RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781158|ref|YP_003065571.1| peptidyl prolyl cis-trans
isomerase D signal peptide protein [Candidatus Liberibacter asiaticus
str. psy62]
         (631 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 = 78.4 bits (193), Expect = 4e-15
 Identities = 99/652 (15%), Positives = 166/652 (25%), Gaps = 315/652 (48%)

Query: 100 DQFIEDIGLEADHGRVWGEIARSPL-----FHGKDNKFSHDVFVSRLAREGINEKEYIDH 154
           +QF + +  E   G    +   +P      F G         +VS L             
Sbjct: 35  EQFNKILP-EPTEGFAADDEPTTPAELVGKFLG---------YVSSLVEP--------SK 76

Query: 155 YTKMLSRTDVVGMFVGGMRPSNLLLDQAKRFYFENRSVDYIVLNNRHV-----PAIADPS 209
                    V+          NL L +     FEN    Y+  N+ H          D +
Sbjct: 77  VG---QFDQVL----------NLCLTE-----FEN---CYLEGNDIHALAAKLLQENDTT 115

Query: 210 NAVLTQWFEKYKDNYRA------PEYKRISYILFDVHEKEKKIEISNDELQAEY-----E 258
                +  + Y     A      P  K+ +  LF     E   ++              +
Sbjct: 116 LVKTKELIKNY---ITARIMAKRPFDKKSNSALFR-AVGEGNAQL--------VAIFGGQ 163

Query: 259 KNKEKYFSPEIRT--------VEQLVFPNQKEADEAFQSLKKG----KKFIQLAEEQG-- 304
            N + YF  E+R         V  L+    K + E    L +     +K       QG  
Sbjct: 164 GNTDDYFE-ELRDLYQTYHVLVGDLI----KFSAETLSELIRTTLDAEKVFT----QGLN 214

Query: 305 --KSLSDISLGSFSKEYIPDVS-LADSIFSLAKKGDFTPVI------HGSFGYVIAHVSN 355
             + L +           PD   L     S        P+I      H  +  V A +  
Sbjct: 215 ILEWLEN-------PSNTPDKDYLLSIPISC-------PLIGVIQLAH--Y-VVTAKLLG 257

Query: 356 IKP------------------------------SF--------TVSF------QE----- 366
             P                              SF        TV F       E     
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317

Query: 367 ------VKKDIANQ------M-RITKASEKVKEDYKRLEEFLALGTSMDEISR---REKI 410
                 ++  + N       M  I+  +       +++++++      ++ +      K 
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLT------QEQVQDYV------NKTNSHLPAGKQ 365

Query: 411 VSIDL---P--LVDFAG------------KDVK---GKEVAAIPYKE-------QLLFRV 443
           V I L      LV  +G            +  K   G + + IP+ E       + L   
Sbjct: 366 VEISLVNGAKNLV-VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL--- 421

Query: 444 FGKDDPLSKD-HTVALPDGSYMWVQIKESIPARDRKLEEVLTDVKKDWKTVKTAEEVSSK 502
                P++   H+        +       +PA D     +  D+            VS  
Sbjct: 422 -----PVASPFHS------HLL-------VPASDL----INKDLV--------KNNVSFN 451

Query: 503 ANQL---VLEYSKE-GKNFRDIGKNLGASLLTTNQINRMDNENKFFGYDGISQVFSGPVE 558
           A  +   V  Y    G + R +  ++   +                    +  +   PV+
Sbjct: 452 AKDIQIPV--YDTFDGSDLRVLSGSISERI--------------------VDCIIRLPVK 489

Query: 559 MVKCFPIENGLSYVVFKVT---------NSKVGPVQEKDKFISYLTQMMNKD 601
                          FK T          S +G           LT   NKD
Sbjct: 490 WETT---------TQFKATHILDFGPGGASGLGV----------LTH-RNKD 521



 Score = 46.1 bits (109), Expect = 2e-05
 Identities = 59/328 (17%), Positives = 93/328 (28%), Gaps = 137/328 (41%)

Query: 71  IG------FVVNSERARSVGLDKKILDNLVSGATLDQFIEDIGLEADH--GRV------- 115
           IG      +VV    A+ +G     L + + GAT        G    H  G V       
Sbjct: 241 IGVIQLAHYVVT---AKLLGFTPGELRSYLKGAT--------G----HSQGLVTAVAIAE 285

Query: 116 ---W---GEIARSP---LFH-GKDNKFSHDVF-VSRLAREGINEKEYIDHY----TKMLS 160
              W       R     LF  G      ++ +  + L    +  ++ +++     + MLS
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVR---CYEAYPNTSLPPSIL--EDSLENNEGVPSPMLS 340

Query: 161 RTDVVGMFVGGMRPSNLLLDQAKRFYFENRSVD-YIVLNNRHVP-----AIA---DPSNA 211
                   +     SNL  +Q          V  Y+   N H+P      I+      N 
Sbjct: 341 --------I-----SNLTQEQ----------VQDYVNKTNSHLPAGKQVEISLVNGAKNL 377

