RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780529|ref|YP_003064942.1| flagellar motor protein MotB
[Candidatus Liberibacter asiaticus str. psy62]
         (343 letters)



>2zov_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum,
           cell projection, flagellar rotation, inner membrane,
           membrane; 2.00A {Salmonella typhimurium}
          Length = 210

 Score =  105 bits (263), Expect = 1e-23
 Identities = 45/181 (24%), Positives = 82/181 (45%), Gaps = 3/181 (1%)

Query: 165 KSINKEENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKG-VLFETTRTG 223
               +++       + +++     + RL  L   +   +        ++  +  +  + G
Sbjct: 2   DDYTQQQGEVEKQPNIDELKKRMEQSRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEG 61

Query: 224 ILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR- 282
           + I IID +N PMF   S+   P    +L+ I  VL      IS+ GHTD  P+ N  + 
Sbjct: 62  LRIQIIDSQNRPMFKTGSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKG 121

Query: 283 -DNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDR 341
             NW LS DRA ++ + L+  G+   ++ ++ G A         P ++ NRRI +LV ++
Sbjct: 122 YSNWELSADRANASRRELVAGGLDNGKVLRVVGMAATMRLSDRGPDDAINRRISLLVLNK 181

Query: 342 Q 342
           Q
Sbjct: 182 Q 182


>2zvy_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum,
           cell inner membrane, cell membrane, flagellar rotation,
           membrane; 1.75A {Salmonella typhimurium} PDB: 2zvz_A
          Length = 183

 Score = 87.1 bits (215), Expect = 6e-18
 Identities = 45/165 (27%), Positives = 78/165 (47%), Gaps = 3/165 (1%)

Query: 181 EKILAMKRKKRLQDLAKKISSTLSGLVADNIVKG-VLFETTRTGILISIIDQRNTPMFDK 239
           +++     + RL  L   +   +        ++  +  +  + G+ I IID +N PMF  
Sbjct: 7   DELKKRMEQSRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEGLRIQIIDSQNRPMFKT 66

Query: 240 SSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQ 297
            S+   P    +L+ I  VL      IS+ GHTD  P+ N  +   NW LS DRA ++ +
Sbjct: 67  GSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSADRANASRR 126

Query: 298 VLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDRQ 342
            L+  G+   ++ ++ G A         P ++ NRRI +LV ++Q
Sbjct: 127 ELVAGGLDNGKVLRVVGMAATMRLSDRGPDDAINRRISLLVLNKQ 171


>2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta
           barrel, 2-layer sandwich, flagellum, structural protein;
           2.85A {Vibrio alginolyticus}
          Length = 278

 Score = 67.6 bits (165), Expect = 4e-12
 Identities = 21/107 (19%), Positives = 42/107 (39%), Gaps = 8/107 (7%)

Query: 237 FDKSSSIPLPETIVVLQKIGEVLAH--STEVISIRGHTDASPFRNIARDNWRLSLDRAYS 294
           +++        +   L +I + + H    +++ +  +TD++        +  LS  RA S
Sbjct: 166 YERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDSTD---GKSASQSLSERRAES 222

Query: 295 AYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVE 339
                   G+ EDRI  + G+   R    +        NRR+ I + 
Sbjct: 223 LRDYFQSLGLPEDRIQ-VQGYGKRRPIADNGSPIGKDKNRRVVISLG 268


>3cyp_B Chemotaxis protein MOTB; bacterial flagellar motor, peptidoglycan
           binding, bacterial flagellum, flagellar rotation, inner
           membrane, membrane; 1.60A {Helicobacter pylori} PDB:
           3cyq_B*
          Length = 138

 Score = 65.7 bits (160), Expect = 1e-11
 Identities = 24/108 (22%), Positives = 56/108 (51%), Gaps = 5/108 (4%)

Query: 237 FDKSSSIPL-PETIVVLQKIGEVLAHSTE--VISIRGHTDASPFRN-IARDNWRLSLDRA 292
           F+ ++S  +  + ++ +++I +++    +   I++RG TD +P      + ++ L+ +RA
Sbjct: 7   FENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELAANRA 66

Query: 293 YSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVE 339
           Y   +VL++ GV+ +++S  S G  +      S      N R++I   
Sbjct: 67  YRVMKVLIQYGVNPNQLSFSSYGSTNPIAPNDSLENRMKNNRVEIFFS 114


>3ldt_A Outer membrane protein, OMPA family protein; OMPA-like domain,
           PSI-II, NYSGXRC, structural genomics, protein structure
           initiative; 2.30A {Legionella pneumophila}
          Length = 169

