Query 031248
Match_columns 163
No_of_seqs 120 out of 152
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 11:24:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031248.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031248hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09348 DUF1990: Domain of un 100.0 5.2E-46 1.1E-50 295.3 13.8 116 30-162 1-117 (158)
2 COG4762 Uncharacterized protei 100.0 5.7E-37 1.2E-41 242.2 11.4 118 26-162 8-125 (168)
3 TIGR02266 gmx_TIGR02266 Myxoco 90.1 0.78 1.7E-05 32.0 4.9 63 61-129 5-69 (96)
4 PF07238 PilZ: PilZ domain; I 71.2 19 0.0004 24.2 5.8 41 89-129 35-76 (102)
5 PF15525 DUF4652: Domain of un 53.6 12 0.00027 31.3 2.7 38 117-162 112-149 (200)
6 smart00783 A_amylase_inhib Alp 44.6 16 0.00035 25.7 1.7 26 117-150 39-64 (69)
7 PF01356 A_amylase_inhib: Alph 43.5 16 0.00034 25.7 1.5 37 103-150 27-63 (68)
8 PF07357 DRAT: Dinitrogenase r 31.5 36 0.00079 29.6 2.2 24 136-159 229-252 (262)
9 PF10989 DUF2808: Protein of u 28.6 73 0.0016 24.5 3.3 36 81-121 82-117 (146)
10 COG0810 TonB Periplasmic prote 25.6 75 0.0016 26.4 3.1 33 54-87 190-223 (244)
11 PF00855 PWWP: PWWP domain; I 25.2 1.1E+02 0.0024 20.6 3.4 27 100-129 2-28 (86)
12 PF13554 DUF4128: Bacteriophag 22.4 2.4E+02 0.0051 21.3 5.1 68 52-124 56-127 (127)
13 COG3450 Predicted enzyme of th 21.7 94 0.002 23.8 2.7 29 99-127 86-115 (116)
14 KOG2900 Biotin synthase [Coenz 21.6 59 0.0013 28.9 1.8 16 136-151 244-261 (380)
15 KOG3818 DNA polymerase epsilon 21.6 48 0.001 31.3 1.3 16 114-129 395-410 (525)
16 TIGR01352 tonB_Cterm TonB fami 21.2 1.7E+02 0.0036 18.8 3.6 32 53-85 19-51 (74)
17 PRK15095 FKBP-type peptidyl-pr 20.6 2.7E+02 0.0059 21.7 5.2 47 99-160 93-140 (156)
No 1
>PF09348 DUF1990: Domain of unknown function (DUF1990); InterPro: IPR018960 This entry represents proteins that are functionally uncharacterised.
Probab=100.00 E-value=5.2e-46 Score=295.30 Aligned_cols=116 Identities=27% Similarity=0.385 Sum_probs=110.3
Q ss_pred CCCCCCCCccCCCcccccccCCCCCCCceeeeeEEEecCCHHHHHHHHHHHhcccccccceeEe-cCCCCCcCCcEEEEE
Q 031248 30 NYDTKYKGATAKPVACLKEDQGLSKDGFLLNHARVLVGSGLETYEKGKTALKTWRHFGLNWAFV-DPKTPIQNGVKFCVC 108 (163)
Q Consensus 30 tY~~~~vGAT~~~~~~~~~~~~~~p~Gy~~~~~r~~lG~G~~~F~~A~~AL~~W~~~r~~g~~V-~~~~pv~~G~~V~v~ 108 (163)
||++ ||||+.. .+|+||+|++++++||+|+++|++|++||++|+||+++|++| .+++|+++|++|+++
T Consensus 1 tY~e--vgat~~~---------~~p~Gy~~~~~~~~lG~G~~~f~~A~~al~~W~~~~~~g~~v~~~~~~~~~G~~v~l~ 69 (158)
T PF09348_consen 1 TYPE--VGATRQG---------ELPAGYRHVRRRVRLGSGEAVFERAAAALLSWRMHRRAGVRVRASDPPAAPGRTVVLR 69 (158)
T ss_pred Cccc--ccccCCC---------CCCCCceEEEEEEEccCCchHHHHHHHHHhccCCCCCcEEEEECCCCccCCCCEEEEE
Confidence 8999 9999853 369999999999999999999999999999999999999999 566679999999999
Q ss_pred eecccceeecceEEEEEeecccccCCcceeEEecccCCCCccCceeeEEEEecC
Q 031248 109 VKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLVSTCLHIIIVNS 162 (163)
Q Consensus 109 ~~~~~~~~~~PcRVVyv~dep~~~~~~~r~GFaYGTLpGHpe~GEE~F~v~~~~ 162 (163)
++++++|+.+|||||||+||| +++||+|||||||||+|||+|.|+.|.