Query: 212 VLT----------QWFEKYKDNYRAPEYKRISYILFDVHEKEKKIEISNDEL--QAEYEK 259
           V++              K K    AP     S I F     E+K++ SN  L   + +  
Sbjct: 378 VVSGPPQSLYGLNLTLRKAK----APSGLDQSRIPF----SERKLKFSNRFLPVASPFH- 428

Query: 260 NKEKYFSPEIRTVEQLVFPNQKEADEAFQSLK-KGKKFIQLA-----EEQGKSLSDISLG 313
                 S  +     L+       D    ++    K    +         G  L      
Sbjct: 429 ------SHLLVPASDLI-----NKDLVKNNVSFNAK---DIQIPVYDTFDGSDLR----- 469

Query: 314 SFSKEYIPDVSLADSIFSLAKKGDFTPV 341
             S        + D I  L       PV
Sbjct: 470 VLSGSISE--RIVDCIIRL-------PV 488



 Score = 28.8 bits (64), Expect = 3.8
 Identities = 30/178 (16%), Positives = 54/178 (30%), Gaps = 69/178 (38%)

Query: 1   MLEIIRKASRTWVAKI------FL-------VVL------FV----PFLIWGLSDALFSV 37
           ML I    ++  V          L       + L       V    P  ++GL+  L   
Sbjct: 338 MLSI-SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA 396

Query: 38  SGSSTVVSVGRQ-KVPFS----SFINSWKQELGMISQKIG--FVVNSERARSVGLDKKIL 90
              S +     Q ++PFS     F N +   L      +   F  +S             
Sbjct: 397 KAPSGL----DQSRIPFSERKLKFSNRF---L-----PVASPF--HSH------------ 430

Query: 91  DNLVSGATLDQFIEDIGLEADHGRVW-GEIARSPLFH---GKD-NKFSHDVFVSRLAR 143
             L+  A+ D   +D+     +   +  +  + P++    G D    S  +   R+  
Sbjct: 431 --LLVPAS-DLINKDL---VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI-SERIVD 481


>2kgj_A Peptidyl-prolyl CIS-trans isomerase D; prolyl isomerase, parvulin,
           cell inner membrane, cell membrane, membrane, rotamase,
           stress response; NMR {Escherichia coli}
          Length = 102

 Score = 52.2 bits (125), Expect = 3e-07
 Identities = 23/97 (23%), Positives = 40/97 (41%), Gaps = 7/97 (7%)

Query: 267 PEIRTVEQLVFPNQKEADEAFQSLKKGKKFIQLAEEQGKSLS----DISLGSFSKEYIPD 322
           P+      +    + EA      L KG  F  LA+E+   +        +G      IPD
Sbjct: 3   PQRTRYSIIQTKTEDEAKAVLDELNKGGDFAALAKEKSADIISARNGGDMGWLEDATIPD 62

Query: 323 VSLADSIFSLAKKGDFTPVIHGSFGYVIAHVSNIKPS 359
             L ++     +KG  + VI  S G++I  + +I+ +
Sbjct: 63  -ELKNAGL--KEKGQLSGVIKSSVGFLIVRLDDIQAA 96


>1m5y_A SurviVal protein, surviVal protein SURA; surviVal protein A,
           periplasmic molecular chaperone, membrane protein
           folding, GRAM negative bacteria; 3.00A {Escherichia
           coli} SCOP: a.223.1.2 d.26.1.1 d.26.1.1 PDB: 2pv3_A
          Length = 408

 Score = 46.2 bits (108), Expect = 2e-05
 Identities = 49/361 (13%), Positives = 103/361 (28%), Gaps = 59/361 (16%)

Query: 85  LDKKILDNLVSGATLDQFIEDIGLEADHGRVWGEIARSPLFHGKDNKFSHDVFVSRLARE 144
           L  +I++ L+    + Q  + +G++    ++   IA       K N  + D   SRLA +
Sbjct: 46  LRHQIMERLIMDQIILQMGQKMGVKISDEQLDQAIANIA----KQNNMTLDQMRSRLAYD 101

Query: 145 GINEKEYIDHYTKMLSRTDVVGMFVGG------MRPSNLLLDQAKRFYFENRSVDYIVLN 198
           G+N   Y +   K +  ++V    V            +L      +           +L 
Sbjct: 102 GLNYNTYRNQIRKEMIISEVRNNEVRRRITILPQEVESLAQQVGNQNDASTELNLSHILI 161

Query: 199 NRHVPAIADPSNAVLTQW------------FEKYKDNYRAPEYKRISYILFDVHEKEK-- 244
                  +D  N   +Q             F K    + A +       +     +E   
Sbjct: 162 PLPENPTSDQVNEAESQARAIVDQARNGADFGKLAIAHSADQQALNGGQMGWGRIQELPG 221

Query: 245 ------------------KIEISNDELQAEYEKNKEKYFSPEIRTVEQLVFPNQKEADEA 286
                             +  +    L+    + + K  S        ++        + 
Sbjct: 222 IFAQALSTAKKGDIVGPIRSGVGFHILKVNDLRGESKNISVTEVHARHILLKPSPIMTDE 281

