Query 028013
Match_columns 215
No_of_seqs 149 out of 613
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 04:56:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028013.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028013hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4561 Uncharacterized conser 100.0 2.8E-34 6E-39 244.7 -7.9 199 11-215 6-209 (281)
2 PF03798 TRAM_LAG1_CLN8: TLC d 99.9 1.8E-26 3.9E-31 187.6 13.8 142 72-214 1-145 (198)
3 smart00724 TLC TRAM, LAG1 and 99.9 1.3E-25 2.9E-30 184.9 13.9 143 68-214 1-145 (205)
4 KOG4474 Uncharacterized conser 99.9 1.9E-25 4.1E-30 187.0 12.8 147 64-215 37-184 (253)
5 COG5058 LAG1 Protein transport 96.8 0.00097 2.1E-08 58.5 3.2 129 66-195 150-284 (395)
6 KOG1607 Protein transporter of 91.5 3.9 8.5E-05 36.2 11.6 136 60-196 76-214 (318)
7 COG3311 AlpA Predicted transcr 48.1 12 0.00025 25.8 1.4 28 176-203 6-33 (70)
8 PF01471 PG_binding_1: Putativ 30.7 42 0.0009 21.1 1.9 16 3-18 26-41 (57)
9 PF12650 DUF3784: Domain of un 29.3 1.6E+02 0.0034 20.9 5.0 37 59-95 23-59 (97)
10 PF06423 GWT1: GWT1; InterPro 27.5 2.8E+02 0.0061 21.2 9.2 44 38-81 6-49 (136)
11 KOG1608 Protein transporter of 27.1 4.6E+02 0.0099 23.4 11.4 138 65-211 111-260 (374)
12 COG3965 Predicted Co/Zn/Cd cat 22.2 2.6E+02 0.0056 24.5 5.6 64 29-96 123-186 (314)
No 1
>KOG4561 consensus Uncharacterized conserved protein, contains TBC domain [Signal transduction mechanisms; General function prediction only]
Probab=99.97 E-value=2.8e-34 Score=244.72 Aligned_cols=199 Identities=35% Similarity=0.577 Sum_probs=162.0
Q ss_pred HHHHHHHHHHHhhhhccCCCCchhHHHHHHHHHHHHHHHHH---HHhHhhhhhhhcCCCcchhhhhh-hhhhHHHHHHHH
Q 028013 11 IKSYQNQAQVLVKNYIIADPFIPYTSILAGLLACKVVYDLT---QLISTFYFKAYNGLTKIQRMEWN-NRGISTVHAIFI 86 (215)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~l~~~~i~~s~~~~~~i~~ls---~~ls~~l~k~y~~L~~~~k~~w~-~r~vS~vHA~v~ 86 (215)
++++-.+-++++.+...++++.........+++|...|.+. +..+.-..++|.+++++.|++|| +|+||++|++++
T Consensus 6 ~~~~~~~~s~~v~~~~~~~~~~~l~~~~~~~l~~~v~y~~~~~~~~~s~s~~~~~~~l~~k~~i~wn~~~~Vs~~hslv~ 85 (281)
T KOG4561|consen 6 LPARIGLTSELVKLSLGAIFFVLLTAHCHGILFYFVVYQLCNVIHNISVSLSHTYRSLDKKLKIEWNCVRVVSTVHSLVS 85 (281)
T ss_pred CCCcccccchhhhhccchHHHHHHHHHHHHHHHHhhhhhhhceehheeehhhhhHhhhcCcEEEEEecCceeeeehHhhh
Confidence 34455566677777778888888899999999999999988 66666667899999999999999 999999999999
Q ss_pred HHHHHHHHHhcCCCC-CCCCCCCcccCCChhhHHHHHHHHHHHHHHHHHHHHhcccCCChhHHHHHHHHHHHHHHHhhcC
Q 028013 87 TALSLYYVFWSDLFS-DQQHTGPITFRSSWLSNFGLGVSVGYFLADLGMIFWLYPSLGGMEYVVHHSLSGIAVAYSMFSG 165 (215)
Q Consensus 87 ~~~al~~l~~~~~~~-~~~~~d~i~~~~s~~~~~~~~is~GYFi~Dl~~~~~~~~~~~~~~~llHH~~~l~~~~~~l~~~ 165 (215)
+ ++|+++.++.++ |+...+...+..+...... .|||++|+..+.++++..+|.+|++||++++......+..|
T Consensus 86 ~--s~y~lf~~~~f~yD~~~~~~~~~~~~~~~~~g----~gy~i~dl~~i~~~~~~~~~~~fviHh~~s~~~v~~~~~~~ 159 (281)
T KOG4561|consen 86 S--SLYFLFGTPYFHYDKATGYSVVWSKHRDTSVG----IGYFIPDLTWIIVRYFVLGGIEFVIHHIASLVFVGCLLRRG 159 (281)
T ss_pred c--ccceeecCcccchhhhhccceeecceeecccc----ceEecccceeEEEEeeeecCeeEEeeHHHHhhhheeeEecC
Confidence 8 888888876554 4444333323333322222 56999999866667778999999999999844333344678
