Query 048720
Match_columns 109
No_of_seqs 113 out of 765
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 12:23:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048720.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048720hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00042 CY Substituted updates 99.9 9.4E-24 2E-28 138.6 11.8 85 8-94 1-105 (105)
2 smart00043 CY Cystatin-like do 99.9 1.9E-24 4.2E-29 142.4 8.4 87 6-94 2-106 (107)
3 PF00031 Cystatin: Cystatin do 99.9 8.1E-21 1.8E-25 122.2 12.0 74 8-83 1-94 (94)
4 PF07430 PP1: Phloem filament 99.7 1.5E-15 3.3E-20 109.6 11.1 83 6-90 113-199 (202)
5 PF07430 PP1: Phloem filament 99.2 5.4E-11 1.2E-15 86.1 5.5 89 6-95 6-99 (202)
6 TIGR01638 Atha_cystat_rel Arab 99.0 2.4E-09 5.2E-14 69.5 8.7 65 17-81 10-77 (92)
7 PF06907 Latexin: Latexin; In 96.3 0.21 4.5E-06 37.3 12.3 78 17-95 4-89 (220)
8 TIGR01572 A_thl_para_3677 Arab 94.7 0.21 4.5E-06 38.2 7.4 60 22-81 42-104 (265)
9 PF05679 CHGN: Chondroitin N-a 82.2 5.7 0.00012 32.8 6.6 49 19-67 160-210 (499)
10 PF00666 Cathelicidins: Cathel 61.3 13 0.00027 22.8 3.0 46 22-68 4-53 (67)
11 KOG2650 Zinc carboxypeptidase 56.5 38 0.00083 27.7 5.8 63 6-69 317-389 (418)
12 COG3360 Uncharacterized conser 53.9 51 0.0011 20.4 6.3 45 21-66 18-64 (71)
13 PF12274 DUF3615: Protein of u 49.6 65 0.0014 20.3 8.2 67 33-100 1-78 (96)
14 PF07311 Dodecin: Dodecin; In 48.2 61 0.0013 19.7 7.3 48 18-66 12-61 (66)
15 cd05881 Ig1_Necl-2 First (N-te 40.4 35 0.00076 21.8 2.7 28 55-82 58-85 (95)
16 PRK15344 type III secretion sy 29.5 87 0.0019 19.4 3.1 21 16-36 29-49 (71)
17 TIGR02105 III_needle type III 28.9 86 0.0019 19.3 3.0 21 16-36 30-50 (72)
18 PF03504 Chlam_OMP6: Chlamydia 27.2 84 0.0018 20.3 2.8 30 51-82 66-95 (95)
19 PF02995 DUF229: Protein of un 26.7 75 0.0016 26.3 3.2 30 6-37 450-479 (497)
20 KOG1693 emp24/gp25L/p24 family 24.4 1.7E+02 0.0037 21.8 4.3 24 44-67 44-67 (209)
21 smart00678 WWE Domain in Delte 23.5 1.7E+02 0.0036 17.2 4.6 12 54-65 38-49 (73)
22 PF14201 DUF4318: Domain of un 21.4 2.1E+02 0.0046 17.6 7.7 44 26-70 20-67 (74)
23 PF04475 DUF555: Protein of un 20.8 1.4E+02 0.0031 19.7 3.0 41 8-52 9-49 (102)
24 KOG3205 Rho GDP-dissociation i 20.4 2E+02 0.0043 21.2 4.0 28 37-64 103-130 (200)
No 1
>cd00042 CY Substituted updates: Jan 30, 2002
Probab=99.91 E-value=9.4e-24 Score=138.57 Aligned_cols=85 Identities=40% Similarity=0.573 Sum_probs=79.2
Q ss_pred cceeecCCCCCCHHHHHHHHHHHHHHHhhcCCc-eeEEEEEEEEEEeeeeEeEEEEEEEeeC------------------
Q 048720 8 QGVYDYGSNRKNADVEGFVHFSIQEHNKKENAL-LEFARVLKAKVQVVAGKLYCFILQVIKN------------------ 68 (109)
Q Consensus 8 GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~~-~~~~kVv~a~~QVVaG~nY~l~v~~~~~------------------ 68 (109)
|||.++ +.+||++++++++|+.+||+.+++. +++.+|++|++|||+|++|+|+|++.++
T Consensus 1 gg~~~~--~~~d~~~~~~~~~a~~~~N~~~~~~~~~~~~i~~~~~QvvaG~~y~i~~~~~~t~C~k~~~~~~~~~c~~~~ 78 (105)
T cd00042 1 GGPSDI--PANDPEVQELADFAVAEYNKKSNDKYLEFFKVLSAKSQVVAGTNYYITVEAGDTNCKKSSVPLDCPDCKLLE 78 (105)
T ss_pred CCCccC--CCCCHHHHHHHHHHHHHHHhhcCccceeEEEEEEEEEEEEeeeEEEEEEEEecccccccCcccccccccccc
Confidence 899988 5899999999999999999999887 8999999999999999999999999874
Q ss_pred -ceeeEEEEEEEEecCCCceeEEEEEe
Q 048720 69 -VKKKIYEAKISVKSWNKFKQLWEFKH 94 (109)
Q Consensus 69 -~~~~~y~~~Vw~~PW~~~~~l~~f~~ 94 (109)
+....|.+.||.+||+++.+|++|.|
T Consensus 79 ~~~~~~C~~~V~~~pw~~~~~l~~~~C 105 (105)
T cd00042 79 EGKKKFCTAKVWEKPWENFKELLSFKC 105 (105)
T ss_pred cCCCEEEEEEEEecCCCCceeeeeccC
Confidence 35789999999999999999999876
No 2
>smart00043 CY Cystatin-like domain. Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains.
