Query 045193
Match_columns 82
No_of_seqs 109 out of 697
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 10:44:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045193.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045193hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00031 Cystatin: Cystatin do 99.8 6E-19 1.3E-23 106.6 8.8 59 18-77 1-61 (94)
2 smart00043 CY Cystatin-like do 99.8 2.6E-18 5.6E-23 106.2 6.4 61 16-77 2-64 (107)
3 cd00042 CY Substituted updates 99.7 1E-17 2.3E-22 103.0 8.5 59 18-77 1-60 (105)
4 PF07430 PP1: Phloem filament 99.6 5.5E-15 1.2E-19 100.6 10.0 69 8-77 105-175 (202)
5 PF07430 PP1: Phloem filament 99.1 2.4E-10 5.2E-15 78.1 5.5 66 11-76 1-68 (202)
6 TIGR01638 Atha_cystat_rel Arab 98.7 8.6E-08 1.9E-12 58.9 7.0 53 26-78 10-62 (92)
7 PF06907 Latexin: Latexin; In 88.4 5.4 0.00012 28.1 7.8 53 25-77 3-60 (220)
8 PF05679 CHGN: Chondroitin N-a 88.2 2.7 5.8E-05 32.5 6.8 50 28-77 160-211 (499)
9 TIGR01572 A_thl_para_3677 Arab 86.2 0.78 1.7E-05 33.1 2.8 49 31-79 42-90 (265)
10 PF00666 Cathelicidins: Cathel 71.7 4.2 9.1E-05 23.5 2.2 30 31-61 4-33 (67)
11 COG3360 Uncharacterized conser 53.5 44 0.00095 19.5 6.1 44 31-75 19-64 (71)
12 PF07353 Uroplakin_II: Uroplak 52.4 33 0.00072 23.4 4.1 20 62-81 109-128 (184)
13 TIGR02105 III_needle type III 50.0 27 0.00059 20.3 3.0 20 25-44 30-49 (72)
14 PF02995 DUF229: Protein of un 47.1 24 0.00053 27.3 3.2 28 17-45 451-478 (497)
15 PRK15344 type III secretion sy 46.0 36 0.00077 19.9 3.0 21 24-44 28-48 (71)
16 PF13028 DUF3889: Protein of u 45.3 72 0.0016 19.7 7.7 51 27-78 19-71 (97)
17 PF07311 Dodecin: Dodecin; In 39.2 76 0.0016 18.2 7.4 47 28-75 13-61 (66)
18 PF00041 fn3: Fibronectin type 39.2 32 0.0007 18.5 2.2 18 62-79 63-80 (85)
19 KOG2650 Zinc carboxypeptidase 36.1 1.8E+02 0.0039 22.4 6.3 62 15-76 316-387 (418)
20 cd08538 SAM_PNT-ESE-2-like Ste 35.8 30 0.00064 20.5 1.7 19 27-45 11-29 (78)
21 cd02848 Chitinase_N_term Chiti 34.9 83 0.0018 19.7 3.6 19 62-80 76-94 (106)
22 KOG2786 Putative glutamate/orn 30.9 35 0.00076 25.7 1.7 29 51-80 176-204 (431)
23 cd06247 M14_CPO Peptidase M14 30.5 93 0.002 22.6 3.8 71 6-77 186-268 (298)
24 PF14201 DUF4318: Domain of un 28.4 1.3E+02 0.0028 17.6 4.7 39 38-77 23-65 (74)
25 PF14873 BNR_assoc_N: N-termin 27.4 62 0.0014 20.6 2.3 22 56-77 94-116 (137)
26 PF07488 Glyco_hydro_67M: Glyc 27.1 72 0.0016 23.9 2.8 40 5-45 108-147 (328)
27 PF07849 DUF1641: Protein of u 26.1 81 0.0018 16.2 2.2 15 26-40 20-34 (42)
28 PF01448 ELM2: ELM2 domain; I 25.6 60 0.0013 17.2 1.7 22 20-41 33-54 (55)
29 PF07820 TraC: TraC-like prote 25.2 1E+02 0.0022 18.9 2.8 29 17-46 35-63 (92)
30 cd03870 M14_CPA Peptidase M14 23.8 2.6E+02 0.0056 20.3 5.1 72 7-78 187-269 (301)
31 PF08329 ChitinaseA_N: Chitina 23.2 1.9E+02 0.0042 18.7 4.0 19 62-80 79-97 (133)
32 PF01819 Levi_coat: Levivirus 21.7 1.7E+02 0.0037 19.0 3.4 23 46-68 53-78 (129)
33 PF00413 Peptidase_M10: Matrix 21.4 1.8E+02 0.004 17.9 3.6 30 25-56 17-46 (154)
34 cd03147 GATase1_Ydr533c_like T 21.1 75 0.0016 22.0 1.8 26 15-40 99-125 (231)
35 PF08522 DUF1735: Domain of un 20.3 1.9E+02 0.004 16.5 3.4 15 38-52 15-29 (86)
No 1
>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=99.80 E-value=6e-19 Score=106.58 Aligned_cols=59 Identities=29% Similarity=0.433 Sum_probs=54.7
Q ss_pred cceEECCCCCCHHHHHHHHHHHHHHHhhcCCcee--EeeEEEEEEEeecceEEEEEEEEeeC
Q 045193 18 GGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFK--FKSVEKGKTKVVSSTNYRLILVVKDG 77 (82)
Q Consensus 18 Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~--~~~V~~~~~QVVaG~nY~l~v~~~~g 77 (82)
|||+++ |++||+++++++||+.+||+++++.+. +.+|+++++|||+|++|+|+++++++
T Consensus 1 Gg~~~~-~~~dp~v~~~~~~al~~~N~~~~~~~~~~~~~v~~a~~QvV~G~~Y~i~~~~~~t 61 (94)
T PF00031_consen 1 GGPSPV-DPNDPEVQEAAEFALDKFNEQSNSGYKFKLVKVISATTQVVAGINYYIEFEVGET 61 (94)
T ss_dssp SSEEEE-CTTSHHHHHHHHHHHHHHHHHSTTSEEEEEEEEEEEEEEESSSEEEEEEEEEEEE
T ss_pred CCCccC-CCCCHHHHHHHHHHHHHHHHhCcccCcceeeeeeEEEEeecCCceEEEEEEEEcc
Confidence 899999 789999999999999999999866554 58999999999999999999999885
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=99.75 E-value=2.6e-18 Score=106.18 Aligned_cols=61 Identities=31% Similarity=0.465 Sum_probs=57.3
Q ss_pred cccceEECCCCCCHHHHHHHHHHHHHHHhhcCCcee--EeeEEEEEEEeecceEEEEEEEEeeC
Q 045193 16 LVGGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFK--FKSVEKGKTKVVSSTNYRLILVVKDG 77 (82)
Q Consensus 16 ~~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~--~~~V~~~~~QVVaG~nY~l~v~~~~g 77 (82)
++|||+++ +.+||+++++++||+.+||+++++.|. +++++++++|||+|++|+|++++.++
T Consensus 2 ~~Gg~~~~-~~~d~~~~~~~~~a~~~~N~~~~~~~~~~~~~v~~a~~QvvaG~~y~l~~~v~~t 64 (107)
T smart00043 2 CLGGPSDV-PPNDPEVQEAADFAVAEYNKKSNDKYELRVIKVVSAKSQVVAGTNYYLKVEVGET 64 (107)
T ss_pred CCCCCccC-CCCCHHHHHHHHHHHHHHHHhcccchhhhhhhhheeeeeeecceEEEEEEEEEec
Confidence 68999999 789999999999999999999998887 58999999999999999999999875
No 3
>cd00042 CY Substituted updates: Jan 30, 2002
Probab=99.75 E-value=1e-17 Score=103.02 Aligned_cols=59 Identities=32% Similarity=0.507 Sum_probs=55.7
Q ss_pred cceEECCCCCCHHHHHHHHHHHHHHHhhcCCc-eeEeeEEEEEEEeecceEEEEEEEEeeC
Q 045193 18 GGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNE-FKFKSVEKGKTKVVSSTNYRLILVVKDG 77 (82)
Q Consensus 18 Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~-~~~~~V~~~~~QVVaG~nY~l~v~~~~g 77 (82)
|||.++ +++||+++++++||+.+||+++++. +.+.+|+++++|||+|++|+|++++.+.
