Query 031193
Match_columns 164
No_of_seqs 16 out of 18
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 10:34:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031193.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031193hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd08876 START_1 Uncharacterize 59.7 17 0.00038 27.4 4.1 33 60-94 11-43 (195)
2 PF12673 DUF3794: Domain of un 58.4 15 0.00033 24.3 3.3 36 64-100 29-66 (87)
3 PF11948 DUF3465: Protein of u 47.6 8.4 0.00018 30.9 0.8 27 12-47 70-96 (131)
4 PF04014 Antitoxin-MazE: Antid 45.2 11 0.00024 23.7 0.9 37 22-67 11-47 (47)
5 PF09175 DUF1944: Domain of un 41.9 38 0.00082 27.8 3.7 84 32-133 14-97 (165)
6 PF05751 FixH: FixH; InterPro 34.1 86 0.0019 22.9 4.2 63 17-81 62-141 (146)
7 PF10974 DUF2804: Protein of u 32.9 1E+02 0.0022 26.6 5.1 96 18-118 115-217 (333)
8 PF01052 SpoA: Surface present 32.4 9.2 0.0002 25.7 -1.0 24 74-97 9-32 (77)
9 COG2002 AbrB Regulators of sta 32.3 34 0.00074 24.3 1.8 47 10-65 7-53 (89)
10 PF05275 CopB: Copper resistan 31.8 24 0.00053 29.7 1.2 31 74-105 52-82 (210)
11 PF10003 DUF2244: Integral mem 27.1 60 0.0013 24.8 2.5 29 65-93 90-125 (140)
12 PF03101 FAR1: FAR1 DNA-bindin 24.7 67 0.0014 21.6 2.1 20 51-71 60-79 (91)
13 TIGR01782 TonB-Xanth-Caul TonB 22.6 2.2E+02 0.0048 26.7 5.7 83 32-119 77-168 (845)
14 PRK08577 hypothetical protein; 20.1 86 0.0019 23.4 2.1 39 21-67 16-54 (136)
No 1
>cd08876 START_1 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family. Functionally uncharacterized subgroup of the START domain family. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. For some mammalian members of the START family (STARDs), it is known which lipids bind in this pocket; these include cholesterol (STARD1, -3, -4, and -5), 25-hydroxycholesterol (STARD5), phosphatidylcholine (STARD2, -7, and -10), phosphatidylethanolamine (STARD10) and ceramides (STARD11). Mammalian STARDs participate in the control of various cellular processes, including lipid trafficking between intracellular compartments, lipid metabolism, and modulation of signaling events. Mutation or altered expression of STARDs is linked to diseases such as cancer, genetic disorders, a
Probab=59.67 E-value=17 Score=27.38 Aligned_cols=33 Identities=9% Similarity=0.533 Sum_probs=26.5
Q ss_pred ecCCCCCCceEEEeecCCceeEEeecccceeeeee
Q 031193 60 KPLSPNRPWKFIYEPIHQDVRILSKKIPVTKFLNL 94 (164)
Q Consensus 60 KPl~~~~kWK~iyEP~~~DvrilsKKIPv~~fLnl 94 (164)
.-+++++.||+..+ .++|+|-+|+.+-+....+
T Consensus 11 ~~~~~~~~W~~~~~--~~~v~v~~~~~~~~~~~~~ 43 (195)
T cd08876 11 AALAPDGDWQLVKD--KDGIKVYTRDVEGSPLKEF 43 (195)
T ss_pred cccCCCCCCEEEec--CCCeEEEEEECCCCCeEEE
Confidence 45788999999996 6799999999987754443
No 2
>PF12673 DUF3794: Domain of unknown function (DUF3794); InterPro: IPR024300 This presumed domain is functionally uncharacterised. It is found in bacteria, and is approximately 90 amino acids in length.
Probab=58.43 E-value=15 Score=24.27 Aligned_cols=36 Identities=25% Similarity=0.494 Sum_probs=29.5
Q ss_pred CCCCceEEEeecCCc--eeEEeecccceeeeeeeeecce
Q 031193 64 PNRPWKFIYEPIHQD--VRILSKKIPVTKFLNLQVGIGH 100 (164)
Q Consensus 64 ~~~kWK~iyEP~~~D--vrilsKKIPv~~fLnlQvGIGH 100 (164)
+.-.-+++|.+.+.+ +.-++.+||+..++.+. |+..
