Query 012183
Match_columns 469
No_of_seqs 118 out of 235
Neff 6.2
Searched_HMMs 46136
Date Thu Mar 28 23:55:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012183.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012183hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2291 Oligosaccharyltransfer 100.0 2E-136 5E-141 1054.8 39.9 457 6-469 5-464 (602)
2 PF04597 Ribophorin_I: Ribopho 100.0 3E-129 7E-134 1021.7 48.7 425 31-462 1-432 (432)
3 PF08487 VIT: Vault protein in 91.6 4.9 0.00011 35.1 12.5 94 34-137 5-117 (118)
4 smart00609 VIT Vault protein I 91.5 5.2 0.00011 35.9 12.7 100 29-137 12-129 (130)
5 PF09972 DUF2207: Predicted me 81.9 76 0.0016 33.8 21.5 184 229-436 3-190 (511)
6 TIGR03788 marine_srt_targ mari 78.8 21 0.00045 39.9 11.9 89 40-138 6-112 (596)
7 PF09972 DUF2207: Predicted me 62.9 2.1E+02 0.0046 30.3 19.5 126 35-181 5-141 (511)
8 PF10989 DUF2808: Protein of u 49.8 2E+02 0.0043 26.0 10.5 27 112-138 87-113 (146)
9 COG2372 CopC Uncharacterized p 45.8 1.2E+02 0.0025 27.4 7.7 55 65-128 47-101 (127)
10 TIGR02411 leuko_A4_hydro leuko 45.8 4.6E+02 0.01 29.5 14.4 92 32-139 13-104 (601)
11 PRK10301 hypothetical protein; 43.0 2E+02 0.0042 25.5 8.9 63 63-137 44-106 (124)
12 PF15240 Pro-rich: Proline-ric 37.0 20 0.00043 34.1 1.6 28 10-37 1-28 (179)
13 PF07610 DUF1573: Protein of u 35.9 43 0.00093 24.2 2.9 20 117-136 25-45 (45)
14 TIGR03079 CH4_NH3mon_ox_B meth 35.5 1.8E+02 0.0038 30.9 8.3 21 117-137 333-353 (399)
15 PF05753 TRAP_beta: Translocon 31.3 1.3E+02 0.0029 28.5 6.3 19 49-67 39-57 (181)
16 PF04314 DUF461: Protein of un 31.3 1.2E+02 0.0026 26.1 5.4 82 53-136 19-101 (110)
17 PRK11901 hypothetical protein; 25.0 57 0.0012 33.8 2.7 12 37-48 75-86 (327)
18 PRK10905 cell division protein 23.7 42 0.00092 34.7 1.5 13 34-46 31-43 (328)
19 PF03908 Sec20: Sec20; InterP 22.0 75 0.0016 26.4 2.4 16 448-463 77-92 (92)
20 PF09478 CBM49: Carbohydrate b 21.0 4.4E+02 0.0096 21.1 8.1 25 48-72 17-41 (80)
21 PHA02090 hypothetical protein 20.5 48 0.0011 26.3 0.9 20 318-341 41-61 (79)
22 PF04744 Monooxygenase_B: Mono 20.3 1E+03 0.022 25.3 10.7 81 37-137 254-334 (381)
23 PF01433 Peptidase_M1: Peptida 20.2 9.3E+02 0.02 24.6 11.9 84 40-138 16-100 (390)
No 1
>KOG2291 consensus Oligosaccharyltransferase, alpha subunit (ribophorin I) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.2e-136 Score=1054.76 Aligned_cols=457 Identities=51% Similarity=0.834 Sum_probs=428.8
Q ss_pred hhhHHHHHHHHHHHHHHhhccCCCCCeEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCccEEEEEcCCCcccceeEEEEE
Q 012183 6 RPRIMLSLTIILIPIFLFISGASSHQIRINNAERRIDLSTHIVKVFLTLKVENTGKTSASEILLAFPPTQVDHLAFLEAL 85 (469)
Q Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~n~~v~R~idL~~~~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~ 85 (469)
+++||+..+++|..++..+++.+++.|+|.|++|||||++|+||++++++++|+|++|+++|.+++++....++|+++|.
T Consensus 5 ~~~~~~~l~l~l~aia~~~a~~a~~~w~n~nv~RTIDlsS~ivK~tt~l~i~N~g~ePatey~~a~~~~~~~~la~ls~~ 84 (602)
T KOG2291|consen 5 SASWALVLVLLLFAIASGAASSAEQDWVNVNVERTIDLSSQIVKVTTELSIENIGSEPATEYLLAFEKELGASLAFLSVA 84 (602)
T ss_pred hhHHHHHHHHHHHHHhhccccCCccccccccceEEEehhhhhhhheeEEEEEecCCCchheEEEeccCccccceeEEEEe
Confidence 66777776666666666567778999999999999999999999999999999999999999999999999999999998
Q ss_pred EccCccccceeeeeeeeeecCCCCCCCceEEEEEeCCCCCCCCeEEEEEEEEEcccccccCcccCcCCceeEEEEeCcee
Q 012183 86 AATGKKKKKTYVSLAVKPTQLPDAPNETNYYTIVLANPLNTGETATLEILYILTHSLEPFPVEISQSESQLVYYRDSALI 165 (469)
Q Consensus 86 ~~~~~~k~~~~~~l~v~~~~~~~~~~~~~~y~I~Lp~pl~~~~~~~l~v~~~~~~~~~P~P~~I~q~e~Q~l~~~~~~~~ 165 (469)
..+++++ +...+++.+.++.+ .++ ++|.|+||.|+.||++++|.|++++++.++|+|++|+|+|+|+|+|.+|+|+
T Consensus 85 ~~~g~~~--~~l~~s~~~~~~~~-~~~-~~y~v~lp~pl~pge~vTl~V~~~~t~vl~P~Pe~I~QsE~Q~vv~~tn~~~ 160 (602)
T KOG2291|consen 85 FTEGKKK--TLLKLSVNPPKKDG-ASE-RVYTVTLPNPLSPGEKVTLIVEAVLTHVLRPLPEEITQSEEQFVVYETNAYL 160 (602)
T ss_pred eccCccc--cccccccCCcccCC-Ccc-ceEEEeCCCCCCCCceEEEEEEeecccCcccChhhhCcCceeeEEEeccccc
Confidence 8776633 23456666655322 233 7999999999999999999999999999999999999999999999999999
Q ss_pred cCcceeceEEEEEEeCCCccceeeccCCccccCCeEEeccCCCCCCCCccCeEEEEEccccceEEeeeEEEEEEecccce
Q 012183 166 LSPYHIKQQTTFIKIPSNKVESFTRVEPTDRAGNELKYGPYEDRPPYSYSPLLVHFENNNPFSVVEELVREVEISHWGNL 245 (469)