Probab=99.91 E-value=1.9e-24 Score=142.40 Aligned_cols=87 Identities=36% Similarity=0.446 Sum_probs=79.8
Q ss_pred cccceeecCCCCCCHHHHHHHHHHHHHHHhhcCCcee--EEEEEEEEEEeeeeEeEEEEEEEeeCcee------------
Q 048720 6 LLQGVYDYGSNRKNADVEGFVHFSIQEHNKKENALLE--FARVLKAKVQVVAGKLYCFILQVIKNVKK------------ 71 (109)
Q Consensus 6 ~~GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~~~~--~~kVv~a~~QVVaG~nY~l~v~~~~~~~~------------ 71 (109)
++|||+++ +.+||++++++++|+++||+++++.+. +++|++|++|||+|++|+|+|++.++...
T Consensus 2 ~~Gg~~~~--~~~d~~~~~~~~~a~~~~N~~~~~~~~~~~~~v~~a~~QvvaG~~y~l~~~v~~t~C~k~~~~~~~C~~~ 79 (107)
T smart00043 2 CLGGPSDV--PPNDPEVQEAADFAVAEYNKKSNDKYELRVIKVVSAKSQVVAGTNYYLKVEVGETNCKKLSVDLENCPFL 79 (107)
T ss_pred CCCCCccC--CCCCHHHHHHHHHHHHHHHHhcccchhhhhhhhheeeeeeecceEEEEEEEEEeceeccCCcccccCCCC
Confidence 68999999 588999999999999999999988776 79999999999999999999999986543
Q ss_pred ----eEEEEEEEEecCCCceeEEEEEe
Q 048720 72 ----KIYEAKISVKSWNKFKQLWEFKH 94 (109)
Q Consensus 72 ----~~y~~~Vw~~PW~~~~~l~~f~~ 94 (109)
..|.++||.+||+++.++++|+|
T Consensus 80 ~~~~~~C~~~V~~~pw~~~~~~~~~~C 106 (107)
T smart00043 80 DQGEKFCTAKVWEKPWENKIKLVEFKC 106 (107)
T ss_pred CCCccEEEEEEEecCCCCccCccceec
Confidence 38999999999999999999987
No 3
>PF00031 Cystatin: Cystatin domain; InterPro: IPR000010 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The cystatins are cysteine proteinase inhibitors belonging to MEROPS inhibitor family I25, clan IH [, , ]. They mainly inhibit peptidases belonging to peptidase families C1 (papain family) and C13 (legumain family). The cystatin family includes: The Type 1 cystatins, which are intracellular cystatins that are present in the cytosol of many cell types, but can also appear in body fluids at significant concentrations. They are single-chain polypeptides of about 100 residues, which have neither disulphide bonds nor carbohydrate side chains. The Type 2 cystatins, which are mainly extracellular secreted polypeptides synthesised with a 19-28 residue signal peptide. They are broadly distributed and found in most body fluids. The Type 3 cystatins, which are multidomain proteins. The mammalian representatives of this group are the kininogens. There are three different kininogens in mammals: H- (high molecular mass, IPR002395 from INTERPRO) and L- (low molecular mass) kininogen which are found in a number of species, and T-kininogen that is found only in rat. Unclassified cystatins. These are cystatin-like proteins found in a range of organisms: plant phytocystatins, fetuin in mammals, insect cystatins and a puff adder venom cystatin which inhibits metalloproteases of the MEROPS peptidase family M12 (astacin/adamalysin). Also a number of the cystatins-like proteins have been shown to be devoid of inhibitory activity. All true cystatins inhibit cysteine peptidases of the papain family (MEROPS peptidase family C1), and some also inhibit legumain family enzymes (MEROPS peptidase family C13). These peptidases play key roles in physiological processes, such as intracellular protein degradation (cathepsins B, H and L), are pivotal in the remodelling of bone (cathepsin K), and may be important in the control of antigen presentation (cathepsin S, mammalian legumain). Moreover, the activities of such peptidases are increased in pathophysiological conditions, such as cancer metastasis and inflammation. Additionally, such peptidases are essential for several pathogenic parasites and bacteria. Thus in animals cystatins not only have capacity to regulate normal body processes and perhaps cause disease when down-regulated, but in other organisms may also participate in defence against biotic and abiotic stress. ; GO: 0004869 cysteine-type endopeptidase inhibitor activity; PDB: 3L0R_B 2W9P_K 2W9Q_A 3S67_A 3QRD_D 1R4C_G 3GAX_A 1TIJ_B 1G96_A 3NX0_A ....
