Query 032499
Match_columns 139
No_of_seqs 27 out of 29
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 14:52:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032499.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032499hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd02861 E_set_proteins_like E 86.7 4.9 0.00011 27.0 6.8 68 26-125 13-81 (82)
2 TIGR01981 sufD FeS assembly pr 65.6 13 0.00028 31.8 4.9 96 37-132 44-176 (366)
3 smart00089 PKD Repeats in poly 50.4 61 0.0013 20.6 5.1 28 40-67 36-65 (79)
4 PF14321 DUF4382: Domain of un 49.4 55 0.0012 24.1 5.3 24 18-41 59-83 (139)
5 PF10162 G8: G8 domain; Inter 48.4 39 0.00085 24.8 4.3 29 97-125 34-64 (125)
6 PF14352 DUF4402: Domain of un 43.9 1.2E+02 0.0026 21.8 8.1 60 56-117 46-121 (130)
7 PF03100 CcmE: CcmE; InterPro 41.2 1.5E+02 0.0032 22.1 6.8 64 54-127 59-127 (131)
8 PF01331 mRNA_cap_enzyme: mRNA 40.8 37 0.0008 25.9 3.3 15 96-110 68-82 (192)
9 TIGR03503 conserved hypothetic 39.6 1.2E+02 0.0025 27.4 6.6 41 53-93 180-220 (374)
10 PRK13285 flagellar assembly pr 37.5 97 0.0021 23.9 5.2 73 48-129 55-138 (148)
11 PF05270 AbfB: Alpha-L-arabino 36.7 31 0.00067 26.8 2.3 27 36-62 37-67 (142)
12 COG4452 CreD Inner membrane pr 36.1 25 0.00054 32.6 2.0 53 4-59 118-175 (443)
13 smart00159 PTX Pentraxin / C-r 34.3 2.2E+02 0.0048 22.1 7.9 72 43-120 56-128 (206)
14 cd07303 Porin3 Eukaryotic pori 33.5 2.7E+02 0.0059 22.9 13.6 75 47-127 141-230 (274)
15 PF03548 LolA: Outer membrane 32.1 57 0.0012 22.9 2.9 19 50-68 28-46 (165)
16 PF13715 DUF4480: Domain of un 31.6 1.5E+02 0.0032 19.3 5.0 35 18-74 16-50 (88)
17 PF06577 DUF1134: Protein of u 29.5 88 0.0019 25.5 3.9 75 17-92 49-126 (160)
18 KOG1719 Dual specificity phosp 29.5 5.7 0.00012 32.9 -2.9 55 27-105 75-132 (183)
19 PRK00031 lolA lipoprotein chap 29.4 57 0.0012 24.5 2.7 20 50-69 53-72 (195)
20 smart00700 JHBP Juvenile hormo 28.9 2.6E+02 0.0056 21.7 6.4 70 26-102 56-128 (225)
21 PF06009 Laminin_II: Laminin D 28.9 27 0.00059 26.1 0.9 22 105-127 102-123 (138)
22 COG5400 Uncharacterized protei 28.7 91 0.002 26.3 4.0 56 17-73 94-149 (205)
23 TIGR00547 lolA periplasmic cha 28.3 62 0.0013 25.8 2.9 19 50-68 60-78 (204)
24 PRK07093 para-aminobenzoate sy 27.7 36 0.00077 29.5 1.5 29 53-81 16-55 (323)
25 PRK13282 flagellar assembly pr 27.3 2.6E+02 0.0057 21.3 6.0 73 39-121 26-111 (128)
26 cd04885 ACT_ThrD-I Tandem C-te 26.1 23 0.00049 22.8 0.0 28 54-96 7-34 (68)
27 PF07691 PA14: PA14 domain; I 25.5 2.3E+02 0.0049 19.6 5.0 43 92-134 68-123 (145)
28 PF01459 Porin_3: Eukaryotic p 25.1 3.3E+02 0.007 21.1 15.5 94 21-121 110-230 (273)
29 PF14633 SH2_2: SH2 domain; PD 24.0 1.1E+02 0.0024 25.4 3.6 29 46-75 162-190 (220)
30 TIGR00049 Iron-sulfur cluster 23.3 1.2E+02 0.0027 20.8 3.3 17 60-76 74-90 (105)
31 cd00069 GHB Glycoprotein hormo 22.7 52 0.0011 24.8 1.4 13 46-58 3-15 (102)
32 TIGR03341 YhgI_GntY IscR-regul 21.3 1.9E+02 0.0041 23.2 4.4 33 48-81 23-63 (190)
33 PF07705 CARDB: CARDB; InterP 21.1 2.4E+02 0.0052 18.1 5.4 28 83-113 63-90 (101)
34 PF00677 Lum_binding: Lumazine 20.9 2.9E+02 0.0062 19.1 4.7 37 19-55 10-51 (85)
35 COG2706 3-carboxymuconate cycl 20.8 1.7E+02 0.0037 26.3 4.4 81 7-91 8-95 (346)
36 PF00585 Thr_dehydrat_C: C-ter 20.7 31 0.00067 24.3 -0.2 26 53-93 18-43 (91)
37 PRK06764 hypothetical protein; 20.5 88 0.0019 23.9 2.2 29 36-64 51-91 (105)
38 PF09923 DUF2155: Uncharacteri 20.3 1.4E+02 0.003 21.7 3.1 39 8-49 39-78 (90)
No 1
>cd02861 E_set_proteins_like E or "early" set-like proteins. These alpha amylase-like sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies are associated with different types of catalytic domains at either the N-terminal or C-terminal end. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=86.71 E-value=4.9 Score=26.95 Aligned_cols=68 Identities=19% Similarity=0.422 Sum_probs=44.4
Q ss_pred cCceEEeeeeeceeeeeCCcccceEEEeecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeeecCCceeEEeeeEE
Q 032499 26 AGDVKLRASLTDATVVNGPSLNGLALAVEKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHGRGDNRTILEGTLV 105 (139)
Q Consensus 26 aGDlkLrAs~TDatfv~gpSL~Gl~l~vEKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~~~~nrT~lDgtl~ 105 (139)
|..|.|..+..+-. ...+.-++.|.|.+...+|.-.-+|+| ++||...
T Consensus 13 a~~V~v~G~fn~W~--------~~~m~~~~~G~w~~~~~l~~G~y~Ykf------------------------~vdg~~~ 60 (82)
T cd02861 13 ADSVYLAGSFNNWN--------AIPMEREGDGLWVVTVELRPGRYEYKF------------------------VVDGEWV 60 (82)
T ss_pred CCEEEEEeECCCCC--------cccCEECCCCcEEEEEeCCCCcEEEEE------------------------EECCEEe
Confidence 45666666655432 233433445889888888887778888 4556655
Q ss_pred -EecCCceeEEEEecCCceeE
Q 032499 106 -FDSANKVSANHVLGSGNCKL 125 (139)
Q Consensus 106 -~D~aNK~s~~y~f~s~~ckl 125 (139)
.||.|.-...=.|+..||-|
T Consensus 61 ~~DP~~~~~~~~~~g~~n~v~ 81 (82)
T cd02861 61 IVDPNAAAYVDDGFGGKNAVF 81 (82)
T ss_pred eCCCCCCceecCCCCccceEc
Confidence 78888777666677666643
No 2
>TIGR01981 sufD FeS assembly protein SufD, group 1. This protein, SufD, forms a cytosolic complex SufBCD. This complex enhances the cysteine desulfurase of SufSE. The system, together with SufA, is believed to act in iron-sulfur cluster formation during oxidative stress. SufB and SufD are homologous. Note that SufC belongs to the family of ABC transporter ATP binding proteins, so this protein, encoded by an adjacent gene, has often been annotated as a transporter component.
