Query psy15590
Match_columns 217
No_of_seqs 176 out of 529
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 16:29:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15590.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15590hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3369|consensus 100.0 2.1E-68 4.5E-73 447.0 16.9 199 1-210 1-199 (199)
2 PF04099 Sybindin: Sybindin-li 100.0 4.5E-47 9.7E-52 309.3 14.8 135 3-208 1-142 (142)
3 KOG3368|consensus 100.0 1.4E-40 3.1E-45 267.9 14.4 136 1-209 1-139 (140)
4 COG5122 TRS23 Transport protei 100.0 2E-35 4.4E-40 233.7 12.1 107 102-208 27-133 (134)
5 PF04628 Sedlin_N: Sedlin, N-t 99.9 6.6E-22 1.4E-26 158.9 11.5 119 88-208 3-132 (132)
6 KOG3444|consensus 99.6 6.6E-15 1.4E-19 116.0 9.9 100 86-190 7-120 (121)
7 COG5603 TRS20 Subunit of TRAPP 99.6 1.5E-14 3.2E-19 115.6 9.3 95 113-209 38-135 (136)
8 KOG3487|consensus 99.4 8.2E-13 1.8E-17 106.8 10.4 98 112-210 38-137 (139)
9 PF13774 Longin: Regulated-SNA 92.9 0.94 2E-05 33.0 8.0 58 119-179 3-62 (83)
10 PF14685 Tricorn_PDZ: Tricorn 88.6 0.35 7.6E-06 36.9 2.3 40 57-101 40-79 (88)
11 KOG0861|consensus 86.7 6.3 0.00014 34.3 9.0 60 116-179 42-103 (198)
12 PF08217 DUF1712: Fungal domai 85.6 8.2 0.00018 38.8 10.6 101 102-209 29-138 (604)
13 PF00595 PDZ: PDZ domain (Also 85.1 0.23 4.9E-06 35.6 -0.4 41 52-96 38-78 (81)
14 cd00988 PDZ_CTP_protease PDZ d 81.1 2.9 6.2E-05 29.6 4.1 46 53-101 27-72 (85)
15 cd00136 PDZ PDZ domain, also c 80.9 1.3 2.8E-05 30.3 2.1 40 55-97 29-68 (70)
16 PF01217 Clat_adaptor_s: Clath 78.8 31 0.00067 27.4 10.5 46 135-181 48-95 (141)
17 cd00989 PDZ_metalloprotease PD 75.9 1.5 3.4E-05 30.6 1.3 43 53-100 26-68 (79)
18 PF13180 PDZ_2: PDZ domain; PD 70.1 2.4 5.2E-05 30.4 1.2 44 53-101 28-72 (82)
19 smart00228 PDZ Domain present 67.9 4 8.7E-05 28.3 1.9 44 53-100 40-83 (85)
20 COG5143 SNC1 Synaptobrevin/VAM 67.8 12 0.00025 32.7 5.1 52 109-162 23-76 (190)
21 cd00992 PDZ_signaling PDZ doma 67.6 4.1 8.9E-05 28.4 1.9 38 55-96 42-79 (82)
22 cd00990 PDZ_glycyl_aminopeptid 66.4 5.9 0.00013 27.7 2.6 21 53-73 26-46 (80)
23 PF08253 Leader_Erm: Erm Leade 63.7 6.3 0.00014 22.1 1.7 11 1-11 1-11 (19)
24 KOG3605|consensus 57.7 6.3 0.00014 40.3 1.9 22 52-73 769-790 (829)
25 cd00991 PDZ_archaeal_metallopr 56.3 8 0.00017 27.6 1.8 43 53-100 24-67 (79)
26 PF04085 MreC: rod shape-deter 55.0 5.6 0.00012 32.6 0.9 53 43-97 10-65 (152)
27 cd00987 PDZ_serine_protease PD 53.3 8 0.00017 27.4 1.4 43 53-100 38-81 (90)
28 TIGR00225 prc C-terminal pepti 52.3 15 0.00033 33.4 3.3 60 37-99 54-119 (334)
29 PF13585 CHU_C: C-terminal dom 48.7 17 0.00036 27.0 2.5 18 3-20 28-45 (87)
30 cd00986 PDZ_LON_protease PDZ d 44.1 16 0.00034 25.8 1.7 40 56-100 24-64 (79)
31 PF03164 Mon1: Trafficking pro 42.7 2.2E+02 0.0047 27.2 9.6 77 90-176 20-98 (415)
32 PLN00049 carboxyl-terminal pro 39.9 19 0.00041 33.9 2.0 42 54-98 117-158 (389)
33 COG0793 Prc Periplasmic protea 39.5 22 0.00048 33.9 2.4 61 37-100 103-170 (406)
34 PRK13922 rod shape-determining 35.3 19 0.00042 31.8 1.2 52 43-96 132-186 (276)
35 TIGR03279 cyano_FeS_chp putati 35.2 33 0.00071 33.4 2.8 21 52-72 11-31 (433)
36 PF06574 FAD_syn: FAD syntheta 33.3 18 0.0004 29.8 0.7 19 43-61 3-21 (157)
37 PRK11186 carboxy-terminal prot 31.8 47 0.001 34.0 3.4 63 35-100 245-319 (667)
38 PRK07143 hypothetical protein; 31.7 24 0.00052 32.1 1.2 18 44-61 14-31 (279)
39 COG2122 Uncharacterized conser 30.8 1E+02 0.0023 27.9 5.0 45 166-210 37-82 (256)
40 KOG0862|consensus 28.3 4.3E+02 0.0094 23.6 9.7 55 117-174 36-92 (216)
41 PF03288 Pox_D5: Poxvirus D5 p 28.0 89 0.0019 22.4 3.5 35 171-208 25-59 (86)
42 TIGR02037 degP_htrA_DO peripla 27.0 32 0.0007 32.4 1.3 42 54-100 377-419 (428)
43 cd02172 RfaE_N N-terminal doma 26.4 31 0.00068 27.8 0.9 18 44-61 3-20 (144)
44 cd02171 G3P_Cytidylyltransfera 25.5 27 0.00058 27.1 0.4 16 46-61 2-17 (129)
45 COG1792 MreC Cell shape-determ 24.8 50 0.0011 30.0 2.0 47 43-91 130-178 (284)
46 PF05774 Herpes_heli_pri: Herp 24.5 48 0.001 27.2 1.6 21 6-26 64-84 (128)
47 PHA03141 helicase-primase prim 23.7 68 0.0015 25.4 2.3 21 6-26 39-59 (101)
48 TIGR02199 rfaE_dom_II rfaE bif 23.5 29 0.00062 28.0 0.2 19 43-61 9-27 (144)
49 TIGR00054 RIP metalloprotease 22.9 47 0.001 31.6 1.5 42 54-100 218-259 (420)
50 TIGR02860 spore_IV_B stage IV 22.3 79 0.0017 30.5 2.9 40 56-100 130-169 (402)
51 KOG0859|consensus 22.3 5.4E+02 0.012 22.9 7.8 53 120-175 31-85 (217)
52 TIGR01687 moaD_arch MoaD famil 22.3 67 0.0014 23.3 1.9 21 61-81 55-78 (88)
53 PF08800 VirE_N: VirE N-termin 21.1 2.7E+02 0.0059 22.3 5.4 23 141-163 57-81 (136)
54 PRK10139 serine endoprotease; 21.0 51 0.0011 31.8 1.3 42 53-100 404-445 (455)
55 cd00245 Glm_e Coenzyme B12-dep 20.4 38 0.00082 32.9 0.3 41 66-115 77-117 (428)
No 1
>KOG3369|consensus
Probab=100.00 E-value=2.1e-68 Score=447.04 Aligned_cols=199 Identities=57% Similarity=0.947 Sum_probs=195.7
Q ss_pred CeEEEEEEEeccceeEEecccCCCccccceecccCccccccccCceeEEeeccccceeeeeeEEeeeceeecccccCCCc
Q psy15590 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQLDDGT 80 (217)
Q Consensus 1 M~iy~~~i~~~~~~~i~~~d~~~~~~~~~~t~~~p~~~~l~~~~~~~~v~~g~~~~~~~g~~~~~~ng~~~~~~~~~dg~ 80 (217)
|+||++||+||+|||||++|...|+.|.| || |+.|...+.+++|+||++||||+||.+.+|||++|+|+.+.||
T Consensus 1 maI~~~~IINKsGgLIfq~e~~~~~~e~e-t~----d~~l~~~~~~~vvaf~~kdgik~~~~~~~vNg~~v~g~~~~~G- 74 (199)
T KOG3369|consen 1 MAIESLFIINKSGGLIFQREFGNPRQELE-TF----DLLLLASDLKVVVAFGSKDGIKVGHLVQAVNGENVNGYILYDG- 74 (199)
T ss_pred CceEEEEEEecCCcEEEEeecCCcccccc-ch----hhhhhhcccceeEEeecccccchhheeeeecccccccceeccc-
Confidence 89999999999999999999999999999 87 8999999999999999999999999999999999999999999
Q ss_pred chhhhccCCCCCCeeeeeCCCCCCchhhHHHhhhhhcHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEec
Q psy15590 81 DVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGD 160 (217)
Q Consensus 81 ~~~~~~~~~~n~Pl~l~~~~~~l~sne~llLag~l~SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd 160 (217)
|+.++|||++++|++|++++||+++|+|||||+++|++|+||.++++|++.++|++|++|||||.||+|||++++
T Consensus 75 -----l~~~~~ypv~~~f~~p~~ttNEkL~las~fhsl~aI~~qlsp~~ksSGie~LetdtF~l~~~QTlTG~KFVvis~ 149 (199)
T KOG3369|consen 75 -----LSSPRNYPVNGKFGRPKLTTNEKLILASSFHSLFAISTQLSPEPKSSGIEVLETDTFTLHIFQTLTGTKFVVIAE 149 (199)
T ss_pred -----ccCccccccccccCCCcccccchhhhhhhhcchhheeeccCCCCCCCceEEEEeccEEEEEEEccCCcEEEEEec
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchhHHHHHHHHHHHHHhhhhcCCCCCCCCcccchhHHHHHHHHHHHhh
Q psy15590 161 TNQSGLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQHE 210 (217)
Q Consensus 161 ~~~~~l~~~L~~IYelYvdyVlkNPfy~~~~pI~s~~Fd~~l~~ll~~~~ 210 (217)
+..+.++.+|++||++|+|||+|||||++||||||++||.+|+.++++.|
T Consensus 150 ~~~~~aD~lLrKiYelYsDyvlKNPfYSlEMPIRc~lFDe~lk~~le~~e 199 (199)
T KOG3369|consen 150 PGTQGADSLLRKIYELYSDYVLKNPFYSLEMPIRCELFDEKLKFLLESAE 199 (199)
T ss_pred CCchhHHHHHHHHHHHHHHHhhcCCccCcccceeHHHhhHHHHHHHhhcC
Confidence 99999999999999999999999999999999999999999999998764
No 2
>PF04099 Sybindin: Sybindin-like family ; InterPro: IPR007233 Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses. Syndecan-2 induces spine formation by recruiting intracellular vesicles toward postsynaptic sites through the interaction with synbindin []. ; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005801 cis-Golgi network; PDB: 3CUE_C 2J3T_C 2ZMV_B 2JSN_A.