Query: 287 F----------QSLKKGKKFIQLA----EEQGKSLSDISLGSFSKEYIPDVSLADSIFSL 332
                              F   A    ++ G +     LG  + +     +  D++  L
Sbjct: 282 QARVKLEQIAADIKSGKTTFAAAAKEFSQDPGSANQGGDLGWATPDIFDP-AFRDALTRL 340

Query: 333 AKKGDFTPVIHGSFGYVIAHVSNIKPSFTVSFQEVKKDIANQMRITKASEKVKEDYKRLE 392
             KG  +  +H SFG+ +  + + +     +    K      +   K SE+     +   
Sbjct: 341 -NKGQMSAPVHSSFGWHLIELLDTRNV-DKTDAAQKDRAYRMLMNRKFSEEAASWMQEQR 398

Query: 393 E 393
            
Sbjct: 399 A 399


>1zk6_A Foldase protein PRSA; alpha/beta structure, isomerase; NMR
           {Bacillus subtilis}
          Length = 93

 Score = 40.8 bits (95), Expect = 0.001
 Identities = 29/88 (32%), Positives = 46/88 (52%), Gaps = 5/88 (5%)

Query: 266 SPEIRTVEQLVFPNQKEADEAFQSLKKGKKFIQLAEEQGKSLSDIS---LGSFSKEYIPD 322
           S +IR    ++  ++K A+E  + LKKG+KF  LA+E     S      LG F+KE   D
Sbjct: 2   SGKIR-ASHILVADKKTAEEVEKKLKKGEKFEDLAKEYSTDSSASKGGDLGWFAKEGQMD 60

Query: 323 VSLADSIFSLAKKGDFTPVIHGSFGYVI 350
            + + + F L K G+ +  +   +GY I
Sbjct: 61  ETFSKAAFKL-KTGEVSDPVKTQYGYHI 87


>1jns_A Peptidyl-prolyl CIS-trans isomerase C; alpha-beta sandwich, CIS
           peptide bond; NMR {Escherichia coli} SCOP: d.26.1.1 PDB:
           1jnt_A
          Length = 92

 Score = 39.1 bits (91), Expect = 0.003
 Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 5/78 (6%)

Query: 279 NQKEADEAFQSLKKGKKFIQLAEEQGKSLS---DISLGSFSKEYIPDVSLADSIFSLAKK 335
            +K A +  + +K G  F +LA++     S      LG F +  +   +    +FS    
Sbjct: 13  EEKLALDLLEQIKNGADFGKLAKKHSICPSGKRGGDLGEFRQGQMVP-AFDKVVFSC-PV 70

Query: 336 GDFTPVIHGSFGYVIAHV 353
            + T  +H  FGY I  V
Sbjct: 71  LEPTGPLHTQFGYHIIKV 88


>1eq3_A Peptidyl-prolyl CIS/trans isomerase (ppiase); parvulin; NMR {Homo
           sapiens} SCOP: d.26.1.1 PDB: 1fjd_A
          Length = 96

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 22/94 (23%), Positives = 38/94 (40%), Gaps = 8/94 (8%)

Query: 271 TVEQLVFPNQKEADEAFQSLKKGKKFIQLAEE-------QGKSLSDISLGSFSKEYIPDV 323
            V  ++     +  EA + LK G +F ++A +       QG  L  ++ GS    +  + 
Sbjct: 4   KVRHILCEKHGKIMEAMEKLKSGMRFNEVAAQYSEDKARQGGDLGWMTRGSMVGPFQ-EA 62

Query: 324 SLADSIFSLAKKGDFTPVIHGSFGYVIAHVSNIK 357
           + A  +  + K     P +   FGY I  V   K
Sbjct: 63  AFALPVSGMDKPVFTDPPVKTKFGYHIIMVEGRK 96


>3gpk_A PPIC-type peptidyl-prolyl CIS-trans isomerase; rotamase,ppiase
           domain, NYSGXRC,11189O3,PSI2., structural genomics;
           1.55A {Novosphingobium aromaticivorans DSM12444}
          Length = 112

 Score = 37.7 bits (87), Expect = 0.009
 Identities = 13/80 (16%), Positives = 31/80 (38%), Gaps = 3/80 (3%)

Query: 280 QKEADEAFQSLKKGKKFIQLAEEQGKSLSDISLGSFSKEYI--PDVSLADSIFSLAKKGD 337
              A++  + LK+G  F+  A +  ++ +    G      +      LA +  S+   G 
Sbjct: 26  FANAEKIVEQLKQGGSFVAYARQYSEASTAAVGGDLGWIRLAQLPTELATTAASM-GPGQ 84

Query: 338 FTPVIHGSFGYVIAHVSNIK 357
               +    G+ I ++ + +
Sbjct: 85  LAGPVEIRGGFSILYLIDKR 104


>1j6y_A Peptidyl-prolyl CIS-trans isomerase; parvulin, PIN1,
           phosphorylation; NMR {Arabidopsis thaliana} SCOP:
           d.26.1.1
          Length = 139