Q Consensus 166 ~SpY~t~~q~t~v~~~s~~i~s~t~~~~~~~~g~~i~yGP~~~v~p~s~~~~~Vhye~n~P~~~v~~l~R~IeVSHWGni 245 (469)
+|||.|++|+|++++||+++++||+.++.+++|+.++||||+|+|+|+++|+.||||||.||+++++|+|+|||||||||
T Consensus 161 ~SpY~Tk~Q~t~ikl~Ss~ies~T~~~~~k~~gn~l~yGPyeni~afs~~pl~VhYEnnaPf~~v~~L~R~IevSHWgnI 240 (602)
T KOG2291|consen 161 LSPYDTKSQSTTIKLPSSKIESYTTVEPSKRSGNELKYGPYENIPAFSQEPLVVHYENNAPFVTVENLEREIEVSHWGNI 240 (602)
T ss_pred cCcccccceeEEEEcccccceeccccCcccccCceeeecCccccccccCCceEEEEecCCCcceeeeEEEEEEeecceee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEEEEcCCCCCCCccchhcccCCCCCCceeeeEeeeccCCCccCeEEEeccceeeeeeeeecCCceeEEEEecCC
Q 012183 246 QITEQYKLAHAGARHKGIFSRVDYQSKPTFSGVSSFKHLLARLPPRVHSVYYRDEIGNISTSHLRADSWKISELEIEPRY 325 (469)
Q Consensus 246 ~veE~y~l~N~GA~Lkg~FSR~d~~~~~~~~~~~~~~~l~~~LP~~a~d~YY~D~IGNISTS~~r~~~~~~~~l~l~PRf 325 (469)
+|||+|+|+|+||+|||+|||+|||++...++.++++++.+.||++|+|+||||+||||||||+|.+.++ ++|+|+|||
T Consensus 241 qVeE~~~lth~gAkLkg~FSR~d~q~~~~~~g~sai~~l~~~LP~~A~dvYYrDeiGNISTShmr~~~~~-~eleirPRf 319 (602)
T KOG2291|consen 241 QVEENYELTHKGAKLKGPFSRLDYQKQRRTRGASAINSLKTVLPARAKDVYYRDEIGNISTSHMRIDPDK-TELEIRPRF 319 (602)
T ss_pred EEEEEEEEEecceeccCCcchHhhhhcCCcCcchHHHHHHhhCCCccCceeeecccCcEehhhhcccCcc-ceEEeccCC
Confidence 9999999999999999999999999887668899999999999999999999999999999999999999 999999999
Q ss_pred cccCCceeeEEEeecCCcccceeeccCCceE-EEEEecCCC-cceEEEEEEEEEEcCCCCcCCceeCCccee-eeeeeEE
Q 012183 326 PLFGGWRATFVIGYGLPLEDFLFESSDGRRY-LNFTFGCPL-VETVVDKLTIKVVLPEGAKGPSAVVPFPVE-QRLETKY 402 (469)
Q Consensus 326 PLfGGWk~~FtiGyn~pl~~~L~~~~~~~~y-L~vp~~~~~-~d~~~d~~~l~IiLPEGA~~i~v~~P~~v~-~~~~~~~ 402 (469)
||||||||+|++|||+|+++||| .+|++| |+++|..++ +|++||+++++|+|||||+||++.+|++++ .++++++
T Consensus 320 PlFGGWkt~ftiGy~lP~~eyl~--~~g~ry~L~~~~~~~~~d~~V~dkl~ikvvLPEGak~i~i~tP~~is~~p~e~~~ 397 (602)
T KOG2291|consen 320 PLFGGWKTNFTIGYNLPLEEYLF--SKGRRYALKIILIDHIFDDTVYDKLTIKVVLPEGAKDIEIDTPYEISRSPIELKY 397 (602)
T ss_pred ccccCceeeEEEecCCcHHHHhh--ccCceeEEccccccCCCccceeeeEEEEEEccCCCcccccccceeeccCchhhhh
Confidence 99999999999999999999998 478888 999999865 667999999999999999999999999986 5699999
Q ss_pred EeccCCCCeEEEEEeecCCcCCcceEEEEEEcChhhhhhhhHHHHHHHHHHHHHHhhheeeeeEEeC
Q 012183 403 SYLDVVGRTVVVLEKKNVVPVHNIPFQVYYTFKPIFMLAEPMMLASAFFLFFTACVAYLHVDLSIRK 469 (469)
Q Consensus 403 tyLDt~GRpvv~l~~~nlv~~h~~~~~V~Y~~~~~~~l~kPl~i~~~~f~~fl~~~~l~rid~sI~k 469 (469)
||||+.||||++++++|+++.|+++|+|+|+|++..||+|||+|+++||++|++++++.|+||+|++
T Consensus 398 syLDt~GR~Vvv~ek~Nvv~~h~~~i~v~Y~f~~~sml~ePL~i~a~ffilf~~~i~y~~~d~~is~ 464 (602)
T KOG2291|consen 398 SYLDTNGRPVVVLEKNNVVPDHNQDIVVHYTFSKSSMLQEPLLIIAAFFILFFAVIVYVRLDFNISS 464 (602)
T ss_pred hhhhccCcEEEEEEccccCCCCCccEEEEEEechhHhhhccHHHHHHHHHHHHHHheeeecceeecc
Confidence 9999999999999999999999999999999999999999999999999999999999999999975
No 2
>PF04597 Ribophorin_I: Ribophorin I; InterPro: IPR007676 Ribophorin I is an essential subunit of oligosaccharyltransferase (OST), which is also known as dolichyl-diphosphooligosaccharide--protein glycosyltransferase, (2.4.1.119 from EC). OST catalyses the transfer of an oligosaccharide from dolichol pyrophosphate to selected asparagine residues of nascent polypeptides as they are translocated into the lumen of the rough endoplasmic reticulum. Ribophorin I and OST48 are thought to be responsible for OST catalytic activity []. Both yeast and mammalian proteins are glycosylated but the sites are not conserved. Glycosylation may contribute towards general solubility but is unlikely to be involved in a specific biochemical function []. Most family members are predicted to have a transmembrane helix at the C terminus of this region.; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0006486 protein glycosylation, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=100.00 E-value=3.3e-129 Score=1021.74 Aligned_cols=425 Identities=47% Similarity=0.811 Sum_probs=400.0
Q ss_pred CeEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCccEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecCCCCC
Q 012183 31 QIRINNAERRIDLSTHIVKVFLTLKVENTGKTSASEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQLPDAP 110 (469)
Q Consensus 31 ~~~n~~v~R~idL~~~~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~~~~~ 110 (469)
+|+|+++.|+|||++++|||+++++++|+|++|+++|+|++|.++++++|+++|.+++++.+.. . ..+..+ .+..