Probab=100.00 E-value=4.5e-47 Score=309.33 Aligned_cols=135 Identities=55% Similarity=0.957 Sum_probs=105.4
Q ss_pred EEEEEEEeccceeEEecccCCCccccceecccCccccccccCceeEEeeccccceeeeeeEEeeeceeecccccCCCcch
Q psy15590 3 IYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQLDDGTDV 82 (217)
Q Consensus 3 iy~~~i~~~~~~~i~~~d~~~~~~~~~~t~~~p~~~~l~~~~~~~~v~~g~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~ 82 (217)
|||+|||||||+|||++||..+..+.
T Consensus 1 IyslyI~nr~G~lIy~~~~~~~~~~~------------------------------------------------------ 26 (142)
T PF04099_consen 1 IYSLYIFNRSGGLIYYREWNRSKNEG------------------------------------------------------ 26 (142)
T ss_dssp EEEEEEE-TTS-EEEEEETSSSS--E------------------------------------------------------
T ss_pred CeEEEEEeCCcceeeehhhCCCCccc------------------------------------------------------
Confidence 89999999999999999998874332
Q ss_pred hhhccCCCCCCeeeeeCCCCCCchhhHHHhhhhhcHHHHHhhhCC------CCCCCceeEEecCcEEEEEEEeCCCcEEE
Q psy15590 83 LEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFAIASQLSP------EPKSSGIEVLEADTFKLHCYQTLTGVKFM 156 (217)
Q Consensus 83 ~~~~~~~~n~Pl~l~~~~~~l~sne~llLag~l~SL~~i~~kLsp------~~~s~g~~~~~T~~yklh~yeT~TGiKFV 156 (217)
++++++||+++|+||+|||++|++||+| .++++||++++|++||||||||+||+|||
T Consensus 27 -----------------~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~~eT~TGlKFv 89 (142)
T PF04099_consen 27 -----------------QPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEPGSSGFESFETDTYKLHCFETPTGLKFV 89 (142)
T ss_dssp ------------------SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEEEE-TTS-EEE
T ss_pred -----------------cCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccccceeEEEEEeCCEEEEEEEcCcCcEEE
Confidence 2466799999999999999999999999 34568999999999999999999999999
Q ss_pred EEecCCchhH-HHHHHHHHHHHHhhhhcCCCCCCCCcccchhHHHHHHHHHHH
Q psy15590 157 IVGDTNQSGL-DLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQ 208 (217)
Q Consensus 157 litd~~~~~l-~~~L~~IYelYvdyVlkNPfy~~~~pI~s~~Fd~~l~~ll~~ 208 (217)
++||++.+++ +.+++.+|++|+|||+|||||++||||+|++||++|++++++
T Consensus 90 l~td~~~~~~~~~l~~~~~~lY~dyV~KNPfy~~~~pI~~~lF~~~l~~~~~~ 142 (142)
T PF04099_consen 90 LITDPNVPSLRDELLRIYYELYVDYVVKNPFYSLEMPIRCELFDTKLDQYVKS 142 (142)
T ss_dssp EEE-TTCCHCHHHHHHHHHHHHHHHHHS-TTS-TTS----HHHHHHHHHHHHC
T ss_pred EEecCCCccHHHHHHHHHHHHHHHHHhhCCCCCCCCcEehHHHHHHHHHHHhC
Confidence 9999998544 555566669999999999999999999999999999999874
No 3
>KOG3368|consensus
Probab=100.00 E-value=1.4e-40 Score=267.91 Aligned_cols=136 Identities=33% Similarity=0.614 Sum_probs=126.6
Q ss_pred CeEEEEEEEeccceeEEecccCCCccccceecccCccccccccCceeEEeeccccceeeeeeEEeeeceeecccccCCCc
Q psy15590 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQLDDGT 80 (217)
Q Consensus 1 M~iy~~~i~~~~~~~i~~~d~~~~~~~~~~t~~~p~~~~l~~~~~~~~v~~g~~~~~~~g~~~~~~ng~~~~~~~~~dg~ 80 (217)
|+||++|||||+|.|+|.++|+.++.+..
T Consensus 1 Mtiy~~yIFdR~g~Cl~y~EW~r~~~s~~--------------------------------------------------- 29 (140)
T KOG3368|consen 1 MTIYNFYIFDRNGVCLFYREWNRTKQSGI--------------------------------------------------- 29 (140)
T ss_pred CeEEEEEEEcCCccEEEehhcccccccCC---------------------------------------------------
Confidence 99999999999999999999998854321
Q ss_pred chhhhccCCCCCCeeeeeCCCCCCchhhHHHhhhhhcHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEec
Q psy15590 81 DVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGD 160 (217)
Q Consensus 81 ~~~~~~~~~~n~Pl~l~~~~~~l~sne~llLag~l~SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd 160 (217)
+ .++|.++++||+|||++|++||+|.+..+||.+++|+.||+|+||||||+||||+||
T Consensus 30 --------------------~--~eee~KL~yGmlFSlkS~v~Kls~~d~k~~f~sy~Ts~YklhfyeTptglk~vl~Td 87 (140)
T KOG3368|consen 30 --------------------P--NEEEAKLMYGMLFSLKSFVSKLSPGDVKDGFLSYKTSKYKLHFYETPTGLKFVLNTD 87 (140)
T ss_pred --------------------c--hhHHHHHHHHHHhhHHHHHHhcCCCCcccCeeEEeeceeEEEEEEcCCCcEEEEecC
Confidence 1 377899999999999999999999987899999999999999999999999999999
Q ss_pred CCchhHHHHHHHHHH-HHHhhhhcCCCCC--CCCcccchhHHHHHHHHHHHh
Q psy15590 161 TNQSGLDLILKKIYE-LYADYALKNPFYS--LEMPIRCELFDTHLQNLLQQH 209 (217)
Q Consensus 161 ~~~~~l~~~L~~IYe-lYvdyVlkNPfy~--~~~pI~s~~Fd~~l~~ll~~~ 209 (217)
+++++++++||+||. +||+||+|||+|+ ++.||+||+|...++++++..
T Consensus 88 pk~~~ir~vLq~IYs~lyVE~Vvknpl~~~~~~~~i~~E~fr~~ld~~vrsl 139 (140)
T KOG3368|consen 88 PKAGSIRDVLQYIYSHLYVEYVVKNPLYTYDPGSPIRSELFRKILDRFVRSL 139 (140)
T ss_pred CCcccHHHHHHHHHHHHHHHHHHcCcccccCCCCccchHHHHHHHHhhhccC
Confidence 999999999999995 9999999999999 999999999999999998854
No 4
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=2e-35 Score=233.68 Aligned_cols=107 Identities=44% Similarity=0.699 Sum_probs=102.5
Q ss_pred CCCchhhHHHhhhhhcHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCCchhHHHHHHHHHHHHHhhh
Q psy15590 102 RMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYELYADYA 181 (217)
Q Consensus 102 ~l~sne~llLag~l~SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~~~~l~~~L~~IYelYvdyV 181 (217)
++++||+++|+|++||.++|+.|++|-++++|++.+.+++|.+|.|+|.||+|||+++..+..+++--||++|++|+|||
T Consensus 27 ~lnsneyLiLastlhgV~aI~tq~~p~~gssg~~~l~~~~f~m~I~qT~TG~kFV~~~~k~t~na~~ql~kiY~lYsdYV 106 (134)
T COG5122 27 ELNSNEYLILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTTGTKFVFVAEKRTVNALFQLQKIYSLYSDYV 106 (134)
T ss_pred ccCcccEEEEeechhhhhhhhhhcccCCCCCceEEEEeccEEEEEEEecCCcEEEEEecCCchhHHHHHHHHHHHHHHHh
Confidence 56799999999999999999999999989999999999999999999999999999998888888888999999999999
Q ss_pred hcCCCCCCCCcccchhHHHHHHHHHHH
Q psy15590 182 LKNPFYSLEMPIRCELFDTHLQNLLQQ 208 (217)
Q Consensus 182 lkNPfy~~~~pI~s~~Fd~~l~~ll~~ 208 (217)
+|||||+++|||+|.+||.+|+++++.