T Consensus 1 gg~~~~-~~~d~~~~~~~~~a~~~~N~~~~~~~~~~~~i~~~~~QvvaG~~y~i~~~~~~t 60 (105)
T cd00042 1 GGPSDI-PANDPEVQELADFAVAEYNKKSNDKYLEFFKVLSAKSQVVAGTNYYITVEAGDT 60 (105)
T ss_pred CCCccC-CCCCHHHHHHHHHHHHHHHhhcCccceeEEEEEEEEEEEEeeeEEEEEEEEecc
Confidence 899998 7999999999999999999999988 7779999999999999999999999875
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=99.62 E-value=5.5e-15 Score=100.64 Aligned_cols=69 Identities=28% Similarity=0.512 Sum_probs=61.9
Q ss_pred eeeccCcccccceEECCCCCCHHHHHHHHHHHHHHHhhcCCceeEeeEEEEEEEeec--ceEEEEEEEEeeC
Q 045193 8 AADNRKRVLVGGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFKFKSVEKGKTKVVS--STNYRLILVVKDG 77 (82)
Q Consensus 8 ~~~~~~~~~~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~QVVa--G~nY~l~v~~~~g 77 (82)
.+.+..++...+|.+++|+++|++|++++|||.||| +.+++++|.+|.+++.|=++ |++|+|+|.+.|+
T Consensus 105 ~v~pv~~p~~~~Wi~I~nin~p~VQeLgkFAV~EhN-K~gd~LkF~KV~eGw~q~l~~d~ikYrLhI~AkDg 175 (202)
T PF07430_consen 105 VVYPVATPQSKKWIPIPNINNPFVQELGKFAVIEHN-KAGDKLKFEKVYEGWYQDLGNDGIKYRLHIVAKDG 175 (202)
T ss_pred eeccccCcccCCCEECCCCCcHHHHHHHHHHHHHHh-hcCCceEEEEEeeEEEEeccCCCceEEEEEEeecC
Confidence 445666777899999999999999999999999999 57899999999999999664 7999999999998
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=99.08 E-value=2.4e-10 Score=78.05 Aligned_cols=66 Identities=29% Similarity=0.407 Sum_probs=60.2
Q ss_pred ccCcccccceEECCCCCCHHHHHHHHHHHHHHHhhcCCceeEeeEEEEE--EEeecceEEEEEEEEee
Q 045193 11 NRKRVLVGGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFKFKSVEKGK--TKVVSSTNYRLILVVKD 76 (82)
Q Consensus 11 ~~~~~~~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~~~~V~~~~--~QVVaG~nY~l~v~~~~ 76 (82)
|.+....+||.+++|+.+|.+|+++.|++.+++.+.++.++|.+|++++ .|...+++|||.+++.|
T Consensus 1 ~~~~~~~~~w~~ip~v~~~~~q~v~~~~veq~k~~~~~~l~~~~v~egwy~el~~~~~~yrlhv~a~d 68 (202)
T PF07430_consen 1 CGQVPFSPKWIKIPDVKEPCLQEVAKFAVEQFKIQYGDSLKFRSVVEGWYFELCPNSLKYRLHVKAID 68 (202)
T ss_pred CCCcccCcccccCCcccchHHHHHHHHHHHHHhhhcccceeeeeeeeceeecccccceeEEEeehhhh
Confidence 3456678999999999999999999999999999999999999999999 56889999999998765
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=98.72 E-value=8.6e-08 Score=58.86 Aligned_cols=53 Identities=6% Similarity=0.042 Sum_probs=49.1
Q ss_pred CCCHHHHHHHHHHHHHHHhhcCCceeEeeEEEEEEEeecceEEEEEEEEeeCc
Q 045193 26 LSEPHVTEIGRFAVMSTKKRSKNEFKFKSVEKGKTKVVSSTNYRLILVVKDGK 78 (82)
Q Consensus 26 ~~d~~vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~QVVaG~nY~l~v~~~~g~ 78 (82)
.+.+.+..++++|+++||...+..+.|++|++|..|..+|..|+|++.+.|..
