Query psy401
Match_columns 326
No_of_seqs 155 out of 720
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 23:03:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy401.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/401hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3050|consensus 100.0 2.7E-73 5.8E-78 504.0 25.0 295 31-325 3-299 (299)
2 cd08063 MPN_CSN6 Mpr1p, Pad1p 100.0 5.2E-72 1.1E-76 527.1 31.6 283 37-319 1-288 (288)
3 PLN03246 26S proteasome regula 100.0 1.3E-69 2.8E-74 511.1 33.5 271 34-308 3-279 (303)
4 cd08062 MPN_RPN7_8 Mpr1p, Pad1 100.0 1.4E-68 3E-73 500.5 34.5 267 38-308 2-273 (280)
5 KOG2975|consensus 100.0 6E-69 1.3E-73 481.7 25.7 275 27-305 11-286 (288)
6 cd08064 MPN_eIF3f Mpr1p, Pad1p 100.0 1.3E-66 2.8E-71 485.2 31.3 261 39-303 1-264 (265)
7 KOG1556|consensus 100.0 1.5E-60 3.3E-65 423.3 23.5 270 34-307 6-280 (309)
8 cd08057 MPN_euk_non_mb Mpr1p, 100.0 3E-39 6.6E-44 279.0 16.9 150 39-197 1-157 (157)
9 cd08065 MPN_eIF3h Mpr1p, Pad1p 100.0 3.2E-31 7E-36 247.2 22.0 201 38-243 2-226 (266)
10 cd08069 MPN_RPN11_CSN5 Mov34/M 99.9 1.1E-25 2.5E-30 209.9 22.8 167 34-205 7-203 (268)
11 PF01398 JAB: JAB1/Mov34/MPN/P 99.9 3.3E-26 7.2E-31 187.0 12.8 107 35-146 2-114 (114)
12 smart00232 JAB_MPN JAB/MPN dom 99.9 2.6E-21 5.6E-26 161.4 15.6 127 38-169 1-133 (135)
13 PF13012 MitMem_reg: Maintenan 99.9 2.1E-23 4.6E-28 170.9 1.9 114 191-306 1-114 (115)
14 KOG1560|consensus 99.8 5.2E-19 1.1E-23 160.8 19.8 241 31-278 7-293 (339)
15 cd07767 MPN Mpr1p, Pad1p N-ter 99.6 7.8E-15 1.7E-19 119.3 13.5 111 47-166 2-116 (116)
16 KOG1554|consensus 99.6 4.6E-14 9.9E-19 129.1 13.6 131 35-170 51-190 (347)
17 cd08067 MPN_2A_DUB Mov34/MPN/P 99.5 2E-12 4.3E-17 114.7 17.6 128 35-170 3-146 (187)
18 cd08058 MPN_euk_mb Mpr1p, Pad1 99.5 6.6E-13 1.4E-17 109.5 11.8 108 45-168 2-118 (119)
19 cd08068 MPN_BRCC36 Mov34/MPN/P 99.2 1.4E-09 2.9E-14 100.0 16.0 147 37-190 2-169 (244)
20 cd08066 MPN_AMSH_like Mov34/MP 98.7 3.6E-07 7.7E-12 80.3 13.6 118 39-169 4-127 (173)
21 KOG1555|consensus 98.5 7.2E-06 1.5E-10 77.5 16.1 131 34-169 28-172 (316)
22 cd08060 MPN_UPF0172 Mov34/MPN/ 98.4 4.1E-06 9E-11 74.1 12.2 106 42-157 2-115 (182)
23 PF03665 UPF0172: Uncharacteri 98.3 7.7E-05 1.7E-09 66.8 17.1 122 38-167 3-134 (196)
24 cd08070 MPN_like Mpr1p, Pad1p 98.2 1.8E-05 3.9E-10 65.8 11.0 110 45-168 3-118 (128)
25 COG1310 Predicted metal-depend 98.0 4.9E-05 1.1E-09 63.8 9.8 100 40-154 3-106 (134)
26 KOG3289|consensus 97.1 0.011 2.5E-07 51.5 12.2 122 38-167 3-134 (199)
27 TIGR02256 ICE_VC0181 integrati 96.1 0.084 1.8E-06 44.3 10.5 104 45-152 1-112 (131)
28 PF14464 Prok-JAB: Prokaryotic 95.6 0.15 3.3E-06 40.1 9.7 73 45-134 4-80 (104)
29 cd08072 MPN_archaeal Mov34/MPN 95.3 0.07 1.5E-06 43.8 7.1 98 45-168 5-107 (117)
30 cd08056 MPN_PRP8 Mpr1p, Pad1p 94.7 0.14 3.1E-06 47.5 8.1 99 64-170 56-166 (252)
31 cd08073 MPN_NLPC_P60 Mpr1p, Pa 90.0 1.5 3.3E-05 35.3 7.2 71 46-134 3-80 (108)
32 cd08061 MPN_NPL4 Mov34/MPN/PAD 82.8 12 0.00026 35.4 9.9 105 63-169 33-158 (274)
33 cd08059 MPN_prok_mb Mpr1p, Pad 82.2 6.8 0.00015 30.6 7.0 70 48-135 5-78 (101)
34 PF14778 ODR4-like: Olfactory 75.4 14 0.0003 36.3 8.2 61 68-128 1-74 (362)
35 PF06442 DHFR_2: R67 dihydrofo 67.7 2.7 5.7E-05 30.8 0.9 13 117-129 40-52 (78)
36 PF05021 NPL4: NPL4 family; I 63.3 72 0.0016 30.7 10.0 60 67-127 2-68 (306)
37 PF03127 GAT: GAT domain; Int 56.8 94 0.002 24.3 9.0 85 220-312 7-92 (100)
38 TIGR03735 PRTRC_A PRTRC system 55.2 40 0.00088 30.1 6.4 77 40-134 74-155 (192)
39 KOG2880|consensus 54.2 5.5 0.00012 38.8 0.8 91 63-157 275-369 (424)
40 KOG2834|consensus 35.8 47 0.001 33.6 4.0 76 47-125 182-264 (510)
41 PF14071 YlbD_coat: Putative c 33.7 85 0.0018 26.1 4.6 37 288-324 84-120 (124)
42 cd07604 BAR_ASAPs The Bin/Amph 33.2 2.9E+02 0.0063 25.0 8.5 57 251-310 58-116 (215)
43 PF04740 LXG: LXG domain of WX 32.8 3.3E+02 0.0073 23.7 8.9 45 219-263 63-109 (204)
44 COG1561 Uncharacterized stress 26.9 3.7E+02 0.008 25.7 8.2 67 222-308 217-283 (290)
45 PF05184 SapB_1: Saposin-like 24.9 97 0.0021 19.4 2.9 17 250-266 23-39 (39)
46 PF07097 DUF1359: Protein of u 23.6 2.5E+02 0.0054 21.9 5.3 22 240-261 39-60 (102)
47 PF01381 HTH_3: Helix-turn-hel 21.9 1.9E+02 0.004 19.3 4.1 37 227-263 13-49 (55)
No 1
>KOG3050|consensus
Probab=100.00 E-value=2.7e-73 Score=504.04 Aligned_cols=295 Identities=59% Similarity=0.946 Sum_probs=280.5
Q ss_pred cCCCCceEEEEehhhHhhHHHHHhHhcccCCCCc-eEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHH
Q psy401 31 KGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPV-QVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQ 109 (326)
Q Consensus 31 s~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~-~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l 109 (326)
.+++++.+|.+|||||+||+|||+|.+.|.|.+- +|+|+|+|.|.|+.|||.|||++..+..++...+|.+|+.++.+|
T Consensus 3 ps~S~s~tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~Q~GR~vEi~NSFeL~~d~~~~~~~~dke~l~kk~eq 82 (299)
T KOG3050|consen 3 PSSSGSVTVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGKQRGRNVEIMNSFELKMDTEEDTETIDKEYLEKKEEQ 82 (299)
T ss_pred CCCCCceeEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheecccCceEEEeeeeEEEecchhhhhhccHHHHHHHHHH
Confidence 3448889999999999999999999988876554 899999999999999999999999987776678999999999999
Q ss_pred HHHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCC-CCCeeeeeeeeeccCCcccceeEEeeEEE
Q psy401 110 FKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHS-NLPVSVYESIIDLVGGEATMLFIELPYTI 188 (326)
Q Consensus 110 ~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~-~lpi~ay~~~~~~~~~~~~~~f~~i~~~i 188 (326)
||+|||++.++|||++|+.+++.|+.||++++..+++|++|.++|..... +.|+.+|++..++.+|.....|+|+.|++
T Consensus 83 ykqVFpdl~vlGwYttG~d~t~sd~~i~k~l~~i~esplflkLNp~t~~t~~~pv~lfese~dvidg~~q~~f~~~tytl 162 (299)
T KOG3050|consen 83 YKQVFPDLYVLGWYTTGSDPTPSDIHIHKQLMDINESPLFLKLNPATNHTDKDPVTLFESEIDVIDGEAQMLFVPLTYTL 162 (299)
T ss_pred HHHhcccceEEEEeecCCCCChhhhHHHHHHHhhhcCceEEEecchhccccCCCceeeeeeheeecCcceeeeeeeEEEE
Confidence 99999999999999999999999999999999999999999999987754 46999999999999999999999999999
Q ss_pred ecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCC
Q psy401 189 ITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVL 268 (326)
Q Consensus 189 ~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~ 268 (326)
.++|||||||||+++....++++.+.+.+|+..+.+|++||..|++.|++||++|.+|++++|.+|||+...+|..||.+
T Consensus 163 ~teEaERIgVdHVA~lt~~~gge~s~VaeHl~AQdsA~~ml~~Rvklil~Y~k~~e~G~l~~N~eILrea~~L~~~Lp~~ 242 (299)
T KOG3050|consen 163 ATEEAERIGVDHVARLTPSDGGEGSSVAEHLEAQDSAIKMLDNRVKLILAYLKKVEAGTLQPNFEILREAYALCHRLPVM 242 (299)
T ss_pred eehhhhhccchhheeeccCCCCCcchHHHHHhhHHHHHHHHhhHHHHHHHHHhhhhcCCcCccHHHHHHHHHHHhhcccc
Confidence 99999999999999998887777788899999999999999999999999999999999999999999999999999999
Q ss_pred ChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCccC
Q psy401 269 DNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGILY 325 (326)
Q Consensus 269 ~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~~~~~~~~~~~~~~~~~~ 325 (326)
+.+.|.+.|..++||+.+++||+.+|++++.||++++||++.++|+|++|||||.|+
T Consensus 243 ~~~~F~d~F~~e~nd~~l~syl~~iT~~~~nMn~~vnKfn~~ydr~gt~R~~r~~~f 299 (299)
T KOG3050|consen 243 ESEKFQDNFYMECNDVGLISYLGTITKCCNNMNEVVNKFNTLYDRQGTRRRMRGLFF 299 (299)
T ss_pred chHHHhHHHHHhcchhhHHHHHHHHHHhhccHHHHHHHHHHHHHhhhhhccccccCC
Confidence 999999999999999999999999999999999999999999999999999999985
No 2
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6. CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav
Probab=100.00 E-value=5.2e-72 Score=527.07 Aligned_cols=283 Identities=55% Similarity=0.919 Sum_probs=262.2
Q ss_pred eEEEEehhhHhhHHHHHhHhcccCC-CCceEEEEEeeEEeCCEEEEEEEEeecccccc-cchhhhHHHHHHHHHHHHHhC
Q psy401 37 IHVSLHPLVIMNISEHYTRRRAQEG-KPVQVIGALIGIQVGRKLEIKNSFELVYNIIE-DEMIINRDYYTLKEEQFKQVF 114 (326)
Q Consensus 37 ~~V~IHPlVll~I~dH~~R~~~~~~-~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~-~~~~iD~~y~~~m~~l~k~V~ 114 (326)
