RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254781082|ref|YP_003065495.1| hypothetical protein
CLIBASIA_04920 [Candidatus Liberibacter asiaticus str. psy62]
         (108 letters)



>gnl|CDD|38911 KOG3707, KOG3707, KOG3707, Uncharacterized conserved protein
           [Function unknown].
          Length = 844

 Score = 35.0 bits (80), Expect = 0.005
 Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 17/89 (19%)

Query: 14  YWRLERNSIVEALRKAKPSMSDLAMLSVEERDAILDDLEKNGSS-----DYSFVNDLWER 68
           +WR+   + +E          D   LS +E  A +D L    ++     D   V  L++R
Sbjct: 166 WWRVCLGNFLE---------EDFKKLSEDEM-ATIDKLCDEEANPAGLFDPEVVKSLYQR 215

Query: 69  -LKYLRDLPVYNFSLDYVSRFHSFVSDEV 96
            L Y  D+PVY      VS    FV + V
Sbjct: 216 GLIYF-DVPVYQDDRIKVSPLEGFVMNRV 243


>gnl|CDD|32969 COG3155, ElbB, Uncharacterized protein involved in an early stage
          of isoprenoid biosynthesis [Secondary metabolites
          biosynthesis, transport, and catabolism].
          Length = 217

 Score = 31.5 bits (71), Expect = 0.057
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 18 ERNSIVEALRKAKPSMSDLAMLSVEERDAIL 48
           RN +VE+ R A+  +  LA    EE DA++
Sbjct: 60 TRNVLVESARIARGEIRPLAQADAEELDALI 90


>gnl|CDD|153227 cd03133, GATase1_ES1, Type 1 glutamine amidotransferase
          (GATase1)-like domain found in zebrafish ES1.  Type 1
          glutamine amidotransferase (GATase1)-like domain found
          in zebrafish ES1. This group includes, proteins similar
          to ES1, Escherichia coli enhancing lycopene
          biosynthesis protein 2, Azospirillum brasilense iaaC
          and, human HES1.  The catalytic triad typical of
          GATase1domains is not conserved in this GATase1-like
          domain. However, in common with GATase1domains a
          reactive cys residue is found in the sharp turn between
          a beta strand and an alpha helix termed the nucleophile
          elbow. Zebrafish ES1 is expressed specifically in adult
          photoreceptor cells and appears to be a cytoplasmic
          protein. A. brasilense iaaC is involved in controlling
          IAA biosynthesis.
          Length = 213

 Score = 29.9 bits (68), Expect = 0.15
 Identities = 12/30 (40%), Positives = 20/30 (66%)

Query: 19 RNSIVEALRKAKPSMSDLAMLSVEERDAIL 48
          RN +VE+ R A+ ++ DLA L   + DA++
Sbjct: 58 RNVLVESARIARGNIKDLAKLKAADFDALI 87


>gnl|CDD|143398 cd07079, ALDH_F18-19_ProA-GPR, Gamma-glutamyl phosphate reductase
          (GPR), aldehyde dehydrogenase families 18 and 19.
          Gamma-glutamyl phosphate reductase (GPR), a L-proline
          biosynthetic pathway (PBP) enzyme that catalyzes the
          NADPH dependent reduction of L-gamma-glutamyl
          5-phosphate into L-glutamate 5-semialdehyde and
          phosphate. The glutamate route of the PBP involves two
          enzymatic steps catalyzed by gamma-glutamyl kinase (GK,
          EC 2.7.2.11) and GPR (EC 1.2.1.41). These enzymes are
          fused into the bifunctional enzyme, ProA or
          delta(1)-pyrroline-5-carboxylate synthetase (P5CS) in
          plants and animals, whereas they are separate enzymes
          in bacteria and yeast. In humans, the P5CS (ALDH18A1),
          an inner mitochondrial membrane enzyme, is essential to
          the de novo synthesis of the amino acids proline and
          arginine. Tomato (Lycopersicon esculentum) has both the
          prokaryotic-like polycistronic operons encoding GK and
          GPR (PRO1, ALDH19) and the full-length, bifunctional
          P5CS (PRO2, ALDH18B1).
          Length = 406

