RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780553|ref|YP_003064966.1| Holliday junction DNA helicase
RuvA [Candidatus Liberibacter asiaticus str. psy62]
         (207 letters)



>gnl|CDD|178876 PRK00116, ruvA, Holliday junction DNA helicase RuvA; Reviewed.
          Length = 192

 Score =  198 bits (506), Expect = 9e-52
 Identities = 76/206 (36%), Positives = 117/206 (56%), Gaps = 14/206 (6%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRL 60
           MIG +KG +     DYV+I+V GV Y +  P+RTL  L ++G+   L+    +R+D I L
Sbjct: 1   MIGYLKGKLVEKGPDYVVIEVNGVGYEVQVPMRTLYELPEVGEEVKLYTHLVVREDAILL 60

Query: 61  FGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKI 120
           +GFL+  +R+ F LL SV GVG ++A+ +LS ++  ELV++I   + K + ++PGI  K 
Sbjct: 61  YGFLTKEERELFRLLISVSGVGPKLALAILSGLSPEELVQAIANGDVKALTKVPGIGKKT 120

Query: 121 ASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQATTA 180
           A RI+ ELK K  + +S                 +  S    A+SALV LGY   +A+ A
Sbjct: 121 AERIVLELKDKLAAAASAAAAAA-----------AASSALEEAVSALVALGYKPKEASKA 169

Query: 181 VVSVLKKEKNIADDSQIIRLALRAIS 206
           V  +LK+    A   ++IR AL+ +S
Sbjct: 170 VAKILKEA---ASVEELIREALKLLS 192


>gnl|CDD|184760 PRK14604, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 195

 Score =  118 bits (298), Expect = 1e-27
 Identities = 68/205 (33%), Positives = 106/205 (51%), Gaps = 17/205 (8%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRL 60
           MI  I+G I+ +  D+++++  GV  +IY P   L+ +G IGD   L+    +R+D + L
Sbjct: 1   MIASIRGIIQSIGNDHLIVETGGVGLLIYAPRSVLAAIGAIGDEVFLYTHLIVREDALTL 60

Query: 61  FGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKI 120
           +GF +   RQ F LL  V GVG + A+ +LS  T  EL  +I   +   +A++PGI  K 
Sbjct: 61  YGFSTPAQRQLFELLIGVSGVGPKAALNLLSSGTPDELQLAIAGGDVARLARVPGIGKKT 120

Query: 121 ASRIMTELKGK--AISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQAT 178
           A RI+ ELKGK     LS      +S +++E                 L++LGY   +A 
Sbjct: 121 AERIVLELKGKIDVRQLSGSTSPAVSALDRE-------------LSEILISLGYSAAEAA 167

Query: 179 TAVVSVLKKEKNIADDSQIIRLALR 203
            A+ + L  +    D  + +RLALR
Sbjct: 168 AAIAA-LPSDAP-PDLEERLRLALR 190


>gnl|CDD|173066 PRK14602, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 203

 Score =  112 bits (283), Expect = 5e-26
 Identities = 60/207 (28%), Positives = 108/207 (52%), Gaps = 8/207 (3%)

Query: 1   MIGKIKGNIEGLYEDY-VLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIR 59
           MI  ++G +    E+  V++   GV Y ++ P  TL+ L + G   + FV T +R+D + 
Sbjct: 1   MIAYLEGRVAERRENSCVVLTPGGVGYEVFLPAHTLARLPEKGGQVSFFVHTVVREDALE 60

Query: 60  LFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMK 119
           LFGF +  +RQ F++L S+  VGA+ A+ +LS+    +L   +  ++   + ++ GI  K
Sbjct: 61  LFGFATWDERQTFIVLISISKVGAKTALAILSQFRPDDLRRLVAEEDVAALTRVSGIGKK 120

Query: 120 IASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQATT 179
            A  I  ELK K      +  + +              S   +A++ L NLGYG+++A  
Sbjct: 121 TAQHIFLELKYK------LKVEGLPAAAVLAGTGAVPGSVFRDALAGLANLGYGEEEARP 174

Query: 180 AVVSVLKKEKNIADDSQIIRLALRAIS 206
            +  VL++E ++ D    +R AL+A++
Sbjct: 175 VLKEVLEEEPDL-DVGGALRAALKALA 200


>gnl|CDD|173064 PRK14600, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 186

