RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781204|ref|YP_003065617.1| hypothetical protein
CLIBASIA_05555 [Candidatus Liberibacter asiaticus str. psy62]
         (707 letters)



>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
           protein; Provisional.
          Length = 391

 Score = 32.4 bits (74), Expect = 0.46
 Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 15/67 (22%)

Query: 373 SNPSLSLASTMMATKYKEILEKSHRQSMQELNQDA--------------ISWGIKYKQID 418
           +NPSL  A+  M  +Y+ I++++ RQ+ +EL  DA              +++G+K  +I 
Sbjct: 35  TNPSLITAAAQMP-QYQSIVDETLRQARKELGSDAPVEDVVALAFDRLAVAFGLKILKIV 93

Query: 419 PLRFDTE 425
           P R  TE
Sbjct: 94  PGRVSTE 100


>gnl|CDD|178490 PLN02902, PLN02902, pantothenate kinase.
          Length = 876

 Score = 31.8 bits (72), Expect = 0.59
 Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 468 RPASESVDLIRGAYNTLSDSDKEGVRSSFAHIEDNGLSA----VVRLSSEFSDDAKNAAM 523
           R A+E+  L+  A     D  K+   S    + +NG  +    + ++SSE +  AK+A +
Sbjct: 763 RRAAEAGGLLVDAMVNTDDGSKDDSTSVPLMVVENGCGSPCIDLRQVSSELAAAAKDADL 822

Query: 524 VILSGM 529
           ++L GM
Sbjct: 823 IVLEGM 828


>gnl|CDD|181758 PRK09287, PRK09287, 6-phosphogluconate dehydrogenase; Validated.
          Length = 459

 Score = 32.0 bits (74), Expect = 0.61
 Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 2/35 (5%)

Query: 362 KFLQKIDDEYISNPSLSLASTMMATKYKEILEKSH 396
           +FLQKI D Y +NP   LA+ ++   +K+ILE+  
Sbjct: 358 QFLQKITDAYEANP--DLANLLLDPYFKDILEEYQ 390


>gnl|CDD|163162 TIGR03156, GTP_HflX, GTP-binding protein HflX.  This protein family
           is one of a number of homologous small, well-conserved
           GTP-binding proteins with pleiotropic effects. Bacterial
           members are designated HflX, following the naming
           convention in Escherichia coli where HflX is encoded
           immediately downstream of the RNA chaperone Hfq, and
           immediately upstream of HflKC, a membrane-associated
           protease pair with an important housekeeping function.
           Over large numbers of other bacterial genomes, the
           pairing with hfq is more significant than with hflK and
           hlfC. The gene from Homo sapiens in this family has been
           named PGPL (pseudoautosomal GTP-binding protein-like).
          Length = 351

 Score = 30.1 bits (69), Expect = 2.1
 Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 9/53 (16%)

Query: 240 DVSDSARERSLEVVEDVSKAIGLAG---------WDRLDDTKRRRLLEHLSSR 283
           D SD  RE  +E VE V + +G             D LD+ +  RL E     
Sbjct: 277 DASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPRIERLEEGYPEA 329


>gnl|CDD|162528 TIGR01776, TonB-tbp-lbp, TonB-dependent lactoferrin and transferrin
           receptors.  This family of TonB-dependent receptors are
           responsible for import of iron from the mammalian iron
           carriers lactoferrin and transferrin across the outer
           membrane. These receptors are found only in bacteria
           which can infect mammals such as Moraxella, Mannheimia,
           Neisseria, Actinobacillus, Pasteurella, Haemophilus and
           Histophilus species.
          Length = 932

 Score = 29.4 bits (66), Expect = 3.0
 Identities = 9/26 (34%), Positives = 13/26 (50%)

Query: 103 YDRFLSSISHRDVRKKFQAQVEHDIR 128
           YD+F S +S  D R++        IR
Sbjct: 518 YDKFKSQLSRHDYRRQNAVGTYESIR 543


>gnl|CDD|178325 PLN02724, PLN02724, Molybdenum cofactor sulfurase.
          Length = 805

 Score = 29.1 bits (65), Expect = 4.6
 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

Query: 355 MSTF-DAKKFLQKIDDEYISNPSLSLASTMMATK 387
           MSTF D +KF+  I   ++S P      T+ + +
Sbjct: 469 MSTFEDCQKFIDFIISSFVSTPKKRGNVTLRSKR 502