T Consensus 10 T~rd~~~~la~~al~k~N~~~~t~lEfV~vVrAn~~~~~g~~~yITF~Ard~~ 62 (92)
T TIGR01638 10 TNRDLLERLSYVASKKYNDTKFLNLELVEVVRANYRGGAKSKSYITFEARDKP 62 (92)
T ss_pred CHHHHHHHHHHHHHHHhhhhcCceEEEEEEEEEEeeccceEEEEEEEEEecCC
Confidence 45677899999999999999999999999999999999999999999998864
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=88.38 E-value=5.4 Score=28.12 Aligned_cols=53 Identities=15% Similarity=0.254 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHHHHHhhcCCcee---EeeEEEEEEEeec--ceEEEEEEEEeeC
Q 045193 25 DLSEPHVTEIGRFAVMSTKKRSKNEFK---FKSVEKGKTKVVS--STNYRLILVVKDG 77 (82)
Q Consensus 25 ~~~d~~vq~~a~fAv~~~n~~s~~~~~---~~~V~~~~~QVVa--G~nY~l~v~~~~g 77 (82)
+++.-..+.+|+-|..=+|-+.++..+ +.+|.+|+..++. |-+|.|++.+.+-
T Consensus 3 ~p~h~~a~rAA~va~hy~N~~~GSP~~l~~l~~V~~a~~e~ip~~G~Ky~L~FSte~~ 60 (220)
T PF06907_consen 3 NPSHRPAQRAARVAQHYINYRAGSPSRLFVLQQVQKARAEDIPGEGCKYDLVFSTEEY 60 (220)
T ss_dssp -TTSHHHHHHHHHHHHHHHHHH-BTTB-EEEEEEEEEEEEEETTTEEEEEEEEEEEET
T ss_pred CCcchHHHHHHHHHHHHhccccCCCceeeehhhhhhhhheeccCCCCEEEEEEEhHHh
Confidence 455666788999888888876665443 3799999999764 8999999998774
No 8
>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=88.17 E-value=2.7 Score=32.50 Aligned_cols=50 Identities=16% Similarity=0.310 Sum_probs=42.8
Q ss_pred CHHHHHHHHHHHHHHHhhcCCceeEeeEEEEEEEe--ecceEEEEEEEEeeC
Q 045193 28 EPHVTEIGRFAVMSTKKRSKNEFKFKSVEKGKTKV--VSSTNYRLILVVKDG 77 (82)
Q Consensus 28 d~~vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~QV--VaG~nY~l~v~~~~g 77 (82)
-.++.++.+.|+...|+.+...+.|.+++.+...+ .-|+.|.|.+.....
T Consensus 160 ~~dl~~vi~~a~~~ln~~~~~~~~~~~l~~GY~R~dp~rG~~Y~Ldl~l~~~ 211 (499)
T PF05679_consen 160 REDLDDVIEQAMEELNRKSRRVLEFRDLINGYRRFDPTRGMDYILDLLLKYK 211 (499)
T ss_pred HHHHHHHHHHHHHHHhccccccEEeeeeeeEEEEecCCCCceEEEEEEEeec
Confidence 36789999999999998888889999999998775 679999999876543
No 9
>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=86.22 E-value=0.78 Score=33.09 Aligned_cols=49 Identities=14% Similarity=0.228 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHhhcCCceeEeeEEEEEEEeecceEEEEEEEEeeCcc
Q 045193 31 VTEIGRFAVMSTKKRSKNEFKFKSVEKGKTKVVSSTNYRLILVVKDGKN 79 (82)
Q Consensus 31 vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~QVVaG~nY~l~v~~~~g~~ 79 (82)
+.-.|+.++-.||...+.+++|..|.+.-++..+=+.|+|++++-|-..
T Consensus 42 vklyAr~GLH~YN~~~GTNlel~~v~K~N~~~~~~~syyITL~A~DP~s 90 (265)
T TIGR01572 42 VKIYARVGLHRYNFLEGTNLELDHVDKFNKRMCALSSYYITLLAVDPDS 90 (265)
T ss_pred HHHHHHhhhhhhhhccCccceehhhhhhccchhhheeeeEEEEEecCCc
Confidence 5888999999999999999999999999999998999999999988643
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=71.74 E-value=4.2 Score=23.54 Aligned_cols=30 Identities=17% Similarity=-0.110 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHhhcCCceeEeeEEEEEEE
Q 045193 31 VTEIGRFAVMSTKKRSKNEFKFKSVEKGKTK 61 (82)
Q Consensus 31 vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~Q 61 (82)
++++...|+..||+++.+.. +.+++++.-+
T Consensus 4 Y~eav~~Av~~yN~~s~~~n-lfRLLe~~p~ 33 (67)
T PF00666_consen 4 YEEAVLRAVDFYNQGSSGEN-LFRLLELDPP 33 (67)
T ss_dssp CHHHHHHHHHHHHHCS-SSE-EEEEEEE---
T ss_pred HHHHHHHHHHHHhcCCCccC-ceeeeeccCC
Confidence 57889999999998876543 3556665544
No 11
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=53.54 E-value=44 Score=19.53 Aligned_cols=44 Identities=16% Similarity=0.248 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhhcCCceeEeeEEEEEEEeecc--eEEEEEEEEe
Q 045193 31 VTEIGRFAVMSTKKRSKNEFKFKSVEKGKTKVVSS--TNYRLILVVK 75 (82)
Q Consensus 31 vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~QVVaG--~nY~l~v~~~ 75 (82)
+.++++-|+..-. ++-+.+...+|++-+-+++.| ..|.++++++
T Consensus 19 ~d~Ai~~Ai~RA~-~t~~~l~wfeV~~~rg~v~~g~v~hyqv~lkVg 64 (71)
T COG3360 19 IDAAIANAIARAA-DTLDNLDWFEVVETRGHVVDGAVAHYQVTLKVG 64 (71)
T ss_pred HHHHHHHHHHHHH-hhhhcceEEEEEeecccEeecceEEEEEEEEEE
Confidence 4555555555432 245678889999999999987 5688888875
No 12
>PF07353 Uroplakin_II: Uroplakin II; InterPro: IPR009952 This family contains uroplakin II, which is approximately 180 residues long and seems to be restricted to mammals. Uroplakin II is an integral membrane protein, and is one of the components of the apical plaques of mammalian urothelium formed by the asymmetric unit membrane - this is believed to play a role in strengthening the urothelial apical surface to prevent the cells from rupturing during bladder distension [].; GO: 0016044 cellular membrane organization, 0030176 integral to endoplasmic reticulum membrane
Probab=52.43 E-value=33 Score=23.39 Aligned_cols=20 Identities=20% Similarity=0.361 Sum_probs=16.3
Q ss_pred eecceEEEEEEEEeeCcccC
Q 045193 62 VVSSTNYRLILVVKDGKNCY 81 (82)
Q Consensus 62 VVaG~nY~l~v~~~~g~~~~ 81 (82)
++-|++|++...+.+|...|
T Consensus 109 L~pGTkY~isY~VtkgtstE 128 (184)
T PF07353_consen 109 LQPGTKYYISYLVTKGTSTE 128 (184)
T ss_pred cCCCcEEEEEEEEecCccce
Confidence 46799999999998886544
No 13
>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=49.97 E-value=27 Score=20.32 Aligned_cols=20 Identities=15% Similarity=0.134 Sum_probs=18.1
Q ss_pred CCCCHHHHHHHHHHHHHHHh
Q 045193 25 DLSEPHVTEIGRFAVMSTKK 44 (82)
Q Consensus 25 ~~~d~~vq~~a~fAv~~~n~ 44 (82)
+++||+..--.+|++.+||-
T Consensus 30 ~~~nP~~La~~Q~~~~qYs~ 49 (72)
T TIGR02105 30 LPNDPELMAELQFALNQYSA 49 (72)
T ss_pred CCCCHHHHHHHHHHHHHHHH
Confidence 57899999999999999984
No 14
>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=47.14 E-value=24 Score=27.26 Aligned_cols=28 Identities=25% Similarity=0.469 Sum_probs=25.1
Q ss_pred ccceEECCCCCCHHHHHHHHHHHHHHHhh
Q 045193 17 VGGWKSKEDLSEPHVTEIGRFAVMSTKKR 45 (82)
Q Consensus 17 ~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~ 45 (82)
|-+|.++ +.+|+.++.+|+++|...|..