Probab=99.86 E-value=8.1e-21 Score=122.22 Aligned_cols=74 Identities=22% Similarity=0.385 Sum_probs=66.7
Q ss_pred cceeecCCCCCCHHHHHHHHHHHHHHHhhcCC--ceeEEEEEEEEEEeeeeEeEEEEEEEeeC-----------------
Q 048720 8 QGVYDYGSNRKNADVEGFVHFSIQEHNKKENA--LLEFARVLKAKVQVVAGKLYCFILQVIKN----------------- 68 (109)
Q Consensus 8 GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~--~~~~~kVv~a~~QVVaG~nY~l~v~~~~~----------------- 68 (109)
|||+++ +++||+++++|++|+.+||+++++ .|++.+|++|++|||+|++|+|+|.+.++
T Consensus 1 Gg~~~~--~~~dp~v~~~~~~al~~~N~~~~~~~~~~~~~v~~a~~QvV~G~~Y~i~~~~~~t~C~k~~~~~~~C~~~~~ 78 (94)
T PF00031_consen 1 GGPSPV--DPNDPEVQEAAEFALDKFNEQSNSGYKFKLVKVISATTQVVAGINYYIEFEVGETNCKKSSKDFENCPFQEE 78 (94)
T ss_dssp SSEEEE--CTTSHHHHHHHHHHHHHHHHHSTTSEEEEEEEEEEEEEEESSSEEEEEEEEEEEEEEETCEEEEEECEBEST
T ss_pred CCCccC--CCCCHHHHHHHHHHHHHHHHhCcccCcceeeeeeEEEEeecCCceEEEEEEEEcccccccccccccCCcccc
Confidence 899999 589999999999999999999855 47889999999999999999999999874
Q ss_pred -ceeeEEEEEEEEecC
Q 048720 69 -VKKKIYEAKISVKSW 83 (109)
Q Consensus 69 -~~~~~y~~~Vw~~PW 83 (109)
.....|.++||.+||
T Consensus 79 ~~~~~~C~~~v~~~pW 94 (94)
T PF00031_consen 79 QPWTKFCKFTVWERPW 94 (94)
T ss_dssp TSSEEEEEEEEEEECG
T ss_pred CCceeeEEEEEEECCC
Confidence 235689999999998
No 4
>PF07430 PP1: Phloem filament protein PP1; InterPro: IPR009994 This domain represents a conserved region approximately 200 residues long, four copies of which are found within the plant phloem filament protein PP1. This is one of the constituents of the proteinaceous filaments found in the sieve elements of Cucurbita phloem [].
Probab=99.66 E-value=1.5e-15 Score=109.58 Aligned_cols=83 Identities=23% Similarity=0.205 Sum_probs=72.8
Q ss_pred cccceeecCCCCCCHHHHHHHHHHHHHHHhhcCCceeEEEEEEEEEEeee--eEeEEEEEEEeeC-ceeeEEEEEEEEe-
Q 048720 6 LLQGVYDYGSNRKNADVEGFVHFSIQEHNKKENALLEFARVLKAKVQVVA--GKLYCFILQVIKN-VKKKIYEAKISVK- 81 (109)
Q Consensus 6 ~~GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QVVa--G~nY~l~v~~~~~-~~~~~y~~~Vw~~- 81 (109)
...+|.+++ |+++|.+|++++|||.||| +.+++++|.+|.+++.|=++ |++|+|++.+.|+ ++...|+|.||++
T Consensus 113 ~~~~Wi~I~-nin~p~VQeLgkFAV~EhN-K~gd~LkF~KV~eGw~q~l~~d~ikYrLhI~AkDg~G~~~~YeAvV~~k~ 190 (202)
T PF07430_consen 113 QSKKWIPIP-NINNPFVQELGKFAVIEHN-KAGDKLKFEKVYEGWYQDLGNDGIKYRLHIVAKDGLGRLGNYEAVVWEKQ 190 (202)
T ss_pred ccCCCEECC-CCCcHHHHHHHHHHHHHHh-hcCCceEEEEEeeEEEEeccCCCceEEEEEEeecCCCCcCceEEEEEEec
Confidence 345799997 7999999999999999999 67889999999999999885 6999999999997 8889999999999
Q ss_pred cCCCceeEE
Q 048720 82 SWNKFKQLW 90 (109)
Q Consensus 82 PW~~~~~l~ 90 (109)
+|.+...+.
T Consensus 191 ~~sk~i~i~ 199 (202)
T PF07430_consen 191 FLSKKIKIL 199 (202)
T ss_pred cCcceEEEE
Confidence 566644443
No 5
>PF07430 PP1: Phloem filament protein PP1; InterPro: IPR009994 This domain represents a conserved region approximately 200 residues long, four copies of which are found within the plant phloem filament protein PP1. This is one of the constituents of the proteinaceous filaments found in the sieve elements of Cucurbita phloem [].
Probab=99.16 E-value=5.4e-11 Score=86.10 Aligned_cols=89 Identities=13% Similarity=0.146 Sum_probs=80.8
Q ss_pred cccceeecCCCCCCHHHHHHHHHHHHHHHhhcCCceeEEEEEEEE--EEeeeeEeEEEEEEEee-CceeeEEEEEEEEec
Q 048720 6 LLQGVYDYGSNRKNADVEGFVHFSIQEHNKKENALLEFARVLKAK--VQVVAGKLYCFILQVIK-NVKKKIYEAKISVKS 82 (109)
Q Consensus 6 ~~GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~~~~~~kVv~a~--~QVVaG~nY~l~v~~~~-~~~~~~y~~~Vw~~P 82 (109)
..+||.+++ |..+|.+|.++.|||.+++.+.++.|+|..|++++ .|.+.+++|||.+++.| -+..-.|++.|+++-
T Consensus 6 ~~~~w~~ip-~v~~~~~q~v~~~~veq~k~~~~~~l~~~~v~egwy~el~~~~~~yrlhv~a~d~l~r~l~~e~ii~e~~ 84 (202)
T PF07430_consen 6 FSPKWIKIP-DVKEPCLQEVAKFAVEQFKIQYGDSLKFRSVVEGWYFELCPNSLKYRLHVKAIDFLGRSLKYEAIIIEEK 84 (202)
T ss_pred cCcccccCC-cccchHHHHHHHHHHHHHhhhcccceeeeeeeeceeecccccceeEEEeehhhhhhccccceeeeeeehh
Confidence 468999998 79999999999999999999999999999999999 67889999999999987 567788999999995
Q ss_pred --CCCceeEEEEEec
Q 048720 83 --WNKFKQLWEFKHT 95 (109)
Q Consensus 83 --W~~~~~l~~f~~~ 95 (109)
|++.++|.+|-..