++|.|||+|||+|+|||+|++.+.. .+.+|+|+|||+++|++|||+|||++|+++++ +.+.+|.+|+++|+++||+||
T Consensus 1 ~~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kkV~ 80 (288)
T cd08063 1 LSVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQVF 80 (288)
T ss_pred CeEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHHhc
Confidence 3699999999999999999876432 25899999999999999999999999998876 779999999999999999999
Q ss_pred CCCceeEEEecCCC-CChhhHHHHHHHHhhCCCceEEEEcCCC--CCCCCCeeeeeeeeeccCCcccceeEEeeEEEecC
Q psy401 115 CDLDFLGWYTTGDT-VNELDIKVHKQICEINESPIFLKLNPHP--IHSNLPVSVYESIIDLVGGEATMLFIELPYTIITE 191 (326)
Q Consensus 115 p~~~iVGWY~tg~~-~~~~d~~ih~~~~~~~~~pI~L~vD~~~--~~~~lpi~ay~~~~~~~~~~~~~~f~~i~~~i~~~ 191 (326)
|++.+||||++|+. ++..|+.||++|++++++||+|++||.. ..+++|+++|++.....++.....|+|+||+|+++
T Consensus 81 ~~~~vVGWY~tg~~~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~~~~lpi~ay~s~~~~~~~~~~~~F~~i~~~i~~~ 160 (288)
T cd08063 81 KDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDGEATLRFRELPYTIETG 160 (288)
T ss_pred cCCceEEEEecCCCCCCHHHHHHHHHHHhhCCCcEEEEEccccccCCCCCceeEEEEEEeccCCccccEEEeeeeEEEec
Confidence 99999999999998 9999999999999999999999999988 46789999999987766666778999999999999
Q ss_pred hHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChh
Q psy401 192 EAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNP 271 (326)
Q Consensus 192 eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~ 271 (326)
||||||++++++.....+.+.+.+..+++.+.+|+++|..||+.|++||++|.+|++++|++|||+|+++|+++|.++.+
T Consensus 161 eaErIgv~~l~~~~~~~~~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~ilR~l~~~~~~lP~~~~~ 240 (288)
T cd08063 161 EAERIGVDHVARGGASGSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPVGEVPPDHSILRSISALCSRLPVLKSE 240 (288)
T ss_pred cCceeeHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHhCccCChH
Confidence 99999999999987544444566788999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccccc
Q psy401 272 AFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFNVLFDKQMLGRK 319 (326)
Q Consensus 272 ~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~~~~~~~~~~~~ 319 (326)
+|+++|++++||++|++|||+|||++++|+++++||++++++.+.|||
T Consensus 241 ~~~~~~~~~~~D~lmv~yLs~lt~~~~~l~~~~~k~~~~~~~~~~~rr 288 (288)
T cd08063 241 AFREELLAEYNDVLLVAYLATLTKGCNTLNELVDKFNVVYDRKGSGRR 288 (288)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccCCC
Confidence 999999999999999999999999999999999999999998666665
No 3
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=100.00 E-value=1.3e-69 Score=511.10 Aligned_cols=271 Identities=26% Similarity=0.517 Sum_probs=249.6
Q ss_pred CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHH
Q psy401 34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQF 110 (326)
Q Consensus 34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~ 110 (326)
++..+|.|||+|||+|+|||+|+..+ .+.||+|+|||.+.|+.|||+|||++|+++++++ |++|.+|+++|+++|
T Consensus 3 ~~~~~V~vhPlVll~I~dh~~R~~~~--~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~ 80 (303)
T PLN03246 3 RGIEKVVVHPLVLLSIVDHYNRVAKD--TRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMF 80 (303)
T ss_pred CCCcEEEECcHHHHHHHHHHHhccCC--CCCeeEEEEEeeecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHH
Confidence 66788999999999999999998643 3589999999999999999999999999876554 889999999999999
Q ss_pred HHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeeccC-Cc--ccceeEEeeEE
Q psy401 111 KQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVG-GE--ATMLFIELPYT 187 (326)
Q Consensus 111 k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~~-~~--~~~~f~~i~~~ 187 (326)
|+|||++.+||||++|+.+++.|+.||++|++++++||||++|+...++++|+++|+++....+ +. .+..|+++|++
T Consensus 81 k~V~~~~~vVGWY~tg~~i~~~d~~IH~~~~~~~~~Pv~L~vD~~~~~~~lpi~aY~s~~~~~~~~~~~~~~~F~~vp~~ 160 (303)
T PLN03246 81 KRINAKEHVVGWYSTGPKLRENDLDIHELFNDYVPNPVLVIIDVQPKELGIPTKAYYAVEEVKENATQKSQKVFVHVPSE 160 (303)
T ss_pred HHhCCCCcEEeeecCCCCCCcchHHHHHHHHhhCCCCeEEEEecCCCCCCCceEEEEEEEeccCCCCcccccEEEECCee
Confidence 9999999999999999999999999999999999999999999998888899999999865432 22 45789999999
Q ss_pred EecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCC
Q psy401 188 IITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPV 267 (326)
Q Consensus 188 i~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~ 267 (326)
|+++|||||||+|++|.... .+.+.+..++..+.+|+++|..||+.|++||++|.+|+.++|++|||+|+++|+++|.
T Consensus 161 i~~~EaE~Igve~l~r~~~~--~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~IlR~l~~l~~~lP~ 238 (303)
T PLN03246 161 IGAHEAEEIGVEHLLRDVKD--TTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHLQDVFNLLPN 238 (303)
T ss_pred eeecCHHHHHHHHHHhcccC--CccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHhhCCC
Confidence 99999999999999997653 2345677899999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy401 268 LDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFN 308 (326)
Q Consensus 268 ~~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~ 308 (326)
+++++|+++|++++||++|++|||+|||+|++|+++++...
T Consensus 239 l~~~~f~~~f~~~~nD~lmv~YLa~l~kt~~~l~e~l~~~~ 279 (303)
T PLN03246 239 LNVEELVKAFAVKTNDMMLVIYLSSLIRSVIALHNLINNKI 279 (303)
T ss_pred CCHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 99999999999999999999999999999999999998765
No 4
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8. This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.
Probab=100.00 E-value=1.4e-68 Score=500.46 Aligned_cols=267 Identities=27% Similarity=0.517 Sum_probs=247.5
Q ss_pred EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHHHHhC
Q psy401 38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQFKQVF 114 (326)
Q Consensus 38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~k~V~ 114 (326)
+|.|||+|||+|+|||+|+..+ .+.||+|+|||++.++.|||+|||++|+++++++ |++|.+|+++|+++||+||
T Consensus 2 ~V~ihplVLl~I~dh~~R~~~~--~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~ 79 (280)
T cd08062 2 KVVVHPLVLLSVVDHYNRVAKG--TSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVN 79 (280)
T ss_pred eEEEehHHHHHHHHHHhhhcCC--CCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhC
Confidence 6899999999999999998652 4689999999999999999999999999886654 6899999999999999999
Q ss_pred CCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeecc-CCc-ccceeEEeeEEEecCh
Q psy401 115 CDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLV-GGE-ATMLFIELPYTIITEE 192 (326)
Q Consensus 115 p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~-~~~-~~~~f~~i~~~i~~~e 192 (326)
|++.+||||++|+.+++.|+.||++|++++++||+|++||...++++|+++|++..... +|. ....|+|+|++|+++|
T Consensus 80 ~~e~vVGWY~tg~~~~~~d~~ih~~~~~~~~~pv~l~vd~~~~~~~lpi~aY~s~~~~~~~g~~~~~~F~~vp~~i~~~e 159 (280)
T cd08062 80 AKEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPKDLGLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEE 159 (280)
T ss_pred CCCCeEEEecCCCCCCcchHHHHHHHHHhCCCCEEEEEecCCCCCCCceEEEEEeeeccCCCCcceeEEEEcceEeeccc
Confidence 99999999999999999999999999999999999999999988889999999986544 555 6789999999999999
Q ss_pred HHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChhH
Q psy401 193 AERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPA 272 (326)
Q Consensus 193 aErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~~ 272 (326)
||||||++++|..... ..+.+..++..+.+|+++|..||+.|++||++|.+|+.++|++|||.|+++|+++|.++.++
T Consensus 160 aE~igve~l~r~~~~~--~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~IlR~l~~~~~~lP~l~~~~ 237 (280)
T cd08062 160 AEEVGVEHLLRDIKDV--TVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNLQDIFNLLPNLNLPE 237 (280)
T ss_pred hHHHHHHHHHhhccCc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHhCCCCCHHH
Confidence 9999999999965432 34567779999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy401 273 FKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKFN 308 (326)
Q Consensus 273 f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~~ 308 (326)
|+++|++++||++|++|||+|+|+|++|+++++...