T Consensus 107 ~knPfys~EMPI~c~lFde~lkrm~e~ 133 (134)
T COG5122 107 TKNPFYSPEMPIQCSLFDEHLKRMFEG 133 (134)
T ss_pred hcCCCCCcccceehhhhhHHHHHHhcC
Confidence 999999999999999999999998875
No 5
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport. Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.
Probab=99.87 E-value=6.6e-22 Score=158.87 Aligned_cols=119 Identities=23% Similarity=0.371 Sum_probs=90.9
Q ss_pred CCCCCCeeeeeCCCCCCch----hhHHHhhhhh-cHHHHHhhhCCCCCCCce-eEEecCcEEEEEEEeCCCcEEEEEec-
Q psy15590 88 KPESFPVKLTFTRPRMTTN----EKIFLASMFY-PLFAIASQLSPEPKSSGI-EVLEADTFKLHCYQTLTGVKFMIVGD- 160 (217)
Q Consensus 88 ~~~n~Pl~l~~~~~~l~sn----e~llLag~l~-SL~~i~~kLsp~~~s~g~-~~~~T~~yklh~yeT~TGiKFVlitd- 160 (217)
+++|.||+++-..+.-++. +.+ +.-+.| ||+.|.+++.......-+ ..++++.|++|+|+|+||+||||+++
T Consensus 3 g~~n~PLy~~~~~~~~~~~~~~~~~l-~~~~~h~sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~~~ 81 (132)
T PF04628_consen 3 GPNNNPLYIRSFPSEKESSSSDARHL-YQFIAHSSLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVHDM 81 (132)
T ss_dssp -TTS-EEEEEEE--ST-CGHHHHHHH-HHHHHHHHHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEECG
T ss_pred CCCCcceEEEecCCCcccccchHHHH-HHHHHHHHHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEEec
Confidence 6889999997655433332 234 555666 999999999882222222 55789999999999999999999998
Q ss_pred ----CCchhHHHHHHHHHHHHHhhhhcCCCCCCCCcccchhHHHHHHHHHHH
Q psy15590 161 ----TNQSGLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQ 208 (217)
Q Consensus 161 ----~~~~~l~~~L~~IYelYvdyVlkNPfy~~~~pI~s~~Fd~~l~~ll~~ 208 (217)
.++++++.+|++||++|++++ +||||.++.||+|+.|+++|++++++
T Consensus 82 ~~~~~~d~~ik~fF~~vh~~Y~~~~-~NPF~~~~~~I~S~~Fd~~v~~l~~k 132 (132)
T PF04628_consen 82 SDNSIRDEDIKQFFKEVHELYVKAL-CNPFYQPGTPIKSPKFDSRVRALAKK 132 (132)
T ss_dssp GG-S--HHHHHHHHHHHHHHHHHHH-TSTTCGCT-HHHHHHHHHHHHHHHHH
T ss_pred ccCCcchHHHHHHHHHHHHHHHHHc-cCCCCCCCCCcCCHHHHHHHHHHhcC
Confidence 358899999999999999966 79999999999999999999999875
No 6
>KOG3444|consensus
Probab=99.60 E-value=6.6e-15 Score=115.99 Aligned_cols=100 Identities=24% Similarity=0.394 Sum_probs=81.7
Q ss_pred ccCCCCCCeeeeeCCCCCCchhhHHHhhhhh-cHHHHHhhhCCCCC----CC----ceeEEecCcEEEEEEEeCCCcEEE
Q psy15590 86 LSKPESFPVKLTFTRPRMTTNEKIFLASMFY-PLFAIASQLSPEPK----SS----GIEVLEADTFKLHCYQTLTGVKFM 156 (217)
Q Consensus 86 ~~~~~n~Pl~l~~~~~~l~sne~llLag~l~-SL~~i~~kLsp~~~----s~----g~~~~~T~~yklh~yeT~TGiKFV 156 (217)
...++|.|++++...| .++.+.+..+.| ||+.|.+|++...+ ++ | ..+.|++||+++|.|.|.+|||
T Consensus 7 v~g~kn~~lyi~s~t~---~e~~L~~~y~v~~sLDVieekvn~~gkg~~tsne~fLG-LLy~ted~kvYgfvtNTkVKFI 82 (121)
T KOG3444|consen 7 VAGPKNEPLYIESITP---KEKELKLHYQVHLSLDVIEEKVNDPGKGERTSNELFLG-LLYPTEDYKVYGFVTNTKVKFI 82 (121)
T ss_pred EEcCCCCccEEEecCc---HHHHHHhHhhhhhhHHHHHHHhcCcccCccchhhhhhc-ccccccceeEEEEEeccEEEEE
Confidence 3467899999997665 455555555656 99999999965332 11 3 5689999999999999999999
Q ss_pred EEecCC-----chhHHHHHHHHHHHHHhhhhcCCCCCCC
Q psy15590 157 IVGDTN-----QSGLDLILKKIYELYADYALKNPFYSLE 190 (217)
Q Consensus 157 litd~~-----~~~l~~~L~~IYelYvdyVlkNPfy~~~ 190 (217)
+++|.+ +.++|+++|.+|-+|.| +++||||-++
T Consensus 83 lvvdssd~avreteiRsv~r~~h~l~td-~~~npfy~pg 120 (121)
T KOG3444|consen 83 LVVDSSDYAVRETEIRSVFRILHLLYTD-LSCNPFYLPG 120 (121)
T ss_pred EEEcCCcceehhHHHHHHHHHHHHHHHH-heecceeccC
Confidence 999875 78999999999999999 6799999886
No 7
>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]
Probab=99.56 E-value=1.5e-14 Score=115.58 Aligned_cols=95 Identities=21% Similarity=0.376 Sum_probs=77.8
Q ss_pred hhhh-cHHHHHhhhCCCCCCCceeEE-ecCcEEEEEEEeCCCcEEEEEecCC-chhHHHHHHHHHHHHHhhhhcCCCCCC
Q psy15590 113 SMFY-PLFAIASQLSPEPKSSGIEVL-EADTFKLHCYQTLTGVKFMIVGDTN-QSGLDLILKKIYELYADYALKNPFYSL 189 (217)
Q Consensus 113 g~l~-SL~~i~~kLsp~~~s~g~~~~-~T~~yklh~yeT~TGiKFVlitd~~-~~~l~~~L~~IYelYvdyVlkNPfy~~ 189 (217)
-++| ||+.+..+.-..+ .+-+.++ .....++++|.||+|+||++++... ..++|.||+++||+|++.+| ||||++
T Consensus 38 fiihaSlDiv~~lqwsvN-~~Y~~~~d~f~~l~IsAYi~pSgmkf~~iH~n~s~~N~rsF~qevHely~ktLm-spfy~~ 115 (136)
T COG5603 38 FIIHASLDIVVWLQWSVN-TSYFDCLDSFGDLRISAYIMPSGMKFLFIHQNQSRKNARSFLQEVHELYAKTLM-SPFYEP 115 (136)
T ss_pred HhhhhhHHHHHHHHHHhh-hHHHHHHHhhCCeEEEEEEccCCceEEEEeccchhhhHHHHHHHHHHHHHHHhh-CcccCC
Confidence 4556 7777666554433 2334444 3678899999999999999999765 77999999999999999875 999999
Q ss_pred CCcccchhHHHHHHHHHHHh
Q psy15590 190 EMPIRCELFDTHLQNLLQQH 209 (217)
Q Consensus 190 ~~pI~s~~Fd~~l~~ll~~~ 209 (217)
++|||++.||.+|+.+.+..
T Consensus 116 ~~pirsqafd~~Vr~~ar~~ 135 (136)
T COG5603 116 DEPIRSQAFDDGVREAARVC 135 (136)
T ss_pred CccccchhhhhhHHHHHHhh
Confidence 99999999999999998764
No 8
>KOG3487|consensus
Probab=99.44 E-value=8.2e-13 Score=106.76 Aligned_cols=98 Identities=20% Similarity=0.413 Sum_probs=76.4
Q ss_pred hhhhhcHHHHHhhhCCCCCCCceeE-EecCcEEEEEEEeCCCcEEEEEecCC-chhHHHHHHHHHHHHHhhhhcCCCCCC
Q psy15590 112 ASMFYPLFAIASQLSPEPKSSGIEV-LEADTFKLHCYQTLTGVKFMIVGDTN-QSGLDLILKKIYELYADYALKNPFYSL 189 (217)
Q Consensus 112 ag~l~SL~~i~~kLsp~~~s~g~~~-~~T~~yklh~yeT~TGiKFVlitd~~-~~~l~~~L~~IYelYvdyVlkNPfy~~ 189 (217)
--++|+--.|..++.......-+.. -..+..-+++|.|++++||++++..+ .++++.+|+++||+|++.+| ||||.+
T Consensus 38 ~FI~HAaLdiVde~~W~~snmYLktVDkfne~~VSAyvTas~i~f~mlh~~~~~~~ik~Ffqev~elyik~lm-npFy~~ 116 (139)
T KOG3487|consen 38 QFIVHAALDIVDELQWTTSNMYLKTVDKFNELFVSAYVTASHIRFIMLHINRADDNIKLFFQEVHELYIKTLM-NPFYEI 116 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHhhcceeEEEEEccCcEEEEEEeeccccccHHHHHHHHHHHHHHHHh-Cccccc
Confidence 3455644445555555321111112 24567889999999999999999987 67999999999999999885 999999
Q ss_pred CCcccchhHHHHHHHHHHHhh
Q psy15590 190 EMPIRCELFDTHLQNLLQQHE 210 (217)
Q Consensus 190 ~~pI~s~~Fd~~l~~ll~~~~ 210 (217)
++||+|+.||.+++.+.+++-
T Consensus 117 ~dpirs~afd~kv~~~~rkhl 137 (139)
T KOG3487|consen 117 NDPIRSPAFDHKVRGLARKHL 137 (139)
T ss_pred CCccccHHHHHHHHHHHHHHh
Confidence 999999999999999988864
No 9
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=92.86 E-value=0.94 Score=32.97 Aligned_cols=58 Identities=14% Similarity=0.270 Sum_probs=45.3
Q ss_pred HHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCCch--hHHHHHHHHHHHHHh
Q psy15590 119 FAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQS--GLDLILKKIYELYAD 179 (217)
Q Consensus 119 ~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~~~--~l~~~L~~IYelYvd 179 (217)
+.|.+|+.|. ...-.+++.+.|.+|++. ..|+-++++||..-+ -.=.+|++|.+.|..
