RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780822|ref|YP_003065235.1| thioredoxin [Candidatus
Liberibacter asiaticus str. psy62]
         (107 letters)



>gnl|CDD|162187 TIGR01068, thioredoxin, thioredoxin.  Several proteins, such as
           protein disulfide isomerase, have two or more copies of
           a domain closely related to thioredoxin. This model is
           designed to recognize authentic thioredoxin, a small
           protein that should be hit exactly once by this model.
          Length = 101

 Score =  120 bits (304), Expect = 6e-29
 Identities = 41/98 (41%), Positives = 66/98 (67%), Gaps = 1/98 (1%)

Query: 6   VDTKSFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEI 65
           +   +FD  +     PV+VDFWA WC PC  ++PI++++A E   KVK  KL+++E+ +I
Sbjct: 1   LTDANFDETIASSDKPVLVDFWAPWCGPCKMIAPILEELAKEYEGKVKFVKLNVDENPDI 60

Query: 66  STRYQISSIPTLILFKDGKVIDRMMPGASSQSDIIEWI 103
           + +Y I SIPTL+LFK+GK +DR + GA  ++ + + I
Sbjct: 61  AAKYGIRSIPTLLLFKNGKEVDRSV-GALPKAALKQLI 97


>gnl|CDD|182889 PRK10996, PRK10996, thioredoxin 2; Provisional.
          Length = 139

 Score =  103 bits (260), Expect = 7e-24
 Identities = 38/91 (41%), Positives = 62/91 (68%), Gaps = 1/91 (1%)

Query: 13  SEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQIS 72
            ++L+   PVV+DFWA WC PC   +PI +D+A E + KV+  K++ E   E+S R++I 
Sbjct: 46  DKLLQDDLPVVIDFWAPWCGPCRNFAPIFEDVAAERSGKVRFVKVNTEAERELSARFRIR 105

Query: 73  SIPTLILFKDGKVIDRMMPGASSQSDIIEWI 103
           SIPT+++FK+G+V+D M+ GA  ++    W+
Sbjct: 106 SIPTIMIFKNGQVVD-MLNGAVPKAPFDSWL 135


>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
          Length = 109

 Score = 82.8 bits (204), Expect = 2e-17
 Identities = 40/94 (42%), Positives = 65/94 (69%), Gaps = 1/94 (1%)

Query: 10  SFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRY 69
           SFD++VL+    ++VDFWA WC PC  ++PI+D+IADE   K+ + KL+I+++   + +Y
Sbjct: 12  SFDTDVLKADGAILVDFWAEWCGPCKMIAPILDEIADEYQGKLTVAKLNIDQNPGTAPKY 71

Query: 70  QISSIPTLILFKDGKVIDRMMPGASSQSDIIEWI 103
            I  IPTL+LFK+G+V    + GA S+  + E++
Sbjct: 72  GIRGIPTLLLFKNGEVAATKV-GALSKGQLKEFL 104


>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
          Length = 98

 Score = 72.2 bits (177), Expect = 3e-14
 Identities = 31/84 (36%), Positives = 56/84 (66%), Gaps = 3/84 (3%)

Query: 11 FDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQ 70
          F+S  L  +  V+VDF+A WC PC +++P  ++ + E   K+   K+D++E SE++ +  
Sbjct: 11 FES-TLSQNELVIVDFYAEWCGPCKRIAPFYEECSKEYT-KMVFVKVDVDELSEVAEKEN 68

Query: 71 ISSIPTLILFKDGKVIDRMMPGAS 94
          I+S+PT  +FK+G V+D ++ GA+
Sbjct: 69 ITSMPTFKVFKNGSVVDTLL-GAN 91


>gnl|CDD|162212 TIGR01126, pdi_dom, protein disulfide-isomerase domain.  This model
           describes a domain of eukaryotic protein disulfide
           isomerases, generally found in two copies. The high
           cutoff for total score reflects the expectation of
           finding both copies. The domain is similar to
           thioredoxin but the redox-active disulfide region motif
           is APWCGHCK.
          Length = 102