Probab=65.64 E-value=13 Score=31.77 Aligned_cols=96 Identities=17% Similarity=0.227 Sum_probs=60.6
Q ss_pred ceeeeeCCcccceEEEeecCceEEEee----cCCCCCeeEEeeeeeee-------------cceeeeeEEeeecCCc---
Q 032499 37 DATVVNGPSLNGLALAVEKPGFFIVDY----NVPKKDFRFQFMNSVRV-------------ADKPLNLTYIHGRGDN--- 96 (139)
Q Consensus 37 Datfv~gpSL~Gl~l~vEKPGsF~iDy----~vp~~d~RFQFmn~~~v-------------~~K~lnlTY~H~~~~n--- 96 (139)
...|++|..+..|+-.+++|....++| .++.++-+|..+|.+.. .++|+.+.|+...+.+
T Consensus 44 ~lv~~~G~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~aln~a~~~~G~~i~v~~~~~~~~Pi~i~~~~~~~~~~~~ 123 (366)
T TIGR01981 44 RLVFVDGVIVPDLSDALPLHPELLEDLLDALAVLSDEDRFLALNAALFNDGTVLYVPKGVEVEEPIEIKFIGVGGEKNFV 123 (366)
T ss_pred eEEEECCEEecChhhhhccCcceEEeehhcccCcCCccHHHHHHHHHhCCeEEEEECCCCCcCCCEEEEEEEcCCCccce
Confidence 577999999888888888998888888 45555666766665422 5689999998864322
Q ss_pred -------------eeEEeeeEEEecCCc--ee--EEEEecCCceeEEEEEEeC
Q 032499 97 -------------RTILEGTLVFDSANK--VS--ANHVLGSGNCKLKYTYVHG 132 (139)
Q Consensus 97 -------------rT~lDgtl~~D~aNK--~s--~~y~f~s~~cklKYsYvH~ 132 (139)
.|+++.-...++.+. ++ ....+-..|-+|+|..+|.
T Consensus 124 ~~~~~i~v~~~s~~~iie~~~~~~~~~~~~~~~~~~ei~~~~~A~l~~~~iq~ 176 (366)
T TIGR01981 124 HPRLLIIVEKGSKITVIERFETISLNSGKAFTNSVVEITVGANASVIFVKVQF 176 (366)
T ss_pred eeEEEEEECCCCEEEEEEEecCCCCCCcccEEEEEEEEEECCCCEEEEEEEEc
Confidence 233333322222221 11 2233444677888888765
No 3
>smart00089 PKD Repeats in polycystic kidney disease 1 (PKD1) and other proteins. Polycystic kidney disease 1 protein contains 14 repeats, present elsewhere such as in microbial collagenases.
Probab=50.44 E-value=61 Score=20.63 Aligned_cols=28 Identities=29% Similarity=0.485 Sum_probs=16.5
Q ss_pred eeeCCcccc--eEEEeecCceEEEeecCCC
Q 032499 40 VVNGPSLNG--LALAVEKPGFFIVDYNVPK 67 (139)
Q Consensus 40 fv~gpSL~G--l~l~vEKPGsF~iDy~vp~ 67 (139)
|.+|..+.+ .+...++||.|.|-..+-+
T Consensus 36 fgdg~~~~~~~~~~~y~~~G~y~v~l~v~n 65 (79)
T smart00089 36 FGDGTSSTGPTVTHTYTKPGTYTVTLTVTN 65 (79)
T ss_pred eCCCCccCCCCEEEEeCCCcEEEEEEEEEc
Confidence 334444433 4556689999887665533
No 4
>PF14321 DUF4382: Domain of unknown function (DUF4382)
Probab=49.42 E-value=55 Score=24.06 Aligned_cols=24 Identities=38% Similarity=0.477 Sum_probs=18.8
Q ss_pred eEEEEEEecCce-EEeeeeeceeee
Q 032499 18 AAATVAFNAGDV-KLRASLTDATVV 41 (139)
Q Consensus 18 a~atv~~~aGDl-kLrAs~TDatfv 41 (139)
-.+...+++|+. ++|-.+.|++.+
T Consensus 59 ~l~~~~lpaG~Y~~irl~l~~~~v~ 83 (139)
T PF14321_consen 59 LLADAELPAGTYNQIRLVLDDANVV 83 (139)
T ss_pred EEeccccCCCcEEEEEEEEeCCeEE
Confidence 367778889998 888888887744
No 5
>PF10162 G8: G8 domain; InterPro: IPR019316 This entry represents a domain found in disease proteins PKHD1 and KIAA1199 and is named G8 after its 8 conserved glycines. It is predicted to contain 10 beta strands and an alpha helix [].
Probab=48.39 E-value=39 Score=24.77 Aligned_cols=29 Identities=34% Similarity=0.556 Sum_probs=20.2
Q ss_pred eeEEeeeEEEec--CCceeEEEEecCCceeE
Q 032499 97 RTILEGTLVFDS--ANKVSANHVLGSGNCKL 125 (139)
Q Consensus 97 rT~lDgtl~~D~--aNK~s~~y~f~s~~ckl 125 (139)
..+++|+|+||. ..+|.+.|.+=.++++|
T Consensus 34 ~l~I~G~L~f~~~~~~~L~a~~I~V~~Gg~l 64 (125)
T PF10162_consen 34 SLIIGGTLIFDDDRDITLRAEYILVEGGGRL 64 (125)
T ss_pred EEEEEEEEEEccCCCCEEEEEEEEECCCCeE
Confidence 344599999988 55778887776554444
No 6
>PF14352 DUF4402: Domain of unknown function (DUF4402)
Probab=43.94 E-value=1.2e+02 Score=21.82 Aligned_cols=60 Identities=18% Similarity=0.296 Sum_probs=38.8
Q ss_pred CceEEEeecCCCCCeeEEeeeeeeecc----eeeeeEEee------------ecCCceeEEeeeEEEecCCceeEEEE
Q 032499 56 PGFFIVDYNVPKKDFRFQFMNSVRVAD----KPLNLTYIH------------GRGDNRTILEGTLVFDSANKVSANHV 117 (139)
Q Consensus 56 PGsF~iDy~vp~~d~RFQFmn~~~v~~----K~lnlTY~H------------~~~~nrT~lDgtl~~D~aNK~s~~y~ 117 (139)
|+.|.|.- -|.+.+.+++..++.+.. ..+.++=.- ..+...--+-|+|.++ +|.-.+.|.
T Consensus 46 ~a~f~V~G-~~~~~v~it~p~~~~l~~~~g~~~~~v~~~~~~~~~~~~~~~~~~g~~~~~VGGtL~v~-~~~~~G~Ys 121 (130)
T PF14352_consen 46 PAEFTVSG-EPGSNVSITLPSTITLTNSNGGNTMTVTNFTGNSSGSSTTTLDTGGSATFNVGGTLNVP-ANQAAGTYS 121 (130)
T ss_pred CEEEEEEc-CCCCEEEEEecCCEEEecCCCCceEEEEeeecccccccceEecCCCcEEEEEEEEEEcC-CCCCCeEEE
Confidence 99999999 778888888886666633 333332221 1244445567888877 555577776
No 7
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=41.24 E-value=1.5e+02 Score=22.08 Aligned_cols=64 Identities=23% Similarity=0.440 Sum_probs=40.4
Q ss_pred ecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeeecCC-----ceeEEeeeEEEecCCceeEEEEecCCceeEEE
Q 032499 54 EKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHGRGD-----NRTILEGTLVFDSANKVSANHVLGSGNCKLKY 127 (139)
Q Consensus 54 EKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~~~~-----nrT~lDgtl~~D~aNK~s~~y~f~s~~cklKY 127 (139)
=+||| |.|+.....++|+-... ++.+.+.|.=...+ ..-|+.|.+ +..+.+.|.=.+. +|-=||
T Consensus 59 V~~gS--v~~~~~~~~~~F~i~D~----~~~i~V~Y~G~~Pd~F~eg~~VVv~G~~--~~~g~F~A~~lL~--KcpskY 127 (131)
T PF03100_consen 59 VVEGS--VEYDPDGNTLTFTITDG----GKEIPVVYTGPLPDLFREGQGVVVEGRL--GEDGVFEATELLA--KCPSKY 127 (131)
T ss_dssp EECTT--EEE-TTSSEEEEEEE-S----S-EEEEEEES--CTT--TTSEEEEEEEE--CCTSEEEEEEEEE--TS----
T ss_pred EccCC--EEEcCCCCEEEEEEEEC----CcEEEEEECCCCCccccCCCeEEEEEEE--CCCCEEEEEEEEe--CCCCCC
Confidence 35787 78887666777766544 57899999986544 356889987 7778888877665 666565
No 8
>PF01331 mRNA_cap_enzyme: mRNA capping enzyme, catalytic domain; InterPro: IPR001339 The mRNA capping enzyme in yeasts is composed of two separate chains, alpha a mRNA guanyltransferase and beta an RNA 5'-triphosphate. X-ray crystallography reveals a large conformational change during guanyl transfer by mRNA capping enzymes []. Binding of the enzyme to nucleotides is specific to the GMP moiety of GTP. The viral mRNA capping enzyme is a monomer that transfers a GMP cap onto the end of mRNA that terminates with a 5'-diphosphate tail.; GO: 0004484 mRNA guanylyltransferase activity, 0006370 mRNA capping, 0006397 mRNA processing; PDB: 3RTX_A 3KYH_D 3S24_G 1CKN_B 1CKO_A 1CKM_B 1P16_B.
