RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780698|ref|YP_003065111.1| D-alanyl-D-alanine
carboxypeptidase 1 penicillin-binding protein [Candidatus Liberibacter
asiaticus str. psy62]
         (336 letters)



>gnl|CDD|182736 PRK10793, PRK10793, D-alanyl-D-alanine carboxypeptidase fraction A;
           Provisional.
          Length = 403

 Score =  145 bits (367), Expect = 2e-35
 Identities = 80/253 (31%), Positives = 134/253 (52%), Gaps = 11/253 (4%)

Query: 41  MISMASELHAKPKYSSIVIDVNKNQMTGFKQ-DEPRYPASLTKMMTLYIIFEYLQSKKLH 99
           MI    ++ A+   S I+ID N  ++   +  D  R PASLTKMMT Y+I + +++ K  
Sbjct: 37  MIPGVPQIDAE---SYILIDYNSGKVLAEQNADVRRDPASLTKMMTSYVIGQAMKAGKFK 93

Query: 100 LNTQIPVSKTA-ATQNP-----SKLYLKEKTYFTTEQGILALITRSANDVSTAFGEFISG 153
               + V   A AT NP     S ++LK        Q I  +  +S ND   A  ++++G
Sbjct: 94  ETDLVTVGNDAWATGNPVFKGSSLMFLKPGMQVPVSQLIRGINLQSGNDACVAMADYVAG 153

Query: 154 SEKKFAILMSNKAKKIGMQNTIYKNASGLHDKNQITTARDQAILGILLRKNFPQYYKYFS 213
           S+  F  LM++    +G++NT ++   GL    Q ++ARD A++G  L ++ P  Y  + 
Sbjct: 154 SQDAFVGLMNSYVNALGLKNTHFQTVHGLDADGQYSSARDMALIGQALIRDVPNEYAIYK 213

Query: 214 IRKFRYRNRIITNHNKLL-NKMHNIDGIKTGYTRNSGFNIVTSLRYKDDPIVAVVMGMPT 272
            ++F +      N N LL +   N+DGIKTG+T  +G+N+V S       +++ VMG  T
Sbjct: 214 EKEFTFNGIRQLNRNGLLWDNSLNVDGIKTGHTDKAGYNLVASATEGQMRLISAVMGGRT 273

Query: 273 SQERDQKALELIT 285
            + R+ ++ +L+T
Sbjct: 274 FKGRETESKKLLT 286


>gnl|CDD|182189 PRK10001, PRK10001, D-alanyl-D-alanine carboxypeptidase fraction C;
           Provisional.
          Length = 400

 Score =  136 bits (343), Expect = 1e-32
 Identities = 85/271 (31%), Positives = 139/271 (51%), Gaps = 11/271 (4%)

Query: 26  RNIQLMGKILFLSIIMISMASELHAKPKYSS---IVIDVNKNQ-MTGFKQDEPRYPASLT 81
           R +      LFL       A +    P   +   I++D    + +     DE   PASLT
Sbjct: 9   RGLAAGSAFLFLFAPTAFAAEQTVEAPSVDARAWILMDYASGKVLAEGNADEKLDPASLT 68

Query: 82  KMMTLYIIFEYLQSKKLHLNTQIPVSKTA-ATQNP-----SKLYLKEKTYFTTEQGILAL 135
           K+MT Y++ + L++ K+ L   + V K A AT NP     S ++LK     +       +
Sbjct: 69  KIMTSYVVGQALKADKIKLTDMVTVGKDAWATGNPALRGSSVMFLKPGDQVSVADLNKGV 128

Query: 136 ITRSANDVSTAFGEFISGSEKKFAILMSNKAKKIGMQNTIYKNASGLHDKNQITTARDQA 195
           I +S ND   A  ++++GS++ F  LM+  AKK+G+ NT ++   GL    Q +TARD A
Sbjct: 129 IIQSGNDACIALADYVAGSQESFIGLMNGYAKKLGLTNTTFQTVHGLDAPGQFSTARDMA 188

Query: 196 ILGILLRKNFPQYYKYFSIRKFRYRNRIITNHNKLL-NKMHNIDGIKTGYTRNSGFNIVT 254
           +LG  L  + P+ Y     ++F +      N N+LL +   N+DG+KTG T  +G+N+V 
Sbjct: 189 LLGKALIHDVPEEYAIHKEKEFTFNKIRQPNRNRLLWSSNLNVDGMKTGTTAGAGYNLVA 248

Query: 255 SLRYKDDPIVAVVMGMPTSQERDQKALELIT 285
           S    D  +++VV+G  T + R  ++ +L+T
Sbjct: 249 SATQGDMRLISVVLGAKTDRIRFNESEKLLT 279


>gnl|CDD|183117 PRK11397, dacD, D-alanyl-D-alanine carboxypeptidase; Provisional.
          Length = 388

 Score =  127 bits (320), Expect = 4e-30
 Identities = 71/239 (29%), Positives = 130/239 (54%), Gaps = 8/239 (3%)

Query: 55  SSIVIDVNKNQ-MTGFKQDEPRYPASLTKMMTLYIIFEYLQSKKLHLNTQIPVSKTA-AT 112
           S +++D    Q +T   + + R PASLTK+MT Y++   + S ++  +  + V + A A 
Sbjct: 38  SWVLMDYTTGQILTAGNEHQQRNPASLTKLMTGYVVDRAIDSHRITPDDIVTVGRDAWAK 97