T Consensus 238 f~~~~~~~~nD~lmv~yLs~l~k~~~~l~~~~~~~~ 273 (280)
T cd08062 238 LVKAFAVKTNDQMLVIYLSSLIRSVIALHNLINNKI 273 (280)
T ss_pred HHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999997654
No 5
>KOG2975|consensus
Probab=100.00 E-value=6e-69 Score=481.68 Aligned_cols=275 Identities=24% Similarity=0.399 Sum_probs=256.0
Q ss_pred cccccCCCCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHH
Q psy401 27 SVMAKGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLK 106 (326)
Q Consensus 27 ~~~~s~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m 106 (326)
+..++..++.++|.|||+|+|+|+|||.||..+ ..||||+|||+.++|.|||+|||+|||+|.+|++.+|++|.+.|
T Consensus 11 ~~~~~~~ss~ltv~ihP~Vlf~ivD~~~RR~~~---~~rviGTLLG~~~~g~ieitNCFaVPhnEssdqvevdm~y~~~M 87 (288)
T KOG2975|consen 11 PALPSPFSSNLTVRLHPVVLFSIVDAYERRNKG---AERVIGTLLGTVDKGSVEVTNCFAVPHNESSDQVEVDMEYAKNM 87 (288)
T ss_pred cCCCCCCCCCceEEEcceEEeEeehhhhcCCcc---chhhhhheeecccCCeEEEEEeeeccCccccccceeeHHHHHHH
Confidence 344466788899999999999999999999754 68999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeee-eccCCcccceeEEee
Q psy401 107 EEQFKQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESII-DLVGGEATMLFIELP 185 (326)
Q Consensus 107 ~~l~k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~-~~~~~~~~~~f~~i~ 185 (326)
+++++|+||+|.+||||+||+.++.+...||++|.+.+++||||+||++.+++.+++++|.++. ++.++....+|.|+|
T Consensus 88 ~~l~~k~npnE~vvGWyaTg~dvt~~sslihdyYare~~~pvhLtVDT~~~n~rm~ikaYvss~~Gvpg~~~~~mF~plp 167 (288)
T KOG2975|consen 88 YELHKKVNPNELVVGWYATGHDVTEHSSLIHDYYAREAPNPVHLTVDTSLQNGRMSIKAYVSSLMGVPGRTMGVMFTPLP 167 (288)
T ss_pred HHHhcccCCCceeEEEEecCCCcccchhHHHHHhhccCCCCeEEEEeccccCCccceeEEEEeccCCCCcccceeeeeee
Confidence 9999999999999999999999999999999999999999999999999999999999999874 555666778999999
Q ss_pred EEEecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcC
Q psy401 186 YTIITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRL 265 (326)
Q Consensus 186 ~~i~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~l 265 (326)
+++.+.|+||+|++.|.+.+...+ ....+..+|+++..|...|+.+|+++++|+++|.+|+.++|..|||+|.++++++
T Consensus 168 vel~~~~~ervgl~li~kt~~sp~-r~~~l~~dLqQv~~at~~l~~~L~~Vl~YVedVl~gk~~pdn~VGR~Lmd~v~~v 246 (288)
T KOG2975|consen 168 VELAYYDAERVGLDLIEKTSFSPS-RVAGLSSDLQQVEGATARLQSLLERVLKYVEDVLAGKVKPDNAVGRFLMDLVTAV 246 (288)
T ss_pred eEEeecchhhhHHHHHHHhccChh-hhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHhc
Confidence 999999999999999999885433 3345678899999999999999999999999999999999999999999999999
Q ss_pred CCCChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q psy401 266 PVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVN 305 (326)
Q Consensus 266 P~~~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~ 305 (326)
|++.+++|+.+|+++++|.||+.|||++||||++|+|.+.
T Consensus 247 P~l~p~~Fe~mfn~nLrD~Lmv~yLa~ltqTQl~l~EKL~ 286 (288)
T KOG2975|consen 247 PKLVPDDFETMFNSNLRDLLMVIYLANLTQTQLALNEKLV 286 (288)
T ss_pred CCCCHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999999999999999999754
No 6
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=100.00 E-value=1.3e-66 Score=485.21 Aligned_cols=261 Identities=26% Similarity=0.416 Sum_probs=242.4
Q ss_pred EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCc
Q psy401 39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLD 118 (326)
Q Consensus 39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~ 118 (326)
|.|||+|||+|+|||+|++.+ +.+|+|+|||++.++.|||+|||++|++++++++.+|.+|+++|+++||+|||++.
T Consensus 1 v~ihPlVll~I~dH~~R~~~~---~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~ 77 (265)
T cd08064 1 VRVHPVVLFSILDSYERRNEG---QERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEV 77 (265)
T ss_pred CEEccHHHHhHHHHHhhhcCC---CcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCc
Confidence 689999999999999998643 58999999999999999999999999998888899999999999999999999999
Q ss_pred eeEEEecCCCCChhhHHHHHHHHhhCC--CceEEEEcCCCCCCCCCeeeeeeeeec-cCCcccceeEEeeEEEecChHHH
Q psy401 119 FLGWYTTGDTVNELDIKVHKQICEINE--SPIFLKLNPHPIHSNLPVSVYESIIDL-VGGEATMLFIELPYTIITEEAER 195 (326)
Q Consensus 119 iVGWY~tg~~~~~~d~~ih~~~~~~~~--~pI~L~vD~~~~~~~lpi~ay~~~~~~-~~~~~~~~f~~i~~~i~~~eaEr 195 (326)
+||||++|+.+++.+..||++|+++++ +||+|++||...++++|++||++.... .++.....|.++|++|.++|+||
T Consensus 78 vVGWY~tg~~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~~~~l~i~ay~~~~~~~~~~~~~~~F~~ip~~i~~~eaE~ 157 (265)
T cd08064 78 IVGWYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLDDGKMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAER 157 (265)
T ss_pred EEeeeeCCCCCCccHHHHHHHHHhhCCCCCCEEEEEeCCCCCCCcceEEEEEEecccCCCCcceEEEEcceeeecCcHHH
Confidence 999999999999999999999999988 999999999988779999999987543 34456789999999999999999
Q ss_pred HHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChhHHHH
Q psy401 196 MGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKT 275 (326)
Q Consensus 196 I~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~~f~~ 275 (326)
||++++++.....+ ..+.+..+++.+.+|+++|..||+.|++||++|.+|+.++|++|||+|+++++++|.++.++|++
T Consensus 158 i~v~~l~~~~~~~~-~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~i~r~l~~~~~~lp~~~~~~f~~ 236 (265)
T cd08064 158 VALDLLAKTLASPS-RSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGRYLMDALTSVPKLDPEEFEK 236 (265)
T ss_pred HHHHHHHhhccCCc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhhCCCCCHHHHHH
Confidence 99999999876544 23345688999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy401 276 DFYTQCNDVALITYLGTITKGCNDLNQF 303 (326)
Q Consensus 276 ~~~~~~~D~lmv~yLa~ltk~~~~l~~~ 303 (326)
+|++++||++|++|||+|||+|++|++.
T Consensus 237 ~~~~~~~D~lmv~YLs~l~k~~~~l~ek 264 (265)
T cd08064 237 MFNSSLQDLLMVTYLSNLTKTQLALAEK 264 (265)
T ss_pred HHHhhcchHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999985
No 7
>KOG1556|consensus
Probab=100.00 E-value=1.5e-60 Score=423.32 Aligned_cols=270 Identities=26% Similarity=0.505 Sum_probs=252.1
Q ss_pred CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHH
Q psy401 34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQF 110 (326)
Q Consensus 34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~ 110 (326)
-...+|.+||||||++.|||.|.... .++||+|+|||..+++++.|+|||++||+|++++ |++|.+|++.|+++|
T Consensus 6 ~~~~kViVhPLVLLS~VDhynR~~k~--~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mf 83 (309)
T KOG1556|consen 6 LTVEKVIVHPLVLLSAVDHYNRVGKD--TNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMF 83 (309)
T ss_pred cccceeeeehhHHHHHHHHHhhhccC--cCceEEEEEEecCCCCeEEeecceeccccccCCCCceEEeccHHHHHHHHHH
Confidence 45678999999999999999997532 3599999999999999999999999999998876 999999999999999
Q ss_pred HHhCCCCceeEEEecCCCCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeeeeeccC-C-cccceeEEeeEEE
Q psy401 111 KQVFCDLDFLGWYTTGDTVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESIIDLVG-G-EATMLFIELPYTI 188 (326)
Q Consensus 111 k~V~p~~~iVGWY~tg~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~~~~~~-~-~~~~~f~~i~~~i 188 (326)
+|||.++.+||||+||+.+.++|+.|++.+.+|+++|+++++|..+.+-+||..||..+.++.+ | ..+..|.++|++|
T Consensus 84 kKvNakekivGWYhTGPkl~~nDl~In~l~k~y~pnpvLvIIdvkpk~~gLPT~AY~aVeev~dDgt~t~ktF~Hvps~I 163 (309)
T KOG1556|consen 84 KKVNAKEKVVGWYHTGPKLRENDLDINELLKRYVPNPVLVIIDVKPKELGLPTEAYIAVEEVKDDGTPTSKTFVHVPSEI 163 (309)
T ss_pred HHhcchhheeeeeccCCccccchhhHHHHHhhcCCCceEEEEecccccCCCCchheeeeeeeecCCCCccceeEecCccc
Confidence 9999999999999999999999999999999999999999999999988999999999877653 3 3567899999999
Q ss_pred ecChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCC
Q psy401 189 ITEEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVL 268 (326)
Q Consensus 189 ~~~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~ 268 (326)
+++|||.|||+|+.|..... +.++++..+..+..+++.|..++..|.+||++|.+|++|.|++|+-+++++++.||.+
T Consensus 164 ~AeEAEEvGVEHLlRDikd~--t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~Vi~g~lpiNh~Il~~lQdvfNllP~l 241 (309)
T KOG1556|consen 164 EAEEAEEVGVEHLLRDIKDT--TVGTLATRITNQLMSLKGLQSRLREIRSYLDKVIDGKLPINHEILYQLQDVFNLLPNL 241 (309)
T ss_pred chhHHHHhhHHHHHHHHHhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHhhCccc
Confidence 99999999999999998654 4677889999999999999999999999999999999999999999999999999999
Q ss_pred ChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHh
Q psy401 269 DNPAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNKF 307 (326)
Q Consensus 269 ~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k~ 307 (326)
...+|.+.|+-..||.||+.|||+|.|++.+|++|++.-
T Consensus 242 ~~~~~~~a~~vktndql~~iY~sslvrsViAlhdLi~Nk 280 (309)
T KOG1556|consen 242 TRNELVKAFNVKTNDQLMVIYLSSLVRSVIALHDLINNK 280 (309)
T ss_pred cchhhhhhhccccCceeeeeeHHHHHHHHHHHHHHHHhH
Confidence 999999999999999999999999999999999999643
No 8
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic. This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import
Probab=100.00 E-value=3e-39 Score=279.04 Aligned_cols=150 Identities=37% Similarity=0.629 Sum_probs=135.8
Q ss_pred EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCc
Q psy401 39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLD 118 (326)
Q Consensus 39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~ 118 (326)
|+|||+|||+|+|||+|+.. .+.+|+|+|||.+.++.++|+|||++|++++++.+.+|.+|+++|+++|++|||++.