T Consensus 70 ~~~~~~~~~~p~RVv~v~de~------~r~GF~ygTL~GHpe~GEE~F~V~~~~ 117 (158)
T PF09348_consen 70 AGVGPLWIRAPCRVVYVVDEP------DRFGFAYGTLPGHPERGEERFSVERDD 117 (158)
T ss_pred eeccceEEEeeEEEEEEEcCC------ceEEEEEEeCCCChhhcEEEEEEEECC
Confidence 999999999999999999999 999999999999999999999999963
No 2
>COG4762 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=5.7e-37 Score=242.17 Aligned_cols=118 Identities=22% Similarity=0.320 Sum_probs=107.3
Q ss_pred cCCCCCCCCCCCccCCCcccccccCCCCCCCceeeeeEEEecCCHHHHHHHHHHHhcccccccceeEecCCCCCcCCcEE
Q 031248 26 SGVFNYDTKYKGATAKPVACLKEDQGLSKDGFLLNHARVLVGSGLETYEKGKTALKTWRHFGLNWAFVDPKTPIQNGVKF 105 (163)
Q Consensus 26 ~~~~tY~~~~vGAT~~~~~~~~~~~~~~p~Gy~~~~~r~~lG~G~~~F~~A~~AL~~W~~~r~~g~~V~~~~pv~~G~~V 105 (163)
..+++||| +|+|.. +..|+||+|.+++.+||.|++||++|++||++|+|||.+|++|..+.+..+++++
T Consensus 8 e~~~~~~e--~g~s~~---------gr~p~g~~~~~~~l~lG~GeacfenA~~aL~sw~~hr~aglrvh~s~s~vv~~~~ 76 (168)
T COG4762 8 ELPLTYPE--VGASAT---------GRLPAGYNHLDVSLQLGTGEACFENAADALMSWGMHRNAGLRVHASSSTVVLVSA 76 (168)
T ss_pred hcCCCccc--cccccc---------CcCCccccceeEEEEecccHHHHHHHHHHHhcccccccccEEeeccCCceeeeee
Confidence 56789999 999964 3599999999999999999999999999999999999999999998887787666
Q ss_pred EEEeecccceeecceEEEEEeecccccCCcceeEEecccCCCCccCceeeEEEEecC
Q 031248 106 CVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLVSTCLHIIIVNS 162 (163)
Q Consensus 106 ~v~~~~~~~~~~~PcRVVyv~dep~~~~~~~r~GFaYGTLpGHpe~GEE~F~v~~~~ 162 (163)
++..| +..+++||||+|++||| ++.||+|||||||+++|||+|.|++|.
T Consensus 77 vllvg--~w~~r~~cRVL~l~d~~------~~~gf~yGTL~ghv~rgeErflierda 125 (168)
T COG4762 77 VLLVG--IWFLRAPCRVLYLIDEP------DVRGFGYGTLPGHVVRGEERFLIERDA 125 (168)
T ss_pred eeeee--eeeeecccEEEEEecCC------ceeEEeecccCCccccchhheeEEecC
Confidence 66553 33388999999999999 999999999999999999999999985
No 3
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=90.10 E-value=0.78 Score=32.01 Aligned_cols=63 Identities=13% Similarity=0.086 Sum_probs=44.3
Q ss_pred eeEEEecCCHHHHHHHHHHHhcccccccceeEecCCCCCcCCcEEEEEeeccc--ceeecceEEEEEeecc
Q 031248 61 HARVLVGSGLETYEKGKTALKTWRHFGLNWAFVDPKTPIQNGVKFCVCVKEFL--PWVTLPLQIVYVNESI 129 (163)
Q Consensus 61 ~~r~~lG~G~~~F~~A~~AL~~W~~~r~~g~~V~~~~pv~~G~~V~v~~~~~~--~~~~~PcRVVyv~dep 129 (163)
+.++.+.++...|+--..- .-.+|+.+..+.+..+|+.|.+.+.... -.+...++|||+.+..