T Consensus 3 ~~il~~i~~~--~~~k~s~~~~~~~fh~~~-~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~ 62 (83)
T PF13774_consen 3 RKILKRIPPN--GNSKMSYESGNYVFHYLV-EDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQ 62 (83)
T ss_dssp HHHHHTS-TT--SESEEEEEETTEEEEEEE-ETTEEEEEEEETTS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHhcCCC--CCCeEEEEECCEEEEEEE-cCCeEEEEEEcCCCCcchHHHHHHHHHHHHHH
Confidence 5677888863 235789999999999999 999999999999843 456788888877766
No 10
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=88.59 E-value=0.35 Score=36.87 Aligned_cols=40 Identities=20% Similarity=0.269 Sum_probs=30.8
Q ss_pred eeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCCC
Q psy15590 57 ILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRP 101 (217)
Q Consensus 57 ~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~~ 101 (217)
++.|.++++|||.++. .+.++-++|.++++.++.|.+.++
T Consensus 40 v~~GD~I~aInG~~v~-----~~~~~~~lL~~~agk~V~Ltv~~~ 79 (88)
T PF14685_consen 40 VREGDYILAINGQPVT-----ADANPYRLLEGKAGKQVLLTVNRK 79 (88)
T ss_dssp --TT-EEEEETTEE-B-----TTB-HHHHHHTTTTSEEEEEEE-S
T ss_pred CCCCCEEEEECCEECC-----CCCCHHHHhcccCCCEEEEEEecC
Confidence 5689999999999966 467899999999999999998765
No 11
>KOG0861|consensus
Probab=86.70 E-value=6.3 Score=34.26 Aligned_cols=60 Identities=13% Similarity=0.270 Sum_probs=47.3
Q ss_pred hcHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCC--chhHHHHHHHHHHHHHh
Q psy15590 116 YPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTN--QSGLDLILKKIYELYAD 179 (217)
Q Consensus 116 ~SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~--~~~l~~~L~~IYelYvd 179 (217)
|--+.++++..|. .+++++-++|++|+|.-+.|+--|+++|.. ....-.+|++|-+-|..
T Consensus 42 F~sktvaeRt~~g----~rqsvk~~~Y~~h~yvrndgL~~V~~~D~eYP~rvA~tLL~kvld~~~~ 103 (198)
T KOG0861|consen 42 FISKTVAERTGPG----QRQSVKHEEYLVHVYVRNDGLCGVLIADDEYPVRVAFTLLNKVLDEFTT 103 (198)
T ss_pred HHHHHHHHhcCcc----cccccccceeEEEEEEecCCeeEEEEecCcCchhHHHHHHHHHHHHHhh
Confidence 3457788888874 468899999999999999999999999987 33455677777766643
No 12
>PF08217 DUF1712: Fungal domain of unknown function (DUF1712); InterPro: IPR013176 The function of this fungal family of proteins is unknown.
Probab=85.58 E-value=8.2 Score=38.81 Aligned_cols=101 Identities=16% Similarity=0.290 Sum_probs=74.2
Q ss_pred CCCchhhHHHhhhhhcHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecC-C--------chhHHHHHHH
Q psy15590 102 RMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDT-N--------QSGLDLILKK 172 (217)
Q Consensus 102 ~l~sne~llLag~l~SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~-~--------~~~l~~~L~~ 172 (217)
..+.|+++...|+.-+|-.+++..+|.. .-+.+.|+.-++-+++--.|+++++..+. . ...++..|++
T Consensus 29 ~~~~neql~~IGL~qglv~Ft~~Fs~~~---~~~~I~T~K~r~v~~e~Ep~~Wi~l~I~~~~~~~~~~~~~~~L~~~L~~ 105 (604)
T PF08217_consen 29 ETSLNEQLRQIGLAQGLVSFTRTFSPDD---PCDSIHTEKSRIVFYEPEPGFWIVLSINLPKEQSTKDGPEQYLLSVLKQ 105 (604)
T ss_pred CCCHHHHHHHhhHHHHHHHHHHhcCCCC---cccceeecceEEEEEEecCCEEEEEEEecCcCCccccchHHHHHHHHHH
Confidence 4678999999999999999999999964 34669999999999999999999887661 1 1236777777
Q ss_pred HHHHHHhhhhcCCCCCCCCcccchhHHHHHHHHHHHh
Q psy15590 173 IYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQH 209 (217)
Q Consensus 173 IYelYvdyVlkNPfy~~~~pI~s~~Fd~~l~~ll~~~ 209 (217)
.|+.|.=+ .-||-..-. .-+.|...|+.+...+
T Consensus 106 ~Y~~F~L~--hGsfs~~l~--~r~~L~~~L~~F~~~f 138 (604)
T PF08217_consen 106 AYSMFRLF--HGSFSSLLE--GREKLKDRLEDFFSRF 138 (604)
T ss_pred HHHHHHHH--cCCHHHhcc--cHHHHHHHHHHHHHHH
Confidence 77766531 234433322 5566777777766554
No 13
>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....
Probab=85.13 E-value=0.23 Score=35.56 Aligned_cols=41 Identities=27% Similarity=0.550 Sum_probs=29.4
Q ss_pred ccccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeee
Q psy15590 52 GQRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKL 96 (217)
Q Consensus 52 g~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l 96 (217)
.+++|+++|-.+++|||.++.+...+ ++.+.|....+ ++.|
T Consensus 38 a~~~gl~~GD~Il~INg~~v~~~~~~---~~~~~l~~~~~-~v~L 78 (81)
T PF00595_consen 38 AERAGLKVGDRILEINGQSVRGMSHD---EVVQLLKSASN-PVTL 78 (81)
T ss_dssp HHHHTSSTTEEEEEETTEESTTSBHH---HHHHHHHHSTS-EEEE
T ss_pred HHhcccchhhhhheeCCEeCCCCCHH---HHHHHHHCCCC-cEEE
Confidence 46778999999999999999875332 35555555555 5554
No 14
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=81.08 E-value=2.9 Score=29.64 Aligned_cols=46 Identities=26% Similarity=0.465 Sum_probs=33.6
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRP 101 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~~ 101 (217)
++.|++.|..+++|||.++..... .++.+++..+...++.+.+.++
T Consensus 27 ~~~gl~~GD~I~~vng~~i~~~~~---~~~~~~l~~~~~~~i~l~v~r~ 72 (85)
T cd00988 27 AKAGIKAGDIIVAIDGEPVDGLSL---EDVVKLLRGKAGTKVRLTLKRG 72 (85)
T ss_pred HHcCCCCCCEEEEECCEEcCCCCH---HHHHHHhcCCCCCEEEEEEEcC
Confidence 345899999999999999875311 3567777766677888876553
No 15
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=80.91 E-value=1.3 Score=30.33 Aligned_cols=40 Identities=40% Similarity=0.429 Sum_probs=30.4
Q ss_pred cceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeee
Q psy15590 55 DGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLT 97 (217)
Q Consensus 55 ~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~ 97 (217)
-|+++|-.+++|||.++.+.. -.++.++|....+.++.|.
T Consensus 29 ~gl~~GD~I~~Ing~~v~~~~---~~~~~~~l~~~~g~~v~l~ 68 (70)
T cd00136 29 AGLQAGDVILAVNGTDVKNLT---LEDVAELLKKEVGEKVTLT 68 (70)
T ss_pred cCCCCCCEEEEECCEECCCCC---HHHHHHHHhhCCCCeEEEE
Confidence 489999999999999987643 2357777777766676664
No 16
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=78.78 E-value=31 Score=27.36 Aligned_cols=46 Identities=28% Similarity=0.612 Sum_probs=35.8
Q ss_pred eEEecCcEEEEEEEeCCCcEEEEEecCCch--hHHHHHHHHHHHHHhhh
Q psy15590 135 EVLEADTFKLHCYQTLTGVKFMIVGDTNQS--GLDLILKKIYELYADYA 181 (217)
Q Consensus 135 ~~~~T~~yklh~yeT~TGiKFVlitd~~~~--~l~~~L~~IYelYvdyV 181 (217)
..+..+.+++ .|.-..++-|+++++.+++ .+-++|+.+.+++-+|.