T Consensus 29 G~l~~~ilY~~~~~~~~v~~~~~~ipF~~~ie~~-g~~~ 66 (87)
T PF12673_consen 29 GELNVKILYVSEDDEQPVYSVEQEIPFSQFIELP-GINE 66 (87)
T ss_pred EEEEEEEEEEeCCCCCCEEEEEEEeeeeEEEECC-CcCC
Confidence 345568899999885 89999999999999995 7643
No 3
>PF11948 DUF3465: Protein of unknown function (DUF3465); InterPro: IPR021856 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=47.58 E-value=8.4 Score=30.87 Aligned_cols=27 Identities=30% Similarity=0.438 Sum_probs=22.4
Q ss_pred ChhhhhcccccchhhhhhhheeecceEEEeeeEEec
Q 031193 12 SWDELYSINLMPSELFLKFRKEIEGFRVGVNLEFYN 47 (164)
Q Consensus 12 sw~ElY~inlmP~El~lKFRkevqG~rvG~NfEf~n 47 (164)
|+.=.+||++|| ++.++++|-..||++
T Consensus 70 tllIahNIDlap---------rip~l~~GD~V~f~G 96 (131)
T PF11948_consen 70 TLLIAHNIDLAP---------RIPWLQKGDQVEFYG 96 (131)
T ss_pred EEEEEeccCccc---------cCcCcCCCCEEEEEE
Confidence 344458999998 789999999999984
No 4
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=45.23 E-value=11 Score=23.72 Aligned_cols=37 Identities=27% Similarity=0.499 Sum_probs=25.4
Q ss_pred cchhhhhhhheeecceEEEeeeEEecCCCcceeeEEEeecCCCCCC
Q 031193 22 MPSELFLKFRKEIEGFRVGVNLEFYNAPVNEYQAKIILKPLSPNRP 67 (164)
Q Consensus 22 mP~El~lKFRkevqG~rvG~NfEf~n~~~nd~~aKlVlKPl~~~~k 67 (164)
+|++++.++ |++.|--+++. ..+=. +|+++|....+|
T Consensus 11 iPk~~~~~l-----~l~~Gd~v~i~---~~~~g-~i~i~p~~~~~~ 47 (47)
T PF04014_consen 11 IPKEIREKL-----GLKPGDEVEIE---VEGDG-KIVIRPVKRPPK 47 (47)
T ss_dssp E-HHHHHHT-----TSSTTTEEEEE---EETTS-EEEEEESTTT--
T ss_pred CCHHHHHHc-----CCCCCCEEEEE---EeCCC-EEEEEECCCCCC
Confidence 688887777 88888888887 22222 899999887654
No 5
>PF09175 DUF1944: Domain of unknown function (DUF1944); InterPro: IPR015258 Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved [, ]. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40). Vitellinogens are post-translationally glycosylated and phosphorylated in the endoplasmic reticulum and Golgi complex of hepatocytes, before being secreted into the circulatory system to be taken up by oocytes. In the ovary, vitellinogens bind to specific Vtgr receptors on oocyte membranes to become internalised by endocytosis, where they are cleaved into yolk proteins by cathepsin D. YGP40 is released into the yolk plasma before or during compartmentation of lipovitellin-phosvitin complex into the yolk granule. The different yolk proteins have distinct roles. Phosvitins are important in sequestering calcium, iron and other cations for the developing embryo. Phosvitins are one of the most phosphorylated (10%) proteins in nature, the high concentration of phosphate groups providing efficient metal-binding sites in clusters [, ]. Lipovitellins are involved in lipid and metal storage, and contain a heterogeneous mixture of about 16% (w/w) noncovalently bound lipid, most being phospholipid. Lipovitellin-1 contains two chains, LV1N and LV1C [, ]. This entry represents the beta-sheet shell domain found in vitellinogen, which generally corresponds to the lipovitellin-2 peptide product. This domain consists of several large open beta-sheets []. It is often found C-terminal to IPR001747 from INTERPRO and IPR015255 from INTERPRO. ; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_B.