T Consensus 1 ~~~n~~~~R~idl~~~~vk~~~~i~i~N~g~~p~~~y~~~l~~~~~~~ls~~~a~~~~~~~~~~---~-~~~~~~-~~~~ 75 (432)
T PF04597_consen 1 VWENTNVERTIDLSKSYVKETIEITIKNIGDEPVSEYYFALPNDEADHLSYVSAKDKDKKKKLK---V-SKEITE-VNSG 75 (432)
T ss_pred CeEEeeEEEEEEccCcEEEEEEEEEEEECCCCCceEEEEEECchhhccEEEEEEEECCCccccc---c-cccccc-ccCC
Confidence 5999999999999999999999999999999999999999999999999999999987763321 0 111111 1122
Q ss_pred CCceEEEEEeCCCCCCCCeEEEEEEEEEcccccccCcccCcCCceeEEEEeCceecCcceeceEEEEEEeCCCccceeec
Q 012183 111 NETNYYTIVLANPLNTGETATLEILYILTHSLEPFPVEISQSESQLVYYRDSALILSPYHIKQQTTFIKIPSNKVESFTR 190 (469)
Q Consensus 111 ~~~~~y~I~Lp~pl~~~~~~~l~v~~~~~~~~~P~P~~I~q~e~Q~l~~~~~~~~~SpY~t~~q~t~v~~~s~~i~s~t~ 190 (469)
...++|+|+||.||+||++++|.|+|++++++.|+|++|+|+|+|+|+|++|+|++|||+|++|+|+++++++++++||+
T Consensus 76 ~~~~~~~i~L~~pl~~~~~~~l~v~~~~~~~~~P~P~~I~q~e~Q~v~~~~~~~~~SpY~t~~q~t~i~~~~~~i~s~t~ 155 (432)
T PF04597_consen 76 SEIKYYEITLPKPLAPGEKVTLTVEYVLTHALKPYPAEITQGEKQLVLFTGNAYPLSPYPTKKQKTKIKLPSSKIESYTK 155 (432)
T ss_pred CCcceEEEECCCCCCCCCEEEEEEEEEecccceEcCCcccCCCceEEEEEcCEEecCCccccEEEEEEEecCCceecccC
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC---CccccCCeEEeccCCCCCCCCccCeEEEEEccccceEEeeeEEEEEEecccceEEEEEEEEEEcCCCCCCCccch
Q 012183 191 VE---PTDRAGNELKYGPYEDRPPYSYSPLLVHFENNNPFSVVEELVREVEISHWGNLQITEQYKLAHAGARHKGIFSRV 267 (469)
Q Consensus 191 ~~---~~~~~g~~i~yGP~~~v~p~s~~~~~Vhye~n~P~~~v~~l~R~IeVSHWGni~veE~y~l~N~GA~Lkg~FSR~ 267 (469)
.+ +.+++|++++||||+|++||+.+|+.||||||.||++|++|+|+|||||||||+|||+|+|+|+||+|||+|||+
T Consensus 156 ~~~~~~~~~~~~~i~yGP~~~v~p~~~~~~~vhye~n~P~~~v~~l~R~IeVSHWgni~veE~y~l~N~GA~Lkg~FSR~ 235 (432)
T PF04597_consen 156 VEFEKPPKKKGNTITYGPYENVPPFSSQPLSVHYENNAPFLTVTSLERDIEVSHWGNIAVEEYYELRNDGAKLKGGFSRL 235 (432)
T ss_pred ccccCCceecCCeEEeccccccCCCCcccEEEEEECCCCceEEEEEEEEEEEcCCccEEEEEEEEEEEcCcccCCCcCHH
Confidence 87 899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcccCCC-CCCceeeeEeeeccCCCccCeEEEeccceeeeeeeeecCCceeEEEEecCCcccCCceeeEEEeecCCcccc
Q 012183 268 DYQSKPT-FSGVSSFKHLLARLPPRVHSVYYRDEIGNISTSHLRADSWKISELEIEPRYPLFGGWRATFVIGYGLPLEDF 346 (469)
Q Consensus 268 d~~~~~~-~~~~~~~~~l~~~LP~~a~d~YY~D~IGNISTS~~r~~~~~~~~l~l~PRfPLfGGWk~~FtiGyn~pl~~~ 346 (469)
|||++++ .++++++++++++||++|+|+||||+|||||||++|.++++ ++|+|+|||||||||||+|++|||+|+++|
T Consensus 236 d~~~~~~~~~~~~~~~~l~~~LP~~a~d~YY~D~IGNISTS~~~~~~~~-~~l~l~PRfPLfGGWk~~FtiGyn~p~~~~ 314 (432)
T PF04597_consen 236 DYQKSQNSNRGSSALKSLETILPASASDVYYRDEIGNISTSHVRPNKDS-VELELKPRFPLFGGWKYNFTIGYNLPLSNF 314 (432)
T ss_pred HHHhhccCCCcChhheEEeccCCCccCCeEEEcCCccEEEEEEEeCCCc-eEEEEEcCCcccCCcceeEEEEccCChHHh
Confidence 9988765 47889999999999999999999999999999999999999 999999999999999999999999999999
Q ss_pred eeeccCCceE-EEEEecCCCcceEEEEEEEEEEcCCCCcCCceeCCcce-eeeeeeEEEeccCCCCeEEEEEeecCCcCC
Q 012183 347 LFESSDGRRY-LNFTFGCPLVETVVDKLTIKVVLPEGAKGPSAVVPFPV-EQRLETKYSYLDVVGRTVVVLEKKNVVPVH 424 (469)
Q Consensus 347 L~~~~~~~~y-L~vp~~~~~~d~~~d~~~l~IiLPEGA~~i~v~~P~~v-~~~~~~~~tyLDt~GRpvv~l~~~nlv~~h 424 (469)
|++++++ +| |+|||++++.|++||+++++|+|||||+||+|.+|+++ +.+++.++||||++|||+|+++++||+|+|
T Consensus 315 l~~~~~~-~y~L~vp~~~~~~d~~~d~~~l~i~LPEGA~~i~v~~P~~~~~~~~~~~~tyLDt~GR~vv~l~~~nlvd~~ 393 (432)
T PF04597_consen 315 LRKSGDG-RYVLKVPFLPGIKDIVYDNVELRIILPEGAKNIKVSSPFPVDSVSVSTHKTYLDTTGRPVVVLEKKNLVDEH 393 (432)
T ss_pred EEECCCC-cEEEEEECcCCcCceEEEEEEEEEECCCCceeeeEeCCccceeeeccceeeeeeccCceEEEEEeccCCHhH
Confidence 9876555 88 99999999999999999999999999999999999996 578999999999999999999999999999
Q ss_pred c-ceEEEEEEcChhhhhhhhHHHHHHHHHHHHHHhhhee
Q 012183 425 N-IPFQVYYTFKPIFMLAEPMMLASAFFLFFTACVAYLH 462 (469)
Q Consensus 425 ~-~~~~V~Y~~~~~~~l~kPl~i~~~~f~~fl~~~~l~r 462 (469)
+ ++|+|+|+|+..+||||||+|++++|++|+++|+++|
T Consensus 394 ~~~~~~v~Y~~~~~~~~~kPl~i~~~~f~~fl~~~~l~r 432 (432)
T PF04597_consen 394 NDQDFQVTYTYPSSAMLRKPLLIAGAFFILFLAFIVLRR 432 (432)
T ss_pred CCeeEEEEEEcCHHHHHHHHHHHHHHHHHHHHheeEEeC
Confidence 9 6999999999999999999999999999999999998
No 3
>PF08487 VIT: Vault protein inter-alpha-trypsin domain; InterPro: IPR013694 Inter-alpha-trypsin inhibitors (ITIs) consist of one light chain and a variable set of heavy chains. ITIs play a role in extracellular matrix (ECM) stabilisation and tumour metastasis as well as in plasma protease inhibition []. The vault protein inter-alpha-trypsin (VIT) domain described here is found to the N terminus of a von Willebrand factor type A domain (IPR002035 from INTERPRO) in ITI heavy chains (ITIHs) and their precursors.