Probab=40.82 E-value=37 Score=25.89 Aligned_cols=15 Identities=40% Similarity=0.709 Sum_probs=12.8
Q ss_pred ceeEEeeeEEEecCC
Q 032499 96 NRTILEGTLVFDSAN 110 (139)
Q Consensus 96 nrT~lDgtl~~D~aN 110 (139)
.-|+|||.||+|-.+
T Consensus 68 ~~TLLDGElV~d~~~ 82 (192)
T PF01331_consen 68 QDTLLDGELVLDKDP 82 (192)
T ss_dssp CSEEEEEEEEEEECT
T ss_pred CCEEEEEEEEcccCC
Confidence 579999999999655
No 9
>TIGR03503 conserved hypothetical protein TIGR03503. This set of conserved hypothetical protein has a phylogenetic range that closely matches that of TIGR03501, a putative C-terminal protein targeting signal.
Probab=39.63 E-value=1.2e+02 Score=27.43 Aligned_cols=41 Identities=22% Similarity=0.243 Sum_probs=36.8
Q ss_pred eecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeeec
Q 032499 53 VEKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHGR 93 (139)
Q Consensus 53 vEKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~~ 93 (139)
..+||-|.+.+-+-++-+.=||-..+.|-..|++.+++-++
T Consensus 180 ~~~~G~Y~~~v~~~n~vF~R~~~q~v~V~p~Pi~~~~~~~~ 220 (374)
T TIGR03503 180 DVAPGEYRPTYQSRNPVFLREVEQPVLVYPLPVSYTVIQSE 220 (374)
T ss_pred cCCCceEEEEEEEcCceEEEEEEEeEEEECCCeeEEEEccC
Confidence 35799999999999999988888899999999999999865
No 10
>PRK13285 flagellar assembly protein FliW; Provisional
Probab=37.46 E-value=97 Score=23.93 Aligned_cols=73 Identities=16% Similarity=0.277 Sum_probs=51.4
Q ss_pred ceEEEeecCceEEEeecCC-----------CCCeeEEeeeeeeecceeeeeEEeeecCCceeEEeeeEEEecCCceeEEE
Q 032499 48 GLALAVEKPGFFIVDYNVP-----------KKDFRFQFMNSVRVADKPLNLTYIHGRGDNRTILEGTLVFDSANKVSANH 116 (139)
Q Consensus 48 Gl~l~vEKPGsF~iDy~vp-----------~~d~RFQFmn~~~v~~K~lnlTY~H~~~~nrT~lDgtl~~D~aNK~s~~y 116 (139)
+++|-|=.|..|.-||++. +..-....++.+.+-+.+ ..-..=|=|=++|++.|+.....
T Consensus 55 ~~~F~vi~P~~~~~dY~~~l~~~~~~~L~i~~~~dv~v~~iVti~~~~---------~~~T~NL~APIViN~~~~~g~Qv 125 (148)
T PRK13285 55 DLAFVVIDPFNFFPDYEFDLDEEELELLGIESEEDVLVLVIVTIPEDP---------EKITANLQAPIIINKKKRKGKQV 125 (148)
T ss_pred ceEEEEeCHHHhCCCCccccCHHHHHhcCCCChhheEEEEEEEcCCCc---------ccceEeecCCEEEECCCCEEEEE
Confidence 5899999999999999865 222233455655555421 12223367889999999999999
Q ss_pred EecCCceeEEEEE
Q 032499 117 VLGSGNCKLKYTY 129 (139)
Q Consensus 117 ~f~s~~cklKYsY 129 (139)
.+...+..+||--
T Consensus 126 Il~~~~y~~r~pl 138 (148)
T PRK13285 126 ILDNEKYSTKHPL 138 (148)
T ss_pred EeCCCCCcccccc
Confidence 9998777777643
No 11
>PF05270 AbfB: Alpha-L-arabinofuranosidase B (ABFB); InterPro: IPR007934 This family consists of several fungal alpha-L-arabinofuranosidase B proteins. L-Arabinose is a constituent of plant cell wall polysaccharides. It is found in a polymeric form in L-arabinan, in which the backbone is formed by 1,5-a- linked l-arabinose residues that can be branched via 1,2-a- and 1,3-a-linked l-arabinofuranose side chains. AbfB hydrolyses 1,5-a, 1,3-a and 1,2-a linkages in both oligosaccharides and polysaccharides, which contain terminal non-reducing l-arabinofuranoses in side chains [].; GO: 0046556 alpha-N-arabinofuranosidase activity, 0046373 L-arabinose metabolic process; PDB: 3AKI_A 3AKF_A 3AKH_A 3AKG_A 2D44_A 1WD3_A 2D43_A 1WD4_A 3KMV_E.
Probab=36.73 E-value=31 Score=26.76 Aligned_cols=27 Identities=30% Similarity=0.598 Sum_probs=18.8
Q ss_pred eceeeeeCCcccc---eEE-EeecCceEEEe
Q 032499 36 TDATVVNGPSLNG---LAL-AVEKPGFFIVD 62 (139)
Q Consensus 36 TDatfv~gpSL~G---l~l-~vEKPGsF~iD 62 (139)
.|++|.-=|+|.+ +|| ++.+||.||--
T Consensus 37 ~da~f~vvpGLa~~~~vSfES~~~PG~yLrh 67 (142)
T PF05270_consen 37 ADATFRVVPGLADSSCVSFESVNYPGYYLRH 67 (142)
T ss_dssp HGG-EEEEE-SS-TTCEEEEESSSTTEEEEE
T ss_pred cCceEEEEEccCCCCEEEEEECCCCCcEEEE
Confidence 4788887666654 888 56899999965
No 12
>COG4452 CreD Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]
Probab=36.06 E-value=25 Score=32.55 Aligned_cols=53 Identities=34% Similarity=0.507 Sum_probs=33.8
Q ss_pred eeceeeecCCCcc--eeEEEEEEecCceEEeeeeeceeeee---CCcccceEEEeecCceE
Q 032499 4 SLKGRYETDKDRG--VAAATVAFNAGDVKLRASLTDATVVN---GPSLNGLALAVEKPGFF 59 (139)
Q Consensus 4 s~kgrYd~~~~~~--~a~atv~~~aGDlkLrAs~TDatfv~---gpSL~Gl~l~vEKPGsF 59 (139)
.+||+++...--. --..++++. ---|.+++.|++++. +||+||=++..| ||.+
T Consensus 118 ~lkg~F~v~~l~~~~~~~~~v~lg--~p~lv~~i~d~rgi~~~~~~~vng~~l~fe-Pg~~ 175 (443)
T COG4452 118 KLKGYFDVSRLSEDELDAGNVTLG--KPFLVLSIGDARGIGVVKAPSVNGTALTFE-PGIR 175 (443)
T ss_pred eEEEEeccccCchhhhcCCCceec--CceeEEEecccccccccccccccCceeccC-CCcc
Confidence 3677777552100 012333332 223578899999984 899999999888 8888
No 13
>smart00159 PTX Pentraxin / C-reactive protein / pentaxin family. This family form a doscoid pentameric structure. Human serum amyloid P demonstrates calcium-mediated ligand-binding.
