RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780620|ref|YP_003065033.1| iron-responsive
transcriptional regulator [Candidatus Liberibacter asiaticus str.
psy62]
         (144 letters)



>gnl|CDD|32142 COG1959, COG1959, Predicted transcriptional regulator
           [Transcription].
          Length = 150

 Score =  130 bits (327), Expect = 2e-31
 Identities = 54/134 (40%), Positives = 81/134 (60%), Gaps = 2/134 (1%)

Query: 1   MHLTKRTDYGIRVLMYCAIH-NDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVRG 59
           M LT + +Y +R L+Y A+     P   ++IAE   IS  +L KIL  L KAG+V++VRG
Sbjct: 1   MKLTSKGEYALRALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRG 60

Query: 60  RRGGVRLCRPADQITILDVVKATEESFFVAECFASHKIDCPLVGSCGLTSVLRKALNAFF 119
           + GG RL RP ++IT+ DVV+A E    + ECF+    +C    +CG+ +   KAL+AF 
Sbjct: 61  KGGGYRLARPPEEITLGDVVRALEGPLALVECFSITNNECN-TPTCGIRAAWLKALDAFL 119

Query: 120 DVLTQYSIECLVRN 133
           +VL   ++  LV +
Sbjct: 120 EVLDNITLADLVED 133


>gnl|CDD|145313 pfam02082, Rrf2, Transcriptional regulator.  This family is
          related to pfam001022 and other transcription
          regulation families (personal obs: Yeats C).
          Length = 82

 Score =  101 bits (255), Expect = 7e-23
 Identities = 39/81 (48%), Positives = 55/81 (67%), Gaps = 1/81 (1%)

Query: 3  LTKRTDYGIRVLMYCAIH-NDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVRGRR 61
          L+ +TDY +  L+Y A+H  + P    +IAE   IS ++L KIL  L KAG+V++VRG  
Sbjct: 2  LSTKTDYALHALLYLALHPGEGPVTSEEIAERQNISPVYLRKILAKLRKAGLVKSVRGPG 61

Query: 62 GGVRLCRPADQITILDVVKAT 82
          GG RL RP ++IT+LDVV+A 
Sbjct: 62 GGYRLARPPEEITLLDVVRAV 82


>gnl|CDD|33924 COG4189, COG4189, Predicted transcriptional regulator
           [Transcription].
          Length = 308

 Score = 36.1 bits (83), Expect = 0.003
 Identities = 24/104 (23%), Positives = 45/104 (43%), Gaps = 4/104 (3%)

Query: 11  IRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVET--VRGRRGGVRLCR 68
           +RV +   +H   P  +++IAEA  + +  +   ++ L KAG++ T  V+ R+G  ++C 
Sbjct: 24  VRVAILQLLHRKGPLNVNEIAEALGLPQSTMSANIKVLEKAGLIRTETVKARKGSQKICI 83

Query: 69  PADQITILDVVKATEESFFVAECFAS--HKIDCPLVGSCGLTSV 110
                  ++    TE      +         D  +   CGL S 
Sbjct: 84  STTDEIEINFPDRTESLDLYIQVAMPLGLYTDFEVEAPCGLCSA 127


>gnl|CDD|38831 KOG3625, KOG3625, KOG3625, Alpha amylase [Carbohydrate transport
           and metabolism].
          Length = 1521

 Score = 28.8 bits (64), Expect = 0.63
 Identities = 12/34 (35%), Positives = 22/34 (64%), Gaps = 1/34 (2%)

Query: 86  FFVAECFA-SHKIDCPLVGSCGLTSVLRKALNAF 118
           + VAE F  S  +D   V   G++S++R+A++A+
Sbjct: 559 YVVAELFTGSEDLDNVFVNRLGISSLIREAMSAW 592


>gnl|CDD|28974 cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and
          similar prokaryotic, metal regulated homodimeric
          repressors. ARSR subfamily of helix-turn-helix
          bacterial transcription regulatory proteins (winged
          helix topology). Includes several proteins that appear
          to dissociate from DNA in the presence of metal ions..
          Length = 78

 Score = 28.4 bits (63), Expect = 0.70
 Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 2/71 (2%)

Query: 11 IRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVR-GRRGGVRLCRP 69
           R+ +   +    P  +S++AE   +S+  + + L+ L +AG+VE+ R GRR    L   
Sbjct: 8  TRLRILRLLLEG-PLTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTDA 66