T Consensus 5 ~~~~~~~~~~~~~~~~~~d------iS~gG~~~~~~~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~~ 69 (96)
T TIGR02266 5 RLKVDFRTDSEFLRDYSIN------LSKGGLFIRTRKPLAVGTRVELKLTLPGGERPVELKGVVAWVRPAA 69 (96)
T ss_pred EEEEEECChhhHHHHHhhh------cCCceEEEecCCCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCCC
Confidence 4566777766555322211 2347899988888999999999886543 3477899999999755
No 4
>PF07238 PilZ: PilZ domain; InterPro: IPR009875 The ubiquitous bacterial second messenger cyclic-di-GMP (c-di-GMP) is associated with the regulation of biofilm formation, the control of exopolysaccharide synthesis, flagellar- and pili-based motility, gene expression, interactions of bacteria with eukaryotic hosts and multicellular behaviour in diverse bacteria. With the exception of bacterial cellulose synthases, the identities of c-di-GMP receptors and end targets of the proteins having one or more PilZ domains are mostly uncharacterised. However it was suggested that the PilZ domains present in the BcsA subunits of bacterial cellulose synthases function in c-di-GMP binding []. More recently YcgR (see IPR023787 from INTERPRO) was found to bind c-di-GMP tightly and specifically; also isolated PilZ domains from YcgR and BcsA bound c-di-GMP indicating that the PilZ domain was sufficient for binding of c-di-GMP and significantly that site-directed mutagenesis performed on YcgR implicated the most conserved residues in the PilZ domain directly in c-di-GMP binding []. It was suggested that c-di-GMP binding to PilZ brings about conformational changes in the protein that stabilise the bound ligand and probability initiates the downstream signal transduction cascade. In the case of YcgR, c-di-GMP binding regulates flagellum-based motility in a c-di-GMP-dependent manner (see IPR023787 from INTERPRO) []. The association of the PilZ domain with a variety of other domains, including likely components of bacterial multidrug secretion system, could provide clues to multiple functions of the c-di-GMP in bacterial pathogenesis and cell development. Binding and mutagenesis studies of several PilZ domain proteins have confirmed this observation and demonstrated that c-di-GMP binding depends on residues in RxxxR and D/NxSxxG sequence motifs. The crystal structure, at 1.7 A, of a PilZ domain::c-di-GMP complex from Vibrio cholerae shows c-di-GMP contacting seven of nine strongly conserved residues. Binding of c-di-GMP causes a conformational switch whereby the C- and N-terminal domains are brought into close opposition forming a new allosteric interaction surface that spans these domains and the c-di-GMP at their interface []. ; GO: 0035438 cyclic-di-GMP binding; PDB: 2RDE_B 1YLN_A 3KYG_A 3DSG_B 2GJG_A 3KYF_A 1YWU_A 2L74_A 2L1T_A 3CNR_A ....
Probab=71.20 E-value=19 Score=24.17 Aligned_cols=41 Identities=7% Similarity=0.026 Sum_probs=29.6
Q ss_pred ceeEecCCCCCcCCcEEEEEeecccceee-cceEEEEEeecc
Q 031248 89 NWAFVDPKTPIQNGVKFCVCVKEFLPWVT-LPLQIVYVNESI 129 (163)
Q Consensus 89 ~g~~V~~~~pv~~G~~V~v~~~~~~~~~~-~PcRVVyv~dep 129 (163)
+|+.+..+.+..+|+.|.+.+........ ..++|+++....