 Score = 68.8 bits (169), Expect = 3e-13
 Identities = 28/97 (28%), Positives = 49/97 (50%), Gaps = 4/97 (4%)

Query: 9   KSFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELAD--KVKITKLDIEESSEIS 66
            +FD  VL  +  V+V+F+A WC  C  L+P  + +A EL     + + K+D     +++
Sbjct: 4   SNFDDIVLS-NKDVLVEFYAPWCGHCKNLAPEYEKLAKELKGDPDIVLAKVDATAEKDLA 62

Query: 67  TRYQISSIPTLILFKDGKVIDRMMPGASSQSDIIEWI 103
           +R+ +S  PT+  F  GK       G      I+E++
Sbjct: 63  SRFGVSGFPTIKFFPKGKKPVD-YEGGRDLEAIVEFV 98


>gnl|CDD|185446 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
          Length = 477

 Score = 60.5 bits (147), Expect = 8e-11
 Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 5/85 (5%)

Query: 22  VVVDFWASWCRPCVKLSPIIDDIADELADK---VKITKLDIEESSEISTRYQISSIPTLI 78
           V+V F+A WC  C +L+P     A  L +K   + +  +D  E  E++  + +   PT+ 
Sbjct: 52  VLVKFYAPWCGHCKRLAPEYKKAAKMLKEKKSEIVLASVDATEEMELAQEFGVRGYPTIK 111

Query: 79  LFKDGKVIDRMMPGASSQSDIIEWI 103
            F  G  ++    G  +   I+ WI
Sbjct: 112 FFNKGNPVN--YSGGRTADGIVSWI 134



 Score = 42.8 bits (101), Expect = 2e-05
 Identities = 17/78 (21%), Positives = 40/78 (51%), Gaps = 4/78 (5%)

Query: 9   KSFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELA--DKVKITKLDIEESSEIS 66
            +F+  V +    V+++ +A WC  C  L P+ +++ ++    D + + K++   ++E  
Sbjct: 365 NTFEEIVFKSDKDVLLEIYAPWCGHCKNLEPVYNELGEKYKDNDSIIVAKMN-GTANETP 423

Query: 67  TR-YQISSIPTLILFKDG 83
              +  S+ PT++  K G
Sbjct: 424 LEEFSWSAFPTILFVKAG 441


>gnl|CDD|162215 TIGR01130, ER_PDI_fam, protein disulfide isomerases, eukaryotic.
           Members of this family have at least two
           protein-disulfide domains, each similar to thioredoxin
           but with the redox-active disulfide in the motif
           PWCGHCK, and an ER retention signal at the extreme
           C-terminus (KDEL, HDEL, and similar motifs).
          Length = 462

 Score = 59.3 bits (144), Expect = 2e-10
 Identities = 30/107 (28%), Positives = 57/107 (53%), Gaps = 4/107 (3%)

Query: 4   LKVDTKSFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELADK---VKITKLDIE 60
           L +   +FD + ++    V+V+F+A WC  C  L+P  +  ADEL  K   +K+ K+D  
Sbjct: 4   LVLTKDNFD-DFIKSHEFVLVEFYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVDAT 62

Query: 61  ESSEISTRYQISSIPTLILFKDGKVIDRMMPGASSQSDIIEWILSRV 107
           E  +++ +Y +S  PTL +F++G+       G      I++++  + 
Sbjct: 63  EEKDLAQKYGVSGYPTLKIFRNGEDSVSDYNGPRDADGIVKYMKKQS 109



 Score = 48.5 bits (116), Expect = 4e-07
 Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 5/79 (6%)

Query: 9   KSFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELAD---KVKITKLDIEESSEI 65
           K+FD  VL+ +  V+V+F+A WC  C  L+PI +++A++  D    V I K+D    +++
Sbjct: 354 KNFDEIVLDETKDVLVEFYAPWCGHCKNLAPIYEELAEKYKDAESDVVIAKMDATA-NDV 412