Probab=41.93 E-value=38 Score=27.81 Aligned_cols=84 Identities=20% Similarity=0.349 Sum_probs=41.2
Q ss_pred eeecceEEEeeeEEecCCCcceeeEEEeecCCCCCCceEEEeecCCceeEEeecccceeeeeeeeecceeeeecccccee
Q 031193 32 KEIEGFRVGVNLEFYNAPVNEYQAKIILKPLSPNRPWKFIYEPIHQDVRILSKKIPVTKFLNLQVGIGHNFQLHATGWKW 111 (164)
Q Consensus 32 kevqG~rvG~NfEf~n~~~nd~~aKlVlKPl~~~~kWK~iyEP~~~DvrilsKKIPv~~fLnlQvGIGH~F~~~~tGWkW 111 (164)
+..||+|+.+=++-. ++- +.|++.-++++.+||.- -|--++|+-= ++ --++-|-+=|.-.+--
T Consensus 14 ~k~~GYQ~a~Y~d~~---~~r--vQlivs~l~e~~nWk~C-----aD~~~ls~hK-~~----A~l~WG~eCq~Y~~~~-- 76 (165)
T PF09175_consen 14 KKPQGYQLAAYYDKP---TSR--VQLIVSNLAENSNWKIC-----ADAVLLSKHK-AK----AKLAWGAECQQYKVSI-- 76 (165)
T ss_dssp ----EEEEEEEEE-T---TTS--EEEEEEES-TT---EEE-----EEEE--SSSE-EE----EEEEESSSS-SEEEEE--
T ss_pred CcceeeEEEEEEcCC---Cce--EEEEEEecCcCCCeEEE-----ehhhcccccc-eE----EEEecchhhhheeeee--
Confidence 678999999866544 444 99999999999999964 4777777643 21 2234443333211100
Q ss_pred eEeeeeccccccCcccceeeee
Q 031193 112 KLTTCLVEMEYPGSGIRHLWAC 133 (164)
Q Consensus 112 Kltt~lG~~ifPG~d~r~gW~a 133 (164)
+.+|-+= +-.|-+.+++.|.-
T Consensus 77 ~aeTG~~-g~~PA~r~kv~W~~ 97 (165)
T PF09175_consen 77 TAETGLL-GSKPAARLKVEWPR 97 (165)
T ss_dssp EEEEEES-SSSEEEEEEEEE--
T ss_pred eehhhcc-cCCcceEEEeeccc
Confidence 0122111 56788889999975
No 6
>PF05751 FixH: FixH; InterPro: IPR008620 This family consists of several Rhizobium FixH like proteins. It has been suggested that the four proteins FixG, FixH, FixI, and FixS may participate in a membrane-bound complex coupling the FixI cation pump with a redox process catalysed by FixG [].
Probab=34.11 E-value=86 Score=22.91 Aligned_cols=63 Identities=16% Similarity=0.369 Sum_probs=29.0
Q ss_pred hcccccchhhhhhhh----eeecceEEEeeeEEecCCCcceeeEEEeecCCC-----------CCCceEEE--eecCCce
Q 031193 17 YSINLMPSELFLKFR----KEIEGFRVGVNLEFYNAPVNEYQAKIILKPLSP-----------NRPWKFIY--EPIHQDV 79 (164)
Q Consensus 17 Y~inlmP~El~lKFR----kevqG~rvG~NfEf~n~~~nd~~aKlVlKPl~~-----------~~kWK~iy--EP~~~Dv 79 (164)
.++++.+..+.++|+ +.+++..+-+.| +.......--++.++|..+ .-+|.+.. ++.+++-
T Consensus 62 ~~~~~~~~~~~i~~~d~~g~~~~~~~~~l~l--~rp~~~~~D~~~~l~~~~~g~y~~~~~~~~~G~W~l~l~~~~~~~~~ 139 (146)
T PF05751_consen 62 AELTIDDNSLTIRLTDPNGAPVSGAKLTLSL--YRPTDAKLDFTLTLTESAPGVYRAPVPLLKKGRWYLRLDWEPGDKSW 139 (146)
T ss_pred ceeeecCCeEEEEEEcCCCCcCcCceEEEEE--ECCCCccCCeeEEeeECCCceEEEEcCCCCCccEEEEEEEecCCCeE
Confidence 344555566666662 234444444433 3333222223444443322 55666665 5555554
Q ss_pred eE
Q 031193 80 RI 81 (164)
Q Consensus 80 ri 81 (164)
|+
T Consensus 140 ~~ 141 (146)
T PF05751_consen 140 RL 141 (146)
T ss_pred EE
Confidence 43
No 7
>PF10974 DUF2804: Protein of unknown function (DUF2804); InterPro: IPR021243 This is a family of proteins with unknown function.