>gnl|CDD|183531 PRK12447, PRK12447, histidinol dehydrogenase; Reviewed.
          Length = 426

 Score = 29.1 bits (66), Expect = 4.6
 Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)

Query: 485 SDSD-KEGVRSSFAHIEDNGLSAVVRLSSEF 514
           +DS  +E V +  A IE  G +AV   S +F
Sbjct: 18  TDSKVRETVEAILADIEARGDAAVREYSRKF 48


>gnl|CDD|162366 TIGR01448, recD_rel, helicase, putative, RecD/TraA family.  This
           model describes a family similar to RecD, the
           exodeoxyribonuclease V alpha chain of TIGR01447. Members
           of this family, however, are not found in a context of
           RecB and RecC and are longer by about 200 amino acids at
           the amino end. Chlamydia muridarum has both a member of
           this family and a RecD.
          Length = 720

 Score = 29.0 bits (65), Expect = 4.8
 Identities = 29/152 (19%), Positives = 50/152 (32%), Gaps = 18/152 (11%)

Query: 286 ALNTKLRKETQAQARRIDAQLNHGITVKPSELIPLEDYTQAYGVEQGTELYNLQQFKSVA 345
           ALN   R           A    G T      +P   +     ++Q   L N+Q  + + 
Sbjct: 204 ALNDPRRITAGLVYSLQQACTEEGHT-----YLPRNRF-----IKQVVHLLNVQPQERLL 253

Query: 346 APDVARIKLMSTFDAKKFLQKIDDEYISNPSLSLASTMMATKYKEILEKSHRQSMQELNQ 405
            P+   ++ +   +  K     +D  I  PSL  A   +A+  + +L  S       +N 
Sbjct: 254 VPEAVELERLYLDEEPKLAA--EDGRIYLPSLFRAEKQIASHIRRLLATSPAI--GAIND 309

Query: 406 DAISWGIKYKQIDPLRFDTEESFADSLRQRAG 437
               W ++      LR    E    +L     
Sbjct: 310 QEHIWEVE----KKLRKGLSEEQKQALDTAIQ 337


>gnl|CDD|180998 PRK07488, PRK07488, indole acetimide hydrolase; Validated.
          Length = 472

 Score = 28.4 bits (64), Expect = 6.3
 Identities = 22/75 (29%), Positives = 29/75 (38%), Gaps = 15/75 (20%)

Query: 235 STSLSDVSDSARERSLEVVEDVSKAIGLAGWDRLDDTKRRRLLEHLSSRDNALNTKLRKE 294
           S SL++ + + R   L  +E V   +            R   L  L    NA  T   + 
Sbjct: 10  SLSLTEAAAALRSGRLSCLELVEALL-----------ARAAALAPL----NAFTTVDAEG 54

Query: 295 TQAQARRIDAQLNHG 309
             A ARRIDAQ   G
Sbjct: 55  ALAAARRIDAQRAAG 69


>gnl|CDD|151059 pfam10499, Pmp24, Peroxisomal membrane protein 24.  Peroxisomes are
           single membrane bound organelles, present in practically
           all eukaryotic cells, and involved in a variety of
           metabolic pathways; the deduced protein is extremely
           basic, a characteristic of many other peroxisomal
           intrinsic membrane proteins. They carry two short
           stretches of hydrophobic residues shown to be necessary
           for the correct targeting of these proteins. A sequence
           with these characteristics is found in human PMP24
           (amino acid residues 16-30). However, in the absence of
           experimental data, the involvement of this domain in the
           targeting of PMP24 remains to be proved. PMP24 was known
           as Pmp27.
          Length = 181

 Score = 28.4 bits (64), Expect = 6.9
 Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)

Query: 376 SLSLASTMMATKY-KEILEKSHRQSMQELNQDAISW 410
           +++    M   +Y  E L+ S R SM  L  D+ SW
Sbjct: 145 AVTWGLVMYLFRYHPETLQSSLRSSMTYLYHDSDSW 180


>gnl|CDD|148851 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus.  This
           family represents the C-terminal, catalytic domain of
           the D-alanine--D-alanine ligase enzyme EC:6.3.2.4.
           D-Alanine is one of the central molecules of the
           cross-linking step of peptidoglycan assembly. There are
           three enzymes involved in the D-alanine branch of
           peptidoglycan biosynthesis: the pyridoxal
           phosphate-dependent D-alanine racemase (Alr), the
           ATP-dependent D-alanine:D-alanine ligase (Ddl), and the
           ATP-dependent D-alanine:D-alanine-adding enzyme (MurF).
          Length = 201