Probab=34.30 E-value=2.2e+02 Score=22.12 Aligned_cols=72 Identities=15% Similarity=0.115 Sum_probs=44.5
Q ss_pred CCcccceEEEeecCceEEEeecCCCCCeeEEeeeeeeecc-eeeeeEEeeecCCceeEEeeeEEEecCCceeEEEEecC
Q 032499 43 GPSLNGLALAVEKPGFFIVDYNVPKKDFRFQFMNSVRVAD-KPLNLTYIHGRGDNRTILEGTLVFDSANKVSANHVLGS 120 (139)
Q Consensus 43 gpSL~Gl~l~vEKPGsF~iDy~vp~~d~RFQFmn~~~v~~-K~lnlTY~H~~~~nrT~lDgtl~~D~aNK~s~~y~f~s 120 (139)
+..-+.+-+..+++|.|.|-.+ .+.+.+. ....-.+ .-|-+||....+.-+.-+||.++ .+.-++..+.+..
T Consensus 56 ~~~~ne~~~~~~~~~~~~l~i~--g~~~~~~--~~~~~g~W~hvc~tw~~~~g~~~lyvnG~~~--~~~~~~~g~~i~~ 128 (206)
T smart00159 56 KGQDNELLLYKEKQGEYSLYIG--GKKVQFP--VPESDGKWHHICTTWESSSGIAELWVDGKPG--VRKGLAKGYTVKP 128 (206)
T ss_pred CCCCCeEEEEEcCCcEEEEEEc--CeEEEec--ccccCCceEEEEEEEECCCCcEEEEECCEEc--ccccccCCcEECC
Confidence 3334667777788888776544 3333222 1222111 44777888888999999999997 4444555566553
No 14
>cd07303 Porin3 Eukaryotic porin family that forms channels in the mitochondrial outer membrane. The porin family 3 contains two sub-families that play vital roles in the mitochondrial outer membrane, a translocase for unfolded pre-proteins (Tom40) and the voltage-dependent anion channel (VDAC) that regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane.
Probab=33.47 E-value=2.7e+02 Score=22.86 Aligned_cols=75 Identities=15% Similarity=0.219 Sum_probs=44.3
Q ss_pred cceEEEee-------c--CceEEEeecCCCCCeeEEeeeeeeecc-eeeeeEEeeecCCceeEEeeeEEEecC---Cce-
Q 032499 47 NGLALAVE-------K--PGFFIVDYNVPKKDFRFQFMNSVRVAD-KPLNLTYIHGRGDNRTILEGTLVFDSA---NKV- 112 (139)
Q Consensus 47 ~Gl~l~vE-------K--PGsF~iDy~vp~~d~RFQFmn~~~v~~-K~lnlTY~H~~~~nrT~lDgtl~~D~a---NK~- 112 (139)
++|+|+.| + .-.|.+-|..--. +|+-++.+.+ ..+.++|.|--.+ +..+=..+..+.+ +.+
T Consensus 141 ~~~~~G~e~~yd~~~~~~~~~~~~~y~~~y~----d~~~s~~l~~~~~l~~Sy~hkvs~-~~~~g~e~~~~~~~~e~~~~ 215 (274)
T cd07303 141 EGWLAGYQMVFETVSRVTQSNFAVGYKTDYN----EFQAHTNVNDGTEFGGSIYHKVND-KLEVGVNLAATAGNSNTRFG 215 (274)
T ss_pred cceEEEEEEEEeccccccccceEEEEEccCC----CeEEEEEEcCCCeEEEEEEEEcCC-ceEEEEEEEeeccCCccEEE
Confidence 66899988 1 1234444433101 2333666777 9999999997664 6666666666653 333
Q ss_pred -eEEEEecCCceeEEE
Q 032499 113 -SANHVLGSGNCKLKY 127 (139)
Q Consensus 113 -s~~y~f~s~~cklKY 127 (139)
...|.|+. .+.+|=
T Consensus 216 vG~~y~l~~-~~~vka 230 (274)
T cd07303 216 IAAKYQVDP-DACFSA 230 (274)
T ss_pred EEEEEecCC-CCEEEE
Confidence 34677764 444443
No 15
>PF03548 LolA: Outer membrane lipoprotein carrier protein LolA; InterPro: IPR004564 This protein, LolA, is known so far only in the gamma subdivision of the Proteobacteria. In Escherichia coli, lipoproteins are anchored to the periplasmic side of either the inner or outer membrane through N-terminal lipids, depending on the lipoprotein-sorting signal present at position 2 []. Five Lol proteins are involved in the sorting and outer membrane localization of lipoproteins. LolCDE, an ATP binding cassette (ABC) transporter, in the inner membrane releases outer membrane-directed lipoproteins from the inner membrane in an ATP-dependent manner, leading to the formation of a water-soluble complex between the lipoprotein and the molecular chaperone, LolA. The LolA-lipoprotein complex crosses the periplasm and then interacts with outer membrane receptor LolB, which is essential for the anchoring of lipoproteins to the outer membrane. E. coli lipoproteins are anchored to the inner or outer membrane depending on the residue at position 2. Aspartate at this position makes lipoproteins specific to the inner membrane, whereas other residues cause the release of lipoproteins from the inner membrane.; GO: 0015031 protein transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2W7Q_B 1UA8_A 1IWL_A 2ZPC_A 2ZPD_A 3KSN_A.