 Score =  109 bits (275), Expect = 5e-25
 Identities = 65/207 (31%), Positives = 113/207 (54%), Gaps = 23/207 (11%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLS-CLGKIGDFCTLFVETHMRQDQI- 58
           MIG + G +E +  DY++++V  V YI+Y   + LS C  KIGD   L++ET++ +D + 
Sbjct: 1   MIGSLSGIVEEVRSDYIILNVGNVGYIVYLSAKVLSTC--KIGDNIKLYIETYVNRDNVT 58

Query: 59  RLFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISM 118
           +L+GFL+  ++    +L  V GV  + AM +LS++T  +L  S I+   K   ++ GI  
Sbjct: 59  QLYGFLNREEQDCLRMLVKVSGVNYKTAMSILSKLTPEQLF-SAIVNEDKAALKVNGIGE 117

Query: 119 KIASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQAT 178
           K+ +RI+TEL+ K              V+K + +  +      +A++AL++LGY +    
Sbjct: 118 KLINRIITELQYK--------------VSKLEINETNFIIINDDALAALISLGYEK---- 159

Query: 179 TAVVSVLKKEKNIADDSQIIRLALRAI 205
           T   + ++K K       IIR AL+ +
Sbjct: 160 TKAFNAIQKIKPNLSTQDIIRKALKEL 186


>gnl|CDD|184761 PRK14605, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 194

 Score =  104 bits (260), Expect = 2e-23
 Identities = 60/207 (28%), Positives = 104/207 (50%), Gaps = 16/207 (7%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRL 60
           MI  + G +E   +D+ +I+V GV +  Y P  + + +G +G    +F   H+R+D + L
Sbjct: 1   MISSLNGILEASGKDWAVINVSGVGFRCYMPATSPALIGGLGQRVRVFTHLHVREDALSL 60

Query: 61  FGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKI 120
           FGF +  +   F  L  V G+G ++ + +LS + A  L  +II  N+++++ IPGI  K 
Sbjct: 61  FGFATTEELSLFETLIDVSGIGPKLGLAMLSAMNAEALASAIISGNAELLSTIPGIGKKT 120

Query: 121 ASRIMTELKGK-AISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQATT 179
           ASRI+ ELK K A +  + V   ++  N +              ++ L  LGY   +A  
Sbjct: 121 ASRIVLELKDKIAKNWEAGVLSQVTEANSD-------------ILATLTALGYSSSEAAK 167

Query: 180 AVVSVLKKEKNIADDSQIIRLALRAIS 206
           A+ S+        ++   I+LAL   +
Sbjct: 168 AISSLGDNGDLPLEER--IKLALNYFN 192


>gnl|CDD|129193 TIGR00084, ruvA, Holliday junction DNA helicase, RuvA subunit.
           RuvA specifically binds Holliday junctions as a sandwich
           of two tetramers and maintains the configuration of the
           junction. It forms a complex with two hexameric rings of
           RuvB, the subunit that contains helicase activity. The
           complex drives ATP-dependent branch migration of the
           Holliday junction recombination intermediate. The
           endonuclease RuvC resolves junctions.
          Length = 191

 Score =  103 bits (260), Expect = 2e-23
 Identities = 58/204 (28%), Positives = 95/204 (46%), Gaps = 15/204 (7%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIRL 60
           MIG + G +  + +  ++I+V GV Y +  P+     L  +     +F    +R+D   L
Sbjct: 1   MIGFLFGKVIEVSKPKIIIEVNGVGYELQVPMTCAYEL-NLEQKAQVFTHLVVREDAELL 59

Query: 61  FGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKI 120
           FGF +  +R+ F  L  V GVG ++A+ +LS ++  E V +I  +  K + +IPG+  K 
Sbjct: 60  FGFNTLEERELFKELIKVNGVGPKLALAILSNMSPEEFVYAIETEEVKALVKIPGVGKKT 119

Query: 121 ASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQATTA 180
           A R++ ELKGK   L      +M    +         +       ALV+LGY   +   A
Sbjct: 120 AERLLLELKGK---LKGNKNLEMFTPTE---------AARDELFEALVSLGYKPQEIQQA 167

Query: 181 VVSVLKKEKNIADDSQIIRLALRA 204
           +  +  K K      Q I  AL+ 
Sbjct: 168 LKKI--KNKPDFAIEQDIEEALKQ 189


>gnl|CDD|184759 PRK14603, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 197