Query: 66  STRYQISSIPTLILFKDGK 84
              +++   PT+     GK
Sbjct: 413 PP-FEVEGFPTIKFVPAGK 430


>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
           Provisional.
          Length = 224

 Score = 56.2 bits (135), Expect = 2e-09
 Identities = 23/67 (34%), Positives = 37/67 (55%)

Query: 19  SNPVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQISSIPTLI 78
           + P  V F+A WC  C K++P  + +A  L  +V +  LD   +  ++ R+ I   PTL+
Sbjct: 52  TGPWFVKFYAPWCSHCRKMAPAWERLAKALKGQVNVADLDATRALNLAKRFAIKGYPTLL 111

Query: 79  LFKDGKV 85
           LF  GK+
Sbjct: 112 LFDKGKM 118


>gnl|CDD|179545 PRK03147, PRK03147, thiol-disulfide oxidoreductase; Provisional.
          Length = 173

 Score = 46.9 bits (112), Expect = 1e-06
 Identities = 24/106 (22%), Positives = 52/106 (49%), Gaps = 25/106 (23%)

Query: 22  VVVDFWASWCRPCVKLSPIIDDIADELADK-VKITKLDIEES------------------ 62
           V ++FW +WC+PC K  P ++++  +  +K V+I  ++++E+                  
Sbjct: 64  VFLNFWGTWCKPCEKEMPYMNELYPKYKEKGVEIIAVNVDETELAVKNFVNRYGLTFPVA 123

Query: 63  ----SEISTRYQISSIPTLILF-KDGKVIDRMMPGASSQSDIIEWI 103
                ++   Y +  +PT  L  KDGKV+  ++ G  ++  + E++
Sbjct: 124 IDKGRQVIDAYGVGPLPTTFLIDKDGKVVK-VITGEMTEEQLEEYL 168


>gnl|CDD|129481 TIGR00385, dsbE, periplasmic protein thiol:disulfide
           oxidoreductases, DsbE subfamily.  Involved in the
           biogenesis of c-type cytochromes as well as in disulfide
           bond formation in some periplasmic proteins.
          Length = 173

 Score = 38.6 bits (90), Expect = 4e-04
 Identities = 18/63 (28%), Positives = 35/63 (55%), Gaps = 3/63 (4%)

Query: 2   SALKVDTKSFDSEVLECSNPVVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEE 61
           +AL+   +++  E      PV+++ WASWC PC    P ++++A    D + I  +D ++
Sbjct: 46  AALREPLQAYTPEAFIQGKPVLLNVWASWCPPCRAEHPYLNELA---KDGLPIVGVDYKD 102

Query: 62  SSE 64
            S+
Sbjct: 103 QSQ 105


>gnl|CDD|161873 TIGR00424, APS_reduc, 5'-adenylylsulfate reductase,
           thioredoxin-independent.  This enzyme, involved in the
           assimilation of inorganic sulfate, is closely related to
           the thioredoxin-dependent PAPS reductase of Bacteria
           (CysH) and Saccharomyces cerevisiae. However, it has its
           own C-terminal thioredoxin-like domain and is not
           thioredoxin-dependent. Also, it has a substrate
           preference for 5'-adenylylsulfate (APS) over
           3'-phosphoadenylylsulfate (PAPS) so the pathway does not
           require an APS kinase (CysC) to convert APS to PAPS.
           Arabidopsis thaliana appears to have three isozymes, all
           able to complement E. coli CysH mutants (even in
           backgrounds lacking thioredoxin or APS kinase) but
           likely localized to different compartments in
           Arabidopsis.
          Length = 463

 Score = 35.8 bits (82), Expect = 0.003
 Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 3/63 (4%)