T Consensus 35 ~G~~~~~~~~~~~~~~v~l~~~~~~~~~~~~~~~V~~~~~~~ 76 (102)
T PF07238_consen 35 GGCAFRSPKPLEPGDRVRLSFSLPGGGFPIVTGRVVRIQKDS 76 (102)
T ss_dssp SEEEEEECTG--TTSEEEEEEECTTTSCEEEEEEEEEEEEES
T ss_pred cceEEEECCCCCCCCEEEEEEEeCCCCeeEEEEEEEEEECCC
Confidence 67877766689999988888865544333 899999999863
No 5
>PF15525 DUF4652: Domain of unknown function (DUF4652)
Probab=53.62 E-value=12 Score=31.27 Aligned_cols=38 Identities=21% Similarity=0.306 Sum_probs=29.3
Q ss_pred ecceEEEEEeecccccCCcceeEEecccCCCCccCceeeEEEEecC
Q 031248 117 TLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLVSTCLHIIIVNS 162 (163)
Q Consensus 117 ~~PcRVVyv~dep~~~~~~~r~GFaYGTLpGHpe~GEE~F~v~~~~ 162 (163)
..|=+|+|+.|.- -.--+||+|||++ .|=+.|++.+++
T Consensus 112 ~sPK~i~WiDD~~----L~vIIG~a~GTvS----~GGnLy~~nl~t 149 (200)
T PF15525_consen 112 YSPKYIEWIDDNN----LAVIIGYAHGTVS----KGGNLYKYNLNT 149 (200)
T ss_pred cCCceeEEecCCc----EEEEEccccceEc----cCCeEEEEEccC
Confidence 4688999999865 3357899999996 577888887653
No 6
>smart00783 A_amylase_inhib Alpha amylase inhibitor. Alpha amylase inhibitor inhibits mammalian alpha-amylases specifically, by forming a tight stoichiometric 1:1 complex with alpha-amylase. The inhibitor has no action on plant and microbial alpha amylases.
Probab=44.60 E-value=16 Score=25.68 Aligned_cols=26 Identities=31% Similarity=0.431 Sum_probs=19.2
Q ss_pred ecceEEEEEeecccccCCcceeEEecccCCCCcc
Q 031248 117 TLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLL 150 (163)
Q Consensus 117 ~~PcRVVyv~dep~~~~~~~r~GFaYGTLpGHpe 150 (163)
..|||++ +| ++..-|+ +|||=.+|++
T Consensus 39 ~~pCr~~----~P---G~~~Tf~-GYgt~gn~v~ 64 (69)
T smart00783 39 WGPCRTA----AP---GDITTFG-GYGTNGNHVL 64 (69)
T ss_pred cceeEee----CC---CCEEEec-ccccCCCcee
Confidence 5699987 33 2345788 9999999875
No 7
>PF01356 A_amylase_inhib: Alpha amylase inhibitor; InterPro: IPR000833 Alpha-amylase inhibitor inhibits mammalian alpha-amylases specifically, by forming a tight stoichiometric 1:1 complex with alpha-amylase. The inhibitor has no action on plant and microbial alpha amylases. A crystal structure has been determined for tendamistat, the 74-amino acid inhibitor produced by Streptomyces tendae that targets a wide range of mammalian alpha-amylases []. The binding of tendamistat to alpha-amylase leads to the steric blockage of the active site of the enzyme. The crystal structure of tendamistat revealed an immunoglobulin-like fold that could potentially adopt multiple conformations. Such molecular flexibility could enable an induced-fit type of binding that would both optimise binding and allow broad target specificity. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0015066 alpha-amylase inhibitor activity; PDB: 2KER_A 3AIT_A 1BVN_T 1HOE_A 4AIT_A 2AIT_A 1OK0_A.
Probab=43.51 E-value=16 Score=25.73 Aligned_cols=37 Identities=24% Similarity=0.299 Sum_probs=21.2
Q ss_pred cEEEEEeecccceeecceEEEEEeecccccCCcceeEEecccCCCCcc
Q 031248 103 VKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLL 150 (163)
Q Consensus 103 ~~V~v~~~~~~~~~~~PcRVVyv~dep~~~~~~~r~GFaYGTLpGHpe 150 (163)
..|.|...-+ -..||||+ +| ++..-|+ +|||=.+|+.