T Consensus 1 V~ihplvll~I~dh~~R~~~---~~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~ 77 (157)
T cd08057 1 VQLHPLVLLNISDHYTRRKY---GIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEK 77 (157)
T ss_pred CEEccHHHhhHHHHHHhccC---CCCeEEEEEEeEEeCCEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCC
Confidence 68999999999999999864 257999999999999999999999999988777789999999999999999999999
Q ss_pred eeEEEecCCC----CChhhHHHHHHHHhh-CCCceEEEEcCCC--CCCCCCeeeeeeeeeccCCcccceeEEeeEEEecC
Q psy401 119 FLGWYTTGDT----VNELDIKVHKQICEI-NESPIFLKLNPHP--IHSNLPVSVYESIIDLVGGEATMLFIELPYTIITE 191 (326)
Q Consensus 119 iVGWY~tg~~----~~~~d~~ih~~~~~~-~~~pI~L~vD~~~--~~~~lpi~ay~~~~~~~~~~~~~~f~~i~~~i~~~ 191 (326)
+||||++++. ++..+..||++|+.. +++||+|++||.. ..+++|+++|++..... .+.++++++.++
T Consensus 78 vVGWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~~~~l~i~ay~~~~~~~------~~~~~~~~i~~~ 151 (157)
T cd08057 78 IVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQSDSEKLEISTFTSAQREE------NGAEITYEIGTE 151 (157)
T ss_pred EEEEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcccCCCcccEEEEEEecCCC------CCceeeeEEecc
Confidence 9999999987 889999999999987 8899999999987 45789999999874322 233999999999
Q ss_pred hHHHHH
Q psy401 192 EAERMG 197 (326)
Q Consensus 192 eaErI~ 197 (326)
|+||||
T Consensus 152 e~E~I~ 157 (157)
T cd08057 152 ETERIA 157 (157)
T ss_pred cccccC
Confidence 999986
No 9
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=99.98 E-value=3.2e-31 Score=247.21 Aligned_cols=201 Identities=18% Similarity=0.235 Sum_probs=153.4
Q ss_pred EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccc---hhhhHHHHHHHHHHHHHhC
Q psy401 38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDE---MIINRDYYTLKEEQFKQVF 114 (326)
Q Consensus 38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~---~~iD~~y~~~m~~l~k~V~ 114 (326)
+|.|||+|+++|+|||.|+. +.+|+|+|||...|+.+||+|||++|+.+++++ +..|.+|+.+|++++++++
T Consensus 2 ~V~I~~~vllkIv~H~~~~~-----p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~ 76 (266)
T cd08065 2 SVQIDGLVVLKIIKHCKEEL-----PELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVN 76 (266)
T ss_pred EEEEeHHHHHHHHHHHhcCC-----CcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhC
Confidence 69999999999999999863 689999999999999999999999999887665 5777899999999999999
Q ss_pred CCCceeEEEecCC-CCChhhHHHHHHHHh--hCCCceEEEEcCCCC-CCCCCeeeeeeeeecc----------------C
Q psy401 115 CDLDFLGWYTTGD-TVNELDIKVHKQICE--INESPIFLKLNPHPI-HSNLPVSVYESIIDLV----------------G 174 (326)
Q Consensus 115 p~~~iVGWY~tg~-~~~~~d~~ih~~~~~--~~~~pI~L~vD~~~~-~~~lpi~ay~~~~~~~----------------~ 174 (326)
+++.+||||++++ ........||.++.. ..+.+|+|++||..+ .+.++++||+...... +
T Consensus 77 ~~e~iVGWY~S~p~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~~g~l~lkAyrl~~~~~~~~~~~~~~~~~l~~~~ 156 (266)
T cd08065 77 VDHNHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKTSQGSLSLKAYRLSEKFMELYKEGKFSTESLREAN 156 (266)
T ss_pred CCCcEEEeEeecCCCCcCCHHHHHHHHHHhccCCCCEEEEECCCcccccceeeEEEEEcHHHHHHhhcCCcCHHHHHHhc
Confidence 9999999999998 323234556666554 347789999999874 5679999999874322 1
Q ss_pred CcccceeEEeeEEEecChHHHHHHHHHhhccCCCCCCchhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy401 175 GEATMLFIELPYTIITEEAERMGVDHVARMSNNDSGESSLV-AEHLTAQYNAIKMLHVRIKILLDYLKEV 243 (326)
Q Consensus 175 ~~~~~~f~~i~~~i~~~eaErI~vd~l~~~~~~~~~~~~~l-~~~l~~~~~ai~~L~~~i~~i~~Yl~~V 243 (326)
...+.+|.+||++|..+.-+.+.+..+.............+ ......+...++.|.+.||.+..+.++.
T Consensus 157 ~~~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~~e~~~~ 226 (266)
T cd08065 157 LTFSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKF 226 (266)
T ss_pred CchhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 24578999999999999999999999866543320001111 1223334555666666666666665553
No 10
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5. This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i
Probab=99.94 E-value=1.1e-25 Score=209.90 Aligned_cols=167 Identities=13% Similarity=0.222 Sum_probs=146.9
Q ss_pred CCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHH--HHH
Q psy401 34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEE--QFK 111 (326)
Q Consensus 34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~--l~k 111 (326)
.-..+|.|||+|+++|++|+.|. .+..|+|+|+|..+++.++|++||++|+.++++.+..+.+|++.|.+ +++
T Consensus 7 ~~~~~V~Is~~allkil~Ha~~~-----~p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~ 81 (268)
T cd08069 7 DYFEKVYISSLALLKMLKHARAG-----GPIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLK 81 (268)
T ss_pred CcccEEEECHHHHHHHHHHHhcc-----CCceEEEEEEeeecCCeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHH
Confidence 45567999999999999999884 36899999999999999999999999998777777777899999999 999
Q ss_pred HhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC--CCCCCeeeeeeeeecc-----CC-----
Q psy401 112 QVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI--HSNLPVSVYESIIDLV-----GG----- 175 (326)
Q Consensus 112 ~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~--~~~lpi~ay~~~~~~~-----~~----- 175 (326)
++++++.+||||++++. ++..|+.+|..|++.++++|+|++||..+ .|++.++||+...... .+
T Consensus 82 ~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~g~~~i~Afr~~~~~~~~~~~~~~~s~~ 161 (268)
T cd08069 82 QTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVKGKVVIGAFRTIPPGYKPLEPRQTTSNI 161 (268)
T ss_pred HhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccCCcceeeEEEEECccccccCcccCcccc
Confidence 99999999999999986 89999999999999988899999999765 5779999999875421 11
Q ss_pred ------------cccceeEEeeEEEecChHHHHHHHHHhhcc
Q psy401 176 ------------EATMLFIELPYTIITEEAERMGVDHVARMS 205 (326)
Q Consensus 176 ------------~~~~~f~~i~~~i~~~eaErI~vd~l~~~~ 205 (326)
.....|.+||++|..++.|+..++.+.+..
T Consensus 162 ~~~~~~~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~~ 203 (268)
T cd08069 162 GHLPKPKIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNKY 203 (268)
T ss_pred CccCcHHHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHHh
Confidence 146789999999999999999999988753
No 11
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.
Probab=99.94 E-value=3.3e-26 Score=187.03 Aligned_cols=107 Identities=35% Similarity=0.567 Sum_probs=94.3
Q ss_pred CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCC-EEEEEEEEeecccccccc-hhhhHHHHHHHHHHHHH
Q psy401 35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGR-KLEIKNSFELVYNIIEDE-MIINRDYYTLKEEQFKQ 112 (326)
Q Consensus 35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~-~veI~nsF~vp~~e~~~~-~~iD~~y~~~m~~l~k~ 112 (326)
++.+|.|||+|+++|+||+.|+. +.+|+|+|+|+++++ .++|+|||++|+.+++++ ...+.++.++|++++++
T Consensus 2 s~~~V~i~p~vll~i~~h~~r~~-----~~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (114)
T PF01398_consen 2 SVQTVQIHPLVLLKIIDHATRSS-----PNEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDEDFQKKMIELLKK 76 (114)
T ss_dssp SCEEEEEEHHHHHHHHHHHHHHH-----CTEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECCHHHHHHHHHHHH
T ss_pred CcEEEEECHHHHHHHHHHHhcCC-----CCEEEEEEEEEecCceEEEEEEEEEeeEecCccccccchhhHHHHHHhhhcc
Confidence 56889999999999999999985 359999999999999 999999999999886654 34556666899999999
Q ss_pred hCCCCceeEEEecCCCC----ChhhHHHHHHHHhhCCC
Q psy401 113 VFCDLDFLGWYTTGDTV----NELDIKVHKQICEINES 146 (326)
Q Consensus 113 V~p~~~iVGWY~tg~~~----~~~d~~ih~~~~~~~~~ 146 (326)
++|++.+||||++++.. +..|+.+|+.|++++++
T Consensus 77 ~~~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~ 114 (114)
T PF01398_consen 77 VNPNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN 114 (114)
T ss_dssp CSTTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred ccccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence 99999999999999876 99999999999998653
No 12
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=99.87 E-value=2.6e-21 Score=161.41 Aligned_cols=127 Identities=28% Similarity=0.473 Sum_probs=113.4
Q ss_pred EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccch-hhhHHHHHHHHHHHHHhCCC
Q psy401 38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEM-IINRDYYTLKEEQFKQVFCD 116 (326)
Q Consensus 38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~-~iD~~y~~~m~~l~k~V~p~ 116 (326)
.|.|||+++++|++|+.|. .+.+++|+|+|...++.++|+++|++|...+++.+ .++.+|.+.|.+++++++++
T Consensus 1 ~v~i~~~v~~~i~~h~~~~-----~p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (135)
T smart00232 1 EVKVHPLVPLNILKHAIRD-----GPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKD 75 (135)
T ss_pred CEEEcHHHHHHHHHHHhcC-----CCcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhhhhhHHHHHHHHHHhhCCC
Confidence 3789999999999999885 36799999999999999999999999987655554 78899999999999999999
Q ss_pred CceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCC-CCCCeeeeeee
Q psy401 117 LDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIH-SNLPVSVYESI 169 (326)
Q Consensus 117 ~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~-~~lpi~ay~~~ 169 (326)
+.+||||++++ .++..|+.+|..+......++++.+|+..+. ++++++||+.+
T Consensus 76 ~~~vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s~~g~~~~~af~~~ 133 (135)
T smart00232 76 LEIVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSFQGRLSLRAFRLT 133 (135)
T ss_pred ceEEEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCccccCcEEEEEEEec
Confidence 99999999987 5788899999999888888999999998865 78999999974
No 13
>PF13012 MitMem_reg: Maintenance of mitochondrial structure and function; PDB: 2O96_B 2O95_A.