Probab=91.60 E-value=4.9 Score=35.09 Aligned_cols=94 Identities=12% Similarity=0.233 Sum_probs=59.5
Q ss_pred EeeEEEEEEcCCCeEEEEEEEEEEeCCCCCc-cEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecC------
Q 012183 34 INNAERRIDLSTHIVKVFLTLKVENTGKTSA-SEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQL------ 106 (469)
Q Consensus 34 n~~v~R~idL~~~~vk~~~~i~~kN~g~~p~-~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~------ 106 (469)
..++.=...+.+.+.+.+++-++.|..+.+. ..|.|.||++ .-++-+++..++.. -.+ .+.+.+.
T Consensus 5 l~s~~v~~~I~~~~a~t~v~q~f~N~~~~~~E~~y~fpLp~~--A~i~~f~~~i~g~~-i~g-----~v~ek~~A~~~y~ 76 (118)
T PF08487_consen 5 LKSVHVKVTIIDRFARTTVTQTFENPSSEPLEAVYSFPLPEG--AAISGFSMWIGGRT-IEG-----EVKEKEEAKQEYE 76 (118)
T ss_pred EEEEEEEEEEEccEEEEEEEEEEECCCCCcEEEEEEeECCCC--eEEEEEEEEECCEE-EEE-----EEecHHHHHHHHH
Confidence 3444455677889999999999999876654 3566777765 44566666665421 000 1111000
Q ss_pred -----------CCC-CCCceEEEEEeCCCCCCCCeEEEEEEEE
Q 012183 107 -----------PDA-PNETNYYTIVLANPLNTGETATLEILYI 137 (469)
Q Consensus 107 -----------~~~-~~~~~~y~I~Lp~pl~~~~~~~l~v~~~ 137 (469)
.+. ..+...|.+.+ ++.||+++++.+.|.
T Consensus 77 ~a~~~g~~a~lle~~~~~~~~F~~~v--ni~p~~~v~i~l~Y~ 117 (118)
T PF08487_consen 77 EAVAQGKSAALLEQSDPNVEVFTVSV--NIPPNEEVTIELTYV 117 (118)
T ss_pred HHHHcCCCchhhcccCCCCcEEEEEE--EeCCCCEEEEEEEEE
Confidence 011 11344699999 899999999999985
No 4
>smart00609 VIT Vault protein Inter-alpha-Trypsin domain.
Probab=91.49 E-value=5.2 Score=35.88 Aligned_cols=100 Identities=9% Similarity=0.130 Sum_probs=61.2
Q ss_pred CCCeEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCccEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecC--
Q 012183 29 SHQIRINNAERRIDLSTHIVKVFLTLKVENTGKTSASEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQL-- 106 (469)
Q Consensus 29 ~~~~~n~~v~R~idL~~~~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~-- 106 (469)
...+...++.=...+.+.+++++.+-+..|.++.+..-|+|... ....-++.+....++.. . .=.+++.+.
T Consensus 12 ~~~~pL~s~~v~~~I~~~~a~t~vtq~f~N~~~~~~e~~~~~~l-p~~A~v~~~~~~i~~r~--i----~g~vkeK~~Ar 84 (130)
T smart00609 12 VNGVPLYSLKVNSKVTSRFAHTVVTSRVVNRAVPAQEVTFDVEL-PKTAFISNFAMTIDGKT--Y----VGEIKEKEVAQ 84 (130)
T ss_pred CCccceEEEEEEEEEECCEEEEEEEEEEECCCCCceEEEEEcCC-CCCcEEEeEEEEECCEE--E----EEEEeeHHHHH
Confidence 34566677777788899999999999999998766666655433 22233444444443211 0 001111000
Q ss_pred ---------------CC-CCCCceEEEEEeCCCCCCCCeEEEEEEEE
Q 012183 107 ---------------PD-APNETNYYTIVLANPLNTGETATLEILYI 137 (469)
Q Consensus 107 ---------------~~-~~~~~~~y~I~Lp~pl~~~~~~~l~v~~~ 137 (469)
.+ .......|.+.+ ++.||+++++.+.|.
T Consensus 85 ~~Ye~A~~~G~~a~L~eq~~~~~~~F~~~V--NIppg~~v~v~l~Y~ 129 (130)
T smart00609 85 KQYEKAVSQGKTAGLVRASGRSMEQFTVSV--NVAPGSKVTFELTYE 129 (130)
T ss_pred HHHHHHHHcCCCeEEEEecCCccCcEEEEE--EeCCCCEEEEEEEEE
Confidence 00 011225689998 899999999999885
No 5
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=81.88 E-value=76 Score=33.76 Aligned_cols=184 Identities=18% Similarity=0.236 Sum_probs=96.3
Q ss_pred EEeeeEEEEEEecccceEEEEEEEEEEcCCCCCCCccchhcccCCC-CCCceeeeEeeecc--CCCccCeEEEeccceee
Q 012183 229 VVEELVREVEISHWGNLQITEQYKLAHAGARHKGIFSRVDYQSKPT-FSGVSSFKHLLARL--PPRVHSVYYRDEIGNIS 305 (469)
Q Consensus 229 ~v~~l~R~IeVSHWGni~veE~y~l~N~GA~Lkg~FSR~d~~~~~~-~~~~~~~~~l~~~L--P~~a~d~YY~D~IGNIS 305 (469)
++++++=+++|..=|.+.|+|.+...=+|. -.|-|-.++-..... ......++.+...- +.+....|-
T Consensus 3 ~I~~~~v~~~v~~dG~~~V~E~ity~f~~~-~~giyr~i~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~-------- 73 (511)
T PF09972_consen 3 SIDSYDVDATVQEDGSLDVTETITYDFDGS-FHGIYRTIPLKGTGQLGDDKQSIKNFSVSDDGSSGKPGTYG-------- 73 (511)
T ss_pred cceeeEEEEEECCCCcEEEEEEEEEEeccC-CceEEEEeccCCCCCCCcccccceeEEEEeCCCcCCCcceE--------
Confidence 367788888998889999999999886665 222222222211100 00001122222211 112222222
Q ss_pred eeeeeecCCceeEEEEecCCcccCCceeeEEEeecCCcccceeeccCCceEEEEEecCCCcceEEEEEEEEEEcCCCCcC
Q 012183 306 TSHLRADSWKISELEIEPRYPLFGGWRATFVIGYGLPLEDFLFESSDGRRYLNFTFGCPLVETVVDKLTIKVVLPEGAKG 385 (469)
Q Consensus 306 TS~~r~~~~~~~~l~l~PRfPLfGGWk~~FtiGyn~pl~~~L~~~~~~~~yL~vp~~~~~~d~~~d~~~l~IiLPEGA~~ 385 (469)
+....+. .++.+.-=.|--.|=...|++-|++. +.+...+|.+. |.-.+...--++.+++++++|.||++...