T Consensus 48 ~i~~~~~~~~-vy~~~~dl~~~~v~~~~eNel~~~e~l~~~v~~l~~~~ 95 (141)
T PF01217_consen 48 PIFEHDNYRI-VYKRYSDLYFVVVGDENENELLLLEFLHRLVEVLDDYF 95 (141)
T ss_dssp SEEEETTEEE-EEEEETTEEEEEEESSTSBHHHHHHHHHHHHHHHHHHH
T ss_pred eeeeccccee-eeEeeccEEEEEEeecccchHHHHHHHHHhhhhhhhhh
Confidence 4466677776 6777889999999998866 45678888888888865
No 17
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=75.86 E-value=1.5 Score=30.55 Aligned_cols=43 Identities=26% Similarity=0.434 Sum_probs=29.7
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
++.|++.|-.+++|||.++.. -.++...+....+.++.+.+.+
T Consensus 26 ~~~gl~~GD~I~~ing~~i~~-----~~~~~~~l~~~~~~~~~l~v~r 68 (79)
T cd00989 26 AKAGLKAGDRILAINGQKIKS-----WEDLVDAVQENPGKPLTLTVER 68 (79)
T ss_pred HHcCCCCCCEEEEECCEECCC-----HHHHHHHHHHCCCceEEEEEEE
Confidence 446899999999999999763 2456666655445566665543
No 18
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=70.09 E-value=2.4 Score=30.43 Aligned_cols=44 Identities=23% Similarity=0.400 Sum_probs=32.8
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhc-cCCCCCCeeeeeCCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFL-SKPESFPVKLTFTRP 101 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~-~~~~n~Pl~l~~~~~ 101 (217)
++-|++.|=.+++|||.+|+ +-.++.+.+ ..+.+.++.|++.|.
T Consensus 28 ~~aGl~~GD~I~~ing~~v~-----~~~~~~~~l~~~~~g~~v~l~v~R~ 72 (82)
T PF13180_consen 28 AKAGLQPGDIILAINGKPVN-----SSEDLVNILSKGKPGDTVTLTVLRD 72 (82)
T ss_dssp HHTTS-TTEEEEEETTEESS-----SHHHHHHHHHCSSTTSEEEEEEEET
T ss_pred HHCCCCCCcEEEEECCEEcC-----CHHHHHHHHHhCCCCCEEEEEEEEC
Confidence 35589999999999999984 345666666 778888888877653
No 19
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=67.90 E-value=4 Score=28.32 Aligned_cols=44 Identities=27% Similarity=0.409 Sum_probs=27.5
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
.+.|++.|..+++|||.++.+... .++...+... ..++.+...+
T Consensus 40 ~~~gl~~GD~I~~In~~~v~~~~~---~~~~~~~~~~-~~~~~l~i~r 83 (85)
T smart00228 40 AKAGLKVGDVILEVNGTSVEGLTH---LEAVDLLKKA-GGKVTLTVLR 83 (85)
T ss_pred HHcCCCCCCEEEEECCEECCCCCH---HHHHHHHHhC-CCeEEEEEEe
Confidence 356799999999999999875332 2233333332 2366665543
No 20
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion]
Probab=67.83 E-value=12 Score=32.65 Aligned_cols=52 Identities=17% Similarity=0.284 Sum_probs=42.5
Q ss_pred HHHhhhhh--cHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCC
Q psy15590 109 IFLASMFY--PLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTN 162 (217)
Q Consensus 109 llLag~l~--SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~ 162 (217)
+.=.+++| .++.+-..++|...+ ...+++++|-.|.|.-.+|+.++++++..
T Consensus 23 ~~~~~ff~~~~v~~~l~~~~~~~a~--~~~ies~~~~~~~~~~s~gi~y~~~~~~e 76 (190)
T COG5143 23 LSSFSFFHRSKVKEVLRFLSKTSAS--RASIESGDYFFHYLKMSSGIVYVPISDKE 76 (190)
T ss_pred cCcccccccchHHHHHHHhcccccc--hhccccCceEEEEEecCCCceeEEecccc
Confidence 33346666 677788888887543 67899999999999999999999999986
No 21
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=67.59 E-value=4.1 Score=28.40 Aligned_cols=38 Identities=24% Similarity=0.396 Sum_probs=26.9
Q ss_pred cceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeee
Q psy15590 55 DGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKL 96 (217)
Q Consensus 55 ~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l 96 (217)
-|++.|-.+++|||.++.+ .+-.++.+.+..... ++.+
T Consensus 42 ~gl~~GD~I~~ing~~i~~---~~~~~~~~~l~~~~~-~v~l 79 (82)
T cd00992 42 GGLRVGDRILEVNGVSVEG---LTHEEAVELLKNSGD-EVTL 79 (82)
T ss_pred CCCCCCCEEEEECCEEcCc---cCHHHHHHHHHhCCC-eEEE
Confidence 4899999999999999875 244456666665433 4444
No 22
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=66.40 E-value=5.9 Score=27.75 Aligned_cols=21 Identities=29% Similarity=0.495 Sum_probs=17.8
Q ss_pred cccceeeeeeEEeeeceeecc
Q psy15590 53 QRDGILVGHVLTAVNDAVIKN 73 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~ 73 (217)
++-|++.|..+++|||.++..
T Consensus 26 ~~aGl~~GD~I~~Ing~~v~~ 46 (80)
T cd00990 26 DKAGLVAGDELVAVNGWRVDA 46 (80)
T ss_pred HHhCCCCCCEEEEECCEEhHH
Confidence 345899999999999999763
No 23
>PF08253 Leader_Erm: Erm Leader peptide ; InterPro: IPR013204 These short proteins are leader peptides (15-19 amino acids) of erm genes that code for resistance determinants in Staphylococcus aureus [].
Probab=63.68 E-value=6.3 Score=22.11 Aligned_cols=11 Identities=9% Similarity=0.739 Sum_probs=9.8
Q ss_pred CeEEEEEEEec
Q psy15590 1 MVIYGVYIVSK 11 (217)
Q Consensus 1 M~iy~~~i~~~ 11 (217)
|.+||+|++++
T Consensus 1 MG~fSiFVI~~ 11 (19)
T PF08253_consen 1 MGMFSIFVINT 11 (19)
T ss_pred CceEEEEEEEe
Confidence 88999999985
No 24
>KOG3605|consensus
Probab=57.67 E-value=6.3 Score=40.34 Aligned_cols=22 Identities=27% Similarity=0.570 Sum_probs=20.2
Q ss_pred ccccceeeeeeEEeeeceeecc
Q psy15590 52 GQRDGILVGHVLTAVNDAVIKN 73 (217)
Q Consensus 52 g~~~~~~~g~~~~~~ng~~~~~ 73 (217)
-+|-||+|||-++.|||..|..
T Consensus 769 AERGGVRVGHRIIEINgQSVVA 790 (829)
T KOG3605|consen 769 AERGGVRVGHRIIEINGQSVVA 790 (829)
T ss_pred hhccCceeeeeEEEECCceEEe
Confidence 4899999999999999999884
No 25
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=56.26 E-value=8 Score=27.65 Aligned_cols=43 Identities=19% Similarity=0.228 Sum_probs=30.1
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhccCC-CCCCeeeeeCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKP-ESFPVKLTFTR 100 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~-~n~Pl~l~~~~ 100 (217)
++-|++.|-.+++|||.++. +=.++.+.+.+. .+.++.+.+.+
T Consensus 24 ~~aGL~~GDiI~~Ing~~v~-----~~~d~~~~l~~~~~g~~v~l~v~r 67 (79)
T cd00991 24 ENAVLHTGDVIYSINGTPIT-----TLEDFMEALKPTKPGEVITVTVLP 67 (79)
T ss_pred HhcCCCCCCEEEEECCEEcC-----CHHHHHHHHhcCCCCCEEEEEEEE
Confidence 34689999999999999976 234566666653 35666666544
No 26
>PF04085 MreC: rod shape-determining protein MreC; InterPro: IPR007221 MreC (murein formation C) is involved in the rod shape determination in Escherichia coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped.; GO: 0008360 regulation of cell shape; PDB: 2J5U_B 2QF4_B 2QF5_A.
Probab=54.98 E-value=5.6 Score=32.55 Aligned_cols=53 Identities=21% Similarity=0.249 Sum_probs=35.2
Q ss_pred cCceeEEeeccccceeeeeeEEeeeceeecccccC--CCc-chhhhccCCCCCCeeee
Q psy15590 43 ENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQLD--DGT-DVLEFLSKPESFPVKLT 97 (217)
Q Consensus 43 ~~~~~~v~~g~~~~~~~g~~~~~~ng~~~~~~~~~--dg~-~~~~~~~~~~n~Pl~l~ 97 (217)
-.+.+++..|++|||+.|-.|++-+| +.|+-.+ +.. .|+-+.+.+.+-|..+.
T Consensus 10 ~~~~i~Id~G~~dGi~~g~~Vv~~~g--lVG~V~~V~~~~S~V~li~d~~~~v~v~i~ 65 (152)
T PF04085_consen 10 WSNSITIDKGSNDGIKPGMPVVSGGG--LVGRVTEVGPNTSRVLLITDPNSRVSVKIE 65 (152)
T ss_dssp TTTEEEES--GGGT--TT-EEEETTE--EEEEEEEE-SS-EEEEETTSSBCEEEEEEE
T ss_pred ceeEEEEeCchhhcCCCCCEEEeCCC--cEEEEEEECCCEEEEEEEeCCCceEEEEEe
Confidence 35678889999999999999999888 7787754 333 47777777776676665
No 27
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=53.26 E-value=8 Score=27.38 Aligned_cols=43 Identities=30% Similarity=0.360 Sum_probs=29.0
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhccCC-CCCCeeeeeCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKP-ESFPVKLTFTR 100 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~-~n~Pl~l~~~~ 100 (217)
++.|++.|-.+++|||.++.. -.++.+.+... ...++.+.+.+
T Consensus 38 ~~~gl~~GD~I~~Ing~~i~~-----~~~~~~~l~~~~~~~~i~l~v~r 81 (90)
T cd00987 38 AKAGLKPGDVILAVNGKPVKS-----VADLRRALAELKPGDKVTLTVLR 81 (90)
T ss_pred HHcCCCcCCEEEEECCEECCC-----HHHHHHHHHhcCCCCEEEEEEEE
Confidence 456899999999999999763 23455555543 25566665543
No 28
>TIGR00225 prc C-terminal peptidase (prc). A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database.