Probab=32.13 E-value=57 Score=22.92 Aligned_cols=19 Identities=26% Similarity=0.543 Sum_probs=16.0
Q ss_pred EEEeecCceEEEeecCCCC
Q 032499 50 ALAVEKPGFFIVDYNVPKK 68 (139)
Q Consensus 50 ~l~vEKPGsF~iDy~vp~~ 68 (139)
.|.+.|||-|.++|.-|.+
T Consensus 28 ~~~~~~p~~~r~~~~~P~~ 46 (165)
T PF03548_consen 28 TFYFKKPNKFRWEYTKPEE 46 (165)
T ss_dssp EEEEETTTEEEEEEECTS-
T ss_pred EEEEEcCCeEEEEECCCCc
Confidence 4788999999999999887
No 16
>PF13715 DUF4480: Domain of unknown function (DUF4480)
Probab=31.64 E-value=1.5e+02 Score=19.28 Aligned_cols=35 Identities=26% Similarity=0.547 Sum_probs=21.7
Q ss_pred eEEEEEEecCceEEeeeeeceeeeeCCcccceEEEeecCceEEEeecCCCCCeeEEe
Q 032499 18 AAATVAFNAGDVKLRASLTDATVVNGPSLNGLALAVEKPGFFIVDYNVPKKDFRFQF 74 (139)
Q Consensus 18 a~atv~~~aGDlkLrAs~TDatfv~gpSL~Gl~l~vEKPGsF~iDy~vp~~d~RFQF 74 (139)
.-|+|.+.-++ ..+.||. =|.|.|+ +|..+..++|
T Consensus 16 ~~a~V~~~~~~---~~~~Td~-----------------~G~F~i~--~~~g~~~l~i 50 (88)
T PF13715_consen 16 PGATVYLKNTK---KGTVTDE-----------------NGRFSIK--LPEGDYTLKI 50 (88)
T ss_pred cCeEEEEeCCc---ceEEECC-----------------CeEEEEE--EcCCCeEEEE
Confidence 35666666555 4555665 4788888 6666655554
No 17
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.53 E-value=88 Score=25.53 Aligned_cols=75 Identities=17% Similarity=0.334 Sum_probs=52.9
Q ss_pred eeEEEEEEecCceEEeeeeeceeeeeCCcccceEEEeecCceEEEeecCCCCCeeEEee---eeeeecceeeeeEEeee
Q 032499 17 VAAATVAFNAGDVKLRASLTDATVVNGPSLNGLALAVEKPGFFIVDYNVPKKDFRFQFM---NSVRVADKPLNLTYIHG 92 (139)
Q Consensus 17 ~a~atv~~~aGDlkLrAs~TDatfv~gpSL~Gl~l~vEKPGsF~iDy~vp~~d~RFQFm---n~~~v~~K~lnlTY~H~ 92 (139)
+.++-|+..-|.|-.|---.---|-.|||| |+.++-.---.|++=||+|.-+-=||=. +.---.-.-+-.||-++
T Consensus 49 A~~~GlrYGeG~L~~k~~g~~~vyWqGPSi-G~D~G~~~~r~~~LVYnL~~~~~iy~Rf~gv~GsAYlvgG~G~~~l~~ 126 (160)
T PF06577_consen 49 AFVVGLRYGEGTLYTKNAGQHKVYWQGPSI-GFDFGGNGSRVFMLVYNLPDPDDIYQRFPGVEGSAYLVGGVGMTYLRN 126 (160)
T ss_pred cEEEEEEecccEEEEcCCCeeEEEEeCCce-eEeecCCceEEEEEEEcCCCHHHHhhhCCCccceEEEEccceEEEEEe
Confidence 347778888888888876554578899998 7888877777899999999987655532 22222334456666654
No 18
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=29.51 E-value=5.7 Score=32.87 Aligned_cols=55 Identities=31% Similarity=0.367 Sum_probs=41.5
Q ss_pred CceEEeeeeeceeeeeCCcccceEEEeecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeee---cCCceeEEeee
Q 032499 27 GDVKLRASLTDATVVNGPSLNGLALAVEKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHG---RGDNRTILEGT 103 (139)
Q Consensus 27 GDlkLrAs~TDatfv~gpSL~Gl~l~vEKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~---~~~nrT~lDgt 103 (139)
|==.|+....|.|| -||++.|..+|| |++...-++| -+|.|. |+++.|++-+-
T Consensus 75 giE~L~i~T~D~~~--~Ps~~~i~~aVe-------------------Fi~k~asLGk---tvYVHCKAGRtRSaTvV~cY 130 (183)
T KOG1719|consen 75 GIEFLVIPTRDYTG--APSLENIQKAVE-------------------FIHKNASLGK---TVYVHCKAGRTRSATVVACY 130 (183)
T ss_pred cceeEEeccccccC--CCCHHHHHHHHH-------------------HHHhccccCC---eEEEEecCCCccchhhhhhh
Confidence 33457888899998 799999988886 7777777777 579995 47777877665
Q ss_pred EE
Q 032499 104 LV 105 (139)
Q Consensus 104 l~ 105 (139)
|+
T Consensus 131 Lm 132 (183)
T KOG1719|consen 131 LM 132 (183)
T ss_pred hh
Confidence 53
No 19
>PRK00031 lolA lipoprotein chaperone; Reviewed
Probab=29.39 E-value=57 Score=24.54 Aligned_cols=20 Identities=30% Similarity=0.625 Sum_probs=17.2
Q ss_pred EEEeecCceEEEeecCCCCC
Q 032499 50 ALAVEKPGFFIVDYNVPKKD 69 (139)
Q Consensus 50 ~l~vEKPGsF~iDy~vp~~d 69 (139)
.|.+.|||.|.++|.-|.+-
T Consensus 53 ~l~~kkP~~lrw~y~~P~~~ 72 (195)
T PRK00031 53 TLWVKRPNLFRWHYTKPDEQ 72 (195)
T ss_pred EEEEcCCCeEEEEecCCCcc
Confidence 58899999999999988753
No 20
>smart00700 JHBP Juvenile hormone binding protein domains in insects. The juvenile hormone exerts pleiotropic functions during insect life cycles and its binding proteins regulate these functions.
Probab=28.87 E-value=2.6e+02 Score=21.74 Aligned_cols=70 Identities=20% Similarity=0.397 Sum_probs=51.6
Q ss_pred cCceEEeeeeeceeeeeCCc---ccceEEEeecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeeecCCceeEEee
Q 032499 26 AGDVKLRASLTDATVVNGPS---LNGLALAVEKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHGRGDNRTILEG 102 (139)
Q Consensus 26 aGDlkLrAs~TDatfv~gpS---L~Gl~l~vEKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~~~~nrT~lDg 102 (139)
.|.+.++++.+|..+- |.+ ++-+.+-+++ -.+.++..+|+=.++-++.-..+++.-| ++..|+-...|+.
T Consensus 56 ~~~~~~~~~~~n~~i~-Gl~~~~i~~~~~~~~~-~~~~~~~~~p~l~~~g~Y~~~g~ll~lp-----i~g~G~~~~~l~n 128 (225)
T smart00700 56 SGVIGLRLTFKNVKIY-GLSNFEITKFKMDLKD-KKIELKIEFPKLNVKGDYKLDGRLLGLP-----LNGKGDANFTLEN 128 (225)
T ss_pred CCceEEEEEEEEeEEE-cCcceEEEEEEecCCC-cEEEEEEECCcEEEEeeeEeeeEEEEEE-----ecCCCcEEEEEEe
Confidence 5778999999998874 332 5556677776 5899999999999999998888875544 5566665555544
No 21
>PF06009 Laminin_II: Laminin Domain II; InterPro: IPR010307 It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure [].; GO: 0007155 cell adhesion, 0005604 basement membrane; PDB: 2WJS_A.
Probab=28.86 E-value=27 Score=26.09 Aligned_cols=22 Identities=23% Similarity=0.419 Sum_probs=4.4
Q ss_pred EEecCCceeEEEEecCCceeEEE
Q 032499 105 VFDSANKVSANHVLGSGNCKLKY 127 (139)
Q Consensus 105 ~~D~aNK~s~~y~f~s~~cklKY 127 (139)
+=|-|||+.+...|+ |+|-+-|
T Consensus 102 AR~~An~IkV~m~F~-g~s~vel 123 (138)
T PF06009_consen 102 ARDAANRIKVSMKFN-GNSGVEL 123 (138)
T ss_dssp ----------B--------EEEE
T ss_pred HHHHHhheeeeeEEC-CCceeee
Confidence 347899999999998 9999887
No 22
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.72 E-value=91 Score=26.29 Aligned_cols=56 Identities=18% Similarity=0.313 Sum_probs=46.0
Q ss_pred eeEEEEEEecCceEEeeeeeceeeeeCCcccceEEEeecCceEEEeecCCCCCeeEE
Q 032499 17 VAAATVAFNAGDVKLRASLTDATVVNGPSLNGLALAVEKPGFFIVDYNVPKKDFRFQ 73 (139)
Q Consensus 17 ~a~atv~~~aGDlkLrAs~TDatfv~gpSL~Gl~l~vEKPGsF~iDy~vp~~d~RFQ 73 (139)
+-+|-|+..-|-|--|---+--+|-.|||| |+.++=+---.||+=||+|.-|.-|.
T Consensus 94 AfIaGltYGeG~LytKn~g~h~vFWQGPsl-GwD~GGqgsRvmmLvYnL~~v~aly~ 149 (205)
T COG5400 94 AFIAGLTYGEGTLYTKNAGDHKVFWQGPSL-GWDWGGQGSRVMMLVYNLDDVDALYR 149 (205)
T ss_pred ceEeeeeeccceEEecCCCCcceEeeCCcc-ccccCCCceEEEEEEecCCCHHHHHh
Confidence 448888887777777777777789999998 88888888889999999998886443
No 23
>TIGR00547 lolA periplasmic chaperone LolA. This protein, LolA, is known so far only in the gamma and beta subdivisions of the Proteobacteria. The E. coli major outer lipoprotein (Lpp) of E. coli is released from the inner membrane as a complex with this chaperone in an energy-requiring process, and is then delivered to LolB for insertion into the outer membrane. LolA is involved in the delivery of lipoproteins generally, rather than just Lpp, and is an essential protein in E. coli, unlike Lpp itself.