T Consensus 85 ~~~~~~~kl~s~l~~ 99 (202)
T PF07430_consen 85 PQLTRIRKLASILAI 99 (202)
T ss_pred hhhhhhhhhheeeEE
Confidence 9999999987543
No 6
>TIGR01638 Atha_cystat_rel Arabidopsis thaliana cystatin-related protein. This model represents a family similar in sequence and probably homologous to a large family of cysteine proteinase inhibitors, or cystatins, as described by pfam model pfam00031. Cystatins may help plants resist attack by insects.
Probab=99.04 E-value=2.4e-09 Score=69.55 Aligned_cols=65 Identities=12% Similarity=0.051 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHHHHHHhhcCCceeEEEEEEEEEEeeeeEeEEEEEEEeeC---ceeeEEEEEEEEe
Q 048720 17 RKNADVEGFVHFSIQEHNKKENALLEFARVLKAKVQVVAGKLYCFILQVIKN---VKKKIYEAKISVK 81 (109)
Q Consensus 17 ~~d~~v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QVVaG~nY~l~v~~~~~---~~~~~y~~~Vw~~ 81 (109)
.+.+-++.++..|+++||+..+.+++|++|++|..|..+|++|+|||.+.|. ...+.|++.||..
T Consensus 10 T~rd~~~~la~~al~k~N~~~~t~lEfV~vVrAn~~~~~g~~~yITF~Ard~~d~p~~e~~q~~v~~~ 77 (92)
T TIGR01638 10 TNRDLLERLSYVASKKYNDTKFLNLELVEVVRANYRGGAKSKSYITFEARDKPDGPLGEYQQAAVVYL 77 (92)
T ss_pred CHHHHHHHHHHHHHHHhhhhcCceEEEEEEEEEEeeccceEEEEEEEEEecCCCCCHHHhhheeeEec
Confidence 4556699999999999999999999999999999999999999999999873 3456677777764
No 7
>PF06907 Latexin: Latexin; InterPro: IPR009684 This family consists of several animal specific latexin and proteins related to latexin that belong to MEROPS proteinase inhibitor family I47, clan I- []. Latexin, a protein possessing inhibitory activity against rat carboxypeptidase A1 (CPA1) and CPA2 (MEROPS peptidase family M14A), is expressed in a neuronal subset in the cerebral cortex and cells in other neural and non-neural tissues of rat [, ]. OCX-32, the 32 kDa eggshell matrix protein, is present at high levels in the uterine fluid during the terminal phase of eggshell formation, and is localised predominantly in the outer eggshell. The timing of OCX-32 secretion into the uterine fluid suggests that it may play a role in the termination of mineral deposition []. OCX-32 protein possesses limited identity (32%) to two unrelated proteins: latexin and to a skin protein that is encoded by a retinoic acid receptor-responsive gene, TIG1. Tazarotene Induced Gene 1 (TIG1) is a putative 228 transmembrane protein with a small N-terminal intracellular region, a single membrane-spanning hydrophobic region, and a large C-terminal extracellular region containing a glycosylation signal. TIG1 is up-regulated by retinoic acid receptor but not by retinoid X receptor-specific synthetic retinoids []. TIG1 may be a tumour suppressor gene whose diminished expression is involved in the malignant progression of prostate cancer [].; PDB: 1WNH_A 2BO9_B.
Probab=96.34 E-value=0.21 Score=37.26 Aligned_cols=78 Identities=13% Similarity=0.100 Sum_probs=54.8
Q ss_pred CCCHHHHHHHHHHHHHHHhhcCCc---eeEEEEEEEEEEeee--eEeEEEEEEEee---CceeeEEEEEEEEecCCCcee
Q 048720 17 RKNADVEGFVHFSIQEHNKKENAL---LEFARVLKAKVQVVA--GKLYCFILQVIK---NVKKKIYEAKISVKSWNKFKQ 88 (109)
Q Consensus 17 ~~d~~v~~la~~Av~~~N~~~~~~---~~~~kVv~a~~QVVa--G~nY~l~v~~~~---~~~~~~y~~~Vw~~PW~~~~~ 88 (109)
++.-..+++|+-|+.=+|-+.+.+ +.+.+|.+|...++. |-+|.|.|.+.+ +.....|.|+|+-. -.+..-
T Consensus 4 p~h~~a~rAA~va~hy~N~~~GSP~~l~~l~~V~~a~~e~ip~~G~Ky~L~FSte~~~~~e~~g~CsA~V~f~-~qkp~P 82 (220)
T PF06907_consen 4 PSHRPAQRAARVAQHYINYRAGSPSRLFVLQQVQKARAEDIPGEGCKYDLVFSTEEYIEGEHLGNCSAEVFFK-NQKPRP 82 (220)
T ss_dssp TTSHHHHHHHHHHHHHHHHHH-BTTB-EEEEEEEEEEEEEETTTEEEEEEEEEEEETTT---EEEEEEEEEET-T-----
T ss_pred CcchHHHHHHHHHHHHhccccCCCceeeehhhhhhhhheeccCCCCEEEEEEEhHHhhcCCceeEeEEEEEec-CCCCCC
Confidence 445568899999998889987765 566889999999884 799999999987 35678999999873 233333
Q ss_pred EEEEEec
Q 048720 89 LWEFKHT 95 (109)
Q Consensus 89 l~~f~~~ 95 (109)
-..+.|.
T Consensus 83 ~V~vtc~ 89 (220)
T PF06907_consen 83 AVNVTCT 89 (220)
T ss_dssp EEEEEEC
T ss_pred cEEEEEE
Confidence 4555554
No 8
>TIGR01572 A_thl_para_3677 Arabidopsis paralogous family TIGR01572. This model describes a paralogous family of hypothetical proteins in Arabidopsis thaliana. No homologs are detected from other species. Length heterogeneity within the family is attributable partly to a 21-residue repeat present in from zero to three tandem copies. The central region of the repeat resembles the pattern [VIF][FY][QK]GX[LM]P[DEK]XXXDDAL.