Q ss_pred CchhHHHHHHHHhhchhhHHHHHHHHHcCCCCChhHHHHHHHHHHHHhcC
Q 028013 166 EGQLYTYMVLISEVTTPEINMRWYLDTAGMKRSTTYLVNGVIIFFAWLVS 215 (215)
Q Consensus 166 ~~~~~~~~~Ll~ElSTPFLnlRw~L~~~G~~~s~~y~iNg~l~~~tFfva 215 (215)
+++++++.+|++|+||||+|+||+|+++|+++|++|++||++++++||++
T Consensus 160 ~g~y~~~~~L~~ElSTPFvnlrw~L~~~~~k~Sl~~~vNG~lm~~~F~v~ 209 (281)
T KOG4561|consen 160 VGQYYAGTFLMAELSTPFVNLRWFLDKAGQKKSLFYKVNGLLLLVVFFVA 209 (281)
T ss_pred ccceeeeeeheeecCCceeeHHHHHHHcCcccchHHHhhhHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999975
No 2
>PF03798 TRAM_LAG1_CLN8: TLC domain; InterPro: IPR006634 TLC is a protein domain with at least 5 transmembrane alpha-helices. Lag1p and Lac1p are essential for acyl-CoA-dependent ceramide synthesis [], TRAM is a subunit of the translocon and the CLN8 gene is mutated in Northern epilepsy syndrome. Proteins containing this domain may possess multiple functions such as lipid trafficking, metabolism, or sensing. Trh homologues possess additional homeobox domains [].; GO: 0016021 integral to membrane
Probab=99.94 E-value=1.8e-26 Score=187.65 Aligned_cols=142 Identities=34% Similarity=0.615 Sum_probs=120.9
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcccCCChhhHHHHHHHHHHHHHHHHHHHHhcccCCC-hhHHHH
Q 028013 72 EWNNRGISTVHAIFITALSLYYVFWSDLFSDQQHTGPITFRSSWLSNFGLGVSVGYFLADLGMIFWLYPSLGG-MEYVVH 150 (215)
Q Consensus 72 ~w~~r~vS~vHA~v~~~~al~~l~~~~~~~~~~~~d~i~~~~s~~~~~~~~is~GYFi~Dl~~~~~~~~~~~~-~~~llH 150 (215)
||++|++|++|+++++.+|++++..++.+.++..+++. .++++..+...++++|||++|++++..+.++.++ .++++|
T Consensus 1 ~~~~~~~s~~h~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~gYf~~Dl~~~~~~~~~~~d~~~~~~H 79 (198)
T PF03798_consen 1 KWNNRVVSFVHAIVSSIWGLYILLNDPELWSDWPDDPW-YYSSWLVKFYYAFSLGYFLYDLIVMLLYYRKRGDFWEMLLH 79 (198)
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHhcCcHHhhhcccCcc-CCccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHhhHH
Confidence 69999999999999999999999986422122222333 4556678889999999999999999986655443 899999
Q ss_pred HHHHHHHHHHHhhcCCchhHHHHHHHHhhchhhHHHHHHHHHc-CC-CCChhHHHHHHHHHHHHhc
Q 028013 151 HSLSGIAVAYSMFSGEGQLYTYMVLISEVTTPEINMRWYLDTA-GM-KRSTTYLVNGVIIFFAWLV 214 (215)
Q Consensus 151 H~~~l~~~~~~l~~~~~~~~~~~~Ll~ElSTPFLnlRw~L~~~-G~-~~s~~y~iNg~l~~~tFfv 214 (215)
|++++.++..+...+.+++++..+++.|+||||+|+||++++. |+ ++++.+.+|++++.++|++
T Consensus 80 H~~~l~~~~~~~~~~~~~~~~~~~ll~E~st~fl~~r~~l~~~~~~~~~~~~~~~~~~~f~~~f~~ 145 (198)
T PF03798_consen 80 HVVTLVLFYFSYFYNFGRFGIVVFLLHEISTPFLNLRWFLKYLGGYSKKSSLYRFNGVLFAVTFFV 145 (198)
T ss_pred HHHHHHHHHHhhHHHHhhHHHHHHHHHhcccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHH
Confidence 9999999988887888999999999999999999999999999 77 6889999999999999985
No 3
>smart00724 TLC TRAM, LAG1 and CLN8 homology domains. Protein domain with at least 5 transmembrane alpha-helices. Lag1p and Lac1p are essential for acyl-CoA-dependent ceramide synthesis, TRAM is a subunit of the translocon and the CLN8 gene is mutated in Northern epilepsy syndrome. The family may possess multiple functions such as lipid trafficking, metabolism, or sensing. Trh homologues possess additional homeobox domains.