Probab=32.91 E-value=1e+02 Score=26.56 Aligned_cols=96 Identities=21% Similarity=0.261 Sum_probs=64.6
Q ss_pred cccccchhhhhhhheeecceEEEeeeEEecCCCcceeeEEEeecCCCCCCc----eEEEeecCCceeEEeecccce---e
Q 031193 18 SINLMPSELFLKFRKEIEGFRVGVNLEFYNAPVNEYQAKIILKPLSPNRPW----KFIYEPIHQDVRILSKKIPVT---K 90 (164)
Q Consensus 18 ~inlmP~El~lKFRkevqG~rvG~NfEf~n~~~nd~~aKlVlKPl~~~~kW----K~iyEP~~~DvrilsKKIPv~---~ 90 (164)
+|+..+...+|++.-...+=++-+++++.. ..+.+.=.|+.|.++.+ | |.-+-|.+|.|++=-+.+.+. .
T Consensus 115 ~~~~~~~~~~l~~~~~~~~~~l~~~~~l~~--~~~~e~L~vv~P~~~~~-f~yt~K~~~~pv~G~v~~g~~~~~~~~~~~ 191 (333)
T PF10974_consen 115 RFEREPGGRRLDVDLFGKGPGLEADLELDR--PPGHEPLNVVTPWGENR-FYYTQKQNGLPVSGSVRLGGKEYSFDPENA 191 (333)
T ss_pred EEEECCCeEEEEEEccCCCCCEEEEEEEeC--CCCCCCEEEEeecCCCC-EEEEEEecCcceEEEEEECCEEEecCCCCc
Confidence 344466666666532344555556666664 23334445666777666 6 888999999999999998877 6
Q ss_pred eeeeeeecceeeeeccccceeeEeeeec
Q 031193 91 FLNLQVGIGHNFQLHATGWKWKLTTCLV 118 (164)
Q Consensus 91 fLnlQvGIGH~F~~~~tGWkWKltt~lG 118 (164)
+-.|-.|=| +-...|-|+|---++.-
T Consensus 192 ~a~lD~~rG--~~~~~t~W~Was~sg~~ 217 (333)
T PF10974_consen 192 FAVLDWGRG--YWPRETFWNWASASGRL 217 (333)
T ss_pred EEEEEcCCC--ccCCcCeEEEEEEEEEC
Confidence 777776666 56777889997666553
No 8
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=32.40 E-value=9.2 Score=25.68 Aligned_cols=24 Identities=29% Similarity=0.587 Sum_probs=17.2
Q ss_pred ecCCceeEEeecccceeeeeeeee
Q 031193 74 PIHQDVRILSKKIPVTKFLNLQVG 97 (164)
Q Consensus 74 P~~~DvrilsKKIPv~~fLnlQvG 97 (164)
|..=++++-..++|+..+++||+|
T Consensus 9 ~v~l~~~l~~~~l~l~el~~L~~G 32 (77)
T PF01052_consen 9 PVELSVELGEASLTLGELLNLKVG 32 (77)
T ss_dssp EEEEEEEEEEEEEEHHHHHC--TT
T ss_pred eEEEEEEEEeeEeEHHHHhcCCCC
Confidence 344467888899999999999965
No 9
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=32.27 E-value=34 Score=24.31 Aligned_cols=47 Identities=28% Similarity=0.398 Sum_probs=37.0
Q ss_pred CCChhhhhcccccchhhhhhhheeecceEEEeeeEEecCCCcceeeEEEeecCCCC
Q 031193 10 PTSWDELYSINLMPSELFLKFRKEIEGFRVGVNLEFYNAPVNEYQAKIILKPLSPN 65 (164)
Q Consensus 10 p~sw~ElY~inlmP~El~lKFRkevqG~rvG~NfEf~n~~~nd~~aKlVlKPl~~~ 65 (164)
.++.++.|+| .+|+|++-+| |++.|=-+|++ .++...+++++|..+.