 Score = 64.9 bits (158), Expect = 2e-11
 Identities = 24/134 (17%), Positives = 44/134 (32%), Gaps = 10/134 (7%)

Query: 213 KGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGH 271
           + + +        + I        F  SS          L  +  +L  +    I + G 
Sbjct: 37  QDIQYVEYGDTRTLII---PTDKYFMFSSPRLNEICYPGLNNVIRLLNFYPQSTIYVAGF 93

Query: 272 TDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKI--ASDPMNS 329
           TD            +LS  +A +    L  +G++  R+    G+         A    ++
Sbjct: 94  TDNVG---SRSHKRKLSQAQAETMMTFLWANGIAAKRLK-AEGYGDKNAISDNAIIHGSA 149

Query: 330 ANRRIDILVEDRQG 343
            NRRI+I     +G
Sbjct: 150 QNRRIEIQWFTSEG 163


>3oon_A Outer membrane protein (TPN50); protein structure initiative,
           PSI-2, structural genomics, MI center for structural
           genomics, MCSG; 1.79A {Borrelia burgdorferi}
          Length = 123

 Score = 65.1 bits (159), Expect = 2e-11
 Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 5/104 (4%)

Query: 237 FDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSA 295
           F  +S   L +    +  I ++L       I I GHT+      +  +   LS  RA + 
Sbjct: 21  FYPNSFQILQKEYKKIDLIAKLLEKFKKNNILIEGHTEQ---FGLEEEMHELSEKRARAI 77

Query: 296 YQVLMKSGVSEDRISKISGFAHHRLKIA-SDPMNSANRRIDILV 338
              L+K  V +       G+   + K   S P+ + NRR++I +
Sbjct: 78  GNYLIKMKVKDKDQILFKGWGSQKPKYPKSSPLKAKNRRVEITI 121


>2kgw_A Outer membrane protein A; OMPA- like, cell membrane, transmembrane;
           NMR {Mycobacterium tuberculosis}
          Length = 129

 Score = 64.0 bits (156), Expect = 4e-11
 Identities = 29/106 (27%), Positives = 46/106 (43%), Gaps = 9/106 (8%)

Query: 237 FDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSA 295
           F    +  +P    +L ++ + L A     ++I G+TD +        N  LS  RA   
Sbjct: 28  FGNDGASLIPADYEILNRVADKLKACPDARVTINGYTDNTG---SEGINIPLSAQRAKIV 84

Query: 296 YQVLMKSGVSEDRISKISGFAHHRLKIAS--DPMN-SANRRIDILV 338
              L+  GV+ D I+   G       IAS   P   + NRR++I+V
Sbjct: 85  ADYLVARGVAGDHIA-TVGLGSVNP-IASNATPEGRAKNRRVEIVV 128


>1r1m_A Outer membrane protein class 4; 1.90A {Neisseria meningitidis}
           SCOP: d.79.7.1
          Length = 164

 Score = 54.3 bits (130), Expect = 4e-08
 Identities = 26/126 (20%), Positives = 45/126 (35%), Gaps = 25/126 (19%)

Query: 236 MFDKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRGHTDASPFRNIARDNWRLSLDRAYS 294
           +F         E    L+ + + L+  + + + + GHTD        + N  LS  RAY 
Sbjct: 18  LFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFMGSD---KYNQALSERRAYV 74

Query: 295 AYQVLMKSGVSEDRISKIS--------------GFAHHRLKIASDPMNSA-------NRR 333
               L+ +GV   RIS +                 A    K++      A       +RR
Sbjct: 75  VANNLVSNGVPVSRISAVGLGESQAQMTQVCEAEVAKLGAKVSKAKKREALIACIEPDRR 134

Query: 334 IDILVE 339
           +D+ + 
Sbjct: 135 VDVKIR 140


>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 = 48.4 bits (115), Expect = 2e-06
 Identities = 70/374 (18%), Positives = 122/374 (32%), Gaps = 136/374 (36%)

Query: 66  EQYFNPFGKNLMTASKGIFDEQNPPERSSQNKIDLSID--EHITKNSVDLKIGSTNQ--K 121
            Q    F K L   ++G F   + P  ++    +L      +++      K+G  +Q   
Sbjct: 31  SQLQEQFNKILPEPTEG-FAADDEP--TT--PAELVGKFLGYVSSLVEPSKVGQFDQVLN 85

Query: 122 KQYQRLENNIFYLSNSQQSE-HC-KNSLTRDSE----KGKDLCK---------------- 159
                 EN   YL   + ++ H     L ++++    K K+L K                
Sbjct: 86  LCLTEFENC--YL---EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140