Probab=94.68 E-value=0.21 Score=38.20 Aligned_cols=60 Identities=17% Similarity=0.241 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHhhcCCceeEEEEEEEEEEeeeeEeEEEEEEEeeC---ceeeEEEEEEEEe
Q 048720 22 VEGFVHFSIQEHNKKENALLEFARVLKAKVQVVAGKLYCFILQVIKN---VKKKIYEAKISVK 81 (109)
Q Consensus 22 v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QVVaG~nY~l~v~~~~~---~~~~~y~~~Vw~~ 81 (109)
+.-.|+.++.-||-+.+.+|+|..|.+.-++..+=+.|+||+.+.|. ...+.|+..|.++
T Consensus 42 vklyAr~GLH~YN~~~GTNlel~~v~K~N~~~~~~~syyITL~A~DP~s~~s~qTFQtrV~e~ 104 (265)
T TIGR01572 42 VKIYARVGLHRYNFLEGTNLELDHVDKFNKRMCALSSYYITLLAVDPDSRFLQQTFQVRVDEQ 104 (265)
T ss_pred HHHHHHhhhhhhhhccCccceehhhhhhccchhhheeeeEEEEEecCCccccceEEEEEEEec
Confidence 68889999999999999999999999999999999999999999884 3567888888776
No 9
>PF05679 CHGN: Chondroitin N-acetylgalactosaminyltransferase; InterPro: IPR008428 This family represents Chondroitin N-acetylgalactosaminyltransferase. Proteins have a type II transmembrane topology. The enzyme is involved in the biosynthetic initiation and elongation of chondroitin sulphate and is the key enzyme responsible for the selective chain assembly of chondroitin/dermatan sulphate on the linkage region tetrasaccharide common to various proteoglycans containing chondroitin/dermatan sulphate or heparin/heparan sulphate chains. ; GO: 0016758 transferase activity, transferring hexosyl groups, 0032580 Golgi cisterna membrane
Probab=82.25 E-value=5.7 Score=32.81 Aligned_cols=49 Identities=20% Similarity=0.352 Sum_probs=43.2
Q ss_pred CHHHHHHHHHHHHHHHhhcCCceeEEEEEEEEEEe--eeeEeEEEEEEEee
Q 048720 19 NADVEGFVHFSIQEHNKKENALLEFARVLKAKVQV--VAGKLYCFILQVIK 67 (109)
Q Consensus 19 d~~v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QV--VaG~nY~l~v~~~~ 67 (109)
-.++.++...|+...|+.....++|.+++.+...+ .-|+-|.|++.+..
T Consensus 160 ~~dl~~vi~~a~~~ln~~~~~~~~~~~l~~GY~R~dp~rG~~Y~Ldl~l~~ 210 (499)
T PF05679_consen 160 REDLDDVIEQAMEELNRKSRRVLEFRDLINGYRRFDPTRGMDYILDLLLKY 210 (499)
T ss_pred HHHHHHHHHHHHHHHhccccccEEeeeeeeEEEEecCCCCceEEEEEEEee
Confidence 36799999999999999988889999999998876 56999999998765
No 10
>PF00666 Cathelicidins: Cathelicidin; InterPro: IPR001894 The precursor sequences of a number of antimicrobial peptides secreted by neutrophils (polymorphonuclear leukocytes) upon activation have been found to be evolutionarily related and are collectively known as cathelicidins []. Structurally, these proteins consist of three domains: a signal sequence, a conserved region of about 100 residues that contains four cysteines involved in two disulphide bonds, and a highly divergent C-terminal section of variable size. It is in this C-terminal section that the antibacterial peptides are found; they are proteolytically processed from their precursor by enzymes such as elastase. This structure is shown in the following schematic representation: +---+--------------------------------+--------------------+ |Sig| Propeptide C C C C | Antibacterial pep. | +---+----------------|--|--|--|------+--------------------+ | | | | +--+ +--+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0006952 defense response, 0005576 extracellular region; PDB: 1KWI_A 1PFP_A 1LXE_A 1N5P_A 1N5H_A.