 Score = 35.1 bits (80), Expect = 0.050
 Identities = 21/133 (15%), Positives = 45/133 (33%), Gaps = 21/133 (15%)

Query: 222 DNYRAPEYKRISYILFDVHEKEKKIEISNDELQAEYEKNKEKYFSPEIRTVEQLVFPNQK 281
            +  + +  + S+IL       +K    + E +      +E                  +
Sbjct: 19  SHMASRDQVKASHILIKHQGSRRKASWKDPEGKIILTTTREAA---------------VE 63

Query: 282 EADEAFQSLKKGK-KFIQLAEEQGKSLS---DISLGSFSKEYIPDVSLADSIFSLAKKGD 337
           +     + +  GK  F ++A       S      LGSF +  +      ++ ++L K GD
Sbjct: 64  QLKSIREDIVSGKANFEEVATRVSDCSSAKRGGDLGSFGRGQMQK-PFEEATYAL-KVGD 121

Query: 338 FTPVIHGSFGYVI 350
            + ++    G  I
Sbjct: 122 ISDIVDTDSGVHI 134


>2pv1_A Chaperone SURA; surviVal protein A, peptidyl-prolyl CIS-trans
           isomerase domain, peptide, complex; 1.30A {Escherichia
           coli} SCOP: d.26.1.1 PDB: 2pv2_A
          Length = 103

 Score = 33.6 bits (76), Expect = 0.13
 Identities = 17/79 (21%), Positives = 30/79 (37%), Gaps = 1/79 (1%)

Query: 280 QKEADEAFQSLKKGKKFIQLAEEQGKSLSDISLGSFSKEYIPD-VSLADSIFSLAKKGDF 338
           + +A       + G  F +LA         ++ G      I +   +     S AKKGD 
Sbjct: 25  ESQARAIVDQARNGADFGKLAIAHSADQQALNGGQMGWGRIQELPGIFAQALSTAKKGDI 84

Query: 339 TPVIHGSFGYVIAHVSNIK 357
              I    G+ I  V++++
Sbjct: 85  VGPIRSGVGFHILKVNDLR 103


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

 Score = 33.7 bits (76), Expect = 0.14
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 16/60 (26%)

Query: 371 IANQMRITKASEKVK----EDYKRLEEFLALGTSMDEISRREKIVSIDLPLVDFAGKDVK 426
           IA   R+T+  E ++    E  KRL+E  A    M++   REK           A KD++
Sbjct: 74  IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQ-EWREK-----------AKKDLE 121



 Score = 30.7 bits (68), Expect = 1.1
 Identities = 23/85 (27%), Positives = 32/85 (37%), Gaps = 29/85 (34%)

Query: 213 LTQWFEKYKDNYRAPEYKRISYILFDV---------HEKEKK-IEISNDELQAEYEKNKE 262
           LTQ  E  +  +R  + KR+  +  D           EK KK +E  N     + EKNK 
Sbjct: 80  LTQEPESIR-KWREEQRKRLQEL--DAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK- 135

Query: 263 KYFSPEIRTVEQLVFPNQKEADEAF 287
                           N + AD+AF
Sbjct: 136 ---------------INNRIADKAF 145


>3c2u_A Xylosidase/arabinosidase; tetramer, glycoside hydrolase, GH43,
           alpha-L- arabinofuranosidase; HET: B3P; 1.30A
           {Selenomonas ruminantium} PDB: 1y7b_A* 1yi7_A*
          Length = 538

 Score = 33.0 bits (74), Expect = 0.18
 Identities = 12/76 (15%), Positives = 26/76 (34%), Gaps = 2/76 (2%)

Query: 460 DGSYMWVQIKESIPARDRKLEEVLTDVKKDWKTVKTAEEVSSKANQLVLEYSKEGKNFRD 519
           +   +   +          L      +  + KTV    +VS +       YS +G+ F  
Sbjct: 430 EKGRIIDLVTADNGTFSMPLAGAEIPIPDEVKTVHF--KVSVRGRIYQYAYSFDGETFHT 487

Query: 520 IGKNLGASLLTTNQIN 535
           +   L +  L+ + + 
Sbjct: 488 LPIELPSWKLSDDYVR 503


>3i6c_A Peptidyl-prolyl CIS-trans isomerase NIMA- interacting 1; SBDD,
           small molecule, ppiase, cell cycle, nucleus,
           phosphoprotein, rotamase; HET: GIA; 1.30A {Homo sapiens}
           PDB: 3ik8_A 3ikd_A* 3ikg_A* 3jyj_A* 3kac_A* 1nmw_A
          Length = 123

 Score = 33.2 bits (75), Expect = 0.19
 Identities = 21/133 (15%), Positives = 42/133 (31%), Gaps = 23/133 (17%)

Query: 221 KDNYRAPEYKRISYILFDVHEKEKKIEISNDELQAEYEKNKEKYFSPEIRTVEQLVFPNQ 280
           K+    P   R S++L    +  +      +++    E+  E                  
Sbjct: 6   KNGQGEPARVRCSHLLVKHSQSRRPSSWRQEQITRTQEEALEL----------------- 48