T Consensus 451 C~~~~~~-~~~~~~~~~~a~~~v~~iN~~ 478 (497)
T PF02995_consen 451 CEGWKTI-PTNDSLVQRIAKFLVDHINEY 478 (497)
T ss_pred CcCcccc-ccCcHHHHHHHHHHHHHHHHH
Confidence 6889888 688999999999999999965
No 15
>PRK15344 type III secretion system needle protein SsaG; Provisional
Probab=46.00 E-value=36 Score=19.93 Aligned_cols=21 Identities=24% Similarity=0.330 Sum_probs=18.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHh
Q 045193 24 EDLSEPHVTEIGRFAVMSTKK 44 (82)
Q Consensus 24 ~~~~d~~vq~~a~fAv~~~n~ 44 (82)
.+++||+..--++|++.+|+.
T Consensus 28 ~~~~nP~~ml~lQf~i~QyS~ 48 (71)
T PRK15344 28 NDLLNPESMIKAQFALQQYST 48 (71)
T ss_pred CCCCCHHHHHHHHHHHHHHHH
Confidence 378899999999999999874
No 16
>PF13028 DUF3889: Protein of unknown function (DUF3889)
Probab=45.33 E-value=72 Score=19.65 Aligned_cols=51 Identities=29% Similarity=0.412 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHHHHHHHhhc-CCceeEeeEEEEEEEeecc-eEEEEEEEEeeCc
Q 045193 27 SEPHVTEIGRFAVMSTKKRS-KNEFKFKSVEKGKTKVVSS-TNYRLILVVKDGK 78 (82)
Q Consensus 27 ~d~~vq~~a~fAv~~~n~~s-~~~~~~~~V~~~~~QVVaG-~nY~l~v~~~~g~ 78 (82)
++|.+.+..+.|+.+.-++= +.... .-..-+++|+-++ +.-.+++-+.+|+
T Consensus 19 ~~p~yaKWgrlA~~~~k~~Yp~a~v~-DY~~vGr~~~~~~~t~e~Fkl~l~~~~ 71 (97)
T PF13028_consen 19 AQPSYAKWGRLAVQETKEKYPGAEVV-DYLYVGRTKVNDEQTVEKFKLWLREGG 71 (97)
T ss_pred CCCcHHHHHHHHHHHHHHHCCCCEEe-eeeeecceecCCcceEEEEEEEEEcCC
Confidence 45889999999999865431 21111 1112245556666 6666666665554
No 17
>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=39.17 E-value=76 Score=18.15 Aligned_cols=47 Identities=19% Similarity=0.239 Sum_probs=35.6
Q ss_pred CHHHHHHHHHHHHHHHhhcCCceeEeeEEEEEEEeecc--eEEEEEEEEe
Q 045193 28 EPHVTEIGRFAVMSTKKRSKNEFKFKSVEKGKTKVVSS--TNYRLILVVK 75 (82)
Q Consensus 28 d~~vq~~a~fAv~~~n~~s~~~~~~~~V~~~~~QVVaG--~nY~l~v~~~ 75 (82)
......+.+-|+.+-.+ +=++++-++|..-+-.|..| +.|+.+++++
T Consensus 13 ~~S~edAv~~Av~~A~k-Tl~ni~~~eV~e~~~~v~dg~i~~y~v~lkv~ 61 (66)
T PF07311_consen 13 PKSWEDAVQNAVARASK-TLRNIRWFEVKEQRGHVEDGKITEYQVNLKVS 61 (66)
T ss_dssp SSHHHHHHHHHHHHHHH-HSSSEEEEEEEEEEEEEETTCEEEEEEEEEEE
T ss_pred CCCHHHHHHHHHHHHhh-chhCcEEEEEEEEEEEEeCCcEEEEEEEEEEE
Confidence 34566777777776553 45678889999999999887 7899988875
No 18
>PF00041 fn3: Fibronectin type III domain; InterPro: IPR003961 Fibronectins are multi-domain glycoproteins found in a soluble form in plasma, and in an insoluble form in loose connective tissue and basement membranes []. They contain multiple copies of 3 repeat regions (types I, II and III), which bind to a variety of substances including heparin, collagen, DNA, actin, fibrin and fibronectin receptors on cell surfaces. The wide variety of these substances means that fibronectins are involved in a number of important functions: e.g., wound healing; cell adhesion; blood coagulation; cell differentiation and migration; maintenance of the cellular cytoskeleton; and tumour metastasis []. The role of fibronectin in cell differentiation is demonstrated by the marked reduction in the expression of its gene when neoplastic transformation occurs. Cell attachment has been found to be mediated by the binding of the tetrapeptide RGDS to integrins on the cell surface [], although related sequences can also display cell adhesion activity. Plasma fibronectin occurs as a dimer of 2 different subunits, linked together by 2 disulphide bonds near the C terminus. The difference in the 2 chains occurs in the type III repeat region and is caused by alternative splicing of the mRNA from one gene []. The observation that, in a given protein, an individual repeat of one of the 3 types (e.g., the first FnIII repeat) shows much less similarity to its subsequent tandem repeats within that protein than to its equivalent repeat between fibronectins from other species, has suggested that the repeating structure of fibronectin arose at an early stage of evolution. It also seems to suggest that the structure is subject to high selective pressure []. The fibronectin type III repeat region is an approximately 100 amino acid domain, different tandem repeats of which contain binding sites for DNA, heparin and the cell surface []. The superfamily of sequences believed to contain FnIII repeats represents 45 different families, the majority of which are involved in cell surface binding in some manner, or are receptor protein tyrosine kinases, or cytokine receptors.; GO: 0005515 protein binding; PDB: 1UEM_A 1TDQ_A 1X5I_A 2IC2_B 2IBG_C 2IBB_A 3R8Q_A 2FNB_A 1FNH_A 2EDB_A ....