Probab=99.87 E-value=2.1e-23 Score=170.89 Aligned_cols=114 Identities=43% Similarity=0.704 Sum_probs=13.3
Q ss_pred ChHHHHHHHHHhhccCCCCCCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCCh
Q psy401 191 EEAERMGVDHVARMSNNDSGESSLVAEHLTAQYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDN 270 (326)
Q Consensus 191 ~eaErI~vd~l~~~~~~~~~~~~~l~~~l~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~ 270 (326)
+|||||||+++++...... .+.+..+++.+.+++.+|.++++.+..||++|.+|+.++|++++|+|+++|+++|.+++
T Consensus 1 eEaErigv~~l~~~~~~~~--~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v~~g~~~~d~~i~r~l~~l~~~lp~~~~ 78 (115)
T PF13012_consen 1 EEAERIGVDHLARGLGDHY--YSSLSSQLENEQNALKMLHKRLWQILDYLEDVISGEIPPDHEILRQLQDLLSSLPKYDP 78 (115)
T ss_dssp SHHHHHHHHHHHHH--S---------------------------------------------------------------
T ss_pred CchHHHHHHHHHccCCCcc--ccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcCCCchhHHHHHHHHHHhcccccH
Confidence 5899999999999654332 23667899999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy401 271 PAFKTDFYTQCNDVALITYLGTITKGCNDLNQFVNK 306 (326)
Q Consensus 271 ~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~~~~~k 306 (326)
++|+++|.++.+|.+||.||++++|++.++++++++
T Consensus 79 ~~~~~~~~~~~~D~l~v~yL~~l~k~~~~l~e~l~~ 114 (115)
T PF13012_consen 79 EEFEEEFNSEINDVLMVSYLAKLTKKQHALNELLNN 114 (115)
T ss_dssp ------------------------------------
T ss_pred HHHHHHHHhhchHHHHHHHHHHHhHHHHHHHHHHhc
Confidence 999999999999999999999999999999999875
No 14
>KOG1560|consensus
Probab=99.83 E-value=5.2e-19 Score=160.76 Aligned_cols=241 Identities=19% Similarity=0.273 Sum_probs=168.1
Q ss_pred cCCCCceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccc-cccch----hhhH---HH
Q psy401 31 KGVTGSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI-IEDEM----IINR---DY 102 (326)
Q Consensus 31 s~~~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e-~~~~~----~iD~---~y 102 (326)
.++.+...|.+..||+++|++||.....+ ..-+.|+|+|..-++.+||+||||.|-.+ .+|+- ..|. .|
T Consensus 7 ~~~p~vk~v~ldsLvVMkiiKHc~ee~~n---~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~ 83 (339)
T KOG1560|consen 7 LESPPVKRVELDSLVVMKIIKHCREEFPN---GDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAY 83 (339)
T ss_pred CCCCccceeeehhHHHHHHHHHHHhhcCC---cchhhheeeeeeecceeEeecccCCCccCCCccchhhhhhhHHHHHHH
Confidence 34456678999999999999999765322 36799999999999999999999999743 22221 3443 58
Q ss_pred HHHHHHHHHHhCCCCceeEEEec---CCCCChhhHHHHHHHHhhCCCceEEEEcCCCC-CCCCCeeeeeeeeecc----C
Q psy401 103 YTLKEEQFKQVFCDLDFLGWYTT---GDTVNELDIKVHKQICEINESPIFLKLNPHPI-HSNLPVSVYESIIDLV----G 174 (326)
Q Consensus 103 ~~~m~~l~k~V~p~~~iVGWY~t---g~~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-~~~lpi~ay~~~~~~~----~ 174 (326)
+..|++.++.||-+..+||||.+ |+.++..-+.-+-.|+..++..|.|++||..+ .|.|.++||+.+++.. +
T Consensus 84 ~l~mlrrlr~vnid~~hVGwYqs~~vgs~lS~~lveSqy~YQ~a~pesVvliYD~~kssqG~L~lrAyrLTp~am~~~ke 163 (339)
T KOG1560|consen 84 QLAMLRRLRYVNIDHLHVGWYQSAYVGSFLSPALVESQYAYQKAIPESVVLIYDPIKSSQGTLSLRAYRLTPEAMAAHKE 163 (339)
T ss_pred HHHHHHHhhhcCccceeeeeeeeehhccccCHHHHHHHHHHHhcCCccEEEEeccccccCceEEeehhhcCHHHHHHHhc
Confidence 89999999999999999999997 56777555555666788888889999999986 4789999999876431 1
Q ss_pred C------------cccceeEEeeEEEecChHHHHHHHHHh--hccCCCC--------CCchhhhhhHHHHHHHHHHHHHH
Q psy401 175 G------------EATMLFIELPYTIITEEAERMGVDHVA--RMSNNDS--------GESSLVAEHLTAQYNAIKMLHVR 232 (326)
Q Consensus 175 ~------------~~~~~f~~i~~~i~~~eaErI~vd~l~--~~~~~~~--------~~~~~l~~~l~~~~~ai~~L~~~ 232 (326)
+ ....+|.++|+.|+.+---.+-+..+. +.+.... +....+.+++..+...+..|...
T Consensus 164 kdwtpealk~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~~~~fdlgs~t~leknir~lme~vDEl~qe 243 (339)
T KOG1560|consen 164 KDWTPEALKSANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPLHSNFDLGSGTRLEKNIRLLMERVDELHQE 243 (339)
T ss_pred CCCCHHHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHH
Confidence 1 246789999999998776566665555 2221110 01123445566666667777777
Q ss_pred HHHHHHHHHHhhcCCCCCCHHHHHHHHH--------HHhcCCCCChhHHHHHHH
Q psy401 233 IKILLDYLKEVESGTLPVNHDILRELNA--------LRHRLPVLDNPAFKTDFY 278 (326)
Q Consensus 233 i~~i~~Yl~~V~~G~~~~d~~ilR~i~~--------lv~~lP~~~~~~f~~~~~ 278 (326)
+...-+|-+.+.. .|..+-+.++. .-.-.|.+..+++.+.|.
T Consensus 244 ~~~l~kyqr~~~r----qq~~~~q~~aKrqaENa~R~argep~lP~dd~kr~fk 293 (339)
T KOG1560|consen 244 IVNLNKYQRQLAR----QQAKKHQWIAKRQAENANRAARGEPPLPEDDWKRIFK 293 (339)
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhhhhhcCCCCCChHHHHHHhc
Confidence 7777777776543 23333333222 223456666666666554
No 15
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J
Probab=99.62 E-value=7.8e-15 Score=119.28 Aligned_cols=111 Identities=17% Similarity=0.286 Sum_probs=88.5
Q ss_pred hhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecC
Q psy401 47 MNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTG 126 (326)
Q Consensus 47 l~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg 126 (326)
..|++|+.+. .+..|+|.|+|...++.++|+++|++|....+.. .+... .|......+..++.+||||+++
T Consensus 2 k~il~~a~~~-----~~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~iVGwyhsh 72 (116)
T cd07767 2 KMFLDAAKSI-----NGKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDKD--DNVWF--LMYLDFKKLNAGLRIVGWYHTH 72 (116)
T ss_pred HhHHHHHhcC-----CCcEEEEEeEEEEcCCEEEEEEEEecccCCCCCc--cHHHH--HHHHHHHHhcCCCeEEEEEEcC
Confidence 3577888663 2578999999999988999999999998654322 22222 2666667788999999999998
Q ss_pred CC----CChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeee
Q psy401 127 DT----VNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVY 166 (326)
Q Consensus 127 ~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay 166 (326)
+. ++..|+..|..|++..+++++|++|+.....+++++||
T Consensus 73 p~~~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~~~~~~~~~ 116 (116)
T cd07767 73 PKPSCFLSPNDLATHELFQRYFPEKVMIIVDVKPKDLGNSWKCY 116 (116)
T ss_pred CCCCCccCHHHHHHHHHHHHhCCCCEEEEEECCCccCCCCcccC
Confidence 64 78899999988988778899999999986667888887
No 16
>KOG1554|consensus
Probab=99.56 E-value=4.6e-14 Score=129.09 Aligned_cols=131 Identities=16% Similarity=0.268 Sum_probs=107.8
Q ss_pred CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccch---hhhHHHHHHHHHHHH
Q psy401 35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEM---IINRDYYTLKEEQFK 111 (326)
Q Consensus 35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~---~iD~~y~~~m~~l~k 111 (326)
.-..|.|..|+||+|.-|..|. .+-.|+|.+.|..+|+.+.|.+||++|.+.++..+ .--.+|+-...+..+
T Consensus 51 ~fk~vkISalAllKm~~hA~~G-----gnlEiMGlm~Gkv~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k 125 (347)
T KOG1554|consen 51 YFKHVKISALALLKMVMHARSG-----GNLEIMGLMQGKVDGDTIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAK 125 (347)
T ss_pred hhhhhhhHHHHHHHHHHHHhcC-----CCeEEEeeecccccCCeEEEEeccccccccccceechHHHHHHHHHHHHHHHH
Confidence 3457899999999999988663 36799999999999999999999999998876544 233678888889999
Q ss_pred HhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC--CCCCCeeeeeeee
Q psy401 112 QVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI--HSNLPVSVYESII 170 (326)
Q Consensus 112 ~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~--~~~lpi~ay~~~~ 170 (326)
.+...+.+||||++.++ ++..|+..|..-+++-+.=+++++||..+ .+++.+.||+.-+
T Consensus 126 ~~gr~envVGWyHSHPgYgCWLSgIDVsTQ~lNQ~fQePfvAvViDP~Rtlsagkv~iGAFRTyp 190 (347)
T KOG1554|consen 126 NVGRLENVVGWYHSHPGYGCWLSGIDVSTQMLNQRFQEPFVAVVIDPTRTLSAGKVNIGAFRTYP 190 (347)
T ss_pred HhhhhhceeeeeecCCCCCccccCcchhHHHHhhhhcCCeEEEEecCccccccCceeeceeeccc
Confidence 99999999999999885 46677766666666655558999999875 5789999999754
No 17
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase. This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p
Probab=99.49 E-value=2e-12 Score=114.72 Aligned_cols=128 Identities=16% Similarity=0.154 Sum_probs=104.7
Q ss_pred CceEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe--CCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHH
Q psy401 35 GSIHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV--GRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQ 112 (326)
Q Consensus 35 ~~~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~--~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~ 112 (326)
.+.+|.|+++|+|.|..|+... ...++|.|+|..+ ++.++|+++|++|....+++..+|.+++.+|++..++
T Consensus 3 ~pf~V~Is~~all~m~~Ha~~~------~~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~dp~~q~e~~~~l~~ 76 (187)
T cd08067 3 QPFKVTVSSNALLLMDFHCHLT------TSEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEMDPVSETEIRESLES 76 (187)
T ss_pred CCEEEEECHHHHHHHHHHhcCC------CcEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccccCHHHHHHHHHHHHH
Confidence 4678999999999999999763 2679999999965 5789999999999866556678899999999999888
Q ss_pred hCCCCceeEEEecCC----CCChhhHHHHHHHHhhCC-------CceEEEEcCCCCC---CCCCeeeeeeee
Q psy401 113 VFCDLDFLGWYTTGD----TVNELDIKVHKQICEINE-------SPIFLKLNPHPIH---SNLPVSVYESII 170 (326)
Q Consensus 113 V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~-------~pI~L~vD~~~~~---~~lpi~ay~~~~ 170 (326)
.+ +.+||||++.+ .++..|+..|..|+.... .-|.++++|.... .+..|++|....
T Consensus 77 ~g--l~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~ 146 (187)
T cd08067 77 RG--LSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMP 146 (187)
T ss_pred cC--CEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEEC
Confidence 76 59999999986 467788888888887542 3489999997642 346799998764
No 18
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic. This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot
Probab=99.46 E-value=6.6e-13 Score=109.45 Aligned_cols=108 Identities=15% Similarity=0.207 Sum_probs=85.3
Q ss_pred hHhhHHHHHhHhcccCCCCceEEEEEeeEEe-----CCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCce
Q psy401 45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQV-----GRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDF 119 (326)
Q Consensus 45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~-----~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~i 119 (326)
|+++|.+|+.+. .+..++|.|+|... ...++|+++|+.|...+. .+.|..+.+...-++.+
T Consensus 2 ~~~~i~~ha~~~-----~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~---------~~~~~~~~~~~~~g~~~ 67 (119)
T cd08058 2 ALLKMLQHAESN-----TGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTG---------ENVEELFNVQTGRPLLV 67 (119)
T ss_pred HHHHHHHHhcCC-----CCeEEEEEeeeEEecCccceeEEEEeecCCCCCCchh---------HHHHHHHHHHhCCCCeE
Confidence 789999999875 36789999999865 456899999999875321 11444555668889999
Q ss_pred eEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401 120 LGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES 168 (326)
Q Consensus 120 VGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~ 168 (326)
||||++.+ .++..|+..|..|+...+..++|++||..+ .+.+++|+.