Query: 160 -STDLEKSINKE--------------ENYF--L-------PPLSKEKILAMKRKKRLQDL 195
            ++ L +++ +               ++YF  L         L             + DL
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL-------------VGDL 187

Query: 196 AKKISSTLSGLVADNIVKGVLFETTRT-GI-LISIIDQRN-TPMFDKSSSIP--LPETIV 250
            K  + TLS L+   +      E   T G+ ++  ++  + TP  D   SIP   P  I 
Sbjct: 188 IKFSAETLSELIRTTLD----AEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP-LIG 242

Query: 251 VLQ--------KI-----GEVLAH---STEVISIRGH-----TDASPFRNIAR-DNW--- 285
           V+Q        K+     GE+ ++   +T      GH     T  +    IA  D+W   
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGAT------GHSQGLVTAVA----IAETDSWESF 292

Query: 286 -RLSLD----------RAYSAY--QVLMKSGVSEDRISKISGFAHHRLKIASDPMNSANR 332
                           R Y AY    L  S + ED +    G     L I++        
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPS-ILEDSLENNEGVPSPMLSISNLTQEQVQD 351

Query: 333 RIDI----LVEDRQ 342
            ++     L   +Q
Sbjct: 352 YVNKTNSHLPAGKQ 365



 Score = 41.1 bits (96), Expect = 4e-04
 Identities = 62/272 (22%), Positives = 92/272 (33%), Gaps = 91/272 (33%)

Query: 72   FGKNLMTASKGIFDEQNPPERSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQRLEN-- 129
             G +L   SK   D  N  +   ++    SI + +  N V+L I    +K +  R EN  
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR-ENYS 1689

Query: 130  ---------------NIFYLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYF 174
                            IF     + +EH   S T  SEKG  L  +T            F
Sbjct: 1690 AMIFETIVDGKLKTEKIF----KEINEH-STSYTFRSEKG--LLSATQ-----------F 1731

Query: 175  LPPLSKEKILAMKRKKRLQDLAKKISSTLSGLV-ADNIVKGVLFETTRTGILISIIDQRN 233
              P      L +  K   +DL  K      GL+ AD    G          L S+ D   
Sbjct: 1732 TQP-----ALTLMEKAAFEDLKSK------GLIPADATFAG--HSLGEYAALASLAD--- 1775

Query: 234  TPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTD--ASPFRNIARDNW------ 285
                    SI   E++V             EV+  RG T   A P   + R N+      
Sbjct: 1776 ------VMSI---ESLV-------------EVVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813

Query: 286  --RLSLDRAYSAYQVLMKSGVSEDRISKISGF 315
              R++   +  A Q ++      +R+ K +G+
Sbjct: 1814 PGRVAASFSQEALQYVV------ERVGKRTGW 1839


>3khn_A MOTB protein, putative; structural genomics, OMPA-like domain,
           PSI-2, protein structure initiative; 2.03A
           {Desulfovibrio vulgaris str}
          Length = 174

 Score = 40.6 bits (94), Expect = 5e-04
 Identities = 33/170 (19%), Positives = 71/170 (41%), Gaps = 13/170 (7%)

Query: 178 LSKEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKGVL-FETTRTGILISIIDQRNTPM 236
           +S E +   + ++ L +  ++  + +      N V+GV+        I + +  +    +
Sbjct: 1   MSLETV---RLQRELIEAQRQTYNEMRTYFTVNGVEGVIGAVFDEGVITLRVPSEV---L 54

Query: 237 FDKSSSIPLPETIVVLQKIGEVLAHSTEV-ISIRGHTDA--SPFRNIARDNWRLSLDRAY 293
           F   +    P    VL  + ++     E  I+I+G TD          +DNW +S  R+ 
Sbjct: 55  FAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSV 114

Query: 294 SAYQVLMKSGVSEDRISKISGFAHHRLKI--ASDPMNSANRRIDILVEDR 341
           +  +  + +G+   R++  +G           SD   + NRR++ ++E R
Sbjct: 115 NVLRYFLGAGIEPARLT-ATGLGELDPLFPNTSDENRARNRRVEFVLERR 163


>2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha beta,
           palmitate, transmembrane, structural genomics, PSI-2;
           NMR {Escherichia coli K12}
          Length = 149

 Score = 34.4 bits (78), Expect = 0.042
 Identities = 33/128 (25%), Positives = 52/128 (40%), Gaps = 8/128 (6%)