T Consensus 74 ---~~~~~~~-~~~~i~~~~~~~~~~~~~~~~~Y~v~--~~v~~~~D~~e-l~w~~~g~~~~~~i~~v~v~i~~P~~~~~ 146 (511)
T PF09972_consen 74 ---IEETDDG-YEIRIGIYDPSKNGGTHTYTISYTVK--NAVTNYSDVAE-LYWNFIGSGWDVPIENVTVTITLPKPVDN 146 (511)
T ss_pred ---EEecCCc-ceEEEEecCccccCCeEEEEEEEEEE--CceEEcCCeeE-EEEEEecCCCCCccceEEEEEECCCCCcc
Confidence 2222222 34666666666654567889999954 66643344333 44455544358999999999999987776
Q ss_pred CceeCC-cceeeeeeeEEEeccCCCCeEEEEEeecCCcCCcceEEEEEEcCh
Q 012183 386 PSAVVP-FPVEQRLETKYSYLDVVGRTVVVLEKKNVVPVHNIPFQVYYTFKP 436 (469)
Q Consensus 386 i~v~~P-~~v~~~~~~~~tyLDt~GRpvv~l~~~nlv~~h~~~~~V~Y~~~~ 436 (469)
+++..= -+..... + ++ ...-.|+++..|+ + -++.+.|...||.
T Consensus 147 ~~~~~~~g~~~~~~----~-~~-~~~~~v~~~~~~l-~-~~~~~~v~~~fP~ 190 (511)
T PF09972_consen 147 SKAWGHPGPYGGTV----E-ID-DDDGTVTFTTDNL-P-PNEGVEVRVSFPK 190 (511)
T ss_pred eEEEEeccCCCccc----e-ee-ecCCEEEEEEecc-C-CCCeEEEEEEccc
Confidence 554321 1110000 0 22 2234566677774 2 2345555555565
No 6
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=78.84 E-value=21 Score=39.85 Aligned_cols=89 Identities=17% Similarity=0.232 Sum_probs=59.4
Q ss_pred EEEcCCCeEEEEEEEEEEeCCCCCcc-EEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecC------------
Q 012183 40 RIDLSTHIVKVFLTLKVENTGKTSAS-EILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQL------------ 106 (469)
Q Consensus 40 ~idL~~~~vk~~~~i~~kN~g~~p~~-~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~------------ 106 (469)
.+++++.+++++++.+..|..+.+.+ .|.|.||++ .-++-+++.+++.. ..-.+++.+.
T Consensus 6 ~~~V~g~~A~v~v~q~f~N~~~~~~E~~y~fPLp~~--aaV~~f~~~i~~r~------i~g~v~eKe~A~~~Ye~a~~~G 77 (596)
T TIGR03788 6 NITVTGLIARTEVTQTFRNPSQFWVEGRYVFPLPEN--AAVDSLTMHIGERV------IVGQIMPKAAARAIYEQAKAEG 77 (596)
T ss_pred EEEEEcceEEEEEEEEEECCCCCcEEEEEEeeCCCC--cEEEEEEEEECCEE------EEEEEeeHHHHHHHHHHHHHhc
Confidence 56789999999999999999877663 566777765 56666777765421 0111111110
Q ss_pred -----CCCCCCceEEEEEeCCCCCCCCeEEEEEEEEE
Q 012183 107 -----PDAPNETNYYTIVLANPLNTGETATLEILYIL 138 (469)
Q Consensus 107 -----~~~~~~~~~y~I~Lp~pl~~~~~~~l~v~~~~ 138 (469)
.+ +.....|++.+. ++.||+++++.++|.-
T Consensus 78 ~~a~Lle-q~~~~~F~~~V~-nIpp~~~v~i~l~Y~q 112 (596)
T TIGR03788 78 KKAALVE-QQRPNLFTNKVA-NIGPGETVVVTIEYQQ 112 (596)
T ss_pred cceeeee-cccCCceeEEee-ccCCCCEEEEEEEEEE
Confidence 01 112346888885 8999999999999874
No 7
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=62.85 E-value=2.1e+02 Score=30.34 Aligned_cols=126 Identities=16% Similarity=0.212 Sum_probs=78.8
Q ss_pred eeEEEEEEc--CCC-eEEEEEEEEEEeCCCCCccEEEEEcCCCcc-------cceeEEEEEEccCccccceeeeeeeeee
Q 012183 35 NNAERRIDL--STH-IVKVFLTLKVENTGKTSASEILLAFPPTQV-------DHLAFLEALAATGKKKKKTYVSLAVKPT 104 (469)
Q Consensus 35 ~~v~R~idL--~~~-~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~-------~~ls~i~a~~~~~~~k~~~~~~l~v~~~ 104 (469)
.+++=+++| .++ .|.|+.++++.. +-+..+..+|.... .++..+++...+..++. ....+..
T Consensus 5 ~~~~v~~~v~~dG~~~V~E~ity~f~~----~~~giyr~i~~~~~~~~~~~~~~~~~~~v~~~~~~~~~---~~~~~~~- 76 (511)
T PF09972_consen 5 DSYDVDATVQEDGSLDVTETITYDFDG----SFHGIYRTIPLKGTGQLGDDKQSIKNFSVSDDGSSGKP---GTYGIEE- 76 (511)
T ss_pred eeeEEEEEECCCCcEEEEEEEEEEecc----CCceEEEEeccCCCCCCCcccccceeEEEEeCCCcCCC---cceEEEe-
Confidence 334444444 344 367777776643 25666777876665 56666777665411111 2223322
Q ss_pred cCCCCCCCceEEEEEeCCCCCCCCeEEEEEEEEEcccccccCcccCcCCceeEEEEeC-ceecCcceeceEEEEEEeC
Q 012183 105 QLPDAPNETNYYTIVLANPLNTGETATLEILYILTHSLEPFPVEISQSESQLVYYRDS-ALILSPYHIKQQTTFIKIP 181 (469)
Q Consensus 105 ~~~~~~~~~~~y~I~Lp~pl~~~~~~~l~v~~~~~~~~~P~P~~I~q~e~Q~l~~~~~-~~~~SpY~t~~q~t~v~~~ 181 (469)
..+..-++|....+...+++.+++++|.+.++...+ +|.+.+.|+.- ...-.| .++-+.+|.+|
T Consensus 77 -----~~~~~~~~i~~~~~~~~~~~~~~~~~Y~v~~~v~~~------~D~~el~w~~~g~~~~~~--i~~v~v~i~~P 141 (511)
T PF09972_consen 77 -----TDDGYEIRIGIYDPSKNGGTHTYTISYTVKNAVTNY------SDVAELYWNFIGSGWDVP--IENVTVTITLP 141 (511)
T ss_pred -----cCCcceEEEEecCccccCCeEEEEEEEEEECceEEc------CCeeEEEEEEecCCCCCc--cceEEEEEECC
Confidence 122344788899998887899999999999999976 66677887743 334444 45567778888
No 8
>PF10989 DUF2808: Protein of unknown function (DUF2808); InterPro: IPR021256 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=49.78 E-value=2e+02 Score=26.03 Aligned_cols=27 Identities=22% Similarity=0.335 Sum_probs=23.0
Q ss_pred CceEEEEEeCCCCCCCCeEEEEEEEEE
Q 012183 112 ETNYYTIVLANPLNTGETATLEILYIL 138 (469)
Q Consensus 112 ~~~~y~I~Lp~pl~~~~~~~l~v~~~~ 138 (469)
+.+...|.+..|+.||++++|.++-+.