Query: 70 ADQITILDVVK 80
             + +L+ + 
Sbjct: 67 ERLLALLESLL 77


>gnl|CDD|37896 KOG2685, KOG2685, KOG2685, Cystoskeletal protein Tektin
           [Cytoskeleton].
          Length = 421

 Score = 28.0 bits (62), Expect = 0.97
 Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 3/71 (4%)

Query: 19  IHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVET---VRGRRGGVRLCRPADQITI 75
           +       + +IA+A    E     I        + +T    R  R  V LCR   Q  +
Sbjct: 290 LEWQLAKTLEEIADAENNIEALERAIRDKEGPLKVAQTRLENRTYRPNVELCRDQAQYRL 349

Query: 76  LDVVKATEESF 86
           +D V   +++ 
Sbjct: 350 VDEVHELDDTV 360


>gnl|CDD|35744 KOG0524, KOG0524, KOG0524, Pyruvate dehydrogenase E1, beta subunit
           [Energy production and conversion].
          Length = 359

 Score = 27.2 bits (60), Expect = 1.7
 Identities = 12/41 (29%), Positives = 15/41 (36%)

Query: 64  VRLCRPADQITILDVVKATEESFFVAECFASHKIDCPLVGS 104
           +R  RP D  TI   VK T     V E +    I   +   
Sbjct: 270 LRSIRPFDIETIGASVKKTNRLVTVEEGWPQFGIGAEICAQ 310


>gnl|CDD|147785 pfam05822, UMPH-1, Pyrimidine 5'-nucleotidase (UMPH-1).  This
           family consists of several eukaryotic pyrimidine
           5'-nucleotidase proteins. P5'N-1, also known as uridine
           monophosphate hydrolase-1 (UMPH-1), is a member of a
           large functional group of enzymes, characterized by the
           ability to dephosphorylate nucleic acids. P5'N-1
           catalyses the dephosphorylation of pyrimidine nucleoside
           monophosphates to the corresponding nucleosides.
           Deficiencies in this proteins function can lead to
           several different disorders in humans.
          Length = 246

 Score = 26.9 bits (60), Expect = 2.4
 Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 9/34 (26%)

Query: 111 LRKALNAFFDVLTQYSIECLVRNRSSIKKIFNAG 144
           LR   + FFD L Q +I  L         IF+AG
Sbjct: 91  LRDGYDEFFDKLQQLNIPVL---------IFSAG 115


>gnl|CDD|144617 pfam01090, Ribosomal_S19e, Ribosomal protein S19e. 
          Length = 140

 Score = 26.3 bits (59), Expect = 3.1
 Identities = 12/21 (57%), Positives = 13/21 (61%), Gaps = 2/21 (9%)

Query: 43  KILQPLVKAGIVETV--RGRR 61
           K LQ L KAG+VE     GRR
Sbjct: 99  KALQQLEKAGLVEKDPKGGRR 119


>gnl|CDD|146014 pfam03177, Nucleoporin_C, Non-repetitive/WGA-negative nucleoporin
           C-terminal.  This is the C-termainl half of a family of
           nucleoporin proteins. Nucleoporins are the main
           components of the nuclear pore complex in eukaryotic
           cells, and mediate bidirectional nucleocytoplasmic
           transport, especially of mRNA and proteins. Two
           nucleoporin classes are known: one is characterized by
           the FG repeat pfam03093; the other is represented by
           this family, and lacks any repeats. RNA undergoing
           nuclear export first encounters the basket of the
           nuclear pore and many nucleoporins are accessible on the
           basket side of the pore.
          Length = 548

 Score = 26.3 bits (58), Expect = 3.2
 Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 3/55 (5%)

Query: 5   KRTDYGIRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVRG 59
           KR +  +R L   A  ND  +    + E   I EL     +Q  +   ++     
Sbjct: 395 KRIELLLRKLAALASENDTSDLQELLKE---IEELLEVAKIQEDLLEQLLPADSR 446


>gnl|CDD|63887 cd03556, L-fucose_isomerase, L-fucose isomerase (FucIase);
          FucIase converts L-fucose, an aldohexose, to its ketose
          form, which prepares it for aldol cleavage (similar to
          the isomerization of glucose during glycolysis).
          L-fucose (or 6-deoxy-L-galactose) is found in blood
          group determinants as well as in various oligo- and
          polysaccharides, and glycosides in mammals, bacteria
          and plants..
          Length = 584

 Score = 26.1 bits (57), Expect = 3.4
 Identities = 11/16 (68%), Positives = 12/16 (75%)