Query: 21  PVVVDFWASWCRPCVKLSPIIDDIADELA---DKVKITKLDIEESSEISTRYQISSIPTL 77
             +V  +A WC  C  +     ++A++LA    KV   + D ++        Q+ S PT+
Sbjct: 373 AWLVVLYAPWCPFCQAMEASYLELAEKLAGSGVKVAKFRADGDQKEFAKQELQLGSFPTI 432

Query: 78  ILF 80
           + F
Sbjct: 433 LFF 435


>gnl|CDD|162752 TIGR02187, GlrX_arch, Glutaredoxin-like domain protein.  This
          family of archaeal proteins contains a C-terminal
          domain with homology to bacterial and eukaryotic
          glutaredoxins, including a CPYC motif. There is an
          N-terminal domain which has even more distant homology
          to glutaredoxins. The name "glutaredoxin" may be
          inappropriate in the sense of working in tandem with
          glutathione and glutathione reductase which may not be
          present in the archaea. The overall domain structure
          appears to be related to bacterial alkylhydroperoxide
          reductases, but the homology may be distant enough that
          the function of this family is wholly different.
          Length = 215

 Score = 33.6 bits (77), Expect = 0.011
 Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 3/65 (4%)

Query: 22 VVVDFWASWCRPCVKLSPIIDDIADELADKVK--ITKLDIEESSEISTRYQISSIPTLIL 79
          V  D     C+ C +   ++++++ E++ K+K  I   D  E  E + +Y +  +PT I+
Sbjct: 25 VFTDNDKEGCQYCKETEQLLEELS-EVSPKLKLEIYDFDTPEDKEEAEKYGVERVPTTII 83

Query: 80 FKDGK 84
           ++GK
Sbjct: 84 LEEGK 88



 Score = 26.3 bits (58), Expect = 1.6
 Identities = 13/59 (22%), Positives = 31/59 (52%), Gaps = 6/59 (10%)

Query: 48  LADKVKITKLDIEESSEISTRYQISSIPTLILFKDG-KVIDRMMPGASSQSDIIEWILS 105
             DK+    ++  E+ +++ +Y + S+P +++ K   + +     GA  +   +E+ILS
Sbjct: 161 ANDKILGEMIEANENPDLAEKYGVMSVPKIVINKGVEEFV-----GAYPEEQFLEYILS 214


>gnl|CDD|129505 TIGR00411, redox_disulf_1, small redox-active disulfide protein 1. 
           This protein is homologous to a family of proteins that
           includes thioredoxins, glutaredoxins, protein-disulfide
           isomerases, and others, some of which have several such
           domains. The sequence of this protein at the
           redox-active disufide site, CPYC, matches glutaredoxins
           rather than thioredoxins, although its overall sequence
           seems closer to thioredoxins. It is suggested to be a
           ribonucleotide-reducing system component distinct from
           thioredoxin or glutaredoxin.
          Length = 82

 Score = 33.7 bits (77), Expect = 0.012
 Identities = 17/78 (21%), Positives = 43/78 (55%), Gaps = 5/78 (6%)

Query: 26  FWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQISSIPTLILFKDGKV 85
           F +  C  C     +++++A E+ D V++  +++ E+ + +  Y I ++P +++  D + 
Sbjct: 6   FTSPTCPYCPAAKRVVEEVAKEMGDAVEVEYINVMENPQKAMEYGIMAVPAIVINGDVEF 65

Query: 86  IDRMMPGASSQSDIIEWI 103
           I     GA ++ +++E I
Sbjct: 66  I-----GAPTKEELVEAI 78


>gnl|CDD|184456 PRK14018, PRK14018, trifunctional thioredoxin/methionine
          sulfoxide reductase A/B protein; Provisional.
          Length = 521

 Score = 32.5 bits (74), Expect = 0.025
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 13 SEVLECSNPVVVDFWASWCRPCV 35
          S  L+   P ++ FWASWC  C+
Sbjct: 50 SVYLKKDKPTLIKFWASWCPLCL 72


>gnl|CDD|133998 PHA02125, PHA02125, thioredoxin-like protein.
          Length = 75