Probab=39.17 E-value=32 Score=18.55 Aligned_cols=18 Identities=11% Similarity=0.254 Sum_probs=14.5
Q ss_pred eecceEEEEEEEEeeCcc
Q 045193 62 VVSSTNYRLILVVKDGKN 79 (82)
Q Consensus 62 VVaG~nY~l~v~~~~g~~ 79 (82)
+..|+.|.+.|.+.++.+
T Consensus 63 L~p~t~Y~~~v~a~~~~g 80 (85)
T PF00041_consen 63 LQPGTTYEFRVRAVNSDG 80 (85)
T ss_dssp CCTTSEEEEEEEEEETTE
T ss_pred CCCCCEEEEEEEEEeCCc
Confidence 568999999999877643
No 19
>KOG2650 consensus Zinc carboxypeptidase [Function unknown]
Probab=36.08 E-value=1.8e+02 Score=22.45 Aligned_cols=62 Identities=15% Similarity=0.158 Sum_probs=45.0
Q ss_pred ccccceEECCCCCCHHHHHHHHHHHHHHHhhcCCceeEe---eEE---EE----EEEeecceEEEEEEEEee
Q 045193 15 VLVGGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFKFK---SVE---KG----KTKVVSSTNYRLILVVKD 76 (82)
Q Consensus 15 ~~~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~~~---~V~---~~----~~QVVaG~nY~l~v~~~~ 76 (82)
..|=|++.....+-++++++|+.|++..++..+..|++- .++ ++ +.+=+.|.+|-+++++.|
T Consensus 316 lyPyg~~~~~~~~~~dl~~va~~a~~ai~~~~gt~Y~~G~~~~~~y~asG~S~Dway~~~gi~~~ft~ELrd 387 (418)
T KOG2650|consen 316 LYPYGYTNDLPEDYEDLQEVARAAADALKSVYGTKYTVGSSADTLYPASGGSDDWAYDVLGIPYAFTFELRD 387 (418)
T ss_pred EecccccCCCCCCHHHHHHHHHHHHHHHHHHhCCEEEeccccceeeccCCchHHHhhhccCCCEEEEEEecc
Confidence 346667665444667789999999999998888888873 221 22 345578999999999874
No 20
>cd08538 SAM_PNT-ESE-2-like Sterile alpha motif (SAM)/Pointed domain of ESE-2 like ETS transcriptional regulators. SAM Pointed domain of ESE-2-like (Epithelium-Specific ETS) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. It can act as a major transactivator by providing a potential docking site for co-activators. ESE-2 factors are involved in regulation of gene expression in a variety of epithelial (glandular and secretory) cells. ESE-2 mRNA was found in skin keratinocytes, salivary gland, mammary gland, stomach, prostate, and kidneys. The DNA binding consensus motif for ESE-2 consists of a GGA core and AT-rich flanks. The expression profiles of these factors are altered in epithelial cancers. Members of this subfamily are potential targets for cancer therapy.
Probab=35.75 E-value=30 Score=20.52 Aligned_cols=19 Identities=26% Similarity=0.181 Sum_probs=16.8
Q ss_pred CCHHHHHHHHHHHHHHHhh
Q 045193 27 SEPHVTEIGRFAVMSTKKR 45 (82)
Q Consensus 27 ~d~~vq~~a~fAv~~~n~~ 45 (82)
+..+|.+-..||+++|+-.
T Consensus 11 s~~~V~~WL~Wav~ef~L~ 29 (78)
T cd08538 11 TKRHVWEWLQFCCDQYKLD 29 (78)
T ss_pred CHHHHHHHHHHHHHHcCCC
Confidence 6688999999999999864
No 21
>cd02848 Chitinase_N_term Chitinase N-terminus domain. Chitinases hydrolyze the abundant natural biopolymer chitin, producing smaller chito-oligosaccharides. Chitin consists of multiple N-acetyl-D-glucosamine (NAG) residues connected via beta-1,4-glycosidic linkages and is an important structural element of fungal cell wall and arthropod exoskeletons. On the basis of the mode of chitin hydrolysis, chitinases are classified as random, endo-, and exo-chitinases and based on sequence criteria, chitinases belong to families 18 and 19 of glycosyl hydrolases. The N-terminus of chitinase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitob
Probab=34.90 E-value=83 Score=19.75 Aligned_cols=19 Identities=21% Similarity=0.564 Sum_probs=15.9
Q ss_pred eecceEEEEEEEEeeCccc
Q 045193 62 VVSSTNYRLILVVKDGKNC 80 (82)
Q Consensus 62 VVaG~nY~l~v~~~~g~~~ 80 (82)
+-.|=.|.|+|++.++++|
T Consensus 76 v~kgG~y~m~V~lCn~dGC 94 (106)
T cd02848 76 VGKGGRYQMQVALCNGDGC 94 (106)
T ss_pred eCCCCeEEEEEEEECCCCc
Confidence 3458899999999998877
No 22
>KOG2786 consensus Putative glutamate/ornithine acetyltransferase [Amino acid transport and metabolism]
Probab=30.88 E-value=35 Score=25.75 Aligned_cols=29 Identities=17% Similarity=0.208 Sum_probs=22.1
Q ss_pred eEeeEEEEEEEeecceEEEEEEEEeeCccc
Q 045193 51 KFKSVEKGKTKVVSSTNYRLILVVKDGKNC 80 (82)
Q Consensus 51 ~~~~V~~~~~QVVaG~nY~l~v~~~~g~~~ 80 (82)
.|.|.+..|.|+ +|++|++.=-+...+.+
T Consensus 176 tfpKlV~~e~~v-~G~~yrv~GmAKGaGMI 204 (431)
T KOG2786|consen 176 TFPKLVAVESQV-GGIKYRVGGMAKGAGMI 204 (431)
T ss_pred ccchhhheeeec-ccEEEEeecccccCccc
Confidence 367999999999 99999997655544443
No 23
>cd06247 M14_CPO Peptidase M14 carboxypeptidase (CP) O (CPO, also known as metallocarboxypeptidase C; EC 3.4.17.) belongs to the carboxypeptidase A/B subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPO has not been well characterized as yet, and little is known about it. Based on modeling studies, CPO has been suggested to have specificity for acidic residues rather than aliphatic/aromatic residues as in A-like enzymes or basic residues as in B-like enzymes. It remains to be demonstrated that CPO is functional as an MCP.