Query: 113 QNP-----SKLYLKEKTYFTTEQGILALITRSANDVSTAFGEFISGSEKKFAILMSNKAK 167
            NP     S ++LKE    +       LI  S ND   A  ++I+G +++F  +M+N  +
Sbjct: 98  DNPVFVGSSLMFLKEGDRVSVRDLSRGLIVDSGNDACVALADYIAGGQRQFVEMMNNYVE 157

Query: 168 KIGMQNTIYKNASGLHDKNQITTARDQAILGILLRKNFPQYYKYFSIRKFRYRNRIITNH 227
           K+ +++T ++   GL    Q ++A D A+L   +    P++Y  +S +   +      N 
Sbjct: 158 KLHLKDTHFETVHGLDAPGQHSSAYDLAVLSRAIIHGEPEFYHMYSEKSLTWNGITQQNR 217

Query: 228 NKLL-NKMHNIDGIKTGYTRNSGFNIVTSLRYKDDPIVAVVMGMPTSQERDQKALELIT 285
           N LL +K  N+DG+KTG+T  +GFN++ S       ++AVVMG  +++ R+++A +L+ 
Sbjct: 218 NGLLWDKTMNVDGLKTGHTSGAGFNLIASAVDGQRRLIAVVMGADSAKGREEQARKLLR 276


>gnl|CDD|183269 PRK11669, pbpG, D-alanyl-D-alanine endopeptidase; Provisional.
          Length = 306

 Score = 50.1 bits (120), Expect = 7e-07
 Identities = 68/237 (28%), Positives = 110/237 (46%), Gaps = 41/237 (17%)

Query: 54  YSSIVIDVNKNQ-MTGFKQDEPRYPASLTKMMTLYIIFEYLQSKKLHLNTQIPV--SKTA 110
            S++V+D+N N+ +     D     AS+TK+MT  ++ +     KL L+ ++ V  S+T 
Sbjct: 42  GSAMVVDLNTNKVIYSSNPDLVVPIASITKLMTAMVVLD----AKLPLDEKLKVDISQTP 97

Query: 111 ATQN-------PSKLYLKEKTYFTTEQGILALITRSANDVSTAFGEFISGSEKKFAILMS 163
             +         S++  K+         +LAL++ S N  + +      G  K F   M+
Sbjct: 98  EMKGVYSRVRLNSEISRKDML-------LLALMS-SENRAAASLAHHYPGGYKAFIKAMN 149

Query: 164 NKAKKIGMQNTIYKNASGLHDKNQITTARDQAILGILLRKNFP-------QYYKYFSIRK 216
            KAK +GM NT Y   +GL   N ++TARD   L ++  K +P          K  + RK
Sbjct: 150 AKAKALGMTNTRYVEPTGLSIHN-VSTARDLTKL-LIASKQYPLIGQLSTTREKTATFRK 207

Query: 217 FRY----RNRIITNHNKLLNKMH-NIDGIKTGYTRNSGFNIVTSLRYKDDPIVAVVM 268
             Y    RN   TNH  L+ + + NI   KTG+T  +G  +V      + P+  VV+
Sbjct: 208 PNYTLPFRN---TNH--LVYRDNWNIQLTKTGFTNAAGHCLVMRTVINNRPVALVVL 259


>gnl|CDD|148653 pfam07168, FAE_3-kCoA_syn1, Fatty acid elongase 3-ketoacyl-CoA
           synthase 1.  This family contains fatty acid elongase
           3-ketoacyl-CoA synthase 1, a plant enzyme approximately
           350 residues long.
          Length = 336

 Score = 28.3 bits (63), Expect = 2.9
 Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 9/80 (11%)

Query: 106 VSKTAATQNPSKL--YLKEKTYFTTEQGILALITRS-------ANDVSTAFGEFISGSEK 156
           V  + A  N  KL  +   ++ F+           S       A+D      EF+   EK
Sbjct: 147 VHSSNAADNKEKLNAFENYQSEFSISSKERMTRMNSEDLENGEADDAKAGTAEFLVELEK 206

Query: 157 KFAILMSNKAKKIGMQNTIY 176
           + AI +  K+  IG+  T +
Sbjct: 207 RRAIKVFGKSTLIGLVITFF 226


>gnl|CDD|129770 TIGR00687, pyridox_kin, pyridoxal kinase.  ThiD and related
           proteins form an outgroup.
          Length = 286

 Score = 27.5 bits (61), Expect = 5.8
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 16/53 (30%)

Query: 231 LNKMHNIDGIKTGYTRNSGF-----NIVTSLR-------YKDDPIVAVVMGMP 271
           +NK++  D + +GY  ++        IV  ++       Y  DP    VMG P
Sbjct: 69  INKLNQCDAVLSGYLGSAEQVAMVVGIVRQVKQANPQALYVCDP----VMGDP 117


  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
   0.318    0.131    0.356 

Gapped
Lambda     K      H
   0.267   0.0692    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,052,003
Number of extensions: 307774
Number of successful extensions: 562
Number of sequences better than 10.0: 1
Number of HSP's gapped: 554
Number of HSP's successfully gapped: 18
Length of query: 336
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 242
Effective length of database: 3,963,321
Effective search space: 959123682
Effective search space used: 959123682
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 (25.8 bits)