Query: 213 KGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVIS-IRGH 271
            GV    +   I++++    N   FD SS+   P     L  +  VL    +    + G+
Sbjct: 17  TGVSVTRSGDNIILNM---PNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGY 73

Query: 272 TDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSA 330
           TD+         N RLS  RA S    L+  GV   RI     G A+     ++    + 
Sbjct: 74  TDS---TGGHDLNMRLSQQRADSVASALITQGVDASRIRTQGLGPANPIASNSTAEGKAQ 130

Query: 331 NRRIDILV 338
           NRR++I +
Sbjct: 131 NRRVEITL 138


>2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL, transport
           protein/lipoprotein complex; 1.50A {Escherichia coli}
           SCOP: d.79.7.1 PDB: 2w8b_C 1oap_A
          Length = 118

 Score = 33.7 bits (76), Expect = 0.060
 Identities = 25/113 (22%), Positives = 40/113 (35%), Gaps = 5/113 (4%)

Query: 228 IIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRGHTDASPFRNIARDNWR 286
           ++ Q N   FD        +   +L      L  + +  +++ GH      R     N  
Sbjct: 1   MLQQNNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHA---DERGTPEYNIS 57

Query: 287 LSLDRAYSAYQVLMKSGVSEDRIS-KISGFAHHRLKIASDPMNSANRRIDILV 338
           L   RA +    L   GVS D+IS    G     +    +   S NRR  ++ 
Sbjct: 58  LGERRANAVKMYLQGKGVSADQISIVSYGKEKPAVLGHDEAAYSKNRRAVLVY 110


>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
           transcription factor, DNA-binding, DNA-directed RNA
           polymerase; 4.30A {Saccharomyces cerevisiae}
          Length = 197

 Score = 29.1 bits (65), Expect = 1.4
 Identities = 10/57 (17%), Positives = 20/57 (35%), Gaps = 11/57 (19%)

Query: 117 STNQKKQYQRLENNIFYLSNSQQSEHCKN---SLTRDSEKGKDLCKSTDL---EKSI 167
           S +++   +R  N    L+       CK     +     +G  +C    L   +K +
Sbjct: 6   SIDKRAG-RRGPN----LNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLV 57


>1a0r_P Phosducin, MEKA, PP33; transducin, beta-gamma, signal transduction,
           regulation, phosphorylation, G proteins, thioredoxin,
           vision; HET: FAR; 2.80A {Bos taurus} SCOP: c.47.1.6 PDB:
           1b9y_C 1b9x_C
          Length = 245

 Score = 27.7 bits (61), Expect = 4.1
 Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 11/83 (13%)

Query: 119 NQKKQYQRLENNIFYLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLPPL 178
           ++                 Q S           E+        + E  I+K++       
Sbjct: 36  SEDSDSVAHSKKEIL---RQMSSPQSRDDKDSKERFSRKMSVQEYE-LIHKDKE------ 85

Query: 179 SKEKILAMKRKKRLQDLAKKISS 201
             E  L   R++ +QD+ +K+S 
Sbjct: 86  -DENCLRKYRRQCMQDMHQKLSF 107


>1h5w_A Upper collar protein; virus, connector, portal, SH3-like, helix
           bundle; 2.1A {Bacteriophage phi-29} SCOP: e.27.1.1 PDB:
           1ijg_A 1jnb_A 1fou_A
          Length = 309

 Score = 27.4 bits (60), Expect = 4.8
 Identities = 16/50 (32%), Positives = 25/50 (50%)

Query: 248 TIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQ 297
           T   L+     LA   E+IS+  +   +P    A DN +LSL + Y+ Y+
Sbjct: 130 TTPTLELFAAELAELKEIISVNQNAQKTPVLIRANDNNQLSLKQVYNQYE 179


>1o7j_A L-asparaginase; atomic resolution, hydrolase; 1.0A {Erwinia
           chrysanthemi} SCOP: c.88.1.1 PDB: 1hfj_A 1hfk_A* 1hg0_A
           1hg1_A 1hfw_A* 1jsr_A* 1jsl_A 2gvn_A 1zcf_A 2hln_A*
           2jk0_A
          Length = 327

 Score = 26.9 bits (59), Expect = 6.2
 Identities = 10/38 (26%), Positives = 19/38 (50%), Gaps = 2/38 (5%)

Query: 35  IVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPF 72
            + +D +    A  L+M  +  T D   K I++YF+ +
Sbjct: 292 GLVSDSLNPAHARILLMLALTRTSD--PKVIQEYFHTY 327