 Score = 32.3 bits (73), Expect = 0.029
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 6/53 (11%)

Query: 26 FWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQISSIPTLI 78
          F A WC  C  + P++ ++     D      +D +E  E++ ++ I S+PTL+
Sbjct: 5  FGAEWCANCKMVKPMLANVEYTYVD------VDTDEGVELTAKHHIRSLPTLV 51


>gnl|CDD|185310 PRK15412, PRK15412, thiol:disulfide interchange protein DsbE;
          Provisional.
          Length = 185

 Score = 32.3 bits (73), Expect = 0.032
 Identities = 10/34 (29%), Positives = 21/34 (61%)

Query: 1  MSALKVDTKSFDSEVLECSNPVVVDFWASWCRPC 34
          + +L+   + + ++VL    PV+++ WA+WC  C
Sbjct: 50 LESLENPGQFYQADVLTQGKPVLLNVWATWCPTC 83


>gnl|CDD|162114 TIGR00928, purB, adenylosuccinate lyase.  This family consists of
          adenylosuccinate lyase, the enzyme that catalyzes step
          8 in the purine biosynthesis pathway for de novo
          synthesis of IMP and also the final reaction in the
          two-step sequence from IMP to AMP.
          Length = 435

 Score = 31.9 bits (73), Expect = 0.035
 Identities = 10/42 (23%), Positives = 17/42 (40%)

Query: 24 VDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEI 65
          +D   +  R   +L  I  +   E+  K   T +D+    EI
Sbjct: 24 LDVEVALLRALAELGVIPAEAVKEIRAKANFTDVDLARIKEI 65


>gnl|CDD|149549 pfam08534, Redoxin, Redoxin.  This family of redoxins includes
          peroxiredoxin, thioredoxin and glutaredoxin proteins.
          Length = 142

 Score = 31.9 bits (73), Expect = 0.042
 Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 1/32 (3%)

Query: 21 PVVVDFWAS-WCRPCVKLSPIIDDIADELADK 51
           VV++FW   +C  C    P ++ ++     K
Sbjct: 29 KVVLNFWPGAFCPTCSAEHPYLEKLSKLYKAK 60


>gnl|CDD|177804 PLN00410, PLN00410, U5 snRNP protein, DIM1 family; Provisional.
          Length = 142

 Score = 31.3 bits (71), Expect = 0.059
 Identities = 20/83 (24%), Positives = 41/83 (49%), Gaps = 2/83 (2%)

Query: 22  VVVDFWASWCRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQISSIPTLILFK 81
           VV+ F   W   C+++  ++  +A+ + +   I  +DI E  + +T Y++    T++ F 
Sbjct: 26  VVIRFGHDWDETCMQMDEVLASVAETIKNFAVIYLVDITEVPDFNTMYELYDPCTVMFFF 85

Query: 82  DGKVIDRMMPGASSQSDIIEWIL 104
             K I  M+   +  ++ I W L
Sbjct: 86  RNKHI--MIDLGTGNNNKINWAL 106


>gnl|CDD|131709 TIGR02661, MauD, methylamine dehydrogenase accessory protein MauD. 
           This protein, MauD, appears critical to proper formation
           of the small subunit of methylamine dehydrogenase, which
           has both an unusual tryptophan tryptophylquinone
           cofactor and multiple disulfide bonds. MauD shares
           sequence similarity, including a CPxC motif, with a
           number of thiol:disulfide interchange proteins. In MauD
           mutants, the small subunit apparently does not form
           properly and is rapidly degraded.
          Length = 189

 Score = 31.0 bits (70), Expect = 0.069
 Identities = 27/84 (32%), Positives = 36/84 (42%), Gaps = 19/84 (22%)