Probab=30.47 E-value=93 Score=22.59 Aligned_cols=71 Identities=10% Similarity=0.209 Sum_probs=43.4
Q ss_pred EeeeeccCccc--ccceEECCCCCCHHHHHHHHHHHHHHHhhcCCceeEe---eE---EEE----EEEeecceEEEEEEE
Q 045193 6 LLAADNRKRVL--VGGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFKFK---SV---EKG----KTKVVSSTNYRLILV 73 (82)
Q Consensus 6 ~~~~~~~~~~~--~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~~~---~V---~~~----~~QVVaG~nY~l~v~ 73 (82)
.+++..-+..+ |=|++.-+.+++.+..++++.+++...+.++..|..- .+ .++ +.+ ..|..|-++++
T Consensus 186 ~l~~Hsyg~~i~~P~g~~~~~~~n~~~~~~~a~~~~~ai~~~~~~~y~~g~~~~~~y~a~G~s~Dwa~-~~~~~~s~t~E 264 (298)
T cd06247 186 YLTIHSYGQLILLPYGYTKEPSSNHEEMMLVAQKAAAALKEKHGTEYRVGSSALILYSNSGSSRDWAV-DIGIPFSYTFE 264 (298)
T ss_pred EEEeccCCCeEEeCCcCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCCccCCcccccccCCCChhhhhh-ccCCCEEEEEE
Confidence 34444434333 3334443345778899999999988887766666652 11 111 223 25899999999
Q ss_pred EeeC
Q 045193 74 VKDG 77 (82)
Q Consensus 74 ~~~g 77 (82)
+.+.
T Consensus 265 l~~~ 268 (298)
T cd06247 265 LRDN 268 (298)
T ss_pred eCCC
Confidence 9764
No 24
>PF14201 DUF4318: Domain of unknown function (DUF4318)
Probab=28.40 E-value=1.3e+02 Score=17.57 Aligned_cols=39 Identities=15% Similarity=0.205 Sum_probs=24.3
Q ss_pred HHHHHHhhcCCceeEeeEEE-EEEEeecceEEEEEE---EEeeC
Q 045193 38 AVMSTKKRSKNEFKFKSVEK-GKTKVVSSTNYRLIL---VVKDG 77 (82)
Q Consensus 38 Av~~~n~~s~~~~~~~~V~~-~~~QVVaG~nY~l~v---~~~~g 77 (82)
|+..|=.+++..+.|++=.+ +.- -.+|+.|.+++ .+.+|
T Consensus 23 aIE~YC~~~~~~l~Fisr~~Pi~~-~idg~lYev~i~~~~~~rg 65 (74)
T PF14201_consen 23 AIEKYCIKNGESLEFISRDKPITF-KIDGVLYEVEIDEEYMARG 65 (74)
T ss_pred HHHHHHHHcCCceEEEecCCcEEE-EECCeEEEEEEEeeecccC
Confidence 57777777888888842221 111 24788888888 44444
No 25
>PF14873 BNR_assoc_N: N-terminal domain of BNR-repeat neuraminidase
Probab=27.35 E-value=62 Score=20.61 Aligned_cols=22 Identities=32% Similarity=0.487 Sum_probs=16.0
Q ss_pred EEEEEEeecceEE-EEEEEEeeC
Q 045193 56 EKGKTKVVSSTNY-RLILVVKDG 77 (82)
Q Consensus 56 ~~~~~QVVaG~nY-~l~v~~~~g 77 (82)
+.+..++..|+|| ++.+++.+.
T Consensus 94 l~~~~~L~~G~nyfWvs~~lk~~ 116 (137)
T PF14873_consen 94 LTGNQKLFPGTNYFWVSVDLKDN 116 (137)
T ss_pred EcCCceeCCCCeEEEEEEEecCC
Confidence 3455668899999 677788764
No 26
>PF07488 Glyco_hydro_67M: Glycosyl hydrolase family 67 middle domain; InterPro: IPR011100 Alpha-glucuronidases, components of an ensemble of enzymes central to the recycling of photosynthetic biomass, remove the alpha-1,2 linked 4-O-methyl glucuronic acid from xylans. This family represents the central catalytic domain of alpha-glucuronidase [].; GO: 0046559 alpha-glucuronidase activity, 0045493 xylan catabolic process, 0005576 extracellular region; PDB: 1MQP_A 1K9E_A 1MQQ_A 1L8N_A 1K9D_A 1MQR_A 1K9F_A 1GQL_A 1GQI_B 1GQJ_B ....
Probab=27.07 E-value=72 Score=23.85 Aligned_cols=40 Identities=15% Similarity=0.154 Sum_probs=25.2
Q ss_pred eEeeeeccCcccccceEECCCCCCHHHHHHHHHHHHHHHhh
Q 045193 5 PLLAADNRKRVLVGGWKSKEDLSEPHVTEIGRFAVMSTKKR 45 (82)
Q Consensus 5 l~~~~~~~~~~~~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~ 45 (82)
+.+|+.-+++...||.... |+-||+|++.=+-..++.-+.
T Consensus 108 v~LSvnFasP~~lggL~Ta-DPld~~V~~WW~~k~~eIY~~ 147 (328)
T PF07488_consen 108 VYLSVNFASPIELGGLPTA-DPLDPEVRQWWKDKADEIYSA 147 (328)
T ss_dssp EEEEE-TTHHHHTTS-S----TTSHHHHHHHHHHHHHHHHH
T ss_pred EEEEeeccCCcccCCcCcC-CCCCHHHHHHHHHHHHHHHHh
Confidence 4567777777778999888 899999988755555555443
No 27
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=26.15 E-value=81 Score=16.17 Aligned_cols=15 Identities=27% Similarity=0.341 Sum_probs=12.9
Q ss_pred CCCHHHHHHHHHHHH
Q 045193 26 LSEPHVTEIGRFAVM 40 (82)
Q Consensus 26 ~~d~~vq~~a~fAv~ 40 (82)
..||++|....|.+.