Query: 281 KEADEAFQSLKKGKK-FIQLAEEQGKSLSDISLGSFS--KEYIPDVSLADSIFSLAKKGD 337
              +   Q +K G++ F  LA +     S  + G               D+ F+L + G+
Sbjct: 49  --INGYIQKIKSGEEDFESLASQFSDCSSAKARGDLGAFSRGQMQKPFEDASFAL-RTGE 105

Query: 338 FTPVIHGSFGYVI 350
            +  +    G  I
Sbjct: 106 MSGPVFTDSGIHI 118


>2exh_A Beta-D-xylosidase; glykosidase, hydrolsase, family43, hydrolase;
           HET: MES; 1.88A {Geobacillus stearothermophilus} SCOP:
           b.29.1.23 b.67.2.1 PDB: 2exi_A* 2exj_A* 2exk_A*
          Length = 535

 Score = 33.0 bits (74), Expect = 0.19
 Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 460 DGSYMWVQIKESIPARDRKLEEVLTDVKKDWKTVKTAEEVSSKANQLVLEYSKEGKNFRD 519
           +   +   +       D+ L      V  D + V     V+ +A      YS +G N+ D
Sbjct: 428 EKGRILELMTCDHLVVDQPLRGREIVVPDDIEYVYL--RVTVQATTYKYSYSFDGMNWID 485

Query: 520 IGKNLGASLLTTNQINR 536
           +     +  L+ + I  
Sbjct: 486 LPVTFESYKLSDDYIKS 502


>3iyd_C DNA-directed RNA polymerase subunit beta; transcription, initiation,
            class I, activator, RNA polymerase, holoenzyme, sigma70,
            open complex, CAP, CRP, CAMP-dependent; HET: DNA CMP;
            19.80A {Escherichia coli k-12}
          Length = 1342

 Score = 32.8 bits (74), Expect = 0.22
 Identities = 35/172 (20%), Positives = 62/172 (36%), Gaps = 16/172 (9%)

Query: 436  KEQLLFRVFGKDDPLSKDHTVALPDGSYMWVQ-----IKESIPARDRKLE---EVLTDVK 487
            +E+LL  +FG+     KD ++ +P+G    V       ++ +    R LE     L   K
Sbjct: 898  EEKLLRAIFGEKASDVKDSSLRVPNGVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAK 957

Query: 488  KDWKTVKTAEE--VSSKANQLVLEYSKEGKNFRDIGKNLGASLLTTNQINRMDNENKFFG 545
            KD        E  + S+   +++    E +    + ++    L  T++  +   E     
Sbjct: 958  KDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEKQNQLEQLAEQ 1017

Query: 546  YDGISQVFSGPVEMVKCFPIENGLSYVV-----FKVTNSKVGPVQEKDKFIS 592
            YD +   F   +E  K   I  G           KV  +    +Q  DK   
Sbjct: 1018 YDELKHEFEKKLE-AKRRKITQGDDLAPGVLKIVKVYLAVKRRIQPGDKMAG 1068


>1wxr_A Haemoglobin protease; hemoglobine protease, autotransporter, beta
           helix, heme uptake, spate, hydrolase; 2.20A {Escherichia
           coli}
          Length = 1048

 Score = 32.5 bits (73), Expect = 0.29
 Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 15/86 (17%)

Query: 311 SLGSFSKEYIPDVSLADSIFSLAKKGDFTPVIHGSFGYVIAHVSNIKPSFTVSFQEVKKD 370
            +G+  K  +PD S  DS     + G  T +I+  +   + H         VSF + +  
Sbjct: 38  FVGTLDKAAMPDFSAVDS-----EIGVAT-LINPQYIASVKHNGGYT---NVSFGDGE-- 86

Query: 371 IANQMRITKASEKVKEDYK--RLEEF 394
             N+  I   +     D+   RL++ 
Sbjct: 87  --NRYNIVDRNNAPSLDFHAPRLDKL 110


>2zjt_A DNA gyrase subunit B; GYRB-CTD, toprim, tail, DNA topoisomerase II,
           G- segment, T-segment, ATP-binding, nucleotide-binding;
           HET: DNA; 2.80A {Mycobacterium tuberculosis}
          Length = 247

 Score = 30.4 bits (68), Expect = 1.2
 Identities = 29/167 (17%), Positives = 49/167 (29%), Gaps = 25/167 (14%)

Query: 153 DHYTKMLSRTDVVGMFVGGMRPSNLLLDQAKRFYFENRSVDYIVLNNRHVPAIADPSNAV 212
                    T ++ +    MRP   L++      F  +   Y +   R  P  A      
Sbjct: 92  ADVDGQHISTLLLTLLFRFMRP---LIE--NGHVFLAQPPLYKLKWQRSDPEFAYSDRER 146