 Score = 28.4 bits (64), Expect = 7.0
 Identities = 9/31 (29%), Positives = 16/31 (51%)

Query: 239 SDVSDSARERSLEVVEDVSKAIGLAGWDRLD 269
           +D+ +   E+  E+     KA+G  G  R+D
Sbjct: 125 ADLPEEVEEQIQELALKAYKALGCRGLARID 155


>gnl|CDD|183786 PRK12843, PRK12843, putative FAD-binding dehydrogenase; Reviewed.
          Length = 578

 Score = 28.2 bits (63), Expect = 7.4
 Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 4/64 (6%)

Query: 86  QAGDKIKEYVDGRIRSA---YDRFLSSISHRDVRKKFQAQVEH-DIRDYHTKGVDIQIGA 141
            A D+I      R+        R L S+  R VR   Q  VE  +       G  +  G 
Sbjct: 204 YARDRISYARGTRLVMGNALIGRLLYSLRARGVRILTQTDVESLETDHGRVIGATVVQGG 263

Query: 142 TQRA 145
            +R 
Sbjct: 264 VRRR 267


>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase, decarboxylating. 
           This model does not specify whether the cofactor is NADP
           only (EC 1.1.1.44), NAD only, or both. The model does
           not assign an EC number for that reason.
          Length = 467

 Score = 28.1 bits (63), Expect = 8.4
 Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 10/73 (13%)

Query: 362 KFLQKIDDEYISNPSLSLASTMMATKYKEILEKSHRQSMQELNQDAISWGIKYKQIDPL- 420
            FL KI   +  NP   LA+ ++A  +K+ L+ +     + +   AI +GI      P+ 
Sbjct: 366 GFLDKITKAFAENP--DLANLLLAPYFKDALKDAQ-SGWRRVVALAIEYGI------PVP 416

Query: 421 RFDTEESFADSLR 433
            F    SF D  R
Sbjct: 417 AFSAALSFYDGYR 429


>gnl|CDD|131364 TIGR02311, HpaI, 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase.
           This model represents the aldolase which performs the
           final step unique to the 4-hydroxyphenylacetic acid
           catabolism pathway in which
           2,4-dihydroxyhept-2-ene-1,7-dioic acid is split into
           pyruvate and succinate-semialdehyde. The gene for enzyme
           is generally found adjacent to other genes for this
           pathway organized into an operon.
          Length = 249

 Score = 27.8 bits (62), Expect = 8.8
 Identities = 11/36 (30%), Positives = 21/36 (58%)

Query: 9   PLVEAVTPNQDAVRDSVNPQAGLRDLGDALGKATQF 44
           P++E     + AV  +  P  G+R +G AL +A+++
Sbjct: 91  PMIETAEQAEAAVAATRYPPMGIRGVGSALARASRW 126


>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
          Length = 646

 Score = 27.9 bits (62), Expect = 9.4
 Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 12/59 (20%)

Query: 622 PPRGMSKTDFEDRLWYATKDTG--EYDPYTI-------KYMNVGS-GKYMIIKNGNPKV 670
           P +G+   D   ++ YA KD G   +D Y I       +Y+ V   G+  + + GNPKV
Sbjct: 212 PLQGVEVGDIGPKMGYAVKDNGFLSFDHYRIPLDSLLARYIKVSEDGQ--VERQGNPKV 268


>gnl|CDD|180867 PRK07187, PRK07187, ribonucleotide-diphosphate reductase subunit
           alpha; Validated.
          Length = 721

 Score = 27.8 bits (62), Expect = 10.0
 Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%)

Query: 552 YDSYIN-TPLTKLEQSTAGGNFNKDKEAIKLYL 583
            DSY++   LTK ++     +F+ DKEA++ YL
Sbjct: 5   NDSYLSLNALTKFKKPDGSYHFDSDKEAVERYL 37


  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
   0.314    0.130    0.361 

Gapped
Lambda     K      H
   0.267   0.0684    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 11,261,384
Number of extensions: 731657
Number of successful extensions: 1190
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1190
Number of HSP's successfully gapped: 36
Length of query: 707
Length of database: 5,994,473
Length adjustment: 100
Effective length of query: 607
Effective length of database: 3,833,673
Effective search space: 2327039511
Effective search space used: 2327039511
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 61 (27.4 bits)