T Consensus 20 l~DpdvqrgL~~ll~ 34 (42)
T PF07849_consen 20 LRDPDVQRGLGFLLA 34 (42)
T ss_pred HcCHHHHHHHHHHHH
Confidence 689999999998765
No 28
>PF01448 ELM2: ELM2 domain; InterPro: IPR000949 The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown function. It is found in the MTA1 protein that is part of the NuRD complex []. The domain is usually found to the N terminus of a myb-like DNA binding domain and a GATA binding domain. ELM2, in some instances, is also found associated with the ARID DNA binding domain IPR001606 from INTERPRO. This suggests that ELM2 may also be involved in DNA binding, or perhaps is a protein-protein interaction domain.
Probab=25.65 E-value=60 Score=17.21 Aligned_cols=22 Identities=27% Similarity=0.438 Sum_probs=16.0
Q ss_pred eEECCCCCCHHHHHHHHHHHHH
Q 045193 20 WKSKEDLSEPHVTEIGRFAVMS 41 (82)
Q Consensus 20 ~~~i~~~~d~~vq~~a~fAv~~ 41 (82)
|.|-.+.+|.++.+...+|.+.
T Consensus 33 W~P~~~~~d~~l~~yl~~A~s~ 54 (55)
T PF01448_consen 33 WSPNNPLSDRKLEEYLKVAKSS 54 (55)
T ss_pred ECCCCCCCHHHHHHHHHHHHhc
Confidence 6775456888888888887653
No 29
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=25.18 E-value=1e+02 Score=18.93 Aligned_cols=29 Identities=10% Similarity=0.075 Sum_probs=24.2
Q ss_pred ccceEECCCCCCHHHHHHHHHHHHHHHhhc
Q 045193 17 VGGWKSKEDLSEPHVTEIGRFAVMSTKKRS 46 (82)
Q Consensus 17 ~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s 46 (82)
--|...+ +++|.+++.+.+-....|++..
T Consensus 35 KaGL~ei-eI~d~eL~~~FeeIa~RFrk~~ 63 (92)
T PF07820_consen 35 KAGLGEI-EISDAELQAAFEEIAARFRKGK 63 (92)
T ss_pred Hcccccc-cCCHHHHHHHHHHHHHHHhccc
Confidence 3567788 8999999999999999998763
No 30
>cd03870 M14_CPA Peptidase M14 Carboxypeptidase (CP) A (CPA) belongs to the A/B subfamily of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding CPs which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. CPA enzymes generally favor hydrophobic residues. A/B subfamily enzymes are normally synthesized as inactive precursors containing preceding signal peptide, followed by a globular N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The procarboxypeptidase A (PCPA) is produced by the exocrine pancreas and stored as a stable zymogen in the pancreatic granules until secretion into the digestive tract occurs. This subfamily includes CPA1, CPA2 and CPA4 forms. Within these A forms, there are slightly different specificities, with CPA1 preferring aliphatic and small aromatic residues, and CPA2 p
Probab=23.77 E-value=2.6e+02 Score=20.27 Aligned_cols=72 Identities=14% Similarity=0.287 Sum_probs=42.4
Q ss_pred eeeeccCccc--ccceEECCCCCCHHHHHHHHHHHHHHHhhcCCceeEeeE------EEEEEE---eecceEEEEEEEEe
Q 045193 7 LAADNRKRVL--VGGWKSKEDLSEPHVTEIGRFAVMSTKKRSKNEFKFKSV------EKGKTK---VVSSTNYRLILVVK 75 (82)
Q Consensus 7 ~~~~~~~~~~--~Gg~~~i~~~~d~~vq~~a~fAv~~~n~~s~~~~~~~~V------~~~~~Q---VVaG~nY~l~v~~~ 75 (82)
+++..-...+ |=|++.-..+++....++++-+++.+.+.++..|+.-.. .++.+. -..|..|-+++++.
T Consensus 187 l~lHS~g~~i~yP~~~~~~~~~~~~~~~~la~~~~~ai~~~~g~~y~~g~~~~~~y~a~G~s~Dw~y~~~~~~s~t~El~ 266 (301)
T cd03870 187 ISIHSYSQLLLYPYGYTTQSIPDKTELNQVAKSAVAALKSLYGTSYKYGSIITTIYQASGGSIDWSYNQGIKYSFTFELR 266 (301)
T ss_pred EEeccCCceEEecCcCCCCCCCCHHHHHHHHHHHHHHHHHhcCCccccccccceeecCCCChhhhhhcCCCcEEEEEEeC
Confidence 4444433333 334444334567788999998888887766666665221 111111 02488899999998
Q ss_pred eCc
Q 045193 76 DGK 78 (82)
Q Consensus 76 ~g~ 78 (82)
+.+
T Consensus 267 ~~g 269 (301)
T cd03870 267 DTG 269 (301)
T ss_pred CCC
Confidence 753
No 31
>PF08329 ChitinaseA_N: Chitinase A, N-terminal domain; InterPro: IPR013540 This domain is found in a number of bacterial chitinases and similar viral proteins. It is organised into a fibronectin III module domain-like fold, comprising only beta strands. Its function is not known, but it may be involved in interaction with the enzyme substrate, chitin [, ]. It is separated by a hinge region from the catalytic domain (IPR001223 from INTERPRO); this hinge region is probably mobile, allowing the N-terminal domain to have different relative positions in solution []. ; GO: 0004568 chitinase activity; PDB: 2WLY_A 1EDQ_A 2WM0_A 1X6N_A 1NH6_A 2WK2_A 1EHN_A 2WLZ_A 1EIB_A 1FFR_A ....
