL-------KEGIPLLSKIPILGALFRNSRFN 404
              +V A               ++  I  L        E  P  S +P   ++  +S  N
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS-LP--PSILEDSLEN 330

Query: 405 REETEIFIAATPFLVKPVAMRDLSRPDDHYSVEDDAKAFFFNRVNKIYGPKEA----SEV 460
            E        +P L    ++ +L++      V+D     + N+ N  + P       S V
Sbjct: 331 NEGV-----PSPML----SISNLTQEQ----VQD-----YVNKTNS-HLPAGKQVEISLV 371

Query: 461 EG-QNY 465
            G +N 
Sbjct: 372 NGAKNL 377



 Score = 44.9 bits (106), Expect = 4e-05
 Identities = 39/215 (18%), Positives = 73/215 (33%), Gaps = 72/215 (33%)

Query: 109 MLNL-DILIERDIAHLEMTLRRFIADSNIRVEMV-SDT--VV------LHGMVRTIQD-- 156
           ML++ ++  E+   ++  T     A   + + +V      VV      L+G+  T++   
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397

Query: 157 ------------SQRAVELSETFLSQSG--RNQYANSSSKKVMNLL-----NIAGEDQVT 197
                       S+R ++ S  FL  +    +     +S  +   L     +   +D   
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD--- 454

Query: 198 LKV----T-----IAEVRRDILKQIGFQHSITGSSSGP-----SKSFAA----DFGGKFV 239
           +++    T     +  +   I ++I     I      P     +  F A    DFG    
Sbjct: 455 IQIPVYDTFDGSDLRVLSGSISERI--VDCII---RLPVKWETTTQFKATHILDFG---- 505

Query: 240 SEGGDFSVKGVLDRFSFETVLHALERATAIRT-LA 273
             GG  S  GVL         H  +  T +R  +A
Sbjct: 506 -PGGA-SGLGVL--------THRNKDGTGVRVIVA 530


>1k3r_A Conserved protein MT0001; beta barrel, structural genomics, PSI,
           protein structure initiative; 2.30A
           {Methanothermobacterthermautotrophicus} SCOP: b.40.4.10
           c.116.1.2
          Length = 268

 Score = 30.2 bits (68), Expect = 1.00
 Identities = 22/113 (19%), Positives = 38/113 (33%), Gaps = 19/113 (16%)

Query: 3   YLQRTFFTMMSIFLFSSNPSVAKLPPIKEANAAVINISDVEI---------GKGKKISIG 53
           YL+R  F +M          V  LPP++  +         E           KG  + IG
Sbjct: 69  YLRRKVFPIMRELKH-----VGILPPLRTPHHPTGKPVTGEYRQGLTVKRVKKGTLVDIG 123

Query: 54  LNKVIILQVPVDVQDV----LVSDPTKADVVVHSPRTMYLFGKNVGQANVILI 102
            +K+ + +  + V  +    +V    +  +    P   Y +G  V      L 
Sbjct: 124 ADKLALCREKLTVNRIMSFRVVRLGKEILIEPDEPEDRY-WGYEVLDTRRNLA 175


>2nvp_A Hypothetical protein; alpha beta protein, structural genomics,
           PSI-2, protein structure initiative; 2.20A {Clostridium
           perfringens} SCOP: a.102.1.8
          Length = 435

 Score = 30.1 bits (68), Expect = 1.1
 Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 10/57 (17%)

Query: 357 DTTVELPSGGTIVLAG-----LLKDDIQQLKEGIPLLSKIP-----ILGALFRNSRF 403
           DTTVE+  G   V+ G      L+D   Q++  +P + + P       G + R  + 
Sbjct: 41  DTTVEVSEGDAFVITGDIPAMWLRDSTSQVEHYLPFVKEYPELKAIFTGLINRQVKC 97


>2p02_A S-adenosylmethionine synthetase isoform type-2; structural
           genomics, structural genomics consortium, SGC,
           transferase; HET: SAM; 1.21A {Homo sapiens} SCOP:
           d.130.1.1 d.130.1.1 d.130.1.1 PDB: 1qm4_A 1o92_A*
           1o93_A* 1o90_A* 1o9t_A 2obv_A*
          Length = 396

 Score = 28.8 bits (64), Expect = 2.8
 Identities = 11/36 (30%), Positives = 18/36 (50%)

Query: 186 NLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITG 221
            ++ +AGE      V   +V R+ +K IG+  S  G
Sbjct: 64  GMILLAGEITSRAAVDYQKVVREAVKHIGYDDSSKG 99


>1b78_A Pyrophosphatase; structural genomics, hyperthermal protein; 2.20A
          {Methanococcus jannaschii} SCOP: c.51.4.1 PDB: 2mjp_A*
          Length = 193