>1tfr_A T4 RNAse H; 5U-3U exonuclease, RNA:RNA, DNA:DNA, metal-dependent,
           magnesium-containing, hydrolase (nucleic acid); 2.06A
           {Enterobacteria phage T4} SCOP: a.60.7.1 c.120.1.2 PDB:
           2ihn_A
          Length = 305

 Score = 26.7 bits (58), Expect = 7.7
 Identities = 15/162 (9%), Positives = 39/162 (24%), Gaps = 9/162 (5%)

Query: 45  MAFFLVMWIINATDDDTKKAIEQYFNPFGKNLMTASKGIFDEQNPPER-----SSQNKID 99
               +++   +       K                 K    E +   +        N   
Sbjct: 145 EGHKILIISSDGDFTQLHKYPNVKQWSPMHKKWVKIKSGSAEIDCMTKILKGDKKDNVAS 204

Query: 100 LSIDEHITKNSVDLKIGSTNQKKQYQRLENNIFYLSNSQQSEHCKNSLTRDSEKGKDLCK 159
           + +        V+ +   + +    + + N+                  +++    D   
Sbjct: 205 VKVRSDFWFTRVEGERTPSMKTSIVEAIANDREQAKVLLTESEYNRY--KENLVLIDFDY 262

Query: 160 -STDLEKSINKEENYFLPPLSKEKILAMKRKKRLQDLAKKIS 200
              ++  +I    N       + KI +   K  L  L   I+
Sbjct: 263 IPDNIASNIVNYYNS-YKLPPRGKIYSYFVKAGLSKLTNSIN 303


>2qtw_A Proprotein convertase subtilisin/kexin type 9 propeptide; coronary
           heart disease, hypercholesterolemia, low density
           lipoprotein receptor, alternative splicing; HET: NAG;
           1.90A {Homo sapiens} PDB: 2pmw_A 3h42_A 3bps_P 3gcw_P
           3gcx_P
          Length = 124

 Score = 26.5 bits (58), Expect = 8.3
 Identities = 13/70 (18%), Positives = 22/70 (31%), Gaps = 8/70 (11%)

Query: 258 VLAHS---TEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISG 314
           VLA       +     H   + F   A+D WRL        Y V++K      +  + + 
Sbjct: 14  VLALRSEEDGLAEAPEHGTTATFHRCAKDPWRLP-----GTYVVVLKEETHLSQSERTAR 68

Query: 315 FAHHRLKIAS 324
               +     
Sbjct: 69  RLQAQAARRG 78


>2jx3_A Protein DEK; alpha helix, SAF/SAP motif, DNA binding, chromosomal
           rearrangement, DNA-binding, nucleus, phosphorylation,
           proto oncogene; NMR {Homo sapiens}
          Length = 131

 Score = 26.6 bits (59), Expect = 9.0
 Identities = 17/85 (20%), Positives = 33/85 (38%), Gaps = 7/85 (8%)

Query: 114 KIGSTNQKKQYQRLENNIFYLSNSQQSEHCKNSLTR-DSEKGKDLCKSTDLEKSINKEE- 171
           + G+ +  K+     +   +   S Q +  +  L +  +   K +C+  DLE+S    E 
Sbjct: 39  RPGTVSSLKKNVGQFSGFPFEKGSVQYKKKEEMLKKFRNAMLKSICEVLDLERSGVNSEL 98

Query: 172 -----NYFLPPLSKEKILAMKRKKR 191
                N+ + P    K L   +K  
Sbjct: 99  VKRILNFLMHPKPSGKPLPKSKKTC 123


>3nxk_A Cytoplasmic L-asparaginase; structural genomics, center for
           structural genomics of infec diseases, csgid,
           alpha-beta-alpha sandwich; 2.40A {Campylobacter jejuni
           subsp}
          Length = 334

 Score = 26.6 bits (58), Expect = 9.1
 Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 5/50 (10%)

Query: 21  VAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFN 70
           VA+ D+   LG    + A+ +    A  L+M  +  T D   K I++YF 
Sbjct: 288 VAVSDSDEKLG---FISAEDLNPQKARVLLMLALTKTSD--PKKIQEYFL 332


  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
   0.315    0.131    0.366 

Gapped
Lambda     K      H
   0.267   0.0680    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,783,288
Number of extensions: 125480
Number of successful extensions: 434
Number of sequences better than 10.0: 1
Number of HSP's gapped: 420
Number of HSP's successfully gapped: 31
Length of query: 343
Length of database: 5,693,230
Length adjustment: 93
Effective length of query: 250
Effective length of database: 3,438,538
Effective search space: 859634500
Effective search space used: 859634500
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 (21.6 bits)
S2: 57 (25.8 bits)