Probab=61.33 E-value=13 Score=22.80 Aligned_cols=46 Identities=11% Similarity=0.013 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhhcCCceeEEEEEEEEEEee----eeEeEEEEEEEeeC
Q 048720 22 VEGFVHFSIQEHNKKENALLEFARVLKAKVQVV----AGKLYCFILQVIKN 68 (109)
Q Consensus 22 v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QVV----aG~nY~l~v~~~~~ 68 (109)
++++...||..||+++... -+++++.+.-|-- .++.--+.|.+.++
T Consensus 4 Y~eav~~Av~~yN~~s~~~-nlfRLLe~~p~P~~~~~~~~~~pl~FtIkET 53 (67)
T PF00666_consen 4 YEEAVLRAVDFYNQGSSGE-NLFRLLELDPPPGWDEDPSTPKPLNFTIKET 53 (67)
T ss_dssp CHHHHHHHHHHHHHCS-SS-EEEEEEEE---SSSSSSSSS-EEEEEEEEEE
T ss_pred HHHHHHHHHHHHhcCCCcc-CceeeeeccCCCCCCCCcCcceeeEEEEeec
Confidence 6789999999999997754 2345555554432 23445555665554
No 11
>KOG2650 consensus Zinc carboxypeptidase [Function unknown]
Probab=56.47 E-value=38 Score=27.67 Aligned_cols=63 Identities=10% Similarity=0.028 Sum_probs=44.3
Q ss_pred cccceeecCCCCCCHHHHHHHHHHHHHHHhhcCCceeEEEEEE------E----EEEeeeeEeEEEEEEEeeCc
Q 048720 6 LLQGVYDYGSNRKNADVEGFVHFSIQEHNKKENALLEFARVLK------A----KVQVVAGKLYCFILQVIKNV 69 (109)
Q Consensus 6 ~~GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~~~~~~kVv~------a----~~QVVaG~nY~l~v~~~~~~ 69 (109)
.|=|++... .++-++++++|+.|++...+..+..|++...-. + ..+=+.|++|-+++++.|.+
T Consensus 317 yPyg~~~~~-~~~~~dl~~va~~a~~ai~~~~gt~Y~~G~~~~~~y~asG~S~Dway~~~gi~~~ft~ELrd~g 389 (418)
T KOG2650|consen 317 YPYGYTNDL-PEDYEDLQEVARAAADALKSVYGTKYTVGSSADTLYPASGGSDDWAYDVLGIPYAFTFELRDTG 389 (418)
T ss_pred ecccccCCC-CCCHHHHHHHHHHHHHHHHHHhCCEEEeccccceeeccCCchHHHhhhccCCCEEEEEEeccCC
Confidence 344565554 356677999999999999999888887742221 1 12346788999999988654
No 12
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=53.85 E-value=51 Score=20.35 Aligned_cols=45 Identities=20% Similarity=0.284 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHhhcCCceeEEEEEEEEEEeeee--EeEEEEEEEe
Q 048720 21 DVEGFVHFSIQEHNKKENALLEFARVLKAKVQVVAG--KLYCFILQVI 66 (109)
Q Consensus 21 ~v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QVVaG--~nY~l~v~~~ 66 (109)
.+.++++-|++.-. ++-+.+...+|+.-+-+|+.| .-|.++++++
T Consensus 18 S~d~Ai~~Ai~RA~-~t~~~l~wfeV~~~rg~v~~g~v~hyqv~lkVg 64 (71)
T COG3360 18 SIDAAIANAIARAA-DTLDNLDWFEVVETRGHVVDGAVAHYQVTLKVG 64 (71)
T ss_pred cHHHHHHHHHHHHH-hhhhcceEEEEEeecccEeecceEEEEEEEEEE
Confidence 36777777887543 244578899999999999987 4688888764
No 13
>PF12274 DUF3615: Protein of unknown function (DUF3615); InterPro: IPR022059 This domain family is found in bacteria and eukaryotes, and is typically between 86 and 97 amino acids in length. There is a conserved FAE sequence motif. There is a single completely conserved residue F that may be functionally important.
Probab=49.57 E-value=65 Score=20.34 Aligned_cols=67 Identities=12% Similarity=0.042 Sum_probs=43.8
Q ss_pred HHhhc---CCceeEEEEEEEEEEeeee-E-eEEEEEEEeeC------ceeeEEEEEEEEecCCCceeEEEEEecCCCCC
Q 048720 33 HNKKE---NALLEFARVLKAKVQVVAG-K-LYCFILQVIKN------VKKKIYEAKISVKSWNKFKQLWEFKHTKHGPF 100 (109)
Q Consensus 33 ~N~~~---~~~~~~~kVv~a~~QVVaG-~-nY~l~v~~~~~------~~~~~y~~~Vw~~PW~~~~~l~~f~~~~~~~~ 100 (109)
||++. +..|++.+|+....=.=.| . =|++.|.+... +....|=|+|. ..-.....+.-+-++...++
T Consensus 1 Yn~~~~~~~~~yeL~~v~~~~~~~e~~~~~y~HvNF~A~~~~~~~~~~~~~LFFAE~~-~~~~~~~~v~~C~~l~~~~~ 78 (96)
T PF12274_consen 1 YNEDHPLLGLEYELVDVLHSCFIFERGGWNYYHVNFTAKTKGPDSDDGSPTLFFAEVS-NDCKDEDDVSCCCPLEPPDN 78 (96)
T ss_pred CcccCCCCCcCEEEeEEEeeeeeEeCCCcEEEeEEEEEEcCCccCCCCCceEEEEEEe-cCCCCCCEEEEEEEeECCCC
Confidence 45554 5578999988876544333 3 36888888653 35678999997 23345667777777655554
No 14
>PF07311 Dodecin: Dodecin; InterPro: IPR009923 This entry represents proteins with a Dodecin-like topology. Dodecin flavoprotein is a small dodecameric flavin-binding protein from Halobacterium salinarium (Halobacterium halobium) that contains two flavins stacked in a single binding pocket between two tryptophan residues to form an aromatic tetrade []. Dodecin binds riboflavin, although it appears to have a broad specificity for flavins. Lumichrome, a molecule associated with flavin metabolism, appears to be a ligand of dodecin, which could act as a waste-trapping device. ; PDB: 2VYX_L 2DEG_F 2V18_K 2V19_D 2UX9_B 2CZ8_E 2V21_F 2CC8_A 2CCB_A 2VX9_A ....