T Consensus 68 vG~YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~~--~~~~~a~rl 118 (119)
T cd08058 68 VGWYHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKHR--NKDTGIFRL 118 (119)
T ss_pred EEEEecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCCC--CcccceEEe
Confidence 99999987 578889887887877767779999999763 688899875
No 19
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex. BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai
Probab=99.16 E-value=1.4e-09 Score=100.02 Aligned_cols=147 Identities=18% Similarity=0.188 Sum_probs=104.0
Q ss_pred eEEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe-------CCEEEEEEEEeecccc-cccchhhhHHH----HH
Q psy401 37 IHVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV-------GRKLEIKNSFELVYNI-IEDEMIINRDY----YT 104 (326)
Q Consensus 37 ~~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~-------~~~veI~nsF~vp~~e-~~~~~~iD~~y----~~ 104 (326)
.+|.|.+.++..|..|..+. .+..+||.|+|... ++.+.|..-++.+..+ ..+.+.+|.+- .+
T Consensus 2 ~~V~Is~~~l~~il~HA~~~-----~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ 76 (244)
T cd08068 2 SKVHLSADVYLVCLTHALST-----EKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAAST 76 (244)
T ss_pred cEEEECHHHHHHHHHHHHhC-----CCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHH
Confidence 36899999999999999775 37899999999874 3455554444443322 23457777653 34
Q ss_pred HHHHHHHHhCCCCceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCC-----CCCCCeeeeeeeeeccCC
Q psy401 105 LKEEQFKQVFCDLDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPI-----HSNLPVSVYESIIDLVGG 175 (326)
Q Consensus 105 ~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-----~~~lpi~ay~~~~~~~~~ 175 (326)
.+.++.+.+..++.+||||++.+ .++..|+..+..|+...+.-+++++++... .++..+++|+...+..+
T Consensus 77 ea~~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g~~~- 155 (244)
T cd08068 77 EAERLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGNKA- 155 (244)
T ss_pred HHHHHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCCCCC-
Confidence 56666777889999999999987 467788877677765556668999875432 25678999998543221
Q ss_pred cccceeEEeeEEEec
Q psy401 176 EATMLFIELPYTIIT 190 (326)
Q Consensus 176 ~~~~~f~~i~~~i~~ 190 (326)
......++|+.|..
T Consensus 156 -~~~~~~e~pl~i~~ 169 (244)
T cd08068 156 -GQYERIEVPLEIVP 169 (244)
T ss_pred -CcceEEEeeeEEec
Confidence 24577888888875
No 20
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al
Probab=98.71 E-value=3.6e-07 Score=80.29 Aligned_cols=118 Identities=16% Similarity=0.167 Sum_probs=85.7
Q ss_pred EEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchh-hhHHHHHHHHHHHHHh-CCC
Q psy401 39 VSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMI-INRDYYTLKEEQFKQV-FCD 116 (326)
Q Consensus 39 V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~-iD~~y~~~m~~l~k~V-~p~ 116 (326)
+.|-.-.+-.|+.|..++-. .+..++|.|+|...++..+|++.|-.|...++.... .|.. +.++.. -.+
T Consensus 4 l~Ipk~il~~~l~~A~~~~~---~p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~~~~------e~~~~~~~~g 74 (173)
T cd08066 4 VVVPADLMDKFLQLAEPNTS---RNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTNEE------ELFDFQDQHD 74 (173)
T ss_pred EEECHHHHHHHHHHHHhCCC---CCCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCCCHH------HHHHHHHhCC
Confidence 55666778888888877521 136899999999888888999887777655443322 2311 122222 357
Q ss_pred CceeEEEecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeeee
Q psy401 117 LDFLGWYTTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYESI 169 (326)
Q Consensus 117 ~~iVGWY~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~~ 169 (326)
+.+||||+|.+ .++..|+..|..|+...+..++|+++|. ...+++|+..
T Consensus 75 le~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~----~~~l~afrl~ 127 (173)
T cd08066 75 LITLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK----YNEFGIFRLT 127 (173)
T ss_pred CeeEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC----CcEEeEEEee
Confidence 99999999976 4788999999988877777899999974 4678999876
No 21
>KOG1555|consensus
Probab=98.47 E-value=7.2e-06 Score=77.51 Aligned_cols=131 Identities=15% Similarity=0.232 Sum_probs=103.9
Q ss_pred CCceEEEEehhhHhhHHHHHhHhcccCCCCc-eEEEEE-ee---E-EeCCEEEEEEEEeeccccccc---chhhhHHHHH
Q psy401 34 TGSIHVSLHPLVIMNISEHYTRRRAQEGKPV-QVIGAL-IG---I-QVGRKLEIKNSFELVYNIIED---EMIINRDYYT 104 (326)
Q Consensus 34 ~~~~~V~IHPlVll~I~dH~~R~~~~~~~~~-~viG~L-LG---~-~~~~~veI~nsF~vp~~e~~~---~~~iD~~y~~ 104 (326)
..+.+|.++.++++..++|- |.+ .+. .++|.+ +| . .+..++-|...|+.|....+= .-.+|.-|..
T Consensus 28 ~~~e~v~i~slall~m~rh~-r~~----~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~ 102 (316)
T KOG1555|consen 28 DEKETVYISSLALLKMLRHD-RAG----SPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQT 102 (316)
T ss_pred cCcceeeeehhhhhhccccc-ccC----CchhhccceeecccccceeeecceeeeeeeccccccceecccchhccHHHHH
Confidence 45678999999999999986 332 233 489999 99 3 356788888899999876432 2368999999
Q ss_pred HHHHHHHHhCCCCceeEEEecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCC-CCCCCeeeeeee
Q psy401 105 LKEEQFKQVFCDLDFLGWYTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPI-HSNLPVSVYESI 169 (326)
Q Consensus 105 ~m~~l~k~V~p~~~iVGWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~-~~~lpi~ay~~~ 169 (326)
+|.++.++..-.+.+||||++.+. ++..|+..|+.|+..++..+..++||..+ .|+.-+.+|..+
T Consensus 103 q~~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~~g~vv~d~f~~I 172 (316)
T KOG1555|consen 103 QMMDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSPYGKVVPDAFSSI 172 (316)
T ss_pred HHHHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCCCCCccCChhhhc
Confidence 999999999888999999999874 56788888999998888889999999865 345555577765
No 22
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=98.41 E-value=4.1e-06 Score=74.14 Aligned_cols=106 Identities=16% Similarity=0.280 Sum_probs=74.8
Q ss_pred ehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEe-CCEEEEEEEEeecccccccchhhhHHH--HHHHHHHHHHhCCCCc
Q psy401 42 HPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQV-GRKLEIKNSFELVYNIIEDEMIINRDY--YTLKEEQFKQVFCDLD 118 (326)
Q Consensus 42 HPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~-~~~veI~nsF~vp~~e~~~~~~iD~~y--~~~m~~l~k~V~p~~~ 118 (326)
.+.+..+|.-|..+.. +..|+|.|+|... ++.+.|++++|+.+. ...++... ...+.+.+-+- .++.
T Consensus 2 s~~ay~ki~~HA~k~p-----~~evcGlLlG~~~~~~~~~V~d~vPl~h~----~~~l~P~~Eval~~ve~~~~~-~gl~ 71 (182)
T cd08060 2 STLAYVKMLLHAAKYP-----HCAVNGLLLGKKSSGGSVEITDAVPLFHS----CLALAPMLEVALALVDAYCKS-SGLV 71 (182)
T ss_pred CHHHHHHHHHHHHHcC-----CchheEEEEeeecCCCCEEEEEEEEcCCC----ccccCHHHHHHHHHHHHHHHH-CCCE
Confidence 3567889999998842 4689999999987 788999999999985 24455442 12222223333 4789
Q ss_pred eeEEEecCCCCC-----hhhHHHHHHHHhhCCCceEEEEcCCCC
Q psy401 119 FLGWYTTGDTVN-----ELDIKVHKQICEINESPIFLKLNPHPI 157 (326)
Q Consensus 119 iVGWY~tg~~~~-----~~d~~ih~~~~~~~~~pI~L~vD~~~~ 157 (326)
|||+|++.+... ..-..|-+.+.+.++++++|++|-..-
T Consensus 72 IvG~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l 115 (182)
T cd08060 72 IVGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKL 115 (182)
T ss_pred EEEEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccc
Confidence 999999987543 333345556667778899999997653
No 23
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=98.27 E-value=7.7e-05 Score=66.83 Aligned_cols=122 Identities=16% Similarity=0.258 Sum_probs=85.8
Q ss_pred EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCC--EEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCC
Q psy401 38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGR--KLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFC 115 (326)
Q Consensus 38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~--~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p 115 (326)
+|.+.+.+..+|.=|..+-. ...|.|+|||...++ .|+|++|.|+=|.... ..--.|---.+.+.|-+. .
T Consensus 3 ~v~is~~AY~K~~LHaaKyP-----~~aVnGvLlg~~~~~~~~v~i~DaVPLfH~~~~--L~PmlEvAL~qvd~~~~~-~ 74 (196)
T PF03665_consen 3 SVEISSRAYAKMILHAAKYP-----HCAVNGVLLGKSSKSSSEVEIVDAVPLFHHWLS--LSPMLEVALAQVDAYAKS-N 74 (196)
T ss_pred eEEEcHHHHHHHHHHhccCC-----CCceeeEEEeccCCCCceEEEeeceeccccccC--cchHHHHHHHHHHHHHhh-C
Confidence 58899999999999998864 468999999998643 3999999999995321 222223333445555543 5
Q ss_pred CCceeEEEecCCC-----CChhhHHHHHHHHhhCCCceEEEEcCCCCC---CCCCeeeee
Q psy401 116 DLDFLGWYTTGDT-----VNELDIKVHKQICEINESPIFLKLNPHPIH---SNLPVSVYE 167 (326)
Q Consensus 116 ~~~iVGWY~tg~~-----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~---~~lpi~ay~ 167 (326)
++.|||||+.... ++..-..|-+.+.+.++.+++|++|-..-. +..++.+|.