T Consensus 7 ~~kV~~~GqI-vIPkeiR~~l-----gi~~Gd~lei~---~~~~~~~ivl~k~~~~ 53 (89)
T COG2002 7 VVKVDRKGQI-VIPKEIREAL-----GIKEGDVLEII---VDGDGGRIVLKKYKPA 53 (89)
T ss_pred EEEECcCceE-EecHHHHHHh-----CCCCCCEEEEE---EeCCCCEEEEEECCcc
Confidence 4567778887 5799998776 89999999999 5554556999999874
No 10
>PF05275 CopB: Copper resistance protein B precursor (CopB); InterPro: IPR007939 This family consists of several bacterial copper resistance proteins. Copper is essential and serves as a cofactor for more than 30 enzymes yet a surplus of copper is toxic and leads to free radical formation and oxidation of biomolecules. Therefore, copper homeostasis is a key requisite for every organism. CopB serves to extrude copper when it approaches toxic levels [] and has been shown to act as an ATPase (3.6.1.3 from EC).; GO: 0005507 copper ion binding, 0006878 cellular copper ion homeostasis, 0009279 cell outer membrane
Probab=31.83 E-value=24 Score=29.69 Aligned_cols=31 Identities=16% Similarity=0.401 Sum_probs=23.8
Q ss_pred ecCCceeEEeecccceeeeeeeeecceeeeec
Q 031193 74 PIHQDVRILSKKIPVTKFLNLQVGIGHNFQLH 105 (164)
Q Consensus 74 P~~~DvrilsKKIPv~~fLnlQvGIGH~F~~~ 105 (164)
-++.|+++|=-+ +|.+|.++|+||.|+|...
T Consensus 52 ~e~~e~q~lysr-~is~fwd~q~GvR~d~~~~ 82 (210)
T PF05275_consen 52 IEEAEIQALYSR-AISPFWDVQAGVRYDFRPG 82 (210)
T ss_pred cchheeeeeccc-ccCccceEEEEeEeecCCC
Confidence 345567766433 6789999999999998876
No 11
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=27.12 E-value=60 Score=24.81 Aligned_cols=29 Identities=24% Similarity=0.472 Sum_probs=21.2
Q ss_pred CCCc-eEEEeecCCc----eeEEe--ecccceeeee
Q 031193 65 NRPW-KFIYEPIHQD----VRILS--KKIPVTKFLN 93 (164)
Q Consensus 65 ~~kW-K~iyEP~~~D----vrils--KKIPv~~fLn 93 (164)
++.| ++.+++..++ +.+-+ |++.||+|||
T Consensus 90 ~~~w~rv~~~~~~~~~~~~l~L~~~g~~veiG~fL~ 125 (140)
T PF10003_consen 90 NPYWVRVELEEDPGPGPPRLTLRSRGREVEIGRFLN 125 (140)
T ss_pred cCCeEEEEEEcCCCCCCcEEEEEECCEEEEEccCCC
Confidence 5677 7788877666 55554 6788899887
No 12
>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants. It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.
Probab=24.67 E-value=67 Score=21.61 Aligned_cols=20 Identities=20% Similarity=0.434 Sum_probs=17.0
Q ss_pred cceeeEEEeecCCCCCCceEE
Q 031193 51 NEYQAKIILKPLSPNRPWKFI 71 (164)
Q Consensus 51 nd~~aKlVlKPl~~~~kWK~i 71 (164)
-+|.|+|+++-.. +.+|.+.