 Score = 27.4 bits (62), Expect = 0.80
 Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 4/36 (11%)

Query: 23 VEALRKAKPSMSDLAMLSVEERDAIL----DDLEKN 54
           E  ++AK +   LA LS E+++A L    D LE N
Sbjct: 1  EELAKRAKAASRALATLSTEQKNAALLAIADALEAN 36


>gnl|CDD|39031 KOG3827, KOG3827, KOG3827, Inward rectifier K+ channel [Inorganic
          ion transport and metabolism].
          Length = 400

 Score = 27.2 bits (60), Expect = 1.1
 Identities = 9/25 (36%), Positives = 17/25 (68%)

Query: 51 LEKNGSSDYSFVNDLWERLKYLRDL 75
          ++K+G  +  F N   +RL+YL+D+
Sbjct: 29 VKKDGHCNVQFKNVPRKRLRYLQDI 53


>gnl|CDD|38899 KOG3695, KOG3695, KOG3695, Uncharacterized conserved protein
           [Function unknown].
          Length = 825

 Score = 26.1 bits (57), Expect = 2.1
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 26  LRKAKPSMSDLAMLSVEERDAILDDLEKNGSSDYSFVNDLWERLKYLRDLPVY-NFSL 82
           LR      S+   L  E+ + I     +N      F+  ++E+L+ + D  +Y N  L
Sbjct: 621 LRDFINQKSNSLKLGEEKLEPIEPLESENFPFRGPFLQVIFEKLETILDNSLYVNLQL 678


>gnl|CDD|31360 COG1166, SpeA, Arginine decarboxylase (spermidine biosynthesis)
           [Amino acid transport and metabolism].
          Length = 652

 Score = 26.0 bits (57), Expect = 2.5
 Identities = 13/56 (23%), Positives = 30/56 (53%), Gaps = 5/56 (8%)

Query: 9   REFIEYWRLERNSIVEALRKAKPSMSDLAMLSVEERDAILDDLEKNGSSDYSFVND 64
            + +EY + +   ++   R+      + A L+ EE+  +L++LE  G + Y+++ D
Sbjct: 601 ADMLEYVQYDPKELLTLYRQ----QIEAADLTAEEQKQLLEELEA-GLNGYTYLED 651


>gnl|CDD|73263 cd01379, MYSc_type_III, Myosin motor domain, type III myosins.
          Myosin III has been shown to play a role in  the vision
          process in insects and in hearing in mammals. Myosin
          III, an unconventional myosin, does not form dimers.
          This catalytic (head) domain has ATPase activity and
          belongs to the larger group of P-loop NTPases. Myosins
          are actin-dependent molecular motors that play
          important roles in muscle contraction, cell motility,
          and organelle transport. The head domain is a molecular
          motor, which utilizes ATP hydrolysis to generate
          directed movement toward the plus end along actin
          filaments. A cyclical interaction between myosin and
          actin provides the driving force. Rates of ATP
          hydrolysis and consequently the speed of movement along
          actin filaments vary widely, from about 0.04 micrometer
          per second for myosin I to 4.5 micrometer per second
          for myosin II in skeletal muscle. Myosin II moves in
          discrete steps about 5-10 nm long and generates 1-5
          piconewtons of force. Upon ATP binding, the myosin head
          dissociates from an actin filament. ATP hydrolysis
          causes the head to pivot and associate with a new actin
          subunit. The release of Pi causes the head to pivot and
          move the filament (power stroke). Release of ADP
          completes the cycle..
          Length = 653

 Score = 25.7 bits (56), Expect = 2.8
 Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 2/49 (4%)