T Consensus 75 gl~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~~~~~~~~~ 134 (196)
T PF03665_consen 75 GLVIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCKAPAISVYQ 134 (196)
T ss_pred CCEEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccCCCcceeee
Confidence 6999999999763 333334455566677788999999976532 334566776
No 24
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=98.21 E-value=1.8e-05 Score=65.82 Aligned_cols=110 Identities=13% Similarity=0.162 Sum_probs=77.5
Q ss_pred hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccc--cchhhhHHHHHHHHHHHHHhCCCCceeEE
Q psy401 45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE--DEMIINRDYYTLKEEQFKQVFCDLDFLGW 122 (326)
Q Consensus 45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~--~~~~iD~~y~~~m~~l~k~V~p~~~iVGW 122 (326)
++-+|+.|+.+. .+..++|.|+|...+....|+..|++|....+ ..+.+|...+.+..+..++. ++.+|||
T Consensus 3 ~~~~il~ha~~~-----~P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~~~~~~~--g~~~vG~ 75 (128)
T cd08070 3 LLEAILAHAEAE-----YPEECCGLLLGKGGGVTAIVTEVYPVRNVAESPRRRFEIDPAEQLAAQREARER--GLEVVGI 75 (128)
T ss_pred HHHHHHHHHHhC-----CCCceEEEEEeecCCCCceEEEEEEccCCCCCCCceEEECHHHHHHHHHHHHHC--CCeEEEE
Confidence 456788888774 36789999999998766677889999875443 35678887777766666654 5899999
Q ss_pred EecCCC----CChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401 123 YTTGDT----VNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES 168 (326)
Q Consensus 123 Y~tg~~----~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~ 168 (326)
|+|.+. ++..|..... ....++|++..... ...+++|..
T Consensus 76 ~HSHP~~~~~PS~~D~~~~~-----~~~~~~lIv~~~~~--~~~~~~~~~ 118 (128)
T cd08070 76 YHSHPDGPARPSETDLRLAW-----PPGVSYLIVSLAGG--APELRAWRL 118 (128)
T ss_pred EeCCCCCCCCCCHHHHHhcc-----CCCCeEEEEECCCC--CcEEEEEEE
Confidence 999873 4555553221 12357888876533 356888876
No 25
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=98.00 E-value=4.9e-05 Score=63.75 Aligned_cols=100 Identities=20% Similarity=0.290 Sum_probs=63.6
Q ss_pred EEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeeccccc--ccchhhhHHHHHHHHHHHHHhCCCC
Q psy401 40 SLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNII--EDEMIINRDYYTLKEEQFKQVFCDL 117 (326)
Q Consensus 40 ~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~--~~~~~iD~~y~~~m~~l~k~V~p~~ 117 (326)
.+-..++-.|+.|..|.. +..++|.|+|...+ ...|+++.... .....++.++.. ++....+. ++
T Consensus 3 ~i~~~~l~~il~~a~~~~-----p~E~~g~l~~~~~~-----~~~~~~~n~~~~~~~~~~~~~~~~~-~~~~~~~~--g~ 69 (134)
T COG1310 3 VIPKEVLGAILEHARREH-----PREVCGLLAGTREG-----ERYFPLKNVSVEPVEYFEIDPEYSL-FYLAAEDA--GE 69 (134)
T ss_pred eecHHHHHHHHHHHHhcC-----ChheEEEEEeeccc-----ceeeccccccCCcceeEeeCHHHHH-HHHHHhhC--CC
Confidence 456778889999998862 57899999999887 44444444321 122345555554 33333333 39
Q ss_pred ceeEEEecCCC--CChhhHHHHHHHHhhCCCceEEEEcC
Q psy401 118 DFLGWYTTGDT--VNELDIKVHKQICEINESPIFLKLNP 154 (326)
Q Consensus 118 ~iVGWY~tg~~--~~~~d~~ih~~~~~~~~~pI~L~vD~ 154 (326)
.+||||++++. +...+..++ ++++.+.|.+++..+
T Consensus 70 ~vvg~yHSHP~~~~~pS~~D~~--~~~~~~~~~~iv~~~ 106 (134)
T COG1310 70 VVVGWYHSHPGGPPYPSEADRR--LSKLGPLPWLIVSVP 106 (134)
T ss_pred EEEEEEcCCCCCCCCcCHHHHh--hccccCCCEEEEEcC
Confidence 99999999983 344444445 666655555665553
No 26
>KOG3289|consensus
Probab=97.11 E-value=0.011 Score=51.49 Aligned_cols=122 Identities=20% Similarity=0.281 Sum_probs=83.6
Q ss_pred EEEEehhhHhhHHHHHhHhcccCCCCceEEEEEeeE--EeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCC
Q psy401 38 HVSLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGI--QVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFC 115 (326)
Q Consensus 38 ~V~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~--~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p 115 (326)
.|.+..++-.+|+=|+.|-+ ..-|-|.|+|. ..|+.|||++|.++=|+.-. ...-.|-.-.|++-+- +--
T Consensus 3 ~veis~~aY~kmiLH~akyp-----h~aVnGLLla~~~~kg~~v~itdcVPLfH~~la--LaPmlEvAl~lId~~~-~~~ 74 (199)
T KOG3289|consen 3 EVEISALAYVKMILHAAKYP-----HAAVNGLLLAPATGKGECVEITDCVPLFHSHLA--LAPMLEVALNLIDVWG-AQA 74 (199)
T ss_pred ceeehhhHHHHHHHHhccCc-----ccceeeEEEeccCCCCCeEEEEecchhhccccc--cccHHHHHHHHHHHHH-Hhc
Confidence 47788899999999999964 35799999994 46899999999999886421 1222233333444333 235
Q ss_pred CCceeEEEecCCCCCh-----hhHHHHHHHHhhCCCceEEEEcCCC-CC--CCCCeeeee
Q psy401 116 DLDFLGWYTTGDTVNE-----LDIKVHKQICEINESPIFLKLNPHP-IH--SNLPVSVYE 167 (326)
Q Consensus 116 ~~~iVGWY~tg~~~~~-----~d~~ih~~~~~~~~~pI~L~vD~~~-~~--~~lpi~ay~ 167 (326)
.+.|+|.|+....+++ .-..|-..+++++++..+|++|-.. .. ..-|+-+|+
T Consensus 75 GlviaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~~~e~~~v~v~e 134 (199)
T KOG3289|consen 75 GLVIAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVPQCERPPVIVLE 134 (199)
T ss_pred CeEEEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEeccccccccCCCCEEEee
Confidence 7899999999865443 3345666778877776666666543 22 236888888
No 27
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family. This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.
Probab=96.11 E-value=0.084 Score=44.31 Aligned_cols=104 Identities=15% Similarity=0.108 Sum_probs=62.5
Q ss_pred hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccc---cchhhhHHHHHHHHHH-HHHhCCCCcee
Q psy401 45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE---DEMIINRDYYTLKEEQ-FKQVFCDLDFL 120 (326)
Q Consensus 45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~---~~~~iD~~y~~~m~~l-~k~V~p~~~iV 120 (326)
+++.+...|..... .+....|+|+|.+.+..+.|+.+- .|...+- ..+.-+.+.+++.++- +++-+-....|
T Consensus 1 ~v~~~~~~~~Q~~~---~~~EtGGiLiG~~~~~~~ii~~~t-~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~yl 76 (131)
T TIGR02256 1 VVVAMLKSYRQWHD---LSTETGGVLIGERRGAHAVITKIS-EPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYL 76 (131)
T ss_pred CHHHHHHHHHhCcC---CCCccceEEEEEEcCCcEEEEEEE-cCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEE
Confidence 35666777755432 357899999999988888888754 3333211 1244566777766554 44555568999
Q ss_pred EEEecCCC----CChhhHHHHHHHHhhCCCceEEEE
Q psy401 121 GWYTTGDT----VNELDIKVHKQICEINESPIFLKL 152 (326)
Q Consensus 121 GWY~tg~~----~~~~d~~ih~~~~~~~~~pI~L~v 152 (326)
|=++|.+. ++..|..--..+.+..+..+++++
T Consensus 77 GeWHtHP~~~p~PS~~D~~~~~~~~~~~~~~l~iIv 112 (131)
T TIGR02256 77 GEWHTHPEDQPEPSWTDRRSWRTIIRSPEAMLLLIV 112 (131)
T ss_pred EecCcCCCCCCCCCHHHHHHHHHHHhCCCeeEEEEE
Confidence 99999874 445554333333333333334444
No 28
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=95.59 E-value=0.15 Score=40.12 Aligned_cols=73 Identities=18% Similarity=0.205 Sum_probs=44.1
Q ss_pred hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEe
Q psy401 45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYT 124 (326)
Q Consensus 45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~ 124 (326)
++-.|..|..+.. +...+|.|+|...+..+.++........ +....... +....+..+||+|+
T Consensus 4 ~~~~i~~~~~~~~-----p~E~~G~L~g~~~~~~~~~~~~~~~~p~---~~~~~~~~---------~~~~~~~~~vg~~H 66 (104)
T PF14464_consen 4 VLEQIIAHARAAY-----PNEACGLLLGRRDDQRFIVVPNVNPDPR---DSFRRERF---------EARERGLEIVGIWH 66 (104)
T ss_dssp HHHHHHHHHHHHT-----TS-EEEEEEEEEECCEEEEEEEEE--HH---CHHHHHH----------HHHHHT-EEEEEEE
T ss_pred HHHHHHHHHhhCC-----CCeEEEEEEEEecCCEEEEEeCCCCCcH---HHHHHHhh---------hhhcccceeeEEEE
Confidence 4556777776653 6789999999998777777776651111 11111111 44557889999999
Q ss_pred cCC----CCChhhH
Q psy401 125 TGD----TVNELDI 134 (326)
Q Consensus 125 tg~----~~~~~d~ 134 (326)
|.+ .++..|.
T Consensus 67 SHP~~~a~pS~~D~ 80 (104)
T PF14464_consen 67 SHPSGPAFPSSTDI 80 (104)
T ss_dssp EESSSSSS--HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 976 3455554
No 29
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=95.34 E-value=0.07 Score=43.76 Aligned_cols=98 Identities=12% Similarity=0.060 Sum_probs=61.3
Q ss_pred hHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccch-hhhHHHHHHHHHHHHHhCCCCceeEEE
Q psy401 45 VIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEM-IINRDYYTLKEEQFKQVFCDLDFLGWY 123 (326)
Q Consensus 45 Vll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~-~iD~~y~~~m~~l~k~V~p~~~iVGWY 123 (326)
.+-.|.+|..+. .+..+||.|+|... .|++.+.+|....++.. ..+.+ +. -.++.+||-|
T Consensus 5 ~~~~i~~ha~~~-----~P~E~CGlL~G~~~----~v~~~~~~~n~~~~~~~~~f~~~----~~------~~g~~ivgi~ 65 (117)
T cd08072 5 LLDSILEAAKSS-----HPNEFAALLRGKDG----VITELLILPGTESGEVSAVFPLL----ML------PLDMSIVGSV 65 (117)
T ss_pred HHHHHHHHHhhc-----CCceEEEEEEeecc----EEEEEEECCCCCCCCcceeechH----Hh------cCCCeEEEEE
Confidence 445788888765 37899999999764 58888999865433221 12221 11 2478999999
Q ss_pred ecCC----CCChhhHHHHHHHHhhCCCceEEEEcCCCCCCCCCeeeeee
Q psy401 124 TTGD----TVNELDIKVHKQICEINESPIFLKLNPHPIHSNLPVSVYES 168 (326)
Q Consensus 124 ~tg~----~~~~~d~~ih~~~~~~~~~pI~L~vD~~~~~~~lpi~ay~~ 168 (326)
++.+ .++..|+. ++.. ..-.+|++.+.. ..=.+++|..