T Consensus 87 ~~~~i~I~f~~PV~pG~tv~V~l~~v~ 113 (146)
T PF10989_consen 87 DGRTITITFDEPVPPGTTVTVVLSPVR 113 (146)
T ss_pred CCCEEEEEeCCCCCCCCEEEEEEEeee
Confidence 346789999999999999999986664
No 9
>COG2372 CopC Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]
Probab=45.84 E-value=1.2e+02 Score=27.41 Aligned_cols=55 Identities=20% Similarity=0.282 Sum_probs=29.3
Q ss_pred cEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecCCCCCCCceEEEEEeCCCCCCCC
Q 012183 65 SEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQLPDAPNETNYYTIVLANPLNTGE 128 (469)
Q Consensus 65 ~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~~~~~~~~~~y~I~Lp~pl~~~~ 128 (469)
..+-+.+.+....+-+.+.....++++ .+....... +.+...++|.||.||++|.
T Consensus 47 ~~i~L~Fse~ve~~fs~~~l~~~d~~~-------v~t~~~~~~--~~~~~~l~v~l~~~L~aG~ 101 (127)
T COG2372 47 AAITLEFSEGVEPGFSGAKLTGPDGEE-------VATAGTKLD--EQNHTQLEVPLPQPLKAGV 101 (127)
T ss_pred eeEEEecCCccCCCcceeEEECCCCCc-------cccCccccc--ccCCcEEEecCcccCCCCc
Confidence 334455555555555555555444331 222222211 1233568999999999983
No 10
>TIGR02411 leuko_A4_hydro leukotriene A-4 hydrolase/aminopeptidase. Members of this family represent a distinctive subset within the zinc metallopeptidase family M1 (pfam01433). The majority of the members of pfam01433 are aminopeptidases, but the sequences in this family for which the function is known are leukotriene A-4 hydrolase. A dual epoxide hydrolase and aminopeptidase activity at the same active site is indicated. The physiological substrate for aminopeptidase activity is not known.
Probab=45.82 E-value=4.6e+02 Score=29.48 Aligned_cols=92 Identities=12% Similarity=0.110 Sum_probs=55.8
Q ss_pred eEEeeEEEEEEcCCCeEEEEEEEEEEeCCCCCccEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecCCCCCC
Q 012183 32 IRINNAERRIDLSTHIVKVFLTLKVENTGKTSASEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQLPDAPN 111 (469)
Q Consensus 32 ~~n~~v~R~idL~~~~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~~~~~~ 111 (469)
...-++.=++|+.++...-+++|+++...+ +.++..+-. ..+..-+|..++.. ....+... .+.
T Consensus 13 ~~hy~L~L~vd~~~~~~~G~v~i~l~~~~~-~~~~i~Ld~-----~~L~I~~V~v~g~~------~~~~~~~~----~~~ 76 (601)
T TIGR02411 13 TSHTDLNLSVDFTKRKLSGSVTFTLQSLTD-NLNSLVLDT-----SYLDIQKVTINGLP------ADFAIGER----KEP 76 (601)
T ss_pred EEEEEEEEEEeecCCEEEEEEEEEEEECCC-CCcEEEEEC-----CCCEEEEEEECCcc------cceEeccc----cCC
Confidence 344555667888888888888888876432 334455533 23444455444321 11111110 012
Q ss_pred CceEEEEEeCCCCCCCCeEEEEEEEEEc
Q 012183 112 ETNYYTIVLANPLNTGETATLEILYILT 139 (469)
Q Consensus 112 ~~~~y~I~Lp~pl~~~~~~~l~v~~~~~ 139 (469)
....+.|.||.++++|+..+|.|.|.-.
T Consensus 77 ~g~~L~I~l~~~l~~g~~~~l~I~Y~~~ 104 (601)
T TIGR02411 77 LGSPLTISLPIATSKNKELVLNISFSTT 104 (601)
T ss_pred CCCeEEEEeCCccCCCceEEEEEEEeec
Confidence 3356899999999999999999988743
No 11
>PRK10301 hypothetical protein; Provisional
Probab=42.95 E-value=2e+02 Score=25.54 Aligned_cols=63 Identities=13% Similarity=0.219 Sum_probs=34.0
Q ss_pred CccEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecCCCCCCCceEEEEEeCCCCCCCCeEEEEEEEE
Q 012183 63 SASEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQLPDAPNETNYYTIVLANPLNTGETATLEILYI 137 (469)
Q Consensus 63 p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~~~~~~~~~~y~I~Lp~pl~~~~~~~l~v~~~ 137 (469)
+..+.-+.|.+......+-+.....+++. +...+.. .+ ..+.....+.|+.+|.+| +-.|+|-
T Consensus 44 ~P~~V~L~F~e~v~~~~s~i~v~~~~g~~-------v~~~~~~-~~-~~~~~~~~v~l~~~L~~G---~YtV~Wr 106 (124)
T PRK10301 44 APQALTLNFSEGIEPGFSGATITGPKQEN-------IKTLPAK-RN-EQDQKQLIVPLADSLKPG---TYTVDWH 106 (124)
T ss_pred CCCEEEEEcCCCccccccEEEEEcCCCCE-------eccCCcc-cc-CCCCcEEEEECCCCCCCc---cEEEEEE
Confidence 44455566666665666666666544431 1111111 00 123456788998899998 4555554
No 12
>PF15240 Pro-rich: Proline-rich
Probab=37.02 E-value=20 Score=34.07 Aligned_cols=28 Identities=11% Similarity=0.177 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHhhccCCCCCeEEeeE
Q 012183 10 MLSLTIILIPIFLFISGASSHQIRINNA 37 (469)
Q Consensus 10 ~~~~~~~l~~~~~~~~~~~~~~~~n~~v 37 (469)
||+.+|-++||||.+|-....++.+++.
T Consensus 1 MLlVLLSvALLALSSAQ~~dEdv~~e~~ 28 (179)
T PF15240_consen 1 MLLVLLSVALLALSSAQSTDEDVSQEES 28 (179)
T ss_pred ChhHHHHHHHHHhhhccccccccccccC
Confidence 6666666667777444445555555543
No 13
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=35.89 E-value=43 Score=24.16 Aligned_cols=20 Identities=25% Similarity=0.630 Sum_probs=15.1
Q ss_pred EEEeC-CCCCCCCeEEEEEEE
Q 012183 117 TIVLA-NPLNTGETATLEILY 136 (469)
Q Consensus 117 ~I~Lp-~pl~~~~~~~l~v~~ 136 (469)
.++++ .+++||++..|.|.|
T Consensus 25 ~~~~~~~~i~PGes~~i~v~y 45 (45)
T PF07610_consen 25 TAEYSKKPIAPGESGKIKVTY 45 (45)
T ss_pred EeeCCcceECCCCEEEEEEEC
Confidence 44444 468999999999875
No 14
>TIGR03079 CH4_NH3mon_ox_B methane monooxygenase/ammonia monooxygenase, subunit B. Both ammonia oxidizers such as Nitrosomonas europaea and methanotrophs (obligate methane oxidizers) such as Methylococcus capsulatus each can grow only on their own characteristic substrate. However, both groups have the ability to oxidize both substrates, and so the relevant enzymes must be named here according to their ability to oxidze both. The protein family represented here reflects subunit B of both the particulate methane monooxygenase of methylotrophs and the ammonia monooxygenase of nitrifying bacteria.