T Consensus 60 tgC~a~i~v~~~~-~~~w~v~ 79 (91)
T PF03101_consen 60 TGCKARINVKRRK-DGKWRVT 79 (91)
T ss_pred cCCCEEEEEEEcc-CCEEEEE
Confidence 5899999999887 8999763
No 13
>TIGR01782 TonB-Xanth-Caul TonB-dependent receptor. This model represents a family of TonB-dependent outer-membrane receptors which are found mainly in Xanthomonas and Caulobacter. These appear to represent the expansion of a paralogous family in that the 22 X. axonopodis (21 in X. campestris) and 18 C. crescentus sequences are more closely related to each other than any of the many TonB-dependent receptors found in other species. In fact, the Crescentus and Xanthomonas sequences are inseparable on a phylogenetic tree using a PAM-weighted neighbor-joining method, indicating that one of the two genuses may have acquired this set of receptors from the other. The mechanism by which this family is shared between Xanthomonas, a gamma proteobacterial plant pathogen and Caulobacter, an alpha proteobacterial aquatic organism is unclear.
Probab=22.63 E-value=2.2e+02 Score=26.69 Aligned_cols=83 Identities=11% Similarity=-0.009 Sum_probs=52.5
Q ss_pred eeecceEEE------eeeEEecCCCcceeeEEEeecCCCCCCceEEEeecCCceeEEeecccce---eeeeeeeecceee
Q 031193 32 KEIEGFRVG------VNLEFYNAPVNEYQAKIILKPLSPNRPWKFIYEPIHQDVRILSKKIPVT---KFLNLQVGIGHNF 102 (164)
Q Consensus 32 kevqG~rvG------~NfEf~n~~~nd~~aKlVlKPl~~~~kWK~iyEP~~~DvrilsKKIPv~---~fLnlQvGIGH~F 102 (164)
-.+.|+++. -.+.|..+|++..+.=-|+|-.++.- .-.-+-+=|.|.||| |.. ..+++.++.+++-
T Consensus 77 ~~~nG~~~~~~~~~~~~~~~~~~~~~~i~~v~V~k~~~~~~----~~~~~gG~vn~~tk~-~~~~~~~~~~~~~~~~~~~ 151 (845)
T TIGR01782 77 TTLNGRTIASTDSGGRAFSLDLLPSELVSGVEVYKTPTADM----DEGGIGGTVDLRTRS-PFDYDGRTLSGSAQGGYND 151 (845)
T ss_pred EEECCEEccccCCCCcceecccCCHHHhceeEEEeCCCccC----cCCcceEEEEEEECC-CCCCCCCEEEEEEEeeecc
Confidence 346777763 45677888999888888999777753 223567889999999 432 4566666666654
Q ss_pred eeccccceeeEeeeecc
Q 031193 103 QLHATGWKWKLTTCLVE 119 (164)
Q Consensus 103 ~~~~tGWkWKltt~lG~ 119 (164)
.........+++-.+|.
T Consensus 152 ~~~~~~~~~~~~~~~~~ 168 (845)
T TIGR01782 152 LAGKDKPGPRGAASYSW 168 (845)
T ss_pred ccccCCCCceEEEEEEe
Confidence 43311344444444444
No 14
>PRK08577 hypothetical protein; Provisional
Probab=20.09 E-value=86 Score=23.37 Aligned_cols=39 Identities=21% Similarity=0.357 Sum_probs=30.2
Q ss_pred ccchhhhhhhheeecceEEEeeeEEecCCCcceeeEEEeecCCCCCC
Q 031193 21 LMPSELFLKFRKEIEGFRVGVNLEFYNAPVNEYQAKIILKPLSPNRP 67 (164)
Q Consensus 21 lmP~El~lKFRkevqG~rvG~NfEf~n~~~nd~~aKlVlKPl~~~~k 67 (164)
..|+|++=++ |++-|..++|+ +++-.-++++.|...+++
T Consensus 16 ~ip~~~r~~l-----~~~~g~~~~~~---~~~~~~~~~~~~~~~~~k 54 (136)
T PRK08577 16 TIPLEIREAL-----GIREGMYVLLI---ADTDKKEIHLEPIALPGK 54 (136)
T ss_pred EecHHHHHHc-----CcCCCCEEEEE---EECCCCEEEEEEcCCCCc
Confidence 3588876555 88899999998 666667888999877654
Done!