Probab=99.93 E-value=1.3e-25 Score=184.88 Aligned_cols=143 Identities=29% Similarity=0.356 Sum_probs=124.1
Q ss_pred chhhhhhhhhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcccCCChhhHHHHHHHHHHHHHHHHHHHHhcccCC--Ch
Q 028013 68 IQRMEWNNRGISTVHAIFITALSLYYVFWSDLFSDQQHTGPITFRSSWLSNFGLGVSVGYFLADLGMIFWLYPSLG--GM 145 (215)
Q Consensus 68 ~~k~~w~~r~vS~vHA~v~~~~al~~l~~~~~~~~~~~~d~i~~~~s~~~~~~~~is~GYFi~Dl~~~~~~~~~~~--~~ 145 (215)
+|+.||++|++|.+||++++..+++.... +.++..+||. .+.++..+...++++|||++|++++..+.+..+ ++
T Consensus 1 ~k~~e~~~~~vs~~hs~~~~~~~~~~~~~---~~~~~~~~p~-~~~~~~~~~~~~~~~gYfi~d~~~~~~~~~~~~~d~~ 76 (205)
T smart00724 1 SKFNESSNRLVSYLHSVIAGLYALYSEPW---LSDPKSLYPI-QGMSPLAKFYYLFSLGYFIHDLVALLLFQDLKRKDFK 76 (205)
T ss_pred CchHHHHHHHHHHHHHHHHHHhhhccCCc---ccCCcccCCC-CCCcHHHHHHHHHHHHHHHHHHHHHHHhcccchhhHH
Confidence 47899999999999999999999876653 1222234565 677999999999999999999999986654443 79
Q ss_pred hHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhhchhhHHHHHHHHHcCCCCChhHHHHHHHHHHHHhc
Q 028013 146 EYVVHHSLSGIAVAYSMFSGEGQLYTYMVLISEVTTPEINMRWYLDTAGMKRSTTYLVNGVIIFFAWLV 214 (215)
Q Consensus 146 ~~llHH~~~l~~~~~~l~~~~~~~~~~~~Ll~ElSTPFLnlRw~L~~~G~~~s~~y~iNg~l~~~tFfv 214 (215)
++++||++++.++..+...+....+....++.|+||||+|+||+++++|+++++++.+|+++++++|++
T Consensus 77 ~~~~HHv~~~~~~~~~~~~~~~~~~~~~~~l~E~s~~fl~~~~~l~~~~~~~~~~~~~~~~~f~~~f~~ 145 (205)
T smart00724 77 EMLVHHIATLLLISLSYVLNFTRLGLLLLLLHELSDPFLHLRKLLNYAGRKKSLLYDVNFVLFAVVFFV 145 (205)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHhccccchhhhhHHHHHHHHHHH
Confidence 999999999999988887888888888899999999999999999999999999999999999999986
No 4
>KOG4474 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.93 E-value=1.9e-25 Score=186.97 Aligned_cols=147 Identities=22% Similarity=0.273 Sum_probs=131.0
Q ss_pred CCCcchhhhhhhhhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcccCCChhhHHHHHHHHHHHHHHHHHHHHhcccCC
Q 028013 64 GLTKIQRMEWNNRGISTVHAIFITALSLYYVFWSDLFSDQQHTGPITFRSSWLSNFGLGVSVGYFLADLGMIFWLYPSLG 143 (215)
Q Consensus 64 ~L~~~~k~~w~~r~vS~vHA~v~~~~al~~l~~~~~~~~~~~~d~i~~~~s~~~~~~~~is~GYFi~Dl~~~~~~~~~~~ 143 (215)
.+++.+|.+|.|+.||++||++++.++.+++..+ ++...||+ ...+..+..+.++|+|||++|+++|..+.....