Query: 33 MSDLAMLSVEERDAILDDLEKNGSSD--YSFVNDLWERLKYLRDLPVYN 79
          M DLA L V + D I++ L+K   ++  Y++V D+   +   + L +Y 
Sbjct: 2  MDDLATLEVLDEDTIVEQLQKRYETNQIYTYVGDILIAVNPFQQLGLYT 50


>gnl|CDD|30364 COG0014, ProA, Gamma-glutamyl phosphate reductase [Amino acid
          transport and metabolism].
          Length = 417

 Score = 25.5 bits (56), Expect = 2.9
 Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)

Query: 19 RNSIVEALRKAKPSMSDLAMLSVEERDAIL----DDLEKN 54
           + + E  ++AK +   LA LS EE++  L    D LE  
Sbjct: 2  MSELEELGKRAKAASRKLATLSTEEKNRALLAMADALEAA 41


>gnl|CDD|143414 cd07095, ALDH_SGSD_AstD, N-succinylglutamate 5-semialdehyde
          dehydrogenase, AstD-like.  N-succinylglutamate
          5-semialdehyde dehydrogenase or succinylglutamic
          semialdehyde dehydrogenase (SGSD, E. coli AstD,
          EC=1.2.1.71) involved in L-arginine degradation via the
          arginine succinyltransferase (AST) pathway and
          catalyzes the NAD+-dependent reduction of
          succinylglutamate semialdehyde into succinylglutamate.
          Length = 431

 Score = 24.9 bits (55), Expect = 4.8
 Identities = 14/26 (53%), Positives = 15/26 (57%), Gaps = 3/26 (11%)

Query: 23 VEALRKAKPSMSDLAMLSVEERDAIL 48
          V A R A P     A LS+EER AIL
Sbjct: 6  VAAARAAFPGW---AALSLEERAAIL 28


>gnl|CDD|147534 pfam05397, Med15_fungi, Mediator complex subunit 15.  GAL11 or
          MED15 is one of the up to 32 or subunits of the
          Mediator complex which is found from fungi to humans.
          The Mediator complex interacts with RNA polymerase II
          and other general transcription factors to form the RNA
          polymerase II holoenzyme, thereby affecting
          transcription through targetting of activators and
          repressors. This family is found in fungi and the small
          metazoan starlet anemone.
          Length = 115

 Score = 24.6 bits (54), Expect = 5.6
 Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 1/36 (2%)

Query: 20 NSIVEALRKAKPSMSDLAM-LSVEERDAILDDLEKN 54
            + E + K  P + D+   L+ E++ AI   L+KN
Sbjct: 9  RQLYEEVAKNNPRLKDVTNTLTPEQKAAIRQQLQKN 44


>gnl|CDD|110038 pfam01007, IRK, Inward rectifier potassium channel. 
          Length = 336

 Score = 24.6 bits (54), Expect = 5.6
 Identities = 9/25 (36%), Positives = 15/25 (60%)

Query: 51 LEKNGSSDYSFVNDLWERLKYLRDL 75
          + K+G  +  F N   ER +YL+D+
Sbjct: 1  VSKDGRCNVYFKNVRGERGRYLQDI 25


>gnl|CDD|32681 COG2853, VacJ, Surface lipoprotein [Cell envelope biogenesis, outer
           membrane].
          Length = 250

 Score = 24.5 bits (53), Expect = 7.3
 Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 2/39 (5%)

Query: 32  SMSDLAMLSVEERDAIL--DDLEKNGSSDYSFVNDLWER 68
           S+   A+ +V+ R  +L  D+L KN    Y FV D + +
Sbjct: 183 SLGKWALQAVDTRAKLLDSDELLKNSPDPYIFVRDAYLQ 221


>gnl|CDD|144818 pfam01366, PRTP, Herpesvirus processing and transport protein.  The
           members of this family are associate with capsid
           intermediates during packaging of the virus.
          Length = 635

 Score = 24.1 bits (53), Expect = 7.7
 Identities = 9/33 (27%), Positives = 15/33 (45%)