Query: 50 KAGIVETVRGRRGGVR 65
          K GI  T+ GRRGGVR
Sbjct: 2  KIGIRPTIDGRRGGVR 17


>gnl|CDD|33238 COG3432, COG3432, Predicted transcriptional regulator
          [Transcription].
          Length = 95

 Score = 26.0 bits (57), Expect = 3.5
 Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 1  MHLTKRTDYGIRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVRGR 60
          M   +R+   I   +  AI       I++I     ++     K ++ LV+ G++      
Sbjct: 9  MVRKRRSRLEIIFDILKAISEG-GIGITRIIYGANLNYKRAQKYIEMLVEKGLIIKQDNG 67

Query: 61 RGGV 64
          R  V
Sbjct: 68 RRKV 71


>gnl|CDD|31568 COG1378, COG1378, Predicted transcriptional regulators
          [Transcription].
          Length = 247

 Score = 25.8 bits (56), Expect = 4.4
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 7  TDYGIRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVRGRRGGVRL 66
          T+Y  +V +             +I+EA  +    ++ +L+ L K G+VE + GR    R 
Sbjct: 15 TEYEAKVYLALLCLG--EATAKEISEASGVPRPKVYDVLRSLEKKGLVEVIEGRPKKYRA 72

Query: 67 CRPADQI 73
            P + I
Sbjct: 73 VPPEELI 79


>gnl|CDD|38492 KOG3282, KOG3282, KOG3282, Uncharacterized conserved protein
           [Function unknown].
          Length = 190

 Score = 25.7 bits (56), Expect = 4.9
 Identities = 10/43 (23%), Positives = 15/43 (34%)

Query: 4   TKRTDYGIRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQ 46
               D      M   + ND      +IA  C  + L ++K L 
Sbjct: 67  EVLGDLKGNFKMVLVVRNDLKMGKGKIAAQCAHAALGVYKHLM 109


>gnl|CDD|110930 pfam01978, TrmB, Sugar-specific transcriptional regulator TrmB.
          One member of this family, TrmB, has been shown to be a
          sugar-specific transcriptional regulator of the
          trehalose/maltose ABC transporter in Thermococcus
          litoralis.
          Length = 68

 Score = 25.6 bits (57), Expect = 5.1
 Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 7  TDYGIRVLMYCAIHNDYPNRISQIAEACCISELFLFKILQPLVKAGIVETVRGR 60
          ++Y  +V +        P    +IAE   +    ++++L+ L K G+VE  +GR
Sbjct: 7  SEYEAKVYLALLKLG--PATADEIAEESGVPRSKVYEVLRSLEKKGLVEREKGR 58


>gnl|CDD|34621 COG5016, COG5016, Pyruvate/oxaloacetate carboxyltransferase [Energy
           production and conversion].
          Length = 472

 Score = 25.2 bits (55), Expect = 6.7
 Identities = 8/25 (32%), Positives = 13/25 (52%)

Query: 49  VKAGIVETVRGRRGGVRLCRPADQI 73
           + A ++E + G       CRPAD +
Sbjct: 383 INAELIEKILGDEEKPITCRPADLL 407


>gnl|CDD|145440 pfam02286, Dehydratase_LU, Dehydratase large subunit.  This family
           contains the large subunit of the trimeric diol
           dehydratases and glycerol dehydratases. These enzymes
           are produced by some enterobacteria in response to
           growth substances.
          Length = 554

 Score = 24.7 bits (54), Expect = 8.6
 Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%)

Query: 72  QITILDVVKATEESFF--VAE 90
            IT LDVVKA  ++ F  VAE
Sbjct: 467 GITGLDVVKALAKTGFTDVAE 487


>gnl|CDD|73264 cd01385, MYSc_type_IX, Myosin motor domain, type IX myosins. Myosin
           IX is a processive single-headed motor, which might play
           a role in signalling. 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 = 692

 Score = 24.6 bits (53), Expect = 9.3
 Identities = 10/20 (50%), Positives = 14/20 (70%)

Query: 44  ILQPLVKAGIVETVRGRRGG 63
           +L+ L   G++ETVR RR G
Sbjct: 605 VLRQLRYTGMLETVRIRRAG 624


  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
   0.329    0.141    0.428 

Gapped
Lambda     K      H
   0.267   0.0728    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,647,548
Number of extensions: 77502
Number of successful extensions: 209
Number of sequences better than 10.0: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 23
Length of query: 144
Length of database: 6,263,737
Length adjustment: 85
Effective length of query: 59
Effective length of database: 4,426,972
Effective search space: 261191348
Effective search space used: 261191348
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 52 (23.8 bits)