T Consensus 37 ~~s~~~~~r~~n~~VSl~HS~Isg~~a~~~l~~~----~~~~~~~~-~~~s~~~~~l~~fS~gYfiyD~vDm~~~~~s~~ 111 (253)
T KOG4474|consen 37 WFSVYQKKRFSNLTVSLLHSTISGLWALLSLLYD----PEMVDDPI-TYHSLSAYQLLLFSAGYFIYDLVDMLMNEQSEL 111 (253)
T ss_pred eeccccchhhhhhHHHHHHHHHHHHHHHHHHHhC----cccccCHH-HHHhhhhHHHHHHHHHHHHHHHHHHHhcchhhh
Confidence 4677779999999999999999999999999874 46667777 446888999999999999999999998765556
Q ss_pred ChhHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhhchhhHHHHHHHHHcCCCCC-hhHHHHHHHHHHHHhcC
Q 028013 144 GMEYVVHHSLSGIAVAYSMFSGEGQLYTYMVLISEVTTPEINMRWYLDTAGMKRS-TTYLVNGVIIFFAWLVS 215 (215)
Q Consensus 144 ~~~~llHH~~~l~~~~~~l~~~~~~~~~~~~Ll~ElSTPFLnlRw~L~~~G~~~s-~~y~iNg~l~~~tFfva 215 (215)
.+++++||++++.++..+++++++..++.+.+++|+|+||+|+|.+++.+|.+++ +.++++-.+++++||++
T Consensus 112 s~e~LvHH~v~i~aF~~~lf~~~~~~~~~~~llmEv~SiFLH~R~il~l~g~s~~~~~~rv~v~lN~i~f~~f 184 (253)
T KOG4474|consen 112 SWEYLVHHVVCIIAFVLGLFYSKFLGYVVAALLMEVSSIFLHLRSILKLAGLSTTLPSFRVVVYLNLITFFFF 184 (253)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhCCCCCCchhHHHHHHHHHHHHHH
Confidence 7899999999999999999999988899999999999999999999999999654 46999999999999863
No 5
>COG5058 LAG1 Protein transporter of the TRAM (translocating chain-associating membrane) superfamily, longevity assurance factor [Intracellular trafficking and secretion]
Probab=96.82 E-value=0.00097 Score=58.45 Aligned_cols=129 Identities=12% Similarity=0.078 Sum_probs=87.5
Q ss_pred CcchhhhhhhhhhHHHHHHHHHHHHHHHHHhcCCCC---CCCCCC-CcccCCChhhHHHHHHHHHHHHHHHHHHHHh--c
Q 028013 66 TKIQRMEWNNRGISTVHAIFITALSLYYVFWSDLFS---DQQHTG-PITFRSSWLSNFGLGVSVGYFLADLGMIFWL--Y 139 (215)
Q Consensus 66 ~~~~k~~w~~r~vS~vHA~v~~~~al~~l~~~~~~~---~~~~~d-~i~~~~s~~~~~~~~is~GYFi~Dl~~~~~~--~ 139 (215)
++++..+++...-+..--.++++.|+|++..++.|. +++.++ |+ +..++.-...-.+-.||.+....+..++ .