Query: 21  PVVVDFWASWCRPCVKLSPIIDDIAD-ELADKVKITKLDIEE-----------------S 62
           P ++ F A  C  C KL PII  IA  E  D V I+     E                 S
Sbjct: 76  PTLLMFTAPSCPVCDKLFPIIKSIARAEETDVVMISDGTPAEHRRFLKDHELGGERYVVS 135

Query: 63  SEISTRYQISSIPTLILF-KDGKV 85
           +EI   +Q+  IP  +L  +DGK+
Sbjct: 136 AEIGMAFQVGKIPYGVLLDQDGKI 159


>gnl|CDD|147981 pfam06110, DUF953, Eukaryotic protein of unknown function (DUF953).
            This family consists of several hypothetical eukaryotic
           proteins of unknown function.
          Length = 119

 Score = 30.5 bits (69), Expect = 0.11
 Identities = 20/116 (17%), Positives = 40/116 (34%), Gaps = 22/116 (18%)

Query: 9   KSFDSEVLECSN---PVVVDFWA-------SWCRPCVKLSPIIDDIADELADKVKITKLD 58
           + F+  V E  N   P+   F         SWC  CV+  P+I +      +      +D
Sbjct: 6   EEFNKAVKESENGSKPIFALFTGSKDTTGESWCPDCVRAEPVIREALKHAPEDCHFIYVD 65

Query: 59  IEESS---------EISTRYQISSIPTLILFKDGKVIDRMMPGASSQSDIIEWILS 105
           + +                 +++ +PTL+ +   +   R+       S ++E    
Sbjct: 66  VGDRPYWKDPNNPFRKDPNLKLTGVPTLLRWGGPQ---RLDESQCLNSHLVEMFFE 118


>gnl|CDD|151456 pfam11009, DUF2847, Protein of unknown function (DUF2847).  Some
          members in this bacterial family of proteins with
          unknown function are annotated as YtxJ, a putative
          general stress protein. This cannot be confirmed.
          Length = 104

 Score = 27.9 bits (63), Expect = 0.65
 Identities = 14/49 (28%), Positives = 30/49 (61%), Gaps = 9/49 (18%)

Query: 45 ADELADKVKITKLDIEE----SSEISTRYQI---SSIPTLILFKDGKVI 86
          A+E  + + +  LD++E    S+EI+ ++ +   S  P +I+ K+G+V+
Sbjct: 44 AEEDEEDLPVYYLDVQEYRDVSNEIAEKFGVKHES--PQVIVIKNGEVV 90


>gnl|CDD|131789 TIGR02742, TrbC_Ftype, type-F conjugative transfer system pilin
           assembly protein TrbC.  This protein is an essential
           component of the F-type conjugative pilus assembly
           system for the transfer of plasmid DNA. The N-terminal
           portion of these proteins are heterogeneous and are not
           covered by this model.
          Length = 130

 Score = 27.7 bits (62), Expect = 0.67
 Identities = 8/34 (23%), Positives = 17/34 (50%)

Query: 67  TRYQISSIPTLILFKDGKVIDRMMPGASSQSDII 100
            ++ I+++P  ++ KDG       P   S  D++
Sbjct: 65  KQFDITAVPAFVVVKDGLACLPEQPCPESDYDVV 98


>gnl|CDD|178965 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
           Provisional.
          Length = 571

 Score = 27.5 bits (62), Expect = 0.91
 Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 9/75 (12%)

Query: 21  PVVVDFWASWCRPCVKLSPII---DDIADELAD----KVKITKLDIEESSEISTRYQISS 73
           PV++D +A WC  C +          +   LAD    +  +T  +  E   +   Y +  
Sbjct: 476 PVMLDLYADWCVACKEFEKYTFSDPQVQQALADTVLLQADVTANN-AEDVALLKHYNVLG 534