Query: 213 LTQWFEKYKDNYRAPEYKRISYILFDVHEKEKKIEISNDELQAEYEKNKEKYFSPEIRTV 272
                   K   +  +   I          +   E+   EL        E    P +R +
Sbjct: 147 DGLLEAGLKAGKKINKEDGIQRY-------KGLGEMDAKEL-------WETTMDPSVRVL 192

Query: 273 EQLVFPNQKEADEAFQSLKKG-----KKFIQLAEEQGKSLSDISLGS 314
            Q+   +   ADE F  L        + FI    +  + L D+ L +
Sbjct: 193 RQVTLDDAAAADELFSILMGEDVDARRSFITRNAKDVRFL-DVKLAA 238


>3cqy_A Anhydro-N-acetylmuramic acid kinase; APC7501, SO_1313, structural
           genomics, PSI-2, protein structure initiative; 2.30A
           {Shewanella oneidensis mr-1}
          Length = 370

 Score = 30.2 bits (67), Expect = 1.5
 Identities = 13/42 (30%), Positives = 16/42 (38%), Gaps = 9/42 (21%)

Query: 398 GTSMDEISRREKIVSIDLPLVDFAGKDVKGKEVAAIPYKEQL 439
           GTSMD          +D  LVDFAG+  +            L
Sbjct: 13  GTSMD---------GVDAVLVDFAGEQPQLIGTHTETIPTHL 45


>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP,
           aminoacyl-tRNA synthetase, ATP-binding,
           charcot-marie-tooth disease, disease mutation; HET: B4P;
           2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A*
           2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A
          Length = 693

 Score = 30.1 bits (67), Expect = 1.7
 Identities = 13/48 (27%), Positives = 23/48 (47%)

Query: 366 EVKKDIANQMRITKASEKVKEDYKRLEEFLALGTSMDEISRREKIVSI 413
           ++K+D A Q+ + KA  ++K   + LE         D+I  R K+   
Sbjct: 26  KLKEDKAPQVDVDKAVAELKARKRVLEAKELALQPKDDIVDRAKMEDT 73


>1yif_A Beta-1,4-xylosidase; glycosidase, xylan, structural genomics, PSI,
           protein structure initiative; 1.80A {Bacillus subtilis}
           SCOP: b.29.1.23 b.67.2.1
          Length = 533

 Score = 29.9 bits (66), Expect = 1.8
 Identities = 9/77 (11%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 460 DGSYMWVQIKESIPARDRKLEEVLTDVKKDWKTVKTAEEVSSKANQLVLEYSKEGKNFRD 519
           +     +++         +       + ++ K V     V+ + ++    YS   +++  
Sbjct: 426 EELGRILELTICDNFSFSQPLNNKIVIPREVKYVYL--RVNIEKDKYYYFYSFNKEDWHK 483

Query: 520 IGKNLGASLLTTNQINR 536
           I   L +  L+ + I  
Sbjct: 484 IDIALESKKLSDDYIRG 500


>2jzv_A Foldase protein PRSA; ppiase, parvulin, proline isomerase,
           lipoprotein, membrane, palmitate, rotamase; NMR
           {Staphylococcus aureus}
          Length = 111

 Score = 29.6 bits (66), Expect = 2.0
 Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 17/81 (20%)

Query: 280 QKEADEAFQSLKKGK-KFIQLAEE---------QGKSLSDISLGSFSKEYIPDVSLADSI 329
           +++A+E  + + K   KF ++A++         +   L  +  G   K++        ++
Sbjct: 33  KQKAEEIQKEVSKDPSKFGEIAKKESMDTGSAKKDGELGYVLKGQTDKDFE------KAL 86

Query: 330 FSLAKKGDFTPVIHGSFGYVI 350
           F L K G+ + V+  SFGY I
Sbjct: 87  FKL-KDGEVSEVVKSSFGYHI 106


>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
           nucleotide-binding, phosphorylation, acetylation,
           alternative splicing, coiled coil; HET: GDP GTP; 4.00A
           {Homo sapiens}
          Length = 418

 Score = 29.5 bits (65), Expect = 2.3
 Identities = 24/170 (14%), Positives = 65/170 (38%), Gaps = 6/170 (3%)

Query: 135 DVFVSRLAREGINEKEYIDHYTKMLSRTDVVGMFVGGMRP-SNLLLDQAKRFYFENRSVD 193
                R    G+ E E  +H    + R  ++   +  ++  +N +  +  R         
Sbjct: 241 KRVRGRQYPWGVAEVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAAVTY 300

Query: 194 YIVLNNRHVPAIADPSNAVLTQWFEKYKDNYRAPEYKRISYILFDVHEKEKKIEISNDEL 253
             V NN++   +     A + +   ++    +  E +        V EK +K++ S  EL
Sbjct: 301 NGVDNNKNKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVKEKVQKLKDSEAEL 360

Query: 254 QAEYEKNKEKYFSPEIRTVEQLVFPNQKEADEAFQSLKKGKKFIQLAEEQ 303
           Q  +E+ K+     + + +E+     +++ ++   + +  ++ ++     
Sbjct: 361 QRRHEQMKKNL-EAQHKELEEK----RRQFEDEKANWEAQQRILEQQNSS 405