T Consensus 150 s~kkikRf~eq~y~~fyy~v~g~~Glyvmrss~~w~fntk~l~etyp~-~~~p~lfk~fYliqaafw~qQa~ilvLqlEk 228 (395)
T COG5058 150 SEKKIKRFCEQMYAIFYYGVSGPFGLYVMRSSPLWFFNTKALYETYPV-FYNPFLFKAFYLIQAAFWAQQACILVLQLEK 228 (395)
T ss_pred CHHHHHHHHHHHHHHHHhhccccceEEEEecCcchhhhhHHHHHhCcc-ccCcHHHHHHHHHHHHHHHHHHhhheeeecc
Confidence 555557889999999999999999999998876553 122222 33 5556777777778899999986555443 3
Q ss_pred ccCCChhHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhhchhhHHHHHHHHHcCC
Q 028013 140 PSLGGMEYVVHHSLSGIAVAYSMFSGEGQLYTYMVLISEVTTPEINMRWYLDTAGM 195 (215)
Q Consensus 140 ~~~~~~~~llHH~~~l~~~~~~l~~~~~~~~~~~~Ll~ElSTPFLnlRw~L~~~G~ 195 (215)
|+..-.+++.||++.++-...+...++.---......+.+|-|||.+...+.-.|-
T Consensus 229 prkD~~elv~HHIVTllLI~lSY~fhftr~GlAI~itmDvSD~~Ls~sK~lnYl~~ 284 (395)
T COG5058 229 PRKDFKELVFHHIVTLLLIWLSYVFHFTRMGLAIYITMDVSDFFLSLSKTLNYLNS 284 (395)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHhccceEEEEEeccHHHHHHHHHHHHhhc
Confidence 34445789999998876554442222111111233588999999999988877665
No 6
>KOG1607 consensus Protein transporter of the TRAM (translocating chain-associating membrane) superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.55 E-value=3.9 Score=36.24 Aligned_cols=136 Identities=13% Similarity=0.100 Sum_probs=83.2
Q ss_pred hhhcCCCcchhhhhhhhhhHHHHHHHHHHHHHHHHHhcCCCCCCC---CCCCcccCCChhhHHHHHHHHHHHHHHHHHHH
Q 028013 60 KAYNGLTKIQRMEWNNRGISTVHAIFITALSLYYVFWSDLFSDQQ---HTGPITFRSSWLSNFGLGVSVGYFLADLGMIF 136 (215)
Q Consensus 60 k~y~~L~~~~k~~w~~r~vS~vHA~v~~~~al~~l~~~~~~~~~~---~~d~i~~~~s~~~~~~~~is~GYFi~Dl~~~~ 136 (215)
..++.-+++++.+.....=..+-=..+.+.|++++..++-+.+.. .+-|. ....+.....-.+-+|+-+.-+....
T Consensus 76 ~~~~~~~~~~~~k~~Es~Wk~~yy~~s~~~glyV~~~~~wf~~~k~~w~~yP~-~~~~~~~k~~Y~~e~gfY~~~l~al~ 154 (318)
T KOG1607|consen 76 LRLNVTADRRKKKFCESAWKFLYYLVSWIFGLYVMYHEPWFYDTKSFWEGYPD-QTLPPSFKAYYLLEAGFYIQLLFALF 154 (318)
T ss_pred HhcCCcCchhhhhhHHHHHHHHHHHHHHHHhhhheecchhhcCHHHHHhcCCC-CCCCHHHHHHHHHhhHHHHHHHHHHH
Confidence 344444455556677777777778888889999888743222211 11122 33355566667778898888887776
Q ss_pred HhcccCCChhHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhhchhhHHHHHHHHHcCCC
Q 028013 137 WLYPSLGGMEYVVHHSLSGIAVAYSMFSGEGQLYTYMVLISEVTTPEINMRWYLDTAGMK 196 (215)
Q Consensus 137 ~~~~~~~~~~~llHH~~~l~~~~~~l~~~~~~~~~~~~Ll~ElSTPFLnlRw~L~~~G~~ 196 (215)
....+..-.++++||++.++-...+...+..-.-.....+...|-++|-+..+++-.|.+
T Consensus 155 ~d~~rkDf~~m~vHHvvTl~Li~lSy~~~f~R~G~lil~lhD~SD~~Le~~K~~nY~~~~ 214 (318)
T KOG1607|consen 155 LDEKRKDFWEMVVHHVVTLILISLSYVFNFTRVGTLILALHDASDVFLELGKMLNYLQFE 214 (318)
T ss_pred hhccccHHHHHHHHHHHHHHHHHHHHHhhhhcccceeeeeecchHHHHHHHHHHchhhHH
Confidence 544333346799999998765544432222111122344778888999888777665554
No 7
>COG3311 AlpA Predicted transcriptional regulator [Transcription]
Probab=48.06 E-value=12 Score=25.84 Aligned_cols=28 Identities=21% Similarity=0.209 Sum_probs=24.7
Q ss_pred HHhhchhhHHHHHHHHHcCCCCChhHHH
Q 028013 176 ISEVTTPEINMRWYLDTAGMKRSTTYLV 203 (215)
Q Consensus 176 l~ElSTPFLnlRw~L~~~G~~~s~~y~i 203 (215)
.++.+++++.++..+.++|++.+.+|+.