Probab=28.29 E-value=62 Score=25.83 Aligned_cols=19 Identities=21% Similarity=0.656 Sum_probs=16.7
Q ss_pred EEEeecCceEEEeecCCCC
Q 032499 50 ALAVEKPGFFIVDYNVPKK 68 (139)
Q Consensus 50 ~l~vEKPGsF~iDy~vp~~ 68 (139)
.|.+.|||-|-.+|.-|..
T Consensus 60 ~~~~krP~~frW~~~~P~~ 78 (204)
T TIGR00547 60 DLQIKRPNLFNMEMKQPDE 78 (204)
T ss_pred EEEEeCCCeEEEEEcCCCc
Confidence 6889999999999998853
No 24
>PRK07093 para-aminobenzoate synthase component I; Validated
Probab=27.73 E-value=36 Score=29.50 Aligned_cols=29 Identities=24% Similarity=0.564 Sum_probs=21.0
Q ss_pred eecCceEEEeecC-----------CCCCeeEEeeeeeeec
Q 032499 53 VEKPGFFIVDYNV-----------PKKDFRFQFMNSVRVA 81 (139)
Q Consensus 53 vEKPGsF~iDy~v-----------p~~d~RFQFmn~~~v~ 81 (139)
-++|..|+|||+. .++++.|+|=.--++.
T Consensus 16 ~~~pf~f~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 (323)
T PRK07093 16 QKTPFFFLIDFEQQKPIIEPLEELAESGILFDFNGKTNVP 55 (323)
T ss_pred cCCCEEEEEEcccCceEEEEcccCCccceEEEcCCcccCC
Confidence 3679999999996 3456788887544444
No 25
>PRK13282 flagellar assembly protein FliW; Provisional
Probab=27.32 E-value=2.6e+02 Score=21.30 Aligned_cols=73 Identities=15% Similarity=0.188 Sum_probs=48.7
Q ss_pred eeeeCCccc--ceEEEeecCceEEEeecCC-----------CCCeeEEeeeeeeecceeeeeEEeeecCCceeEEeeeEE
Q 032499 39 TVVNGPSLN--GLALAVEKPGFFIVDYNVP-----------KKDFRFQFMNSVRVADKPLNLTYIHGRGDNRTILEGTLV 105 (139)
Q Consensus 39 tfv~gpSL~--Gl~l~vEKPGsF~iDy~vp-----------~~d~RFQFmn~~~v~~K~lnlTY~H~~~~nrT~lDgtl~ 105 (139)
.|.-=-|++ +|+|-|=.|..|. ||.+. +..--...++.+.+.+.+ .+...=|=|=++
T Consensus 26 pf~~LQS~d~p~laFvvi~P~~~~-dY~~~l~~~~~~~L~i~~~~dv~v~~iVti~~~~---------~~~T~NL~APIV 95 (128)
T PRK13282 26 VFVRLKSADGNSFSFTLINPFALR-EYEFEIPTYYKELLELEEASNLLIANIMVIQTPI---------EESTVNFLAPVV 95 (128)
T ss_pred cEEEEEecCCCceEEEEeCcccee-cceeeCCHHHHHhcCCCChhheEEEEEEEcCCCc---------ccccchhcCcEE
Confidence 443323444 4899999999999 99876 222234556666665421 222233778899
Q ss_pred EecCCceeEEEEecCC
Q 032499 106 FDSANKVSANHVLGSG 121 (139)
Q Consensus 106 ~D~aNK~s~~y~f~s~ 121 (139)
|++.|+......+...
T Consensus 96 IN~~~~~g~QvIL~~~ 111 (128)
T PRK13282 96 FNLDNNTMGQVVLDSV 111 (128)
T ss_pred EECCCCEEEEEeeCCC
Confidence 9999999999988753
No 26
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.13 E-value=23 Score=22.82 Aligned_cols=28 Identities=32% Similarity=0.606 Sum_probs=17.4
Q ss_pred ecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeeecCCc
Q 032499 54 EKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHGRGDN 96 (139)
Q Consensus 54 EKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~~~~n 96 (139)
||||+|. +|++ .|.+ ..|++.+|.+..+
T Consensus 7 dkPG~l~------------~~~~--~i~~-~~nI~~~~~~~~~ 34 (68)
T cd04885 7 ERPGALK------------KFLE--LLGP-PRNITEFHYRNQG 34 (68)
T ss_pred CCCCHHH------------HHHH--HhCC-CCcEEEEEEEcCC
Confidence 7888873 3444 2344 7888887765433
No 27
>PF07691 PA14: PA14 domain; InterPro: IPR011658 The PA14 domain forms an insert in bacterial beta-glucosidases, other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins and bacterial toxins, including anthrax protective antigen (PA). The domain also occurs in a Dictyostelium pre-spore cell-inducing factor Psi and in fibrocystin, the mammalian protein whose mutation leads to polycystic kidney and hepatic disease. The crystal structure of PA shows that this domain (named PA14 after its location in the PA20 pro-peptide) has a beta-barrel structure. The PA14 domain sequence suggests a binding function, rather than a catalytic role. The PA14 domain distribution is compatible with carbohydrate binding [].; PDB: 2XVG_A 2XVK_A 2XVL_A 2XJU_A 2XJT_A 2XJQ_A 2XJS_A 2XJV_A 2XJP_A 2XJR_A ....
Probab=25.48 E-value=2.3e+02 Score=19.60 Aligned_cols=43 Identities=23% Similarity=0.400 Sum_probs=29.1
Q ss_pred ecCCceeEEeeeEEEecCCc------------eeEEEEec-CCceeEEEEEEeCCe
Q 032499 92 GRGDNRTILEGTLVFDSANK------------VSANHVLG-SGNCKLKYTYVHGGL 134 (139)
Q Consensus 92 ~~~~nrT~lDgtl~~D~aNK------------~s~~y~f~-s~~cklKYsYvH~g~ 134 (139)
+.+..|..|||.++||...+ .+..-.+- .+.-.++-.|.|...
T Consensus 68 ~~d~~~l~idg~~vid~~~~~~~~~~~~~~~~~~~~v~l~~g~~y~i~i~y~~~~~ 123 (145)
T PF07691_consen 68 SDDGARLWIDGKLVIDNWGNQGGGFFNSGPSSTSGTVTLEAGGKYPIRIEYFNRGG 123 (145)
T ss_dssp ESSEEEEEETTEEEEECSCTTTSTTTTTSBCCEEEEEEE-TT-EEEEEEEEEECSC
T ss_pred ecccEEEEECCEEEEcCCccccccccccccceEEEEEEeeCCeeEEEEEEEEECCC
Confidence 45677888999999998853 33444443 356788888888743
No 28
>PF01459 Porin_3: Eukaryotic porin; InterPro: IPR001925 The major protein of the outer mitochondrial membrane of eukaryotes is a porin that forms a voltage-dependent anion-selective channel (VDAC) that behaves as a general diffusion pore for small hydrophilic molecules [, , , ]. The channel adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. This protein contains about 280 amino acids and its sequence is composed of between 12 to 16 beta-strands that span the mitochondrial outer membrane. Yeast contains two members of this family (genes POR1 and POR2); vertebrates have at least three members (genes VDAC1, VDAC2 and VDAC3) [].; GO: 0008308 voltage-gated anion channel activity, 0006820 anion transport, 0044070 regulation of anion transport, 0055085 transmembrane transport, 0005741 mitochondrial outer membrane; PDB: 3EMN_X 2K4T_A 2JK4_A.