>1bg1_A Protein (transcription factor STAT3B); transcription factor,
           protein-DNA complex, cytokine activation; HET: DNA PTR;
           2.25A {Mus musculus} SCOP: a.47.1.1 b.2.5.5 d.93.1.1
           PDB: 3cwg_A
          Length = 596

 Score = 29.3 bits (65), Expect = 2.6
 Identities = 12/69 (17%), Positives = 28/69 (40%), Gaps = 9/69 (13%)

Query: 239 VHEKEKKIEISNDELQAEYEKNKEKYFSPEIRTVEQLVFPNQKEADEAFQSLKKGKKFIQ 298
           V EK++ +E    +++   +  ++     +++ VE L    Q + D  +++LK       
Sbjct: 11  VTEKQQMLEQHLQDVRKRVQDLEQ-----KMKVVENL----QDDFDFNYKTLKSQGDMQD 61

Query: 299 LAEEQGKSL 307
           L        
Sbjct: 62  LNGNNQSVT 70


>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 = 29.2 bits (64), Expect = 2.9
 Identities = 7/22 (31%), Positives = 15/22 (68%), Gaps = 1/22 (4%)

Query: 288 QSLKKGKKFIQL-AEEQGKSLS 308
           Q+LKK +  ++L A++   +L+
Sbjct: 20  QALKKLQASLKLYADDSAPALA 41



 Score = 27.7 bits (60), Expect = 8.1
 Identities = 10/40 (25%), Positives = 12/40 (30%), Gaps = 19/40 (47%)

Query: 522 KNLGASLLTTNQINRMDNENKFFGYDGISQVFSGPVEMVK 561
           K L ASL             K +  D      S P   +K
Sbjct: 23  KKLQASL-------------KLYADD------SAPALAIK 43


>3kor_A Possible Trp repressor; putative DNA-binding Trp repressor, TRPR
           like protein, struc genomics, transcription; 1.60A
           {Staphylococcus aureus}
          Length = 119

 Score = 29.0 bits (65), Expect = 3.1
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 5/60 (8%)

Query: 495 TAEEVSSKANQL-VLEYSKEGKNFRDIGKNLGASLLTTNQINRMDNENKFFGYDGISQVF 553
           T  E+ S + +L V +  K+G  +  I +  GAS  T +++ R        G D  + + 
Sbjct: 55  TVNEIQSLSQRLQVAKMIKQGYTYATIEQESGASTATISRVKRSLQW----GNDAYTMIL 110


>3mt5_A Potassium large conductance calcium-activated CHA subfamily M,
           alpha member 1; potassium channel, membrane protein,
           transport protein; 3.00A {Homo sapiens}
          Length = 726

 Score = 28.8 bits (63), Expect = 4.0
 Identities = 21/130 (16%), Positives = 38/130 (29%)

Query: 189 NRSVDYIVLNNRHVPAIADPSNAVLTQWFEKYKDNYRAPEYKRISYILFDVHEKEKKIEI 248
           N      +        IA  +  V   +F     +    + KRI        E E+   +
Sbjct: 243 NPGNHLKIQEGTLGFFIASDAKEVKRAFFYCKACHDDITDPKRIKKCGCKRLEDEQPSTL 302

Query: 249 SNDELQAEYEKNKEKYFSPEIRTVEQLVFPNQKEADEAFQSLKKGKKFIQLAEEQGKSLS 308
           S  + Q           SP++   + L+ P   + D    ++KK            K + 
Sbjct: 303 SPKKKQRNGGMRNSPNTSPKLMRHDPLLIPGNDQIDNMDSNVKKYDSTGMFHWCAPKEIE 362

Query: 309 DISLGSFSKE 318
            + L      
Sbjct: 363 KVILTRSEAA 372


>1yw5_A Peptidyl prolyl CIS/trans isomerase; WW-domain, ppiase domain,
           ordered linker; 1.60A {Candida albicans}
          Length = 177

 Score = 28.2 bits (62), Expect = 5.7
 Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 11/77 (14%)

Query: 284 DEAFQSLKKGKKFIQLAEEQGKSLSDISLGSFSKEYIPDVS----------LADSIFSLA 333
           DE+ Q LKK  + I   E +   L++      S +   D+             ++ F+L 
Sbjct: 97  DESIQILKKHLERILSGEVKLSELANTESDCSSHDRGGDLGFFSKGQMQPPFEEAAFNL- 155

Query: 334 KKGDFTPVIHGSFGYVI 350
             G+ + +I  + G  I
Sbjct: 156 HVGEVSNIIETNSGVHI 172


>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
           {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
           1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
           1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
           2ga2_A* 2oaz_A*
          Length = 478

 Score = 28.2 bits (62), Expect = 5.7
 Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 7/61 (11%)

Query: 460 DGSYMWVQIKESIPARDRKLEEVLTDVKKDWKTVKTAEEVSSKANQLVLEYSKEGKNFRD 519
             +  W    E   A D+  EE+  D ++       A E   +  + V+ + K G    +
Sbjct: 143 GRTAAWRTTSEEKKALDQASEEIWNDFRE-------AAEAHRQVRKYVMSWIKPGMTMIE 195