Probab=23.22 E-value=1.9e+02 Score=18.71 Aligned_cols=19 Identities=16% Similarity=0.480 Sum_probs=14.7
Q ss_pred eecceEEEEEEEEeeCccc
Q 045193 62 VVSSTNYRLILVVKDGKNC 80 (82)
Q Consensus 62 VVaG~nY~l~v~~~~g~~~ 80 (82)
+-.|-.|.+.+++.+.++|
T Consensus 79 ~~~gG~y~~~VeLCN~~GC 97 (133)
T PF08329_consen 79 VTKGGRYQMQVELCNADGC 97 (133)
T ss_dssp E-S-EEEEEEEEEEETTEE
T ss_pred ecCCCEEEEEEEEECCCCc
Confidence 4578899999999998876
No 32
>PF01819 Levi_coat: Levivirus coat protein; InterPro: IPR002703 This entry represents the coat proteins of the leviviruses (phage MS2) and alloleviruses (phage Qbeta and phage F1). The Levivirus coat protein forms the bacteriophage coat that encapsidates the viral RNA. 180 copies of this protein form the virion shell. The Bacteriophage MS2 coat protein controls two distinct processes: sequence-specific RNA encapsidation and repression of replicase translation-by binding to an RNA stem-loop structure of 19 nucleotides containing the initiation codon of the replicase gene. The binding of a coat protein dimer to this hairpin shuts off synthesis of the viral replicase, switching the viral replication cycle to virion assembly rather than continued replication [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2VF9_A 6MSF_A 2MS2_A 1ZDI_B 2BS1_C 1MST_C 2C4Y_A 1ZDK_B 1ZDJ_A 1ZSE_B ....
Probab=21.71 E-value=1.7e+02 Score=19.00 Aligned_cols=23 Identities=30% Similarity=0.322 Sum_probs=16.7
Q ss_pred cCCceeE---eeEEEEEEEeecceEE
Q 045193 46 SKNEFKF---KSVEKGKTKVVSSTNY 68 (82)
Q Consensus 46 s~~~~~~---~~V~~~~~QVVaG~nY 68 (82)
++++++| ++|=+..+|.+.|+.+
T Consensus 53 s~~r~kytvkv~vp~~~tqt~~Gve~ 78 (129)
T PF01819_consen 53 SANRRKYTVKVEVPKVTTQTVNGVEL 78 (129)
T ss_dssp TTTEEEEEEEEEEEEEEEEEETTEEE
T ss_pred cCCCcceEEEEEcccceeEeeCcEec
Confidence 4555554 6788889999999765
No 33
>PF00413 Peptidase_M10: Matrixin This Prosite motif covers only the active site.; InterPro: IPR001818 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M10 (clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Sequences having this domain are extracellular metalloproteases, such as collagenase and stromelysin, which degrade the extracellular matrix, are known as matrixins. They are zinc-dependent, calcium-activated proteases synthesised as inactive precursors (zymogens), which are proteolytically cleaved to yield the active enzyme [, ]. All matrixins and related proteins possess 2 domains: an N-terminal domain, and a zinc-binding active site domain. The N-terminal domain peptide, cleaved during the activation step, includes a conserved PRCGVPDV octapeptide, known as the cysteine switch, whose Cys residue chelates the active site zinc atom, rendering the enzyme inactive [, ]. The active enzyme degrades components of the extracellular matrix, playing a role in the initial steps of tissue remodelling during morphogenesis, wound healing, angiogenesis and tumour invasion [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0031012 extracellular matrix; PDB: 1Q3A_C 3V96_B 1HV5_D 1CXV_A 1SRP_A 1FBL_A 1ZVX_A 1JH1_A 1I76_A 2OY4_A ....
Probab=21.37 E-value=1.8e+02 Score=17.85 Aligned_cols=30 Identities=20% Similarity=0.225 Sum_probs=22.5
Q ss_pred CCCCHHHHHHHHHHHHHHHhhcCCceeEeeEE
Q 045193 25 DLSEPHVTEIGRFAVMSTKKRSKNEFKFKSVE 56 (82)
Q Consensus 25 ~~~d~~vq~~a~fAv~~~n~~s~~~~~~~~V~ 56 (82)
+.+.++.+++.+.|...+++.. .+.|.++-
T Consensus 17 ~~~~~~~~~~i~~A~~~W~~~~--~~~F~~~~ 46 (154)
T PF00413_consen 17 QLSQSEQRDAIRQAFQAWNDVA--PLNFTEVS 46 (154)
T ss_dssp TS-HHHHHHHHHHHHHHHHTTS--SEEEEEES
T ss_pred CCCHHHHHHHHHHHHHHHHhcC--CceEEecc
Confidence 3556789999999999998653 37776665
No 34
>cd03147 GATase1_Ydr533c_like Type 1 glutamine amidotransferase (GATase1)-like domain found in Saccharomyces cerevisiae Ydr533c protein. Type 1 glutamine amidotransferase (GATase1)-like domain found in Saccharomyces cerevisiae Ydr533c protein. This group includes proteins similar to S. cerevisiae Ydr533c. Ydr533c is upregulated in response to various stress conditions along with the heat shock family. The catalytic triad typical of GATase1domains is not conserved in this GATase1-like domain. However, in common with a typical GATase1domain, a reactive Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. This Cys together with a different His and Glu residue form a different catalytic triad from the typical GATase1domain. Ydr533c protein is a homodimer.
Probab=21.08 E-value=75 Score=22.05 Aligned_cols=26 Identities=15% Similarity=0.208 Sum_probs=18.6
Q ss_pred ccccceEECCC-CCCHHHHHHHHHHHH
Q 045193 15 VLVGGWKSKED-LSEPHVTEIGRFAVM 40 (82)
Q Consensus 15 ~~~Gg~~~i~~-~~d~~vq~~a~fAv~ 40 (82)
.+|||+.+..| .+|++++++.+....
T Consensus 99 ~iPGG~g~~~dl~~~~~l~~ll~~f~~ 125 (231)
T cd03147 99 FVAGGHGTLFDFPHATNLQKIAQQIYA 125 (231)
T ss_pred EECCCCchhhhcccCHHHHHHHHHHHH
Confidence 46899876544 478999988776543
No 35
>PF08522 DUF1735: Domain of unknown function (DUF1735); InterPro: IPR013728 This domain of unknown function is found in a number of bacterial proteins including acylhydrolases.; PDB: 3POH_A 4DQA_A 3SOT_D 3NQK_A 3N91_A 3P02_A.
Probab=20.32 E-value=1.9e+02 Score=16.52 Aligned_cols=15 Identities=7% Similarity=0.217 Sum_probs=11.0
Q ss_pred HHHHHHhhcCCceeE
Q 045193 38 AVMSTKKRSKNEFKF 52 (82)
Q Consensus 38 Av~~~n~~s~~~~~~ 52 (82)
.+..||+..+..|.+
T Consensus 15 ~l~~YN~~~gt~y~~ 29 (86)
T PF08522_consen 15 LLDAYNKANGTNYEL 29 (86)
T ss_dssp HHHHHHHHHTGBEEE
T ss_pred HHHHHHHhcCCccEE
Confidence 477899887776664
Done!