T Consensus 27 vsVtV~Y~dG---~~~PCrv~----~P---G~~~Tf~-Gygt~gn~v~ 63 (68)
T PF01356_consen 27 VSVTVEYTDG---QEVPCRVI----PP---GDIATFP-GYGTNGNYVL 63 (68)
T ss_dssp EEEEEEETTS----CEEEEEE-----T---TEEEEEE--TTTTTBSEE
T ss_pred EEEEEEEeCC---CcceeEEe----CC---CCEEEec-ccccCCCeEe
Confidence 3455544332 35799998 33 1224666 8999888864
No 8
>PF07357 DRAT: Dinitrogenase reductase ADP-ribosyltransferase (DRAT); InterPro: IPR009953 This family consists of several bacterial dinitrogenase reductase ADP-ribosyltransferase (DRAT) proteins. Members of this family seem to be specific to Rhodospirillum, Rhodobacter and Azospirillum species. Dinitrogenase reductase ADP-ribosyl transferase (DRAT) carries out the transfer of the ADP-ribose from NAD to the Arg-101 residue of one subunit of the dinitrogenase reductase homodimer, resulting in inactivation of that enzyme. Dinitrogenase reductase-activating glycohydrolase (DRAG) removes the ADP-ribose group attached to dinitrogenase reductase, thus restoring nitrogenase activity. The DRAT-DRAG system negatively regulates nitrogenase activity in response to exogenous NH4+ or energy limitation in the form of a shift to darkness or to anaerobic conditions [].
Probab=31.47 E-value=36 Score=29.63 Aligned_cols=24 Identities=29% Similarity=0.343 Sum_probs=21.0
Q ss_pred ceeEEecccCCCCccCceeeEEEE
Q 031248 136 ASFGFGSGTLQGHLLVSTCLHIII 159 (163)
Q Consensus 136 ~r~GFaYGTLpGHpe~GEE~F~v~ 159 (163)
...=|--+=||+|++.||.-|+|+
T Consensus 229 ~Ki~ff~~LLp~~~L~GE~EyLVI 252 (262)
T PF07357_consen 229 SKIFFFNGLLPGHPLKGEGEYLVI 252 (262)
T ss_pred eEEEEecccCCccccCCCceEEEE
Confidence 456688889999999999999986
No 9
>PF10989 DUF2808: Protein of unknown function (DUF2808); InterPro: IPR021256 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=28.58 E-value=73 Score=24.55 Aligned_cols=36 Identities=19% Similarity=0.257 Sum_probs=26.0
Q ss_pred hcccccccceeEecCCCCCcCCcEEEEEeecccceeecceE
Q 031248 81 KTWRHFGLNWAFVDPKTPIQNGVKFCVCVKEFLPWVTLPLQ 121 (163)
Q Consensus 81 ~~W~~~r~~g~~V~~~~pv~~G~~V~v~~~~~~~~~~~PcR 121 (163)
-.|.-... -+.|..+.||.||++|.|.++ .+.||-.