T Consensus 6 ~~~~~~r~lrl~ev~~~~GlSrstiYr~ 33 (70)
T COG3311 6 EMRHTDRLLRLPEVAQLTGLSRSTIYRL 33 (70)
T ss_pred cccccchhhhHHHHHHHHCccHHHHHHH
Confidence 4577899999999999999999988875
No 8
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure. PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
Probab=30.65 E-value=42 Score=21.12 Aligned_cols=16 Identities=25% Similarity=0.451 Sum_probs=13.1
Q ss_pred cchhhHHHHHHHHHHH
Q 028013 3 MSEQTVTAIKSYQNQA 18 (215)
Q Consensus 3 ~~~~~~~~~~~~~~~~ 18 (215)
.++.|..|||.||+..
T Consensus 26 ~~~~t~~Av~~fQ~~~ 41 (57)
T PF01471_consen 26 FDPETREAVKAFQKAN 41 (57)
T ss_dssp SHHHHHHHHHHHHHHT
T ss_pred cCHHHHHHHHHHHHHc
Confidence 4688999999999753
No 9
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=29.27 E-value=1.6e+02 Score=20.94 Aligned_cols=37 Identities=11% Similarity=0.398 Sum_probs=27.8
Q ss_pred hhhhcCCCcchhhhhhhhhhHHHHHHHHHHHHHHHHH
Q 028013 59 FKAYNGLTKIQRMEWNNRGISTVHAIFITALSLYYVF 95 (215)
Q Consensus 59 ~k~y~~L~~~~k~~w~~r~vS~vHA~v~~~~al~~l~ 95 (215)
-..|+.+|++||.+.|.+-.+-.-+......|+..+.
T Consensus 23 IaGyntms~eEk~~~D~~~l~r~~g~~~~~~~i~~li 59 (97)
T PF12650_consen 23 IAGYNTMSKEEKEKYDKKKLCRFMGKFMLIIGIILLI 59 (97)
T ss_pred hhhcccCCHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3799999999999999877776666666666654443
No 10
>PF06423 GWT1: GWT1; InterPro: IPR009447 Glycosylphosphatidylinositol (GPI) is a conserved post-translational modification to anchor cell surface proteins to plasma membrane in eukaryotes. GWT1 is involved in GPI anchor biosynthesis; it is required for inositol acylation in yeast [].; GO: 0016746 transferase activity, transferring acyl groups, 0006506 GPI anchor biosynthetic process, 0005789 endoplasmic reticulum membrane, 0016021 integral to membrane
Probab=27.51 E-value=2.8e+02 Score=21.16 Aligned_cols=44 Identities=11% Similarity=0.198 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHhHhhhhhhhcCCCcchhhhhhhhhhHHH
Q 028013 38 LAGLLACKVVYDLTQLISTFYFKAYNGLTKIQRMEWNNRGISTV 81 (215)
Q Consensus 38 ~~s~~~~~~i~~ls~~ls~~l~k~y~~L~~~~k~~w~~r~vS~v 81 (215)
+.|+..|..+|.++-.+-+.+.+.-+...++++.+|-.......
T Consensus 6 i~S~~GY~aIyl~g~~~G~~i~~~~~~~~~~~~~~~~~~~~~l~ 49 (136)
T PF06423_consen 6 IFSLPGYLAIYLIGVSLGRYILPPSSSSNSSSRRQWIKLLIKLL 49 (136)
T ss_pred hhhHHHHHHHHHHHHHHhhhhhCCCCCccccchhHHHHHHHHHH
Confidence 57889999999988887766654433332344455555544443
No 11
>KOG1608 consensus Protein transporter of the TRAM (translocating chain-associating membrane) superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.07 E-value=4.6e+02 Score=23.43 Aligned_cols=138 Identities=12% Similarity=0.202 Sum_probs=66.0
Q ss_pred CCcchhhhhhhhhhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCC--cc--cCCCh---hhHHHHHHHHHHHHHHHHHHHH
Q 028013 65 LTKIQRMEWNNRGISTVHAIFITALSLYYVFWSDLFSDQQHTGP--IT--FRSSW---LSNFGLGVSVGYFLADLGMIFW 137 (215)
Q Consensus 65 L~~~~k~~w~~r~vS~vHA~v~~~~al~~l~~~~~~~~~~~~d~--i~--~~~s~---~~~~~~~is~GYFi~Dl~~~~~ 137 (215)
+++-+..+++.-.-=.+.-+.++++|.+++...+ ..+|| ++ +++.+ ..++....-++|.+.-+=-...