Probab=52.30 E-value=15 Score=33.45 Aligned_cols=60 Identities=18% Similarity=0.318 Sum_probs=37.0
Q ss_pred cccccccCceeEEeec------cccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeC
Q psy15590 37 NIKLTPENKKIVVSFG------QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFT 99 (217)
Q Consensus 37 ~~~l~~~~~~~~v~~g------~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~ 99 (217)
.+.+...++++.|..= ++-|++.|=.+++|||.++.+..+ .++.+.+..+...++.+...
T Consensus 54 G~~~~~~~~~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~---~~~~~~l~~~~g~~v~l~v~ 119 (334)
T TIGR00225 54 GIQVGMDDGEIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSL---DDAVALIRGKKGTKVSLEIL 119 (334)
T ss_pred EEEEEEECCEEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCH---HHHHHhccCCCCCEEEEEEE
Confidence 4455555566666542 344899999999999999986421 13444444444555555443
No 29
>PF13585 CHU_C: C-terminal domain of CHU protein family; PDB: 3EIF_A 1XF1_B.
Probab=48.70 E-value=17 Score=27.01 Aligned_cols=18 Identities=28% Similarity=0.549 Sum_probs=12.7
Q ss_pred EEEEEEEeccceeEEecc
Q psy15590 3 IYGVYIVSKSGGLIFNYD 20 (217)
Q Consensus 3 iy~~~i~~~~~~~i~~~d 20 (217)
-+++.|+||-|.+||..+
T Consensus 28 ~~~~~IynrwG~~Vf~~~ 45 (87)
T PF13585_consen 28 NYSLTIYNRWGELVFESN 45 (87)
T ss_dssp EEEEEEE-SSS-EEEE--
T ss_pred eeEEEEEeCCCcEEEEEC
Confidence 478999999999999854
No 30
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=44.07 E-value=16 Score=25.79 Aligned_cols=40 Identities=23% Similarity=0.427 Sum_probs=27.7
Q ss_pred ceeeeeeEEeeeceeecccccCCCcchhhhccC-CCCCCeeeeeCC
Q psy15590 56 GILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSK-PESFPVKLTFTR 100 (217)
Q Consensus 56 ~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~-~~n~Pl~l~~~~ 100 (217)
|++.|-.+++|||.++.. -.++.+.+.. +.+.++.+...+
T Consensus 24 gL~~GD~I~~Ing~~v~~-----~~~~~~~l~~~~~~~~v~l~v~r 64 (79)
T cd00986 24 KLKAGDHIIAVDGKPFKE-----AEELIDYIQSKKEGDTVKLKVKR 64 (79)
T ss_pred CCCCCCEEEEECCEECCC-----HHHHHHHHHhCCCCCEEEEEEEE
Confidence 799999999999999762 2345556653 445566666544
No 31
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=42.69 E-value=2.2e+02 Score=27.20 Aligned_cols=77 Identities=16% Similarity=0.202 Sum_probs=50.0
Q ss_pred CCCCeeeeeCCCCCCchhhHHHhhhhhcHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCCch--hHH
Q psy15590 90 ESFPVKLTFTRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQS--GLD 167 (217)
Q Consensus 90 ~n~Pl~l~~~~~~l~sne~llLag~l~SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~~~--~l~ 167 (217)
+-.|++-+.|+ ++.---+.|++ .+|.+-.... .+.++.+.+++.++.+. ..+.+-+|.++...++ .++
T Consensus 20 AGKPIysr~G~----e~~l~~~~g~~---~aiiS~~~~~--~d~l~~i~~~~~~ivfl-~r~pl~lv~vS~~~e~~~~l~ 89 (415)
T PF03164_consen 20 AGKPIYSRYGD----EDKLSSLMGVI---QAIISFFQSN--GDELRSIRAGDHRIVFL-NRGPLILVAVSKTGESESQLR 89 (415)
T ss_pred CCceeEEecCC----hHHHHHHHHHH---HHHHHHHHhC--CCcEEEEEeCCEEEEEE-ecCCEEEEEEcCCcCCHHHHH
Confidence 34567777643 33333344444 4444444332 25688999999998855 5889999999987644 577
Q ss_pred HHHHHHHHH
Q psy15590 168 LILKKIYEL 176 (217)
Q Consensus 168 ~~L~~IYel 176 (217)
.-|+.+|..
T Consensus 90 ~qL~~ly~q 98 (415)
T PF03164_consen 90 KQLDYLYSQ 98 (415)
T ss_pred HHHHHHHHH
Confidence 777777743
No 32
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=39.95 E-value=19 Score=33.86 Aligned_cols=42 Identities=31% Similarity=0.443 Sum_probs=28.9
Q ss_pred ccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeee
Q psy15590 54 RDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTF 98 (217)
Q Consensus 54 ~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~ 98 (217)
+-|++.|=.+++|||.+|.+... .++.+.|.++.+.++.+.+
T Consensus 117 ~aGl~~GD~Iv~InG~~v~~~~~---~~~~~~l~g~~g~~v~ltv 158 (389)
T PLN00049 117 RAGIRPGDVILAIDGTSTEGLSL---YEAADRLQGPEGSSVELTL 158 (389)
T ss_pred HcCCCCCCEEEEECCEECCCCCH---HHHHHHHhcCCCCEEEEEE
Confidence 45999999999999999986321 2355555555555555544
No 33
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=39.54 E-value=22 Score=33.88 Aligned_cols=61 Identities=21% Similarity=0.323 Sum_probs=38.0
Q ss_pred cccccccC-ceeEEeec------cccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 37 NIKLTPEN-KKIVVSFG------QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 37 ~~~l~~~~-~~~~v~~g------~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
.+.++..+ +.+.|.=- .+-||++|-.+++|||.++.|-.+ .++-+.+..+...++.|...+
T Consensus 103 G~~i~~~~~~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~---~~av~~irG~~Gt~V~L~i~r 170 (406)
T COG0793 103 GIELQMEDIGGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSL---DEAVKLIRGKPGTKVTLTILR 170 (406)
T ss_pred eEEEEEecCCCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCH---HHHHHHhCCCCCCeEEEEEEE
Confidence 34445544 55555433 344899999999999999998654 334445555555555554443
No 34
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=35.34 E-value=19 Score=31.78 Aligned_cols=52 Identities=17% Similarity=0.315 Sum_probs=38.2
Q ss_pred cCceeEEeeccccceeeeeeEEeeeceeecccccC--CCc-chhhhccCCCCCCeee
Q psy15590 43 ENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQLD--DGT-DVLEFLSKPESFPVKL 96 (217)
Q Consensus 43 ~~~~~~v~~g~~~~~~~g~~~~~~ng~~~~~~~~~--dg~-~~~~~~~~~~n~Pl~l 96 (217)
-.+.+++.-|..|||+.|..|++-+| +.|+-.+ +.. .|+-+.+.....|..+
T Consensus 132 ~~~~i~Id~G~~~Gv~~g~~Vv~~~G--lVG~V~~v~~~~s~V~li~d~~~~v~v~i 186 (276)
T PRK13922 132 WSQQVTIDKGSNDGVKKGMPVIDPGG--LVGRVIEVSPNTSRVLLLTDPNSRVPVQV 186 (276)
T ss_pred ceeEEEEccCcccCCCCCCceEcCCC--CeEEEEEECCCeeEEEEEEcCCCceEEEE
Confidence 44667788899999999999999998 6677743 322 4666666656566666
No 35
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=35.24 E-value=33 Score=33.39 Aligned_cols=21 Identities=19% Similarity=0.336 Sum_probs=18.0
Q ss_pred ccccceeeeeeEEeeeceeec
Q psy15590 52 GQRDGILVGHVLTAVNDAVIK 72 (217)
Q Consensus 52 g~~~~~~~g~~~~~~ng~~~~ 72 (217)
.++-|++.|=.+++|||.+|.