Query: 18  ERNSIVEALRKAKPSMSDLAMLSVEERDAILDD 50
            R S + AL+  +   ++      EE +A LD 
Sbjct: 244 RRPSALAALKAIQSRTAESDSGYREEAEAALDA 276


>gnl|CDD|110029 pfam00998, RdRP_3, Viral RNA dependent RNA polymerase.  This family
           includes viral RNA dependent RNA polymerase enzymes from
           hepatitis C virus and various plant viruses.
          Length = 485

 Score = 24.1 bits (53), Expect = 8.5
 Identities = 9/22 (40%), Positives = 13/22 (59%)

Query: 32  SMSDLAMLSVEERDAILDDLEK 53
           ++  LA+  V+ RDAIL    K
Sbjct: 106 ALESLAVKPVQRRDAILKTFVK 127


>gnl|CDD|143415 cd07097, ALDH_KGSADH-YcbD, Bacillus subtilis NADP+-dependent
          alpha-ketoglutaric semialdehyde dehydrogenase
          ycbD-like.  Kinetic studies of the Bacillus subtilis
          ALDH-like ycbD protein, which is involved in
          d-glucarate/d-galactarate utilization, reveal that it
          is a NADP+-dependent, alpha-ketoglutaric semialdehyde
          dehydrogenase (KGSADH). KGSADHs (EC 1.2.1.26) catalyze
          the NAD(P)+-dependent conversion of KGSA to
          alpha-ketoglutarate. Interestingly, the
          NADP+-dependent, tetrameric, 2,5-dioxopentanoate
          dehydrogenase (EC=1.2.1.26), an enzyme involved in the
          catabolic pathway for D-arabinose in Sulfolobus
          solfataricus, also clusters in this group. This CD
          shows a distant phylogenetic relationship to the
          Azospirillum brasilense KGSADH-II (-III) group.
          Length = 473

 Score = 24.1 bits (53), Expect = 9.2
 Identities = 10/37 (27%), Positives = 13/37 (35%)

Query: 13 EYWRLERNSIVEALRKAKPSMSDLAMLSVEERDAILD 49
          +Y R        A+  A  +       S E R  ILD
Sbjct: 30 KYARASAEDADAAIAAAAAAFPAWRRTSPEARADILD 66


>gnl|CDD|146287 pfam03568, Peptidase_C50, Peptidase family C50. 
          Length = 339

 Score = 23.9 bits (52), Expect = 9.7
 Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 5/30 (16%)

Query: 66  WERLKYLRDLPVY-----NFSLDYVSRFHS 90
           WE L  L++  V      +     + R  S
Sbjct: 221 WESLPILQEQSVSRVPSLHSLFSLLKRRKS 250


>gnl|CDD|34231 COG4594, FecB, ABC-type Fe3+-citrate transport system, periplasmic
           component [Inorganic ion transport and metabolism].
          Length = 310

 Score = 23.8 bits (51), Expect = 9.9
 Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 15/87 (17%)

Query: 24  EALRKAKPSMSDLAMLSVEERDAILDDLEKNGSSDYSFVNDLWERLKYLRDLPVYNFSLD 83
           E L    P   D+ +L+    ++I+   EKN          LW++LK +++  VY+   +
Sbjct: 236 EQLAAINP---DVMILATYRDESIVRKWEKNA---------LWKKLKAVKNGQVYDVDRN 283

Query: 84  YVSRFHSFVSDEVA---VWYEVTKEKK 107
             +R     + E     +   + K KK
Sbjct: 284 TWARSRGIDAAESMADELQKFMPKAKK 310


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.317    0.132    0.383 

Gapped
Lambda     K      H
   0.267   0.0721    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,350,797
Number of extensions: 63710
Number of successful extensions: 223
Number of sequences better than 10.0: 1
Number of HSP's gapped: 222
Number of HSP's successfully gapped: 29
Length of query: 108
Length of database: 6,263,737
Length adjustment: 75
Effective length of query: 33
Effective length of database: 4,643,062
Effective search space: 153221046
Effective search space used: 153221046
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: 51 (23.4 bits)