Probab=35.46 E-value=1.8e+02 Score=30.90 Aligned_cols=21 Identities=14% Similarity=0.173 Sum_probs=17.0
Q ss_pred EEEeCCCCCCCCeEEEEEEEE
Q 012183 117 TIVLANPLNTGETATLEILYI 137 (469)
Q Consensus 117 ~I~Lp~pl~~~~~~~l~v~~~ 137 (469)
.|.=+.|++|||+.++.|+..
T Consensus 333 ~v~d~~pI~PGETr~v~v~aq 353 (399)
T TIGR03079 333 EVDDQSAIAPGETVEVKMEAK 353 (399)
T ss_pred eeCCCCCcCCCcceEEEEEEe
Confidence 455567999999999998864
No 15
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=31.35 E-value=1.3e+02 Score=28.46 Aligned_cols=19 Identities=26% Similarity=0.455 Sum_probs=14.7
Q ss_pred EEEEEEEEEeCCCCCccEE
Q 012183 49 KVFLTLKVENTGKTSASEI 67 (469)
Q Consensus 49 k~~~~i~~kN~g~~p~~~y 67 (469)
..++++++.|.|++++.+-
T Consensus 39 ~v~V~~~iyN~G~~~A~dV 57 (181)
T PF05753_consen 39 DVTVTYTIYNVGSSAAYDV 57 (181)
T ss_pred EEEEEEEEEECCCCeEEEE
Confidence 4677888999999877544
No 16
>PF04314 DUF461: Protein of unknown function (DUF461); InterPro: IPR007410 This entry represents a domain found in of proteins of unknown function, including DR1885 from Deinococcus radiodurans and CC3502 from Caulobacter crescentus (Caulobacter vibrioides), which share a potential metal binding motif H(M)X10MX21HXM. DR1885 was found to bind copper(I) through a histidine and three Mets in a cupredoxin-like fold []. The surface location of the copper-binding site as well as the type of coordination are well poised for metal transfer chemistry, suggesting that DR1885 might transfer copper, taking the role of Cox17 in bacteria (Cox17 being an accessory protein required for correct assembly of eukaryotic cyochrome c oxidase). ; PDB: 2K6W_A 2K6Z_A 2K6Y_A 2K70_A 1X9L_A 2JQA_A.
Probab=31.27 E-value=1.2e+02 Score=26.10 Aligned_cols=82 Identities=17% Similarity=0.338 Sum_probs=38.2
Q ss_pred EEEEEeCCCCCccEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecCCC-CCCCceEEEEEeCCCCCCCCeEE
Q 012183 53 TLKVENTGKTSASEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQLPD-APNETNYYTIVLANPLNTGETAT 131 (469)
Q Consensus 53 ~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~~~-~~~~~~~y~I~Lp~pl~~~~~~~ 131 (469)
-.+|+|.|+++.. +..+....+.+.-.-.....++.-+-.....+.+..-+... .+.+.+.-...+.+++++|+++.
T Consensus 19 y~ti~N~g~~~~~--L~~v~s~~a~~v~lh~~~~~~g~~~m~~v~~i~ipa~~~v~l~pgg~HlmL~g~~~~l~~G~~v~ 96 (110)
T PF04314_consen 19 YFTITNNGDQDDR--LVGVSSPAAARVELHETVMEDGVMKMRPVDSIPIPAGSTVELKPGGYHLMLMGLKRPLKPGDTVP 96 (110)
T ss_dssp EEEEE-CSSSEEE--EEEEE-TTCCEEEEEEECCCCCEEEECCSS-EEEETT-EEEE-CCCCEEEEECESS-B-TTEEEE
T ss_pred EEEEEeCCCCCeE--EEEEEcCCCceEEEEEEEccCCeEEEEECCCEEECCCCeEEecCCCEEEEEeCCcccCCCCCEEE
Confidence 3678887776554 56666555555544443332221000000122222110000 12345566667888999999888
Q ss_pred EEEEE
Q 012183 132 LEILY 136 (469)
Q Consensus 132 l~v~~ 136 (469)
+++.+
T Consensus 97 ltL~f 101 (110)
T PF04314_consen 97 LTLTF 101 (110)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 87754
No 17
>PRK11901 hypothetical protein; Reviewed
Probab=24.97 E-value=57 Score=33.84 Aligned_cols=12 Identities=50% Similarity=0.551 Sum_probs=9.6
Q ss_pred EEEEEEcCCCeE
Q 012183 37 AERRIDLSTHIV 48 (469)
Q Consensus 37 v~R~idL~~~~v 48 (469)
-+|.|||+++-.
T Consensus 75 ~~knIdLS~sss 86 (327)
T PRK11901 75 AEKNIDLSGSSS 86 (327)
T ss_pred cccceecCCCCc
Confidence 379999998853
No 18
>PRK10905 cell division protein DamX; Validated
Probab=23.67 E-value=42 Score=34.70 Aligned_cols=13 Identities=31% Similarity=0.526 Sum_probs=10.6
Q ss_pred EeeEEEEEEcCCC
Q 012183 34 INNAERRIDLSTH 46 (469)
Q Consensus 34 n~~v~R~idL~~~ 46 (469)
...-+|.|||+++
T Consensus 31 ~~~~eknIdLsgs 43 (328)
T PRK10905 31 TASGEKSIDLAGN 43 (328)
T ss_pred ccccccceeccCC
Confidence 4467899999987
No 19
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=22.01 E-value=75 Score=26.45 Aligned_cols=16 Identities=19% Similarity=0.430 Sum_probs=9.6
Q ss_pred HHHHHHHHHHhhheee
Q 012183 448 SAFFLFFTACVAYLHV 463 (469)
Q Consensus 448 ~~~f~~fl~~~~l~ri 463 (469)
.+||++.+++|+++|+
T Consensus 77 ~~~f~~~v~yI~~rRl 92 (92)
T PF03908_consen 77 FLFFLLVVLYILWRRL 92 (92)
T ss_pred HHHHHHHHHHHhhhcC
Confidence 3345555667777775
No 20
>PF09478 CBM49: Carbohydrate binding domain CBM49; InterPro: IPR019028 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This domain is found at the C-terminal of cellulases and in vitro binding studies have shown it to binds to crystalline cellulose []. ; GO: 0030246 carbohydrate binding, 0005576 extracellular region
Probab=20.97 E-value=4.4e+02 Score=21.13 Aligned_cols=25 Identities=8% Similarity=0.217 Sum_probs=20.7
Q ss_pred EEEEEEEEEEeCCCCCccEEEEEcC
Q 012183 48 VKVFLTLKVENTGKTSASEILLAFP 72 (469)
Q Consensus 48 vk~~~~i~~kN~g~~p~~~y~~~l~ 72 (469)
.-....++++|.|+.+.....|.+.