 Score = 86.0 bits (213), Expect = 7e-18
 Identities = 55/209 (26%), Positives = 100/209 (47%), Gaps = 17/209 (8%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQGVCYIIYCPIRTLSCL--GKIGDFCTLFVETHMRQDQI 58
           MI  + G +    E   ++   GV   + CP  TL+ L  G+  +  T  V   +R+D +
Sbjct: 1   MIAYLSGVVLEKREGSAVLLAGGVGLEVQCPAPTLARLVEGQEAELHTRLV---VREDAL 57

Query: 59  RLFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISM 118
            L+GF  +   + F LL  V GVG ++A+ +LS +    L  +++  +++++    G+  
Sbjct: 58  SLYGFPDEDSLELFELLLGVSGVGPKLALALLSALPPALLARALLEGDARLLTSASGVGK 117

Query: 119 KIASRIMTELKGKAIS--LSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQ 176
           K+A RI  ELKGK     L+       + V+   A          +A+ AL+ LG+ + Q
Sbjct: 118 KLAERIALELKGKVPEHLLAGPAGGGGTKVSSTAAE---------DAVLALLALGFREAQ 168

Query: 177 ATTAVVSVLKKEKNIADDSQIIRLALRAI 205
             + V  +L +    +  + +IR AL+ +
Sbjct: 169 VRSVVAELLAQNPEASAQT-LIRKALKRL 196


>gnl|CDD|184762 PRK14606, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 188

 Score = 80.5 bits (198), Expect = 3e-16
 Identities = 60/207 (28%), Positives = 106/207 (51%), Gaps = 22/207 (10%)

Query: 1   MIGKIKGNIEGLYEDYVLIDVQ-GVCYIIYCPIRTLSCLGKIGDFCTLFVETHMRQDQIR 59
           MI  I G +     + +L++ + GV + I C ++T   + + G+ C L     + QD I 
Sbjct: 1   MIAGISGRVLKKSGNVLLVETKSGVVFEIVCDVQTSEEVEEGGE-CFLHTFLSVSQDGIT 59

Query: 60  LFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMK 119
           L+GF ++  ++ F+ L  V  +G + A+ ++S   A  LV  I  Q+ + ++++PGIS K
Sbjct: 60  LYGFSNERKKELFLSLTKVSRLGPKTALKIISNEDAETLVTMIASQDVEGLSKLPGISKK 119

Query: 120 IASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQATT 179
            A RI+ ELK +     S   +DM   ++              ++ ALV+LGY + QA  
Sbjct: 120 TAERIVMELKDE---FESAGIKDMRIYHE--------------SLEALVSLGYPEKQARE 162

Query: 180 AVVSVLKKEKNIADDSQIIRLALRAIS 206
           AV  V ++       S++I+ AL+ +S
Sbjct: 163 AVKHVYREGMKT---SELIKEALKFLS 186


>gnl|CDD|173065 PRK14601, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 183

 Score = 73.3 bits (180), Expect = 4e-14
 Identities = 56/206 (27%), Positives = 99/206 (48%), Gaps = 29/206 (14%)

Query: 1   MIGKIKGNIEGLYEDYVLID-VQGVCYIIYCPIRTLSCLGKI--GDFCTLFVETHMRQDQ 57
           MI  I+G I      ++++    GV Y I+    +L C  KI  G+   LF+   +++D 
Sbjct: 1   MIVAIEGIITKKEPTFIVLKTASGVSYGIFI---SLFCSAKIQKGEKHELFITQIIKEDS 57

Query: 58  IRLFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGIS 117
            +L+GFL   +++ F +L  V G+GA  AM V S +      +++ L +  V+ ++PGI 
Sbjct: 58  NKLYGFLDKDEQKMFEMLLKVNGIGANTAMAVCSSLDVNSFYKALSLGDESVLKKVPGIG 117

Query: 118 MKIASRIMTELKGKAISLSSVVQQDMSCVNKEQAHICSMPSFAINAISALVNLGYGQDQA 177
            K A RI+ EL      L +V                        A++AL+ LG+ Q++ 
Sbjct: 118 PKSAKRIIAELSDAKTKLENV------------------SDDKSEALAALLTLGFKQEK- 158

Query: 178 TTAVVSVLKKEKNIADDSQIIRLALR 203
              ++ VL   ++    S++I+ AL+
Sbjct: 159 ---IIKVLASCQS-TGTSELIKEALK 180


>gnl|CDD|139961 PRK13901, ruvA, Holliday junction DNA helicase RuvA; Provisional.
          Length = 196

 Score = 68.3 bits (167), Expect = 1e-12
 Identities = 31/92 (33%), Positives = 57/92 (61%)