Query: 520 I 520
           I
Sbjct: 196 I 196


>3frw_A Putative Trp repressor protein; structural genomics, APC21159,
           PSI-2, protein structure initiative; 2.05A {Ruminococcus
           obeum atcc 29174} PDB: 3g1c_A
          Length = 107

 Score = 27.8 bits (62), Expect = 6.8
 Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 5/60 (8%)

Query: 495 TAEEVSSKANQL-VLEYSKEGKNFRDIGKNLGASLLTTNQINRMDNENKFFGYDGISQVF 553
           T  E+ S + +  V +   + + + DI +  GAS  T +++NR  N     G DG   VF
Sbjct: 38  TINELLSLSQRFEVAKMLTDKRTYLDISEKTGASTATISRVNRSLNY----GNDGYEMVF 93


>3m4i_A DNA gyrase subunit B; GYRB, toprim, type II topoisomerase,
           tuberculosi quinolone binding site, DNA binding site,
           ATP-binding; HET: DNA; 1.95A {Mycobacterium
           tuberculosis} PDB: 3ig0_A* 2zjt_A*
          Length = 242

 Score = 27.6 bits (61), Expect = 8.1
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 5/63 (7%)

Query: 241 EKEKKIEISNDELQAEYEKNKEKYFSPEIRTVEQLVFPNQKEADEAFQSLKKG-----KK 295
            KE  I+      + + ++  E    P +R + Q+   +   ADE F  L        + 
Sbjct: 169 NKEDGIQRYKGLGEMDAKELWETTMDPSVRVLRQVTLDDAAAADELFSILMGEDVDARRS 228

Query: 296 FIQ 298
           FI 
Sbjct: 229 FIT 231


>2itk_A Peptidyl-prolyl CIS-trans isomerase NIMA- interacting 1; PIN1,
           isomerase, WW domain; HET: D11 NAL PE4; 1.45A {Homo
           sapiens} SCOP: b.72.1.1 d.26.1.1 PDB: 2q5a_A* 1f8a_B*
           2zr6_A* 1nmv_A 1pin_A* 2zr4_A* 2zr5_A* 2zqt_A* 2zqs_A*
           2zqv_A* 2zqu_A 2f21_A* 1zcn_A* 3ik8_A 3ikd_A* 3ikg_A*
           1nmw_A 1i6c_A 1i8g_B* 1i8h_B* ...
          Length = 167

 Score = 27.5 bits (60), Expect = 8.6
 Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 8/80 (10%)

Query: 278 PNQKEADEAFQSLKK-----GKKFIQLAEEQGKSLSDISLGSFSKEYIPDVS--LADSIF 330
             ++EA E      +      + F  LA +     S  + G         +     D+ F
Sbjct: 84  RTKEEALELINGYIQKIKSGEEDFESLASQFSDCSSAKARGDLGAFSRGQMQKPFEDASF 143

Query: 331 SLAKKGDFTPVIHGSFGYVI 350
           +L + G+ +  +    G  I
Sbjct: 144 AL-RTGEMSGPVFTDSGIHI 162


>3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase,
           protein-DNA cleavage complex; HET: DNA LFX; 2.90A
           {Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C*
          Length = 268

 Score = 27.7 bits (61), Expect = 8.8
 Identities = 24/158 (15%), Positives = 53/158 (33%), Gaps = 23/158 (14%)

Query: 152 IDHYTKMLSRTDVVGMFVGGMRPSNLLLDQAKRFYFENRSVDYIVLNNRHVPAIADPSNA 211
            D   +  +   ++ M       +++       FY   R +    +   HV  IA P   
Sbjct: 110 ADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPL----VEAGHV-YIALPPLY 164

Query: 212 VLTQWFEKYKDNYRAPEYKRISYILFDVHEKEKKI------EISNDELQAEYEKNKEKYF 265
            +++   K ++   A     +  +     +           E++ D+L        E   
Sbjct: 165 KMSKGKGKKEEVAYAWTDGELEELRKQFGKGATLQRYKGLGEMNADQL-------WETTM 217

Query: 266 SPEIRTVEQLVFPNQKEADEAFQSLKKG-----KKFIQ 298
           +PE RT+ ++   +   A+     L        +K+I+
Sbjct: 218 NPETRTLIRVTIEDLARAERRVNVLMGDKVEPRRKWIE 255


  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
   0.317    0.135    0.381 

Gapped
Lambda     K      H
   0.267   0.0442    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 5,363,414
Number of extensions: 259641
Number of successful extensions: 940
Number of sequences better than 10.0: 1
Number of HSP's gapped: 929
Number of HSP's successfully gapped: 52
Length of query: 631
Length of database: 5,693,230
Length adjustment: 98
Effective length of query: 533
Effective length of database: 3,317,318
Effective search space: 1768130494
Effective search space used: 1768130494
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: 60 (27.6 bits)