Query: 74  IPTLILF-KDGKVID 87
           +PT++ F   G+ I 
Sbjct: 535 LPTILFFDAQGQEIP 549


>gnl|CDD|163278 TIGR03465, HpnD, squalene synthase HpnD.  The genes of this
          family are often found in the same genetic locus with
          squalene-hopene cyclase genes, and are never associated
          with genes for the metabolism of phytoene. In the
          organisms Zymomonas mobilis and Bradyrhizobium
          japonicum these genes have been characterized as
          squalene synthases (farnesyl-pyrophosphate ligases).
          Often, these genes appear in tandem with the HpnC gene
          which appears to have resulted from an ancient gene
          duplication event. Presumably these proteins form a
          heteromeric complex, but this has not yet been
          experimentally demonstrated.
          Length = 266

 Score = 26.9 bits (60), Expect = 1.2
 Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 8/31 (25%)

Query: 29 SWCRPCVKLSPIIDDIADELAD-KVKITKLD 58
          ++CR        +DDI DE +D +V   KL 
Sbjct: 28 AFCR-------EVDDIVDEDSDPEVAQAKLA 51


>gnl|CDD|148829 pfam07449, HyaE, Hydrogenase-1 expression protein HyaE.  This
           family contains bacterial hydrogenase-1 expression
           proteins approximately 120 residues long. This includes
           the E. coli protein HyaE, and the homologous proteins
           HoxO of R. eutropha and HupG of R. leguminosarum.
           Deletion of the hoxO gene in R. eutropha led to complete
           loss of the uptake [NiFe] hydrogenase activity,
           suggesting that it has a critical role in hydrogenase
           assembly.
          Length = 107

 Score = 25.0 bits (55), Expect = 4.1
 Identities = 8/35 (22%), Positives = 19/35 (54%), Gaps = 3/35 (8%)

Query: 60  EESSEISTRYQISSIPTLILFKDGK---VIDRMMP 91
           E+   ++ R+ +   P+L+ F+DG+   V+  +  
Sbjct: 69  EQEEALAARFGVRRFPSLLFFRDGRYLGVLAGIRD 103


>gnl|CDD|183290 PRK11720, PRK11720, galactose-1-phosphate uridylyltransferase;
           Provisional.
          Length = 346

 Score = 25.3 bits (56), Expect = 4.2
 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 18/56 (32%)

Query: 22  VVVDFWASWC--------RPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRY 69
            VV +WA+W            ++L+ + D   D+LA  +K          ++++RY
Sbjct: 221 AVVPYWAAWPFETLLLPKAHVLRLTDLTDAQRDDLALALK----------KLTSRY 266


>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
           subunit.  This family of thioredoxin reductase homologs
           is found adjacent to alkylhydroperoxide reductase C
           subunit predominantly in cases where there is only one C
           subunit in the genome and that genome is lacking the F
           subunit partner (also a thioredcxin reductase homolog)
           that is usually found (TIGR03140).
          Length = 555

 Score = 24.7 bits (54), Expect = 5.1
 Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 2/50 (4%)

Query: 35  VKLSPIIDDIADELADKVKITKLDIEESSEISTRYQISSIPTL-ILFKDG 83
            +L   + + A  L++K+    ++  E  E  T  +I+ +PT+ +L  DG
Sbjct: 382 AELQSFLGEFAS-LSEKLNSEAVNRGEEPESETLPKITKLPTVALLDDDG 430


>gnl|CDD|128689 smart00411, BHL, bacterial (prokaryotic) histone like domain. 
          Length = 90

 Score = 24.8 bits (55), Expect = 5.6
 Identities = 5/22 (22%), Positives = 14/22 (63%)

Query: 43 DIADELADKVKITKLDIEESSE 64
          ++ D +A+K  ++K D + + +
Sbjct: 5  ELIDAIAEKAGLSKKDAKAAVD 26


>gnl|CDD|177806 PLN00412, PLN00412, NADP-dependent glyceraldehyde-3-phosphate
           dehydrogenase; Provisional.
          Length = 496

 Score = 24.7 bits (54), Expect = 5.7
 Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 9/64 (14%)