Query: 40  KIGDFCTLFVETHMRQDQIRLFGFLSDLDRQWFMLLQSVQGVGARVAMGVLSRITATELV 99
           ++ +   +    H R+D+++LFGFL+  +R+ F  L  V G+G R A+ VLS I   E  
Sbjct: 39  RLLEDVEILTYLHTREDELKLFGFLNSSEREVFEELIGVDGIGPRAALRVLSGIKYNEFR 98

Query: 100 ESIILQNSKVIAQIPGISMKIASRIMTELKGK 131
           ++I  ++ ++I+++ GI  K+A +I  +L+GK
Sbjct: 99  DAIDREDIELISKVKGIGNKMAGKIFLKLRGK 130


>gnl|CDD|148866 pfam07499, RuvA_C, RuvA, C-terminal domain.  Homologous
           recombination is a crucial process in all living
           organisms. In bacteria, this process the RuvA, RuvB, and
           RuvC proteins are involved. More specifically the
           proteins process the Holliday junction DNA. RuvA is
           comprised of three distinct domains. The domain
           represents the C-terminal domain and plays a significant
           role in the ATP-dependent branch migration of the
           hetero-duplex through direct contact with RuvB. Within
           the Holliday junction, the C-terminal domain makes no
           interaction with DNA.
          Length = 47

 Score = 43.2 bits (103), Expect = 5e-05
 Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 2/44 (4%)

Query: 163 AISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAIS 206
           A+SAL+ LGY + +A  AV  VL+     A   ++IR AL+ +S
Sbjct: 6   AVSALLALGYKEKEAEKAVAKVLEDPG--ASVEELIRAALKLLS 47


>gnl|CDD|173129 PRK14666, uvrC, excinuclease ABC subunit C; Provisional.
          Length = 694

 Score = 28.7 bits (64), Expect = 1.0
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 3/56 (5%)

Query: 75  LQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIMTELKG 130
           LQ V+G+G   A  +  R  +   ++++     + +A +PGI    A+ +   LK 
Sbjct: 639 LQRVEGIGPATARLLWERFGS---LQAMAAAGEEGLAAVPGIGPARAAALHEHLKT 691


>gnl|CDD|179718 PRK04028, PRK04028, glutamyl-tRNA(Gln) amidotransferase subunit E;
           Validated.
          Length = 630

 Score = 27.5 bits (62), Expect = 2.7
 Identities = 10/47 (21%), Positives = 23/47 (48%), Gaps = 4/47 (8%)

Query: 90  LSRITATEL---VESIILQNSKVIAQIPGISM-KIASRIMTELKGKA 132
           L  ++  E+   ++ I+ +N   + +    +   +   +M EL+GKA
Sbjct: 565 LKGLSEEEVEKIIDEIVEENIDFVKEKGMGAFGPLMGEVMAELRGKA 611


>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
          Length = 280

 Score = 26.7 bits (59), Expect = 4.0
 Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 1/24 (4%)

Query: 116 ISMKIASRIMTEL-KGKAISLSSV 138
           + MK A+RIM  L KG  +SL SV
Sbjct: 133 LGMKHAARIMIPLKKGSIVSLCSV 156


>gnl|CDD|184532 PRK14139, PRK14139, heat shock protein GrpE; Provisional.
          Length = 185

 Score = 26.9 bits (60), Expect = 4.5
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 19/60 (31%)

Query: 147 NKEQAHICSMPSFAINAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAIS 206
           ++ QA I  +P+                +Q    VV+VL+K   IAD  +++R AL  ++
Sbjct: 142 HQHQA-ISMVPA----------------EQEPNTVVAVLQKGYTIAD--RVLRPALVTVA 182


>gnl|CDD|179965 PRK05218, PRK05218, heat shock protein 90; Provisional.
          Length = 613

 Score = 26.2 bits (59), Expect = 5.6
 Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 3/30 (10%)

Query: 103 ILQNSKVIAQIPGISMKIASRIMTELKGKA 132
           ILQ  +V+ +   I   I  +++ EL+  A
Sbjct: 327 ILQEDRVVKK---IRKAITKKVLDELEKLA 353


>gnl|CDD|181839 PRK09419, PRK09419, bifunctional 2',3'-cyclic nucleotide
           2'-phosphodiesterase/3'-nucleotidase precursor protein;
           Reviewed.
          Length = 1163

 Score = 26.3 bits (58), Expect = 5.6
 Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 2/33 (6%)

Query: 161 INAISALVNLGYGQDQATTAV--VSVLKKEKNI 191
           ++AI AL +LG  QD+ T  +  + + KK K +
Sbjct: 839 VDAIIALTHLGSNQDRTTGEITGLELAKKVKGV 871