 Score = 28.3 bits (62), Expect = 4.0
 Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 5/41 (12%)

Query: 4  LQRTFFTMMSIFLFSSNPSVAKLPPIKEANAAVINISDVEI 44
          +QRT   +M I+  + NP+  K+   KEAN  + ++ DVEI
Sbjct: 1  MQRTLGEIMKIYFATGNPN--KI---KEANIILKDLKDVEI 36


>1vhc_A Putative KHG/KDPG aldolase; structural genomics, unknown function;
           HET: MSE; 1.89A {Haemophilus influenzae} SCOP: c.1.10.1
          Length = 224

 Score = 28.0 bits (62), Expect = 4.6
 Identities = 22/115 (19%), Positives = 40/115 (34%), Gaps = 4/115 (3%)

Query: 100 ILIGHDGKQMLNL-DILIERDIAHLEMTLRRFIADSNIRV--EMVSDTVVLHGMVRTIQD 156
           ++   +   +L L D L +  ++  E+T R   A   IR+      D ++  G V T + 
Sbjct: 22  VIALDNADDILPLADTLAKNGLSVAEITFRSEAAADAIRLLRANRPDFLIAAGTVLTAEQ 81

Query: 157 SQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGEDQVTLKVTIAEVRRDILK 211
              A      F+   G N       +  +N     G +         E+    +K
Sbjct: 82  VVLAKSSGADFVVTPGLNPKIVKLCQD-LNFPITPGVNNPMAIEIALEMGISAVK 135


>1b35_D CRPV, protein (cricket paralysis virus, VP4); insect picorna-like
           virus, icosahedral virus; 2.40A {Cricket paralysis
           virus} SCOP: b.121.4.1
          Length = 57

 Score = 28.1 bits (62), Expect = 4.8
 Identities = 10/21 (47%), Positives = 15/21 (71%)

Query: 378 IQQLKEGIPLLSKIPILGALF 398
           + Q+ EG+  LS IP+LG +F
Sbjct: 18  LGQISEGLTTLSHIPVLGNIF 38


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 27.7 bits (60), Expect = 5.4
 Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 14/38 (36%)

Query: 107 KQMLNLDILIERDIAHLEMTLRRFIADS----NIRVEM 140
           KQ L            L+ +L+ +  DS     I+  M
Sbjct: 19  KQALK----------KLQASLKLYADDSAPALAIKATM 46


>1jr2_A Uroporphyrinogen-III synthase; heme biosynthesis, HEAM
           biosynthesis, lyase; 1.84A {Homo sapiens} SCOP:
           c.113.1.1
          Length = 286

 Score = 27.5 bits (60), Expect = 6.2
 Identities = 17/86 (19%), Positives = 32/86 (37%), Gaps = 11/86 (12%)

Query: 157 SQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAGEDQVTLKVTIAEVRRDILKQIGFQ 216
           S RAVE +E  L Q+ + +    S K+  N  ++           +      ++ +IG  
Sbjct: 84  SPRAVEAAELCLEQNNKTEVWERSLKEKWNAKSVY---------VVGNATASLVSKIGLD 134

Query: 217 HSITGSSSGPSKSFAADFGGKFVSEG 242
               G + G ++  A     +  S  
Sbjct: 135 --TEGETCGNAEKLAEYICSRESSAL 158


>1iap_A Guanine nucleotide exchange factor P115rhogef; RGS, RGRGS,
           signaling protein; 1.90A {Homo sapiens} SCOP: a.91.1.1
          Length = 211

 Score = 27.4 bits (60), Expect = 6.5
 Identities = 25/100 (25%), Positives = 47/100 (47%), Gaps = 8/100 (8%)

Query: 54  LNKVIILQVPVDVQDVLVSDPTKADVVVHSPRTMYLFGKNVGQANVILIGHD-----GKQ 108
           L K  +L+VPV        D T+AD++  S      F + V Q+  + +G        K+
Sbjct: 63  LEKTAVLRVPVPPNVAFELDRTRADLI--SEDVQRRFVQEVVQSQQVAVGRQLEDFRSKR 120

Query: 109 MLNLDILIERDIAHLEMTLRRFIADSNIRVEMVSDTVVLH 148
           ++ +    E+++A LE  + R  A    R   V++ +++H
Sbjct: 121 LMGMTPW-EQELAQLEAWVGRDRASYEARERHVAERLLMH 159


>1lox_A 15-lipoxygenase, 15LOX; oxidoreductase, 15LO_depot2; HET: RS7;
           2.40A {Oryctolagus cuniculus} SCOP: a.119.1.2 b.12.1.1
           PDB: 2p0m_A*
          Length = 662