T Consensus 17 ~y~qy~v~I~N~~~~~I~~~~i~~~ 41 (80)
T PF09478_consen 17 TYTQYDVTITNNGSKPIKSLKISID 41 (80)
T ss_pred EEEEEEEEEEECCCCeEEEEEEEEC
Confidence 4466778999999999998888776
No 21
>PHA02090 hypothetical protein
Probab=20.55 E-value=48 Score=26.29 Aligned_cols=20 Identities=30% Similarity=0.871 Sum_probs=13.5
Q ss_pred EEEEecCCcccCCceeeEE-EeecC
Q 012183 318 ELEIEPRYPLFGGWRATFV-IGYGL 341 (469)
Q Consensus 318 ~l~l~PRfPLfGGWk~~Ft-iGyn~ 341 (469)
.++.-|- ||||++-+ +||+.
T Consensus 41 v~e~m~d----g~~ktna~flgy~i 61 (79)
T PHA02090 41 VIEVMED----GGWKTNAEFLGYAI 61 (79)
T ss_pred EEEeccC----CCccccceeeeeee
Confidence 3455553 99999865 57764
No 22
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=20.28 E-value=1e+03 Score=25.33 Aligned_cols=81 Identities=17% Similarity=0.210 Sum_probs=37.3
Q ss_pred EEEEEEcCCCeEEEEEEEEEEeCCCCCccEEEEEcCCCcccceeEEEEEEccCccccceeeeeeeeeecCCCCCCCceEE
Q 012183 37 AERRIDLSTHIVKVFLTLKVENTGKTSASEILLAFPPTQVDHLAFLEALAATGKKKKKTYVSLAVKPTQLPDAPNETNYY 116 (469)
Q Consensus 37 v~R~idL~~~~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~~~~l~v~~~~~~~~~~~~~~y 116 (469)
..-+.++-+.-.+ .++++.|.|++|+.-=-| ...++.++.......+ .. .+- +... ..-.
T Consensus 254 ~~A~Y~vpgR~l~--~~l~VtN~g~~pv~LgeF-----~tA~vrFln~~v~~~~-~~---~P~--~l~A-------~~gL 313 (381)
T PF04744_consen 254 TDATYRVPGRTLT--MTLTVTNNGDSPVRLGEF-----NTANVRFLNPDVPTDD-PD---YPD--ELLA-------ERGL 313 (381)
T ss_dssp EEEEEESSSSEEE--EEEEEEEESSS-BEEEEE-----ESSS-EEE-TTT-SS--S------T--TTEE-------TT-E
T ss_pred eccEEecCCcEEE--EEEEEEcCCCCceEeeeE-----EeccEEEeCcccccCC-CC---Cch--hhhc-------cCcc
Confidence 3456777777544 457889999998752112 2245555442211100 00 000 0000 0124
Q ss_pred EEEeCCCCCCCCeEEEEEEEE
Q 012183 117 TIVLANPLNTGETATLEILYI 137 (469)
Q Consensus 117 ~I~Lp~pl~~~~~~~l~v~~~ 137 (469)
.|.=+.|++||++.++.|+..
T Consensus 314 ~vs~~~pI~PGETrtl~V~a~ 334 (381)
T PF04744_consen 314 SVSDNSPIAPGETRTLTVEAQ 334 (381)
T ss_dssp EES--S-B-TT-EEEEEEEEE
T ss_pred eeCCCCCcCCCceEEEEEEee
Confidence 566567999999999999775
No 23
>PF01433 Peptidase_M1: Peptidase family M1 This is family M1 in the peptidase classification.; InterPro: IPR014782 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 M1 (clan MA(E)), the type example being aminopeptidase N from Homo sapiens (Human). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Membrane alanine aminopeptidase (3.4.11.2 from EC) is part of the HEXXH+E group; it consists entirely of aminopeptidases, spread across a wide variety of species []. Functional studies show that CD13/APN catalyzes the removal of single amino acids from the amino terminus of small peptides and probably plays a role in their final digestion; one family member (leukotriene-A4 hydrolase) is known to hydrolyse the epoxide leukotriene-A4 to form an inflammatory mediator []. This hydrolase has been shown to have aminopeptidase activity [], and the zinc ligands of the M1 family were identified by site-directed mutagenesis on this enzyme [] CD13 participates in trimming peptides bound to MHC class II molecules [] and cleaves MIP-1 chemokine, which alters target cell specificity from basophils to eosinophils []. CD13 acts as a receptor for specific strains of RNA viruses (coronaviruses) which cause a relatively large percentage of upper respiratory trace infections. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2XQ0_A 2XPY_A 2XPZ_A 3SE6_B 3EBH_A 3EBG_A 3T8V_A 3Q44_A 3Q43_A 3EBI_A ....
Probab=20.25 E-value=9.3e+02 Score=24.56 Aligned_cols=84 Identities=21% Similarity=0.237 Sum_probs=51.0
Q ss_pred EEEcCCCeEEEEEEEEEEeCCCCCccEEEEEcCCCcccceeEEEEEEccCccccce-eeeeeeeeecCCCCCCCceEEEE
Q 012183 40 RIDLSTHIVKVFLTLKVENTGKTSASEILLAFPPTQVDHLAFLEALAATGKKKKKT-YVSLAVKPTQLPDAPNETNYYTI 118 (469)
Q Consensus 40 ~idL~~~~vk~~~~i~~kN~g~~p~~~y~~~l~~~~~~~ls~i~a~~~~~~~k~~~-~~~l~v~~~~~~~~~~~~~~y~I 118 (469)
++|+.+....=+++|+++-.. +.+...+... ++..-++...+....... ....... .......|
T Consensus 16 ~~~~~~~~f~G~v~I~~~~~~--~~~~I~L~~~-----~l~I~~v~~~~~~~~~~~~~~~~~~~--------~~~~~l~I 80 (390)
T PF01433_consen 16 TPDFEKRTFSGTVTITFEVTE--PTNSIVLHAK-----DLSISSVSLNGNDSSSEYKSSPFEYD--------DENEKLTI 80 (390)
T ss_dssp EEETTTTEEEEEEEEEEEESS--TECEEEEEES-----SEEEEEEEETTEECSCTECCEEEEEE--------CCBTEEEE
T ss_pred EEeCCCCEEEEEEEEEEEEec--CCCEEEEEee-----ccEEEEEeecCccccccccccceeec--------cccceeeh
Confidence 367888888888888887743 6776666432 344445555443211100 0001111 12345899
Q ss_pred EeCCCCCCCCeEEEEEEEEE
Q 012183 119 VLANPLNTGETATLEILYIL 138 (469)
Q Consensus 119 ~Lp~pl~~~~~~~l~v~~~~ 138 (469)
.|++++.+|+..+|.|.|.-
T Consensus 81 ~l~~~l~~g~~~~L~I~y~g 100 (390)
T PF01433_consen 81 TLPKPLPPGSNYTLRIEYSG 100 (390)
T ss_dssp EEEEECSTTEEEEEEEEEEE
T ss_pred hhhhhcccCcEEEEEEEEee
Confidence 99999999999899888764
Done!