Probab=48.24 E-value=61 Score=19.66 Aligned_cols=48 Identities=19% Similarity=0.165 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHHHHHHHhhcCCceeEEEEEEEEEEeeee--EeEEEEEEEe
Q 048720 18 KNADVEGFVHFSIQEHNKKENALLEFARVLKAKVQVVAG--KLYCFILQVI 66 (109)
Q Consensus 18 ~d~~v~~la~~Av~~~N~~~~~~~~~~kVv~a~~QVVaG--~nY~l~v~~~ 66 (109)
+.....++++.|+.+-++- =.+++-++|..-+-.|..| ..|+.+++++
T Consensus 12 S~~S~edAv~~Av~~A~kT-l~ni~~~eV~e~~~~v~dg~i~~y~v~lkv~ 61 (66)
T PF07311_consen 12 SPKSWEDAVQNAVARASKT-LRNIRWFEVKEQRGHVEDGKITEYQVNLKVS 61 (66)
T ss_dssp ESSHHHHHHHHHHHHHHHH-SSSEEEEEEEEEEEEEETTCEEEEEEEEEEE
T ss_pred CCCCHHHHHHHHHHHHhhc-hhCcEEEEEEEEEEEEeCCcEEEEEEEEEEE
Confidence 3456889999999887654 3467888999988889887 5788888764
No 15
>cd05881 Ig1_Necl-2 First (N-terminal) immunoglobulin (Ig)-like domain of nectin-like molecule 2 (also known as cell adhesion molecule 1 (CADM1)). Ig1_Necl-2: domain similar to the N-terminal immunoglobulin (Ig)-like domain of nectin-like molecule-2, Necl-2 (also known as cell adhesion molecule 1 (CADM1), SynCAM1, IGSF4A, Tslc1, sgIGSF, and RA175). Nectin-like molecules have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1 - Necl-5). They all have an extracellular region containing three Ig-like domains, a transmembrane region, and a cytoplasmic region. The N-terminal Ig-like domain of the extracellular region, belongs to the V-type subfamily of Ig domains, is essential to cell-cell adhesion, and plays a part in the interaction with the envelope glycoprotein D of various viruses. Necl-2 has Ca(2+)-independent homophilic and heterophilic cell-cell adhesion activity. Necl-2 is expressed in a wide variety of tissues, and is a
Probab=40.40 E-value=35 Score=21.77 Aligned_cols=28 Identities=7% Similarity=0.035 Sum_probs=21.2
Q ss_pred eeEeEEEEEEEeeCceeeEEEEEEEEec
Q 048720 55 AGKLYCFILQVIKNVKKKIYEAKISVKS 82 (109)
Q Consensus 55 aG~nY~l~v~~~~~~~~~~y~~~Vw~~P 82 (109)
.|..|.|+|+-........|.|.+|..|
T Consensus 58 ~~~~~tL~I~~vq~~D~G~Y~Cqv~t~p 85 (95)
T cd05881 58 SSNELRVSLSNVSLSDEGRYFCQLYTDP 85 (95)
T ss_pred CCCEEEEEECcCCcccCEEEEEEEEccc
Confidence 4778887776555555678999999987
No 16
>PRK15344 type III secretion system needle protein SsaG; Provisional
Probab=29.46 E-value=87 Score=19.37 Aligned_cols=21 Identities=14% Similarity=0.097 Sum_probs=18.1
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 048720 16 NRKNADVEGFVHFSIQEHNKK 36 (109)
Q Consensus 16 ~~~d~~v~~la~~Av~~~N~~ 36 (109)
+++||+..--+.|++.+|+.-
T Consensus 29 ~~~nP~~ml~lQf~i~QyS~~ 49 (71)
T PRK15344 29 DLLNPESMIKAQFALQQYSTF 49 (71)
T ss_pred CCCCHHHHHHHHHHHHHHHHH
Confidence 688999888899999999764
No 17
>TIGR02105 III_needle type III secretion apparatus needle protein. Type III secretion systems translocate proteins, usually virulence factors, out across both inner and outer membranes of certain Gram-negative bacteria and further across the plasma membrane and into the cytoplasm of the host cell. This protein, termed YscF in Yersinia, and EscF, PscF, EprI, etc. in other systems, forms the needle of the injection apparatus.
Probab=28.93 E-value=86 Score=19.28 Aligned_cols=21 Identities=5% Similarity=0.177 Sum_probs=18.0
Q ss_pred CCCCHHHHHHHHHHHHHHHhh
Q 048720 16 NRKNADVEGFVHFSIQEHNKK 36 (109)
Q Consensus 16 ~~~d~~v~~la~~Av~~~N~~ 36 (109)
.++||...--..|++.+||--
T Consensus 30 ~~~nP~~La~~Q~~~~qYs~~ 50 (72)
T TIGR02105 30 LPNDPELMAELQFALNQYSAY 50 (72)
T ss_pred CCCCHHHHHHHHHHHHHHHHH
Confidence 468999988899999999864
No 18
>PF03504 Chlam_OMP6: Chlamydia cysteine-rich outer membrane protein 6; InterPro: IPR003506 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP6 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP6 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=27.21 E-value=84 Score=20.26 Aligned_cols=30 Identities=7% Similarity=0.055 Sum_probs=17.0
Q ss_pred EEeeeeEeEEEEEEEeeCceeeEEEEEEEEec
Q 048720 51 VQVVAGKLYCFILQVIKNVKKKIYEAKISVKS 82 (109)
Q Consensus 51 ~QVVaG~nY~l~v~~~~~~~~~~y~~~Vw~~P 82 (109)
+|-+++.+-..++.-.+ .-..|.+.||.+|
T Consensus 66 ttp~~D~kLVW~Ig~l~--~G~k~kItVwVKP 95 (95)
T PF03504_consen 66 TTPTPDGKLVWKIGRLG--QGEKCKITVWVKP 95 (95)
T ss_pred cccCCCCEEEEEecccc--CCceeEEEEEeCC
Confidence 34445554444443222 2346999999987
No 19
>PF02995 DUF229: Protein of unknown function (DUF229); InterPro: IPR004245 Members of this family are uncharacterised with a long conserved region that may contain several domains.
Probab=26.70 E-value=75 Score=26.25 Aligned_cols=30 Identities=13% Similarity=0.137 Sum_probs=25.2
Q ss_pred cccceeecCCCCCCHHHHHHHHHHHHHHHhhc
Q 048720 6 LLQGVYDYGSNRKNADVEGFVHFSIQEHNKKE 37 (109)
Q Consensus 6 ~~GG~~~~~~~~~d~~v~~la~~Av~~~N~~~ 37 (109)
.|.+|.++ +.+++.++.+|+++|...|+..