 Score = 27.2 bits (60), Expect = 7.1
 Identities = 25/129 (19%), Positives = 45/129 (34%), Gaps = 22/129 (17%)

Query: 349 PSYRVRKADTTVELPSGGT--------IVLAGLLKDDIQQLK---------EGIPLLSKI 391
           P YR    D    LP G           +     + ++++ +         EG+ L    
Sbjct: 95  PCYRWVVGDGVQSLPVGTGCTTVGDPQGLFQKHREQELEERRKLYQWGSWKEGLILNVAG 154

Query: 392 PILGALFRNSRFNREETEIFIAATPFLVKPVAMRDLSRPDDHYSVEDDAKAFFFNRVNKI 451
             L  L  + RF  ++   F A+  + +  +A+++       +   DD     FNR+   
Sbjct: 155 SKLTDLPVDERFLEDKKIDFEASLAWGLAELALKNSLNILAPWKTLDD-----FNRIFWC 209

Query: 452 YGPKEASEV 460
              K A  V
Sbjct: 210 GRSKLARRV 218


>2j58_A WZA, outer membrane lipoprotein WZA; membrane protein; 2.26A
           {Escherichia coli} PDB: 2w8i_A 2w8h_A*
          Length = 359

 Score = 27.2 bits (59), Expect = 7.8
 Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 4/63 (6%)

Query: 322 VLSPG---RIGLRIQTEVSEPVIGVNAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDI 378
            +  G    + +    E++ P     +       V  +D T+  P  G + +AG     +
Sbjct: 66  RIGVGDVLMVTVWDHPELTTPAGQYRSASDTGNWVN-SDGTIFYPYIGKVQVAGKTVSQV 124

Query: 379 QQL 381
           +Q 
Sbjct: 125 RQD 127


>2yw3_A 4-hydroxy-2-oxoglutarate aldolase/2-deydro-3- deoxyphosphogluconate
           aldolase; structural genomics, NPPSFA; 1.67A {Thermus
           thermophilus HB8} PDB: 2yw4_A
          Length = 207

 Score = 27.2 bits (60), Expect = 8.7
 Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 1/77 (1%)

Query: 100 ILIGHDGKQMLNL-DILIERDIAHLEMTLRRFIADSNIRVEMVSDTVVLHGMVRTIQDSQ 158
           +L    G+ +L L  +L E  +  LE+TLR       ++    S  ++  G VR+ ++++
Sbjct: 18  LLTVRGGEDLLGLARVLEEEGVGALEITLRTEKGLEALKALRKSGLLLGAGTVRSPKEAE 77

Query: 159 RAVELSETFLSQSGRNQ 175
            A+E    FL   G  +
Sbjct: 78  AALEAGAAFLVSPGLLE 94


>2d73_A Alpha-glucosidase SUSB; glycoside hydrolase family 97, TIM barrel;
           1.60A {Bacteroides thetaiotaomicron vpi-5482} PDB:
           2zq0_A* 2jke_A* 2jka_A* 2jkp_A*
          Length = 738

 Score = 26.9 bits (59), Expect = 9.5
 Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 6/83 (7%)

Query: 333 QTEVSEP------VIGVNAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIP 386
           Q +++ P         V++   P+Y +   +  V  PS   + L                
Sbjct: 22  QQKLTSPDNNLVMTFQVDSKGAPTYELTYKNKVVIKPSTLGLELKKEDNTRTDFDWVDRR 81

Query: 387 LLSKIPILGALFRNSRFNREETE 409
            L+K+     L+        +T 
Sbjct: 82  DLTKLDSKTNLYDGFEVKDTQTA 104


>1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase; HET: SAM
           ANP PPK; 2.50A {Escherichia coli} SCOP: d.130.1.1
           d.130.1.1 d.130.1.1 PDB: 1fug_A 1mxb_A* 1mxc_A* 1mxa_A*
           1rg9_A* 1xra_A 1xrb_A 1xrc_A
          Length = 383

 Score = 27.1 bits (60), Expect = 9.7
 Identities = 11/36 (30%), Positives = 21/36 (58%)

Query: 186 NLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITG 221
            ++ + GE   +  V I E+ R+ +++IG+ HS  G
Sbjct: 48  GMVLVGGEITTSAWVDIEEITRNTVREIGYVHSDMG 83


  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    0.135    0.372 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,805,001
Number of extensions: 176333
Number of successful extensions: 485
Number of sequences better than 10.0: 1
Number of HSP's gapped: 482
Number of HSP's successfully gapped: 20
Length of query: 474
Length of database: 5,693,230
Length adjustment: 96
Effective length of query: 378
Effective length of database: 3,365,806
Effective search space: 1272274668
Effective search space used: 1272274668
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: 58 (26.4 bits)