T Consensus 82 v~~~~~~~-~i~I~f~~PV~pG~tv~V~l~----~v~NP~~ 117 (146)
T PF10989_consen 82 VEWDEDGR-TITITFDEPVPPGTTVTVVLS----PVRNPRS 117 (146)
T ss_pred EEEcCCCC-EEEEEeCCCCCCCCEEEEEEE----eeeCCCC
Confidence 36766543 478889999999999999874 2456644
No 10
>COG0810 TonB Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]
Probab=25.56 E-value=75 Score=26.37 Aligned_cols=33 Identities=30% Similarity=0.550 Sum_probs=26.7
Q ss_pred CCCceeeeeEEEecCCHHHHHH-HHHHHhcccccc
Q 031248 54 KDGFLLNHARVLVGSGLETYEK-GKTALKTWRHFG 87 (163)
Q Consensus 54 p~Gy~~~~~r~~lG~G~~~F~~-A~~AL~~W~~~r 87 (163)
++|. +...++.-.+|...|++ |.+++.+|+..-
T Consensus 190 ~~G~-v~~v~v~~SSg~~~lD~aal~air~~~~~p 223 (244)
T COG0810 190 PDGN-VTNVRVLKSSGSPALDRAALEAIRKWRFKP 223 (244)
T ss_pred CCCC-EeeeEEeecCCcHHHHHHHHHHHHHhccCC
Confidence 3443 78899999999999999 568899998753
No 11
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=25.18 E-value=1.1e+02 Score=20.61 Aligned_cols=27 Identities=19% Similarity=0.314 Sum_probs=20.0
Q ss_pred cCCcEEEEEeecccceeecceEEEEEeecc
Q 031248 100 QNGVKFCVCVKEFLPWVTLPLQIVYVNESI 129 (163)
Q Consensus 100 ~~G~~V~v~~~~~~~~~~~PcRVVyv~dep 129 (163)
++|+.|-..++-.|.| ||+|+...+.+
T Consensus 2 ~~GdlVWaK~~g~pwW---Pa~V~~~~~~~ 28 (86)
T PF00855_consen 2 RPGDLVWAKLKGYPWW---PARVCDPDEKS 28 (86)
T ss_dssp STTEEEEEEETTSEEE---EEEEEECCHCT
T ss_pred CCCCEEEEEeCCCCCC---ceEEeeccccc
Confidence 5788888877766655 99999876543
No 12
>PF13554 DUF4128: Bacteriophage related domain of unknown function; PDB: 2L25_A.
Probab=22.44 E-value=2.4e+02 Score=21.27 Aligned_cols=68 Identities=21% Similarity=0.170 Sum_probs=33.4
Q ss_pred CCCCCceeeeeEEEecCCHHHHHHHHHHH---hc-ccccccceeEecCCCCCcCCcEEEEEeecccceeecceEEEE
Q 031248 52 LSKDGFLLNHARVLVGSGLETYEKGKTAL---KT-WRHFGLNWAFVDPKTPIQNGVKFCVCVKEFLPWVTLPLQIVY 124 (163)
Q Consensus 52 ~~p~Gy~~~~~r~~lG~G~~~F~~A~~AL---~~-W~~~r~~g~~V~~~~pv~~G~~V~v~~~~~~~~~~~PcRVVy 124 (163)
....|.....--...|+|...-++-++.| +. |.....+++.|.-..|..+|..+ ...-|...|.+|=|
T Consensus 56 ~~~~Gv~qi~v~~p~G~G~~~~~~iAd~l~~~F~~g~~l~~~~~~v~v~~~p~v~~~~-----~~~~~~~vPVsi~y 127 (127)
T PF13554_consen 56 RRYTGVFQINVFVPAGQGTAAAEEIADELAAHFEAGTRLTRGGFTVYVSSPPSVGPPI-----TDDTWYTVPVSIPY 127 (127)
T ss_dssp ----EEEEEEEEEE-SSS--THHHHHHHHHHH--TT--EE-SSSEEE--S--B------------SSEEEEEEEEEE
T ss_pred cEEEEEEEEEEEeeCCCCchHHHHHHHHHHHHhhccCeeccCCEEEEEcCCCccCCcc-----cCCCeEEEEEEecC
Confidence 45667777888888999987666655444 33 77888888888766665655544 33447788888765
No 13
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=21.72 E-value=94 Score=23.77 Aligned_cols=29 Identities=21% Similarity=0.245 Sum_probs=26.0
Q ss_pred CcCCcEEEEEeecccce-eecceEEEEEee
Q 031248 99 IQNGVKFCVCVKEFLPW-VTLPLQIVYVNE 127 (163)
Q Consensus 99 v~~G~~V~v~~~~~~~~-~~~PcRVVyv~d 127 (163)
+++|+.+.+..+.-+.| +..++|=+|+..