T Consensus 450 ~C~~~~~~--~~~~~~~~~~a~~~v~~iN~~l 479 (497)
T PF02995_consen 450 TCEGWKTI--PTNDSLVQRIAKFLVDHINEYL 479 (497)
T ss_pred cCcCcccc--ccCcHHHHHHHHHHHHHHHHHH
Confidence 35678888 4788899999999999999973
No 20
>KOG1693 consensus emp24/gp25L/p24 family of membrane trafficking proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.37 E-value=1.7e+02 Score=21.80 Aligned_cols=24 Identities=13% Similarity=0.073 Sum_probs=20.5
Q ss_pred EEEEEEEEEeeeeEeEEEEEEEee
Q 048720 44 ARVLKAKVQVVAGKLYCFILQVIK 67 (109)
Q Consensus 44 ~kVv~a~~QVVaG~nY~l~v~~~~ 67 (109)
.+....+.||.+|-+|-+++.+.+
T Consensus 44 ~~~~~~~fqV~tGG~fDVD~~I~a 67 (209)
T KOG1693|consen 44 DDTTSFEFQVQTGGHFDVDYDIEA 67 (209)
T ss_pred CceEEEEEEEEeCCceeeEEEEEC
Confidence 456778899999999999998876
No 21
>smart00678 WWE Domain in Deltex and TRIP12 homologues. Possibly involved in regulation of ubiquitin-mediated proteolysis.
Probab=23.46 E-value=1.7e+02 Score=17.18 Aligned_cols=12 Identities=17% Similarity=0.332 Sum_probs=9.2
Q ss_pred eeeEeEEEEEEE
Q 048720 54 VAGKLYCFILQV 65 (109)
Q Consensus 54 VaG~nY~l~v~~ 65 (109)
+.|.+|.|.|..
T Consensus 38 ~~g~~Y~IdF~~ 49 (73)
T smart00678 38 ICGFPYTIDFNA 49 (73)
T ss_pred ECCeEEEEECcC
Confidence 357899998864
No 22
>PF14201 DUF4318: Domain of unknown function (DUF4318)
Probab=21.44 E-value=2.1e+02 Score=17.64 Aligned_cols=44 Identities=20% Similarity=0.209 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhcCCceeEEEEEE-EEEEeeeeEeEEEEE---EEeeCce
Q 048720 26 VHFSIQEHNKKENALLEFARVLK-AKVQVVAGKLYCFIL---QVIKNVK 70 (109)
Q Consensus 26 a~~Av~~~N~~~~~~~~~~kVv~-a~~QVVaG~nY~l~v---~~~~~~~ 70 (109)
...|+..|=.+++..++|++=.. +... ..|.+|.+++ ...+++-
T Consensus 20 i~~aIE~YC~~~~~~l~Fisr~~Pi~~~-idg~lYev~i~~~~~~rggy 67 (74)
T PF14201_consen 20 ICEAIEKYCIKNGESLEFISRDKPITFK-IDGVLYEVEIDEEYMARGGY 67 (74)
T ss_pred HHHHHHHHHHHcCCceEEEecCCcEEEE-ECCeEEEEEEEeeecccCcE
Confidence 34488899888888888854333 3333 3899999999 4445553
No 23
>PF04475 DUF555: Protein of unknown function (DUF555); InterPro: IPR007564 This is a family of uncharacterised, hypothetical archaeal proteins.
Probab=20.82 E-value=1.4e+02 Score=19.69 Aligned_cols=41 Identities=15% Similarity=0.175 Sum_probs=31.1
Q ss_pred cceeecCCCCCCHHHHHHHHHHHHHHHhhcCCceeEEEEEEEEEE
Q 048720 8 QGVYDYGSNRKNADVEGFVHFSIQEHNKKENALLEFARVLKAKVQ 52 (109)
Q Consensus 8 GG~~~~~~~~~d~~v~~la~~Av~~~N~~~~~~~~~~kVv~a~~Q 52 (109)
+.|.-. |. +.++++..-|+++-.+..|..+.|++|--+.++
T Consensus 9 aa~~V~--dv--~s~dDAI~iAIseaGkrLn~~~~~VeIevG~~~ 49 (102)
T PF04475_consen 9 AAWIVR--DV--ESVDDAIGIAISEAGKRLNPDLDYVEIEVGDTI 49 (102)
T ss_pred eeEEEe--cC--CcHHHHHHHHHHHHHHhhCCCCCeEEEecCccc
Confidence 456555 34 347889999999999998889999888765543
No 24
>KOG3205 consensus Rho GDP-dissociation inhibitor [Signal transduction mechanisms]
Probab=20.35 E-value=2e+02 Score=21.23 Aligned_cols=28 Identities=14% Similarity=0.258 Sum_probs=19.0
Q ss_pred cCCceeEEEEEEEEEEeeeeEeEEEEEE
Q 048720 37 ENALLEFARVLKAKVQVVAGKLYCFILQ 64 (109)
Q Consensus 37 ~~~~~~~~kVv~a~~QVVaG~nY~l~v~ 64 (109)
.|..|++.-..+++.-+|+|..|.=++.
T Consensus 103 EGs~Y~lki~F~Vq~eIvSGLrY~q~v~ 130 (200)
T KOG3205|consen 103 EGSEYRLKISFRVQREIVSGLRYVQTVY 130 (200)
T ss_pred cCcEEEEEEEEEEeeheeccceeeeEEe
Confidence 3455666666777777888887766554
Done!