T Consensus 11 Ae~AGLe~GD~IlsING~~V~ 31 (433)
T TIGR03279 11 AEELGFEPGDALVSINGVAPR 31 (433)
T ss_pred HHHcCCCCCCEEEEECCEECC
Confidence 355699999999999999985
No 36
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=33.28 E-value=18 Score=29.80 Aligned_cols=19 Identities=53% Similarity=0.863 Sum_probs=11.7
Q ss_pred cCceeEEeeccccceeeee
Q psy15590 43 ENKKIVVSFGQRDGILVGH 61 (217)
Q Consensus 43 ~~~~~~v~~g~~~~~~~g~ 61 (217)
.+++.+++.|..||+..||
T Consensus 3 ~~~~~~v~iG~FDGvH~GH 21 (157)
T PF06574_consen 3 NNKKSVVAIGNFDGVHLGH 21 (157)
T ss_dssp T-S-EEEEES--TT--HHH
T ss_pred CCCCcEEEEeCCCCccHHH
Confidence 4677889999999999999
No 37
>PRK11186 carboxy-terminal protease; Provisional
Probab=31.82 E-value=47 Score=33.96 Aligned_cols=63 Identities=19% Similarity=0.323 Sum_probs=43.2
Q ss_pred CccccccccCceeEEee------cccc-ceeeeeeEEeee--cee---ecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 35 PLNIKLTPENKKIVVSF------GQRD-GILVGHVLTAVN--DAV---IKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 35 p~~~~l~~~~~~~~v~~------g~~~-~~~~g~~~~~~n--g~~---~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
.+.+.++..++.++|.- .++. ||+.|-.+++|| |.+ |.|..++ +|.+.|.++.+.++.|...+
T Consensus 245 GIGa~l~~~~~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~---~vv~lirG~~Gt~V~LtV~r 319 (667)
T PRK11186 245 GIGAVLQMDDDYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLD---DVVALIKGPKGSKVRLEILP 319 (667)
T ss_pred EEEEEEEEeCCeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHH---HHHHHhcCCCCCEEEEEEEe
Confidence 34566777777777755 2344 999999999999 443 3343333 47788888888888776644
No 38
>PRK07143 hypothetical protein; Provisional
Probab=31.66 E-value=24 Score=32.11 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=15.7
Q ss_pred CceeEEeeccccceeeee
Q psy15590 44 NKKIVVSFGQRDGILVGH 61 (217)
Q Consensus 44 ~~~~~v~~g~~~~~~~g~ 61 (217)
.+..+|+.|-.||+..||
T Consensus 14 ~~~~vvaiG~FDGvH~GH 31 (279)
T PRK07143 14 FEKPTFVLGGFESFHLGH 31 (279)
T ss_pred CCCeEEEEccCCcCCHHH
Confidence 345689999999999999
No 39
>COG2122 Uncharacterized conserved protein [Function unknown]
Probab=30.83 E-value=1e+02 Score=27.93 Aligned_cols=45 Identities=22% Similarity=0.337 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhhhhcCCC-CCCCCcccchhHHHHHHHHHHHhh
Q psy15590 166 LDLILKKIYELYADYALKNPF-YSLEMPIRCELFDTHLQNLLQQHE 210 (217)
Q Consensus 166 l~~~L~~IYelYvdyVlkNPf-y~~~~pI~s~~Fd~~l~~ll~~~~ 210 (217)
..+...+--..--+||++||- ...-.||.|+.|...+-+.+.+.-
T Consensus 37 a~~aV~~~R~~Le~yI~~nP~f~ts~~pi~~~e~~peivrrM~~A~ 82 (256)
T COG2122 37 AEEAVLRHRSELEDYILKNPEFLTSLEPIECREFAPEIVRRMSRAG 82 (256)
T ss_pred HHHHHHHHHHHHHHHHHhCcchhcccceeeccccCcHHHHHHHHhc
Confidence 444443333556789999995 455589999999988777766553
No 40
>KOG0862|consensus
Probab=28.27 E-value=4.3e+02 Score=23.55 Aligned_cols=55 Identities=16% Similarity=0.210 Sum_probs=39.8
Q ss_pred cHHHHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCCch--hHHHHHHHHH
Q psy15590 117 PLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQS--GLDLILKKIY 174 (217)
Q Consensus 117 SL~~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~~~--~l~~~L~~IY 174 (217)
-.+.+.+||++.. -+..+++|+.|.+|+. .-.|+=+++++|..-+ -.=+.|+++.
T Consensus 36 q~K~L~kkLs~~s--~~r~Sietg~f~fHfl-i~~~Vcylvicd~~yP~kLAF~YLedL~ 92 (216)
T KOG0862|consen 36 QAKSLFKKLSQQS--PTRCSIETGPFVFHFL-IESGVCYLVICDKSYPRKLAFSYLEDLA 92 (216)
T ss_pred HHHHHHHhccCCC--CcccccccCCeEEEEE-ecCCEEEEEEecCCCcHHHHHHHHHHHH
Confidence 3566778999863 4678899999999965 5679999999998733 2234445554
No 41
>PF03288 Pox_D5: Poxvirus D5 protein-like; InterPro: IPR004968 This domain is found at the C terminus of phage P4 alpha protein and related proteins. Phage P4 DNA replication depends on the product of the alpha gene, which has origin recognition ability, DNA helicase activity, and DNA primase activity. The structure of the protein can be summarised as follows: The N terminus provides the primase activity, the central region is the helicase/nucleoside triphosphatase domain and the ori DNA recognition resides in the C-terminal 1/3 of the protein []. The domain is also found at the C terminus of a number of proteins from orthopox viruses including vaccinia virus D5. D5 encodes a 90kDa protein that is transiently expressed at early times after infection. It has an nucleoside triphosphatase activity which is independent of common nucleic acid cofactors and it can hydrolyse all the common ribo- and deoxyribonucleoside triphosphates to diphosphates in the presence of a divalent cation [].; PDB: 1KA8_E.
Probab=27.95 E-value=89 Score=22.44 Aligned_cols=35 Identities=20% Similarity=0.548 Sum_probs=24.7
Q ss_pred HHHHHHHHhhhhcCCCCCCCCcccchhHHHHHHHHHHH
Q psy15590 171 KKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQ 208 (217)
Q Consensus 171 ~~IYelYvdyVlkNPfy~~~~pI~s~~Fd~~l~~ll~~ 208 (217)
..+|++|..|.-.|-..+ ++....|..+|++.+..
T Consensus 25 ~~lY~~Y~~wc~~ng~~~---~ls~~~F~~~L~~~~~~ 59 (86)
T PF03288_consen 25 KDLYDAYKEWCEENGYKP---PLSKRKFGKELKQYFPE 59 (86)
T ss_dssp TBHHHHHHHHHHHTT-S-------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCc---ccCHHHHHHHHHHHhhh
Confidence 567888888887886655 68899999999998865
No 42
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=27.02 E-value=32 Score=32.37 Aligned_cols=42 Identities=24% Similarity=0.372 Sum_probs=29.8
Q ss_pred ccceeeeeeEEeeeceeecccccCCCcchhhhccC-CCCCCeeeeeCC
Q psy15590 54 RDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSK-PESFPVKLTFTR 100 (217)
Q Consensus 54 ~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~-~~n~Pl~l~~~~ 100 (217)
+.|++.|..+++|||.+|.. -.++.+++.. +.+.++.+...|
T Consensus 377 ~aGL~~GDvI~~Ing~~V~s-----~~d~~~~l~~~~~g~~v~l~v~R 419 (428)
T TIGR02037 377 RAGLQPGDVILSVNQQPVSS-----VAELRKVLDRAKKGGRVALLILR 419 (428)
T ss_pred HcCCCCCCEEEEECCEEcCC-----HHHHHHHHHhcCCCCEEEEEEEE
Confidence 45999999999999999863 3356666654 356666665544
No 43
>cd02172 RfaE_N N-terminal domain of RfaE. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in other organisms. Domain I is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .
Probab=26.42 E-value=31 Score=27.84 Aligned_cols=18 Identities=33% Similarity=0.480 Sum_probs=16.1
Q ss_pred CceeEEeeccccceeeee
Q psy15590 44 NKKIVVSFGQRDGILVGH 61 (217)
Q Consensus 44 ~~~~~v~~g~~~~~~~g~ 61 (217)
++++.++.|..||+..||
T Consensus 3 ~~~~vv~~G~FDgvH~GH 20 (144)
T cd02172 3 GKTVVLCHGVFDLLHPGH 20 (144)
T ss_pred CCEEEEEecccCCCCHHH
Confidence 456789999999999999
No 44
>cd02171 G3P_Cytidylyltransferase glycerol-3-phosphate cytidylyltransferase. Glycerol-3-phosphate cytidylyltransferase,(CDP-glycerol pyrophosphorylase). Glycerol-3-phosphate cytidyltransferase acts in pathways of teichoic acid biosynthesis. Teichoic acids are substituted polymers, linked by phosphodiester bonds, of glycerol, ribitol, etc. An example is poly(glycerol phosphate), the major teichoic acid of the Bacillus subtilis cell wall. Most, but not all, species encoding proteins in this family are Gram-positive bacteria. A closely related protein assigned a different function experimentally is a human ethanolamine-phosphate cytidylyltransferase.
Probab=25.50 E-value=27 Score=27.09 Aligned_cols=16 Identities=38% Similarity=0.827 Sum_probs=14.2
Q ss_pred eeEEeeccccceeeee
Q psy15590 46 KIVVSFGQRDGILVGH 61 (217)
Q Consensus 46 ~~~v~~g~~~~~~~g~ 61 (217)
|+.+..|..||+..||
T Consensus 2 ~~v~~~G~FDgvH~GH 17 (129)
T cd02171 2 KVVITYGTFDLLHIGH 17 (129)
T ss_pred cEEEEeeeeccCCHHH
Confidence 3578899999999999
No 45
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=24.82 E-value=50 Score=29.99 Aligned_cols=47 Identities=23% Similarity=0.301 Sum_probs=34.9
Q ss_pred cCceeEEeeccccceeeeeeEEeeeceeecccc--cCCCcchhhhccCCCC
Q psy15590 43 ENKKIVVSFGQRDGILVGHVLTAVNDAVIKNGQ--LDDGTDVLEFLSKPES 91 (217)
Q Consensus 43 ~~~~~~v~~g~~~~~~~g~~~~~~ng~~~~~~~--~~dg~~~~~~~~~~~n 91 (217)
-+++++..-|++|||+.|..+++-.| +.|+- +..+..--..|.|.++
T Consensus 130 ~~~~ivId~Gs~~GV~~~~~Vi~~~G--LVG~V~~V~~~tS~V~Lltd~~~ 178 (284)
T COG1792 130 WSQTIVIDKGSNDGIKKGMPVVAEGG--LVGKVVEVSKNTSRVLLLTDVNS 178 (284)
T ss_pred hhcEEEEecCcccCccCCCeEEECCc--eEEEEEEEcCceeEEEEeecccc
Confidence 45778888999999999999999999 77755 4555554455555433
No 46
>PF05774 Herpes_heli_pri: Herpesvirus helicase-primase complex component; InterPro: IPR008650 This family consists of several helicase-primase complex components from the Gammaherpesviruses.
Probab=24.51 E-value=48 Score=27.20 Aligned_cols=21 Identities=24% Similarity=0.463 Sum_probs=19.2
Q ss_pred EEEEeccceeEEecccCCCcc
Q psy15590 6 VYIVSKSGGLIFNYDHNVPKI 26 (217)
Q Consensus 6 ~~i~~~~~~~i~~~d~~~~~~ 26 (217)
+||+.++|-++++.||..|..