T Consensus 86 ~~aGD~~~~~~G~~g~W~V~EtvrK~Yv~~ 115 (116)
T COG3450 86 VRAGDSFVFPAGFKGTWEVLETVRKHYVIR 115 (116)
T ss_pred EcCCCEEEECCCCeEEEEEeeeeEEEEEEe
Confidence 77999999999988888 899999999874
No 14
>KOG2900 consensus Biotin synthase [Coenzyme transport and metabolism]
Probab=21.64 E-value=59 Score=28.94 Aligned_cols=16 Identities=19% Similarity=0.175 Sum_probs=14.5
Q ss_pred ceeEEec--ccCCCCccC
Q 031248 136 ASFGFGS--GTLQGHLLV 151 (163)
Q Consensus 136 ~r~GFaY--GTLpGHpe~ 151 (163)
||+||-| -|+|-|||+
T Consensus 244 DriGlihtLatmp~HPES 261 (380)
T KOG2900|consen 244 DRIGLIHTLATMPPHPES 261 (380)
T ss_pred ceeeeeeeeccCCCCCcc
Confidence 8999987 699999997
No 15
>KOG3818 consensus DNA polymerase epsilon, subunit B [Replication, recombination and repair]
Probab=21.58 E-value=48 Score=31.31 Aligned_cols=16 Identities=25% Similarity=0.524 Sum_probs=13.5
Q ss_pred ceeecceEEEEEeecc
Q 031248 114 PWVTLPLQIVYVNESI 129 (163)
Q Consensus 114 ~~~~~PcRVVyv~dep 129 (163)
.|..|||||.|.-.|-
T Consensus 395 vfasNPcRIqy~sQEI 410 (525)
T KOG3818|consen 395 VFASNPCRIQYCSQEI 410 (525)
T ss_pred eeccCCeeeEeecceE
Confidence 5789999999988764
No 16
>TIGR01352 tonB_Cterm TonB family C-terminal domain. This model represents the C-terminal of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to help span the periplasm.
Probab=21.19 E-value=1.7e+02 Score=18.77 Aligned_cols=32 Identities=28% Similarity=0.397 Sum_probs=21.1
Q ss_pred CCCCceeeeeEEEecCCHHHHHH-HHHHHhcccc
Q 031248 53 SKDGFLLNHARVLVGSGLETYEK-GKTALKTWRH 85 (163)
Q Consensus 53 ~p~Gy~~~~~r~~lG~G~~~F~~-A~~AL~~W~~ 85 (163)
.++| .+...++.=++|...|++ |.+|+..|+.
T Consensus 19 ~~~G-~v~~~~i~~ssg~~~ld~~a~~av~~~~~ 51 (74)
T TIGR01352 19 DADG-RVTSVSVLKSSGDEALDRAALEAVRKARF 51 (74)
T ss_pred CCCC-CEEEEEEEEcCCChhHHHHHHHHHHhCCC
Confidence 4555 334555655778888886 6677888864
No 17
>PRK15095 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=20.61 E-value=2.7e+02 Score=21.74 Aligned_cols=47 Identities=19% Similarity=0.164 Sum_probs=31.7
Q ss_pred CcCCcEEEEEeecccceeecceEEEEEeecccccCCcceeEEecccCCCCccCceee-EEEEe
Q 031248 99 IQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLVSTCL-HIIIV 160 (163)
Q Consensus 99 v~~G~~V~v~~~~~~~~~~~PcRVVyv~dep~~~~~~~r~GFaYGTLpGHpe~GEE~-F~v~~ 160 (163)
.++|..+.+....| -..|.+|+.+.++. -.+-| -||++|.+. |.|++
T Consensus 93 ~~~G~~~~~~~~~G---~~~~~~V~~i~~~~------v~vD~------NHPLAGk~L~f~v~i 140 (156)
T PRK15095 93 PEIGAIMLFTAMDG---SEMPGVIREINGDS------ITVDF------NHPLAGQTVHFDIEV 140 (156)
T ss_pred CCCCCEEEEECCCC---CEEEEEEEEEcCCE------EEEEC------CCcCCCCEEEEEEEE
Confidence 57888766543222 24588999988865 55555 699999875 55654
Done!