T Consensus 111 lSK~k~~kFnESgql~~Fy~~S~vwg~~ili~E~-----yl~~p~~lW~~yPh~~msfq~Kffyi~QlaYwlHafPElYf 185 (374)
T KOG1608|consen 111 LSKVKHSKFNESGQLVAFYLFSCVWGFYILISEG-----YLSDPTSLWEGYPHRVMSFQMKFFYISQLAYWLHAFPELYF 185 (374)
T ss_pred hhHhhhhhhccCCeeeehhhHHhhhhheeeeecc-----cccChHHHHhcCCCchhhHHHHHHHHHHHHHHHHHChHHHH
Confidence 4555555555543334455677888888887642 22332 11 22222 2234444556777766655443
Q ss_pred hcccCCC----hhHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhhchhhH-HHHHHHHHcCCCCChhHHHHHHHHHHH
Q 028013 138 LYPSLGG----MEYVVHHSLSGIAVAYSMFSGEGQLYTYMVLISEVTTPEI-NMRWYLDTAGMKRSTTYLVNGVIIFFA 211 (215)
Q Consensus 138 ~~~~~~~----~~~llHH~~~l~~~~~~l~~~~~~~~~~~~Ll~ElSTPFL-nlRw~L~~~G~~~s~~y~iNg~l~~~t 211 (215)
+.-+..+ ..+.+=|+.-+.+. +.+... -.+...|.-|-.|-++ |+-.+..-.|.+..+.+.++...++++
T Consensus 186 QK~Kkeeiprqlvyi~l~l~hI~gA-Yllnl~---rlgLvLl~LhYftellfHi~rlfyf~dek~~k~fslwa~vF~l~ 260 (374)
T KOG1608|consen 186 QKTKKEEIPRQLVYIILHLFHIAGA-YLLNLN---RLGLVLLTLHYFTELLFHIARLFYFSDEKYQKLFSLWAAVFVLG 260 (374)
T ss_pred HHHhhhhccHHHHHHHHHHHHHHHH-HHHhhH---HHHHHHHHHHHHHHHHHHHHHHheecccchhHHHHHHHHHHHHH
Confidence 3212222 22333343333332 222111 1233333334333333 555555556777778877777666554
No 12
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=22.20 E-value=2.6e+02 Score=24.53 Aligned_cols=64 Identities=11% Similarity=0.059 Sum_probs=33.3
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHhHhhhhhhhcCCCcchhhhhhhhhhHHHHHHHHHHHHHHHHHh
Q 028013 29 DPFIPYTSILAGLLACKVVYDLTQLISTFYFKAYNGLTKIQRMEWNNRGISTVHAIFITALSLYYVFW 96 (215)
Q Consensus 29 ~~~l~~~~i~~s~~~~~~i~~ls~~ls~~l~k~y~~L~~~~k~~w~~r~vS~vHA~v~~~~al~~l~~ 96 (215)
+|-.-..--+.|..+|..+++..++++++.....-+++.| ++.-+..+ | -|++++..+.|.+-.
T Consensus 123 ~~~~ai~yt~~s~~~Ca~~~~~~~r~nrr~~s~lIald~k-qW~Mst~l-S--~al~VaF~~a~~l~~ 186 (314)
T COG3965 123 EPGHAIAYTLVSVTGCAAIAWKLRRLNRRLKSPLIALDTK-QWLMSTCL-S--AALFVAFAAAWLLAG 186 (314)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhhhccCCCchhhhHHH-HHHHHHHH-H--HHHHHHHHHHHHhcc
Confidence 3333344445677788888887777777664333333322 22222222 1 245556666665543
Done!