Probab=25.07 E-value=3.3e+02 Score=21.05 Aligned_cols=94 Identities=15% Similarity=0.292 Sum_probs=52.0
Q ss_pred EEEEecCceEEeeeeec--eeeee---CCccc-ceEEEeecCceEEEeecCCCCCee-----EEeeee---------eee
Q 032499 21 TVAFNAGDVKLRASLTD--ATVVN---GPSLN-GLALAVEKPGFFIVDYNVPKKDFR-----FQFMNS---------VRV 80 (139)
Q Consensus 21 tv~~~aGDlkLrAs~TD--atfv~---gpSL~-Gl~l~vEKPGsF~iDy~vp~~d~R-----FQFmn~---------~~v 80 (139)
.+-....+..+.+++.. .-.++ --++. +++||.| +-|+.++..+- +.|.+. +.+
T Consensus 110 ~~~y~~~~~~~~~~~~~~~~~~~~~s~~~~v~~~~~lG~e------~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~ 183 (273)
T PF01459_consen 110 EADYKGDDFNATFKVDNDNNPIFNASYVQSVTPNLALGAE------ATYDLSSGKSSKYNAGLSYAARYTHPDYTASATL 183 (273)
T ss_dssp EEEEEETTEEEEEEEEESTS-EEEEEEEEEET-TEEEEEE------EEEETTTTCEEEEEEEEEEEET----TEEEEEEE
T ss_pred EEEEecCCEEEEEEEcccCCCcEEEEEEEeccccEEEEEE------EEEecccCCcCcceEEEEEeccccceeEEEEEEE
Confidence 33333555555555553 11111 11344 8899998 44555544444 333332 344
Q ss_pred c--ceeeeeEEeeecCCceeEEeeeEEEecCCc-----eeEEEEecCC
Q 032499 81 A--DKPLNLTYIHGRGDNRTILEGTLVFDSANK-----VSANHVLGSG 121 (139)
Q Consensus 81 ~--~K~lnlTY~H~~~~nrT~lDgtl~~D~aNK-----~s~~y~f~s~ 121 (139)
. ...+.++|.|-.. .++.+=..+.+++.-+ |...|.|...
T Consensus 184 ~~~~~~l~~sy~~k~~-~~~~~g~e~~~~~~~~~~~~~vG~~~~l~~~ 230 (273)
T PF01459_consen 184 SNNFGTLTASYFQKVN-DKLQLGAELTYNLSSRESTFTVGYQYKLDDS 230 (273)
T ss_dssp -ETTTEEEEEEEEESS-TTEEEEEEEEEETTCCEEEEEEEEEEEECTT
T ss_pred cCCCCEEEEEEEEEec-cceeeeeeeeecccCCCceEEEEEEEEcCcc
Confidence 2 6889999998754 6777777788877443 3345555544
No 29
>PF14633 SH2_2: SH2 domain; PDB: 3GXX_A 3GXW_B 3PJP_B 2XP1_A.
Probab=23.97 E-value=1.1e+02 Score=25.42 Aligned_cols=29 Identities=28% Similarity=0.666 Sum_probs=20.6
Q ss_pred ccceEEEeecCceEEEeecCCCCCeeEEee
Q 032499 46 LNGLALAVEKPGFFIVDYNVPKKDFRFQFM 75 (139)
Q Consensus 46 L~Gl~l~vEKPGsF~iDy~vp~~d~RFQFm 75 (139)
-=++++.-|+||.|++=|.. ++.+|.+++
T Consensus 162 ~Y~f~~~~~~PG~F~L~y~~-~~~~~~~~~ 190 (220)
T PF14633_consen 162 PYAFCISKEHPGYFILSYKP-NKNPRHEYW 190 (220)
T ss_dssp EEEEEE-TTSTTEEEEEEES-STTS-EEEE
T ss_pred eEEEEECCCCCCEEEEEEEc-CCCCceEEe
Confidence 34677777999999999965 555677775
No 30
>TIGR00049 Iron-sulfur cluster assembly accessory protein. Proteins in this subfamily appear to be associated with the process of FeS-cluster assembly. The HesB proteins are associated with the nif gene cluster and the Rhizobium gene IscN has been shown to be required for nitrogen fixation. Nitrogenase includes multiple FeS clusters and many genes for their assembly. The E. coli SufA protein is associated with SufS, a NifS homolog and SufD which are involved in the FeS cluster assembly of the FhnF protein. The Azotobacter protein IscA (homologs of which are also found in E.coli) is associated which IscS, another NifS homolog and IscU, a nifU homolog as well as other factors consistent with a role in FeS cluster chemistry. A homolog from Geobacter contains a selenocysteine in place of an otherwise invariant cysteine, further suggesting a role in redox chemistry.
Probab=23.30 E-value=1.2e+02 Score=20.83 Aligned_cols=17 Identities=29% Similarity=0.346 Sum_probs=8.7
Q ss_pred EEeecCCCCCeeEEeee
Q 032499 60 IVDYNVPKKDFRFQFMN 76 (139)
Q Consensus 60 ~iDy~vp~~d~RFQFmn 76 (139)
.|||.-......|+|.|
T Consensus 74 ~IDy~~~~~~~~f~i~n 90 (105)
T TIGR00049 74 EIDYVEELLGSGFTFTN 90 (105)
T ss_pred EEEEeecCCcceEEEEC
Confidence 45555555555555553
No 31
>cd00069 GHB Glycoprotein hormone beta chain homologues. Gonadotropins; reproductive hormones consisting of two glycosylated chains (alpha and beta) of similar topology with Cysteine-knot motifs.
Probab=22.73 E-value=52 Score=24.77 Aligned_cols=13 Identities=31% Similarity=0.393 Sum_probs=10.9
Q ss_pred ccceEEEeecCce
Q 032499 46 LNGLALAVEKPGF 58 (139)
Q Consensus 46 L~Gl~l~vEKPGs 58 (139)
|...++.|||+|.
T Consensus 3 ~~n~ti~vEk~~C 15 (102)
T cd00069 3 PTNITIAVEKEEC 15 (102)
T ss_pred ceeEEEEEeeCCC
Confidence 5778999999775
No 32
>TIGR03341 YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization.
Probab=21.26 E-value=1.9e+02 Score=23.17 Aligned_cols=33 Identities=30% Similarity=0.557 Sum_probs=22.0
Q ss_pred ceEEEeecCc----eEEEee----cCCCCCeeEEeeeeeeec
Q 032499 48 GLALAVEKPG----FFIVDY----NVPKKDFRFQFMNSVRVA 81 (139)
Q Consensus 48 Gl~l~vEKPG----sF~iDy----~vp~~d~RFQFmn~~~v~ 81 (139)
||-++|+++| +|-++| +....|..|++ +.++|.
T Consensus 23 ~LRv~V~~gGCsG~~Y~l~~~~~~~~~~~D~v~e~-~g~~v~ 63 (190)
T TIGR03341 23 GIRVFVVNPGTPYAECCVSYCPPDEVEPSDIKLEF-NGFSAY 63 (190)
T ss_pred eEEEEEECCccCCceeeeEEcccCCCCCCCEEEEe-CCEEEE
Confidence 6888888888 456666 33456788886 545543
No 33
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=21.09 E-value=2.4e+02 Score=18.06 Aligned_cols=28 Identities=14% Similarity=0.241 Sum_probs=16.4
Q ss_pred eeeeeEEeeecCCceeEEeeeEEEecCCcee
Q 032499 83 KPLNLTYIHGRGDNRTILEGTLVFDSANKVS 113 (139)
Q Consensus 83 K~lnlTY~H~~~~nrT~lDgtl~~D~aNK~s 113 (139)
+.+.++++-. ..-...-.+++|+.|++.