>gnl|CDD|181490 PRK08588, PRK08588, succinyl-diaminopimelate desuccinylase;
           Reviewed.
          Length = 377

 Score = 26.4 bits (59), Expect = 5.8
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 14/49 (28%)

Query: 151 AHICSMPSFAINAISALVNLGYGQDQA-------------TTAVVSVLK 186
           AH  SMP   +NAI  L+     Q +               T VV+++ 
Sbjct: 185 AH-SSMPELGVNAIDPLLEFYNEQKEYFDSIKKHNPYLGGLTHVVTIIN 232


>gnl|CDD|179065 PRK00558, uvrC, excinuclease ABC subunit C; Validated.
          Length = 598

 Score = 25.9 bits (58), Expect = 8.2
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 110 IAQIPGISMKIASRIMTELKGK 131
           +A++PGIS K+A  I   L  K
Sbjct: 577 LAKVPGISKKLAEAIYEALHKK 598


>gnl|CDD|150322 pfam09615, Cas_Csy3, CRISPR-associated protein (Cas_Csy3).  CRISPR
           (Clustered Regularly Interspaced Short Palindromic
           Repeats) is a widespread family of prokaryotic direct
           repeats with spacers of unique sequence between
           consecutive repeats. This entry, typified by YPO2463 of
           Yersinia pestis, is a CRISPR-associated (Cas) entry
           strictly associated with the Ypest subtype of CRISPR/Cas
           locus. It is designated Csy3, for CRISPR/Cas Subtype
           Ypest protein 3.
          Length = 331

 Score = 25.7 bits (57), Expect = 8.7
 Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 4/48 (8%)

Query: 132 AISLSSVVQQDMSCVNKEQAHI----CSMPSFAINAISALVNLGYGQD 175
            +SL    +QD   +++    I         F +  ++A V LG GQ+
Sbjct: 168 QLSLRGFDEQDSEDLDELAKEIAKGLSGPNGFVLLDVTAFVRLGAGQE 215


>gnl|CDD|148047 pfam06207, DUF1002, Protein of unknown function (DUF1002).  This
           protein family has no known function. Its members are
           about 300 amino acids in length. It has so far been
           detected in Firmicute bacteria and some archaebacteria.
          Length = 222

 Score = 25.6 bits (57), Expect = 9.1
 Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 161 INAISALVNLGYGQDQATTAVVSVLKKE---KNIADDSQIIRL 200
           +   S L   G G D+A   +V+ +KKE   +      +I ++
Sbjct: 136 LVTTSELNGDGIGDDKA-ANLVAEIKKEIAKQKPKTKEEIRKI 177


>gnl|CDD|148872 pfam07507, WavE, WavE lipopolysaccharide synthesis.  These proteins
           are encoded by putative wav gene clusters, which are
           responsible for the synthesis of the core
           oligosaccharide (OS) region of Vibrio cholerae
           lipopolysaccharide.
          Length = 310

 Score = 25.4 bits (56), Expect = 9.3
 Identities = 16/47 (34%), Positives = 25/47 (53%)

Query: 104 LQNSKVIAQIPGISMKIASRIMTELKGKAISLSSVVQQDMSCVNKEQ 150
           +Q  +   Q  GI+ K  + I T L G  I LS+   QD+S ++ +Q
Sbjct: 9   VQAYQGREQEKGITQKCLASIRTHLPGAEIILSTWPGQDLSGLDYDQ 55


>gnl|CDD|162529 TIGR01777, yfcH, conserved hypothetical protein TIGR01777.  This
           model represents a clade of proteins of unknown function
           including the E. coli yfcH protein.
          Length = 292

 Score = 25.7 bits (57), Expect = 9.9
 Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 4/36 (11%)

Query: 61  FGFLSDLDRQWFMLLQSVQGVGARVAMG----VLSR 92
             FL++L R W    Q+ + +G RV +     VL  
Sbjct: 133 DDFLAELCRDWEEAAQAAEDLGTRVVLLRTGIVLGP 168


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.324    0.137    0.390 

Gapped
Lambda     K      H
   0.267   0.0756    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,086,837
Number of extensions: 181114
Number of successful extensions: 493
Number of sequences better than 10.0: 1
Number of HSP's gapped: 473
Number of HSP's successfully gapped: 27
Length of query: 207
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,071,361
Effective search space: 480420598
Effective search space used: 480420598
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (24.9 bits)