Query: 35  VKLSPIIDDIADELADKV--KITKLDI---EESSEISTRYQISSIPTLILFKDGKVIDRM 89
           VK+  +++ +AD L +KV  K+ KL +   E+  +I+     SS      F +G V+D  
Sbjct: 301 VKVVLVMESVADALVEKVNAKVAKLTVGPPEDDCDITPVVSESSAN----FIEGLVMDAK 356

Query: 90  MPGA 93
             GA
Sbjct: 357 EKGA 360


>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
           Provisional.
          Length = 253

 Score = 24.5 bits (54), Expect = 6.3
 Identities = 7/13 (53%), Positives = 9/13 (69%)

Query: 77  LILFKDGKVIDRM 89
           L+  KDGKV  +M
Sbjct: 98  LVKAKDGKVTSKM 110


>gnl|CDD|162289 TIGR01295, PedC_BrcD, bacteriocin transport accessory protein,
           putative.  This model describes a small family of
           proteins believed to aid in the export of various class
           II bacteriocins, which are ribosomally-synthesized,
           non-lantibiotic bacterial peptide antibiotics. Members
           of this family are found in operons for pediocin PA-1
           from Pediococcus acidilactici and brochocin-C from
           Brochothrix campestris.
          Length = 122

 Score = 24.5 bits (53), Expect = 6.7
 Identities = 12/82 (14%), Positives = 29/82 (35%), Gaps = 13/82 (15%)

Query: 31  CRPCVKLSPIIDDIADELADKVKITKLDIEESSEISTRYQISS-------------IPTL 77
           C  C K S  +  +  +    +     +   S E+S+   +++              PT 
Sbjct: 35  CPYCRKFSGTLSGVVAQTKAPIYYIDSENNGSFEMSSLNDLTAFRSRFGIPTSFMGTPTF 94

Query: 78  ILFKDGKVIDRMMPGASSQSDI 99
           +   DGK +      +++  ++
Sbjct: 95  VHITDGKQVSVRCGSSTTAQEL 116


>gnl|CDD|177357 PHA02278, PHA02278, thioredoxin-like protein.
          Length = 103

 Score = 24.3 bits (52), Expect = 6.9
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 4/70 (5%)

Query: 31 CRPCVKLSPIIDDIADE--LADKVKITKLDIEES--SEISTRYQISSIPTLILFKDGKVI 86
          C  C  L  +I    +   +   +    LD E+    +    + I S P LI +KDG+++
Sbjct: 26 CGKCEILKSVIPMFQESGDIKKPILTLNLDAEDVDREKAVKLFDIMSTPVLIGYKDGQLV 85

Query: 87 DRMMPGASSQ 96
           +     +  
Sbjct: 86 KKYEDQVTPM 95


>gnl|CDD|177812 PLN02151, PLN02151, trehalose-phosphatase.
          Length = 354

 Score = 23.9 bits (51), Expect = 9.9
 Identities = 7/25 (28%), Positives = 15/25 (60%)

Query: 31  CRPCVKLSPIIDDIADELADKVKIT 55
           C+P  +  P+I+++  +L +K K  
Sbjct: 186 CQPATEFLPVINEVYKKLVEKTKSI 210


>gnl|CDD|182822 PRK10901, PRK10901, 16S rRNA methyltransferase B; Provisional.
          Length = 427

 Score = 24.0 bits (53), Expect = 10.0
 Identities = 6/16 (37%), Positives = 10/16 (62%)

Query: 47  ELADKVKITKLDIEES 62
           ELA + ++  LDI+  
Sbjct: 264 ELAPQAQVVALDIDAQ 279


  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    0.133    0.392 

Gapped
Lambda     K      H
   0.267   0.0744    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,698,709
Number of extensions: 90905
Number of successful extensions: 261
Number of sequences better than 10.0: 1
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 58
Length of query: 107
Length of database: 5,994,473
Length adjustment: 73
Effective length of query: 34
Effective length of database: 4,417,089
Effective search space: 150181026
Effective search space used: 150181026
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: 50 (23.0 bits)