T Consensus 63 ~~v~~~~~~~---~~G~~~i~~~iD~~n~i~ 90 (101)
T PF07705_consen 63 ETVTFTWTPP---SPGSYTIRVVIDPDNDID 90 (101)
T ss_dssp EEEEEEEE-S---S-CEEEEEEEESTTTSS-
T ss_pred EEEEEEEEeC---CCCeEEEEEEEeeCCccc
Confidence 4455555544 333455678999999875
No 34
>PF00677 Lum_binding: Lumazine binding domain; InterPro: IPR001783 The following proteins have been shown [, ] to be structurally and evolutionary related: Riboflavin synthase alpha chain (2.5.1.9 from EC) (RS-alpha) (gene ribC in Escherichia coli, ribB in Bacillus subtilis and Photobacterium leiognathi, RIB5 in yeast. This enzyme synthesises riboflavin from two moles of 6,7- dimethyl-8-(1'-D-ribityl)lumazine (Lum), a pteridine-derivative. Photobacterium phosphoreum lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase. In the presence of LumP, light emission is shifted to higher energy values (shorter wavelength). LumP binds non-covalently to 6,7-dimethyl-8-(1'-D-ribityl)lumazine. Vibrio fischeri yellow fluorescent protein (YFP) (gene luxY). Like LumP, YFP modulates light emission but towards a longer wavelength. YFP binds non-covalently to FMN. These proteins seem to have evolved from the duplication of a domain of about 100 residues. In its C-terminal section, this domain contains a conserved motif [KR]-V-N-[LI]-E which has been proposed to be the binding site for lumazine (Lum) and some of its derivatives. RS-alpha which binds two molecules of Lum has two perfect copies of this motif, while LumP which binds one molecule of Lum, has a Glu instead of Lys/Arg in the first position of the second copy of the motif. Similarly, YFP, which binds to one molecule of FMN, also seems to have a potentially dysfunctional binding site by substitution of Gly for Glu in the last position of the first copy of the motif.; GO: 0004746 riboflavin synthase activity, 0009231 riboflavin biosynthetic process; PDB: 3DDY_A 1KZL_A 3A3G_B 3A35_B 3A3B_B 1I8D_C 1PKV_B 1HZE_B 1I18_B.
Probab=20.85 E-value=2.9e+02 Score=19.09 Aligned_cols=37 Identities=22% Similarity=0.393 Sum_probs=23.8
Q ss_pred EEEEEEecCceEEeeeeeceeee-----eCCcccceEEEeec
Q 032499 19 AATVAFNAGDVKLRASLTDATVV-----NGPSLNGLALAVEK 55 (139)
Q Consensus 19 ~atv~~~aGDlkLrAs~TDatfv-----~gpSL~Gl~l~vEK 55 (139)
+..+.-.....+++..+.+.-|. ..-+++|++|+|++
T Consensus 10 I~~i~~~~~~~~~~i~~~~~~~~~~~~g~SIavnGvcLTV~~ 51 (85)
T PF00677_consen 10 IISIEKNGDSQRLRIEIPDKILSDLKIGGSIAVNGVCLTVTD 51 (85)
T ss_dssp EEEEEEESSEEEEEEEESTGGGGTG-TTSEEEETTEEEEEEE
T ss_pred EEEEEECCCCEEEEEEcCHHHHhhCccCcEEEECCeeeEEEE
Confidence 44455556677777766643332 23459999999986
No 35
>COG2706 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]
Probab=20.80 E-value=1.7e+02 Score=26.33 Aligned_cols=81 Identities=21% Similarity=0.411 Sum_probs=47.2
Q ss_pred eeeecCCCcceeEEEEEEecCceEEeee---eeceeeee-CCcccc-eEEEeecC--ceEEEeecCCCCCeeEEeeeeee
Q 032499 7 GRYETDKDRGVAAATVAFNAGDVKLRAS---LTDATVVN-GPSLNG-LALAVEKP--GFFIVDYNVPKKDFRFQFMNSVR 79 (139)
Q Consensus 7 grYd~~~~~~~a~atv~~~aGDlkLrAs---~TDatfv~-gpSL~G-l~l~vEKP--GsF~iDy~vp~~d~RFQFmn~~~ 79 (139)
|-|+-+.++|.-+-.+--+.|.+++-.- ...-|+.. -| ++ .-.++.|| ..-+.-|..-..|-|++|.|-..
T Consensus 8 GtyT~~~s~gI~v~~ld~~~g~l~~~~~v~~~~nptyl~~~~--~~~~LY~v~~~~~~ggvaay~iD~~~G~Lt~ln~~~ 85 (346)
T COG2706 8 GTYTKRESQGIYVFNLDTKTGELSLLQLVAELGNPTYLAVNP--DQRHLYVVNEPGEEGGVAAYRIDPDDGRLTFLNRQT 85 (346)
T ss_pred eeecccCCCceEEEEEeCcccccchhhhccccCCCceEEECC--CCCEEEEEEecCCcCcEEEEEEcCCCCeEEEeeccc
Confidence 4555444322334444444666654332 22223322 11 22 34567788 55666777778899999999999
Q ss_pred ecceeeeeEEee
Q 032499 80 VADKPLNLTYIH 91 (139)
Q Consensus 80 v~~K~lnlTY~H 91 (139)
+-++|- ||+-
T Consensus 86 ~~g~~p--~yvs 95 (346)
T COG2706 86 LPGSPP--CYVS 95 (346)
T ss_pred cCCCCC--eEEE
Confidence 999886 4443
No 36
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see IPR001926 from INTERPRO) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region [].; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1TDJ_A 3IAU_A.
Probab=20.69 E-value=31 Score=24.25 Aligned_cols=26 Identities=31% Similarity=0.544 Sum_probs=15.6
Q ss_pred eecCceEEEeecCCCCCeeEEeeeeeeecceeeeeEEeeec
Q 032499 53 VEKPGFFIVDYNVPKKDFRFQFMNSVRVADKPLNLTYIHGR 93 (139)
Q Consensus 53 vEKPGsF~iDy~vp~~d~RFQFmn~~~v~~K~lnlTY~H~~ 93 (139)
-||||+|. +|++.+ .-+.|+|..|-|
T Consensus 18 PE~pGal~------------~F~~~l---~~~~nITeF~YR 43 (91)
T PF00585_consen 18 PERPGALK------------RFLDAL---GPRNNITEFHYR 43 (91)
T ss_dssp -BSTTHCH------------HHHHCC---SSSE-EEEEEEE
T ss_pred CCCccHHH------------HHHHHh---CCCceEEEEEEc
Confidence 48999985 455433 444458877744
No 37
>PRK06764 hypothetical protein; Provisional
Probab=20.46 E-value=88 Score=23.88 Aligned_cols=29 Identities=31% Similarity=0.595 Sum_probs=20.2
Q ss_pred eceeeeeCCc------------ccceEEEeecCceEEEeec
Q 032499 36 TDATVVNGPS------------LNGLALAVEKPGFFIVDYN 64 (139)
Q Consensus 36 TDatfv~gpS------------L~Gl~l~vEKPGsF~iDy~ 64 (139)
.+.-..+|.| |+--+...+|||.|+|--|
T Consensus 51 ~e~y~lsgrsidilsgdkeaiqlnkyti~f~kpg~yvirvn 91 (105)
T PRK06764 51 NELYVLSGRSIDVLSGDKEAIQLNKYTIRFSKPGKYVIRVN 91 (105)
T ss_pred cceEEEcCceeeeecCChhheEeeeeEEEecCCccEEEEEc
Confidence 3444556776 4556788999999998644
No 38
>PF09923 DUF2155: Uncharacterized protein conserved in bacteria (DUF2155); InterPro: IPR019225 This entry contains various hypothetical prokaryotic proteins that have no known function.
Probab=20.30 E-value=1.4e+02 Score=21.67 Aligned_cols=39 Identities=23% Similarity=0.290 Sum_probs=21.1
Q ss_pred eeecCCCcceeEEEEEEe-cCceEEeeeeeceeeeeCCcccce
Q 032499 8 RYETDKDRGVAAATVAFN-AGDVKLRASLTDATVVNGPSLNGL 49 (139)
Q Consensus 8 rYd~~~~~~~a~atv~~~-aGDlkLrAs~TDatfv~gpSL~Gl 49 (139)
||..+...+.|.+.|++. -|.-+ -..=--|++.|+|+.|
T Consensus 39 r~p~~~p~~~Af~~v~~~~~~~~~---iF~GWMfassPal~~~ 78 (90)
T PF09923_consen 39 RPPTENPDTDAFVQVTIREQGKRE---IFSGWMFASSPALNAL 78 (90)
T ss_pred CCCCCCcCccceEEEEEcCCCccc---cEeeeEEecCcccccc
Confidence 666664433556666544 22221 2333458888998854
Done!