T Consensus 64 ~fi~T~~G~~~W~~~~~lP~~ 84 (128)
T PF05774_consen 64 FFIFTKDGPSCWHQDWPLPSN 84 (128)
T ss_pred eEEEeCCCchhhccCCCCCcc
Confidence 699999999999999999954
No 47
>PHA03141 helicase-primase primase subunit; Provisional
Probab=23.74 E-value=68 Score=25.36 Aligned_cols=21 Identities=10% Similarity=0.387 Sum_probs=19.2
Q ss_pred EEEEeccceeEEecccCCCcc
Q psy15590 6 VYIVSKSGGLIFNYDHNVPKI 26 (217)
Q Consensus 6 ~~i~~~~~~~i~~~d~~~~~~ 26 (217)
.|||-++|-|+++.+|..|..
T Consensus 39 ~fi~T~~Gp~cW~~~~~lP~n 59 (101)
T PHA03141 39 LFLLTTEGPVCWHQKLPLPLN 59 (101)
T ss_pred eEEEeCCcceEecCCCCCCcc
Confidence 689999999999999999855
No 48
>TIGR02199 rfaE_dom_II rfaE bifunctional protein, domain II. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in E. coli, and separate proteins in some other genome. Domain I (TIGR02198) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose.
Probab=23.50 E-value=29 Score=28.02 Aligned_cols=19 Identities=42% Similarity=0.490 Sum_probs=16.9
Q ss_pred cCceeEEeeccccceeeee
Q psy15590 43 ENKKIVVSFGQRDGILVGH 61 (217)
Q Consensus 43 ~~~~~~v~~g~~~~~~~g~ 61 (217)
.+++++++.|..||+..||
T Consensus 9 ~~~~~v~~~G~FDgvH~GH 27 (144)
T TIGR02199 9 RGKKIVFTNGCFDILHAGH 27 (144)
T ss_pred cCCCEEEEeCcccccCHHH
Confidence 4567889999999999999
No 49
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=22.85 E-value=47 Score=31.56 Aligned_cols=42 Identities=14% Similarity=0.325 Sum_probs=32.3
Q ss_pred ccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 54 RDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 54 ~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
+-|++.|-.+++|||.+|. +-.|+.+.+.+..+.++.+...|
T Consensus 218 ~aGL~~GD~Iv~Vng~~V~-----s~~dl~~~l~~~~~~~v~l~v~R 259 (420)
T TIGR00054 218 KAGLKEGDYIQSINGEKLR-----SWTDFVSAVKENPGKSMDIKVER 259 (420)
T ss_pred HcCCCCCCEEEEECCEECC-----CHHHHHHHHHhCCCCceEEEEEE
Confidence 4589999999999999976 34567777777777777776644
No 50
>TIGR02860 spore_IV_B stage IV sporulation protein B. SpoIVB, the stage IV sporulation protein B of endospore-forming bacteria such as Bacillus subtilis, is a serine proteinase, expressed in the spore (rather than mother cell) compartment, that participates in a proteolytic activation cascade for Sigma-K. It appears to be universal among endospore-forming bacteria and occurs nowhere else.
Probab=22.34 E-value=79 Score=30.52 Aligned_cols=40 Identities=30% Similarity=0.463 Sum_probs=29.0
Q ss_pred ceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 56 GILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 56 ~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
|++.|=.+++|||.+|.. =.|+.+.++...+.++.+...|
T Consensus 130 GLq~GDiIvsING~~V~s-----~~DL~~iL~~~~g~~V~LtV~R 169 (402)
T TIGR02860 130 GIQIGDRILKINGEKIKN-----MDDLANLINKAGGEKLTLTIER 169 (402)
T ss_pred CCCCCCEEEEECCEECCC-----HHHHHHHHHhCCCCeEEEEEEE
Confidence 789999999999998753 3456667766566777776644
No 51
>KOG0859|consensus
Probab=22.27 E-value=5.4e+02 Score=22.95 Aligned_cols=53 Identities=21% Similarity=0.307 Sum_probs=35.4
Q ss_pred HHHhhhCCCCCCCceeEEecCcEEEEEEEeCCCcEEEEEecCCchh--HHHHHHHHHH
Q psy15590 120 AIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSG--LDLILKKIYE 175 (217)
Q Consensus 120 ~i~~kLsp~~~s~g~~~~~T~~yklh~yeT~TGiKFVlitd~~~~~--l~~~L~~IYe 175 (217)
.+-+||.+. ++.--+|..+.|..|...+. |+-+.+++|.+..- -=.+|.+|++
T Consensus 31 qiL~klp~~--~n~k~tYs~d~y~Fh~l~~d-g~tylcvadds~gR~ipfaFLe~Ik~ 85 (217)
T KOG0859|consen 31 QILQKLPSS--SNSKFTYSCDGYTFHYLVED-GLTYLCVADDSAGRQIPFAFLERIKE 85 (217)
T ss_pred HHHHhCCCC--CCCceEEecCCeEEEEEEeC-CeEEEEEEeccccccccHHHHHHHHH
Confidence 344566554 23457899999999998875 78899999876321 1235555554
No 52
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=22.26 E-value=67 Score=23.26 Aligned_cols=21 Identities=29% Similarity=0.439 Sum_probs=15.9
Q ss_pred eeEEeeeceeec---ccccCCCcc
Q psy15590 61 HVLTAVNDAVIK---NGQLDDGTD 81 (217)
Q Consensus 61 ~~~~~~ng~~~~---~~~~~dg~~ 81 (217)
|+.++|||+.+. |+.|.||-+
T Consensus 55 ~~~v~vN~~~v~~~~~~~l~dgde 78 (88)
T TIGR01687 55 NVIILVNGRNVDWGLGTELKDGDV 78 (88)
T ss_pred cEEEEECCEecCccCCCCCCCCCE
Confidence 688999999986 336777764
No 53
>PF08800 VirE_N: VirE N-terminal domain; InterPro: IPR014907 This domain is associated with the N terminus of Virulence E proteins. The function of the domain is unknown.
Probab=21.11 E-value=2.7e+02 Score=22.27 Aligned_cols=23 Identities=22% Similarity=0.420 Sum_probs=17.5
Q ss_pred cEEEEEEEeCCC--cEEEEEecCCc
Q psy15590 141 TFKLHCYQTLTG--VKFMIVGDTNQ 163 (217)
Q Consensus 141 ~yklh~yeT~TG--iKFVlitd~~~ 163 (217)
-|.+.+|.|++| +|.++-.+...
T Consensus 57 p~t~~~f~SpSG~GvKi~v~~~~~~ 81 (136)
T PF08800_consen 57 PYTLAAFVSPSGRGVKIIVPFDYPD 81 (136)
T ss_pred CcEEEEEEcCCCCeEEEEEEecCCC
Confidence 455899999986 89888776543
No 54
>PRK10139 serine endoprotease; Provisional
Probab=20.96 E-value=51 Score=31.80 Aligned_cols=42 Identities=17% Similarity=0.266 Sum_probs=30.1
Q ss_pred cccceeeeeeEEeeeceeecccccCCCcchhhhccCCCCCCeeeeeCC
Q psy15590 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTR 100 (217)
Q Consensus 53 ~~~~~~~g~~~~~~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~ 100 (217)
++-|++.|-.+++|||.+|. +-.++.+.+..+. .++.+...|
T Consensus 404 ~~aGL~~GD~I~~Ing~~v~-----~~~~~~~~l~~~~-~~v~l~v~R 445 (455)
T PRK10139 404 AQAGLQKDDVIIGVNRDRVN-----SIAEMRKVLAAKP-AIIALQIVR 445 (455)
T ss_pred HHcCCCCCCEEEEECCEEcC-----CHHHHHHHHHhCC-CeEEEEEEE
Confidence 45699999999999999975 3456677776543 566665544
No 55
>cd00245 Glm_e Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to L-threo-3-methylaspartate. The first step in the catalysis is a homolytic cleavage of the Co-C bond of the coenzyme B12 cofactor to generate a 5'-deoxyadenosyl radical. This radical then initiates the rearrangement reaction. C. cochlearium Glm is a sigma2epsilon2 heterotetramer. Glm plays a role in glutamate fermentation in Clostridium sp. and in members of the family Enterobacteriaceae, and in the synthesis of the lipopeptide antibiotic friulimicin in Actinoplanes friuliensis. S. tendae Tu901 glutamate mutase-like proteins NikU and NIkV participate in the synthesis of the peptidyl nucleoside antibiotic nikkomycin. NikU and NikV proteins have sequence similarity to Clostridium Glm sigma and epsilon components respectively, and may
Probab=20.35 E-value=38 Score=32.93 Aligned_cols=41 Identities=27% Similarity=0.395 Sum_probs=31.6
Q ss_pred eeceeecccccCCCcchhhhccCCCCCCeeeeeCCCCCCchhhHHHhhhh
Q psy15590 66 VNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMF 115 (217)
Q Consensus 66 ~ng~~~~~~~~~dg~~~~~~~~~~~n~Pl~l~~~~~~l~sne~llLag~l 115 (217)
.||-|+..--+.+.|.+.+-. |+|+-+|.|.| +..+|+-++
T Consensus 77 lnG~P~v~~g~~~~R~l~~~~----~~PlqvRhGt~-----d~~~l~e~~ 117 (428)
T cd00245 77 LNGFPIVNHGVKTCRKLLEGV----DFPVQVRHGTP-----DARLLAEIA 117 (428)
T ss_pred cCCCCcccccHHHHHHHHHhC----CCCEeeccCCc-----cHHHHHHHH
Confidence 699999988888888888766 99999998665 444455554
Done!