T Consensus 66 HSHP~~~~~PS~~D~~----~~~~-~~~~~lIvs~~~--~~~~~~a~~~ 107 (117)
T cd08072 66 HSHPSGSPRPSDADLS----FFSK-TGLVHIIVGYPY--DEDDWRAYDS 107 (117)
T ss_pred EcCCCCCCCCCHHHHH----hhhc-CCCEEEEEECcC--CCCCEEEEec
Confidence 9986 35666642 1222 233677776432 1135888875
No 30
>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8. Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor, interacting with several other spliceosomal proteins, snRNAs, and the pre-mRNA, thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins, occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes, but does not show catalytic isopeptidase activity, possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core, thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and t
Probab=94.73 E-value=0.14 Score=47.54 Aligned_cols=99 Identities=19% Similarity=0.249 Sum_probs=66.4
Q ss_pred ceEEEEEeeEEeC---CEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC----CCChhhHHH
Q psy401 64 VQVIGALIGIQVG---RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD----TVNELDIKV 136 (326)
Q Consensus 64 ~~viG~LLG~~~~---~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~i 136 (326)
..++|.|.|.... +.-||+--..+|...+.+.+.+-.+- -.+ +---++..|||=+|.+ .+++.|+..
T Consensus 56 tQ~~GyLyG~~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~~~-----~~~-~~l~~Le~LGWIHTqp~e~~~Lss~Dv~t 129 (252)
T cd08056 56 TQIAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQL-----PQH-EYLEDLEPLGWIHTQPNELPQLSPQDVTT 129 (252)
T ss_pred ceEEEEEeccCCCCCCCeEEEEEEEECCEeCCcCcEECCccC-----ccc-hhhCCCEeeEEEEcCCCCccccCHHHHHH
Confidence 5799999999753 66688877777776554444332110 111 1124689999999975 468899999
Q ss_pred HHHHHhhCC-----CceEEEEcCCCCCCCCCeeeeeeee
Q psy401 137 HKQICEINE-----SPIFLKLNPHPIHSNLPVSVYESII 170 (326)
Q Consensus 137 h~~~~~~~~-----~pI~L~vD~~~~~~~lpi~ay~~~~ 170 (326)
|..++..++ +.|.+++-. +.|...+.||..+.
T Consensus 130 ha~~~~~~~~w~~~~~V~it~Sf--tpGs~sl~ay~LT~ 166 (252)
T cd08056 130 HAKILADNPSWDGEKTVILTCSF--TPGSCSLTAYKLTP 166 (252)
T ss_pred HHHHHHhccccCCCcEEEEEEcC--CCCceEEEEEecCH
Confidence 998887664 345554433 35667899998763
No 31
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains. This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=90.00 E-value=1.5 Score=35.33 Aligned_cols=71 Identities=13% Similarity=0.039 Sum_probs=43.0
Q ss_pred HhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccc-cc-cchhhhH-HHHHHHHHHHHHhCCCCceeEE
Q psy401 46 IMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNI-IE-DEMIINR-DYYTLKEEQFKQVFCDLDFLGW 122 (326)
Q Consensus 46 ll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e-~~-~~~~iD~-~y~~~m~~l~k~V~p~~~iVGW 122 (326)
+-.|.+|..+. .+...||.|+|... ++..|++.... +. ..+.+|. ++++.+ ....|||.
T Consensus 3 ~~~i~~ha~~~-----~P~E~CGll~g~~~-----~~~~~p~~N~~~~p~~~F~idp~e~~~a~--------~~~~ivgi 64 (108)
T cd08073 3 EDAILAHAKAE-----YPREACGLVVRKGR-----KLRYIPCRNIAADPEEHFEISPEDYAAAE--------DEGEIVAV 64 (108)
T ss_pred HHHHHHHHhHC-----CCCcceEEEEecCC-----ceEEEECccCCCCccceEEeCHHHHHHHh--------cCCCEEEE
Confidence 34677888664 36789999999662 23335554221 11 3466775 343322 22389999
Q ss_pred EecCC----CCChhhH
Q psy401 123 YTTGD----TVNELDI 134 (326)
Q Consensus 123 Y~tg~----~~~~~d~ 134 (326)
|++.+ .++..|.
T Consensus 65 ~HSHP~~~a~PS~~D~ 80 (108)
T cd08073 65 VHSHPDGSPAPSEADR 80 (108)
T ss_pred EEcCCCCCCCCCHHHH
Confidence 99986 3566665
No 32
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain. Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=82.76 E-value=12 Score=35.39 Aligned_cols=105 Identities=14% Similarity=0.091 Sum_probs=67.4
Q ss_pred CceEEEEEeeEEeC-------CEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC--------
Q psy401 63 PVQVIGALIGIQVG-------RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD-------- 127 (326)
Q Consensus 63 ~~~viG~LLG~~~~-------~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~-------- 127 (326)
...-+|.|.|+... .++.|.--||=|...+.+.+.+..+-.+...+... ..-.+..|||=-|..
T Consensus 33 ~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~d~~~~~vd~iA-~~lGL~~VG~IfT~l~~~~~d~~ 111 (274)
T cd08061 33 GQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLEDPNADTVDAIA-AALGLERVGWIFTDLPREDKDGY 111 (274)
T ss_pred cceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEccchhhhHHHHHH-HHcCCeEEEEEEecCCCCCCCce
Confidence 35789999999863 47899999998887666655544433333333332 335799999988864
Q ss_pred CCChhhHHHHHHHHh-----hCCCc-eEEEEcCCCCCCCCCeeeeeee
Q psy401 128 TVNELDIKVHKQICE-----INESP-IFLKLNPHPIHSNLPVSVYESI 169 (326)
Q Consensus 128 ~~~~~d~~ih~~~~~-----~~~~p-I~L~vD~~~~~~~lpi~ay~~~ 169 (326)
.++..++.....++. ..++. +-+++.+..+ +...+.+|..+
T Consensus 112 ~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~~-g~i~~~ayQvS 158 (274)
T cd08061 112 FLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDKD-GQIHFEAYQVS 158 (274)
T ss_pred eECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCCC-Cceeeeeeeec
Confidence 234555555555652 23343 4466666543 66888899865
No 33
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=82.20 E-value=6.8 Score=30.63 Aligned_cols=70 Identities=14% Similarity=0.153 Sum_probs=43.2
Q ss_pred hHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC
Q psy401 48 NISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD 127 (326)
Q Consensus 48 ~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~ 127 (326)
.|.+|+.+. .+...+|+|+|...+ .+.+..++|... ...+..+ ......-+..+||.|++.+
T Consensus 5 ~i~~~~~~~-----~p~E~~gll~~~~~~---~~~~~~~~~~~~----~~~~~~~------~~~a~~~~~~~v~i~HsHP 66 (101)
T cd08059 5 TILVHAKDA-----HPDEFCGFLSGSKDN---VMDELIFLPFVS----GSVSAVI------DLAALEIGMKVVGLVHSHP 66 (101)
T ss_pred HHHHHHHhc-----CChhhheeeecCCCC---eEEEEEeCCCcC----CccChHH------HHHHhhCCCcEEEEEecCc
Confidence 345555443 256799999997654 567777777432 2233332 2222334678999999976
Q ss_pred ----CCChhhHH
Q psy401 128 ----TVNELDIK 135 (326)
Q Consensus 128 ----~~~~~d~~ 135 (326)
.++..|..
T Consensus 67 ~g~~~PS~~D~~ 78 (101)
T cd08059 67 SGSCRPSEADLS 78 (101)
T ss_pred CCCCCCCHHHHH
Confidence 46677764
No 34
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=75.42 E-value=14 Score=36.28 Aligned_cols=61 Identities=18% Similarity=0.240 Sum_probs=48.8
Q ss_pred EEEeeEE-eCCEEEEEEEEeecccccccc-----------hhhhHHHHHHHHHHHHHhCC-CCceeEEEecCCC
Q psy401 68 GALIGIQ-VGRKLEIKNSFELVYNIIEDE-----------MIINRDYYTLKEEQFKQVFC-DLDFLGWYTTGDT 128 (326)
Q Consensus 68 G~LLG~~-~~~~veI~nsF~vp~~e~~~~-----------~~iD~~y~~~m~~l~k~V~p-~~~iVGWY~tg~~ 128 (326)
|.|+|.. +++.--|..-.+.|..+++++ -.+|.++..+--.+-.+--| ...|||.|..++.
T Consensus 1 GLlIGq~~s~~kd~Vv~l~~tP~~d~~~~~~~~~~~~~~~~~id~~WVaeHA~qVsRMLPGGi~VlGifvv~~~ 74 (362)
T PF14778_consen 1 GLLIGQSSSSQKDYVVHLARTPPEDTDDEESDVRTSDSSIKDIDEEWVAEHARQVSRMLPGGISVLGIFVVAPD 74 (362)
T ss_pred CeEeccccCCCcceEEEecCCCCccccccccccccccccccccCHHHHHHHHHHHHhhCCCCcEEEEEEEEcCH
Confidence 8999999 666678888888898765444 14899999888888888888 5899999998853
No 35
>PF06442 DHFR_2: R67 dihydrofolate reductase; InterPro: IPR009159 Dihydrofolate reductase (DHFR) (1.5.1.3 from EC) catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate, an essential step in de novo synthesis both of glycine and of purines and deoxythymidine phosphate (the precursors of DNA synthesis) [], and important also in the conversion of deoxyuridine monophosphate to deoxythymidine monophosphate. Although DHFR is found ubiquitously in prokaryotes and eukaryotes, and is found in all dividing cells, maintaining levels of fully reduced folate coenzymes, the catabolic steps are still not well understood []. Bacterial species possesses distinct DHFR enzymes (based on their pattern of binding diaminoheterocyclic molecules), but mammalian DHFRs are highly similar []. The active site is situated in the N-terminal half of the sequence, which includes a conserved Pro-Trp dipeptide; the tryptophan has been shown [] to be involved in the binding of substrate by the enzyme. Its central role in DNA precursor synthesis, coupled with its inhibition by antagonists such as trimethoprim and methotrexate, which are used as anti-bacterial or anti-cancer agents, has made DHFR a target of anticancer chemotherapy. However, resistance has developed against some drugs, as a result of changes in DHFR itself []. This entry represents a plasmid-encoded DHFR which shows a high level of resistance to the antibiotic trimethoprim. It is a homotetramer with an unusual pore, which contains the active site, passing through the middle of the molecule []. Its structure is unrelated to that of chromosomal DHFRs.; GO: 0004146 dihydrofolate reductase activity, 0042493 response to drug, 0055114 oxidation-reduction process; PDB: 1VIF_A 3SFM_A 2P4T_A 2GQV_A 2RK2_A 2RH2_A 2RK1_A 1VIE_A.
Probab=67.70 E-value=2.7 Score=30.80 Aligned_cols=13 Identities=38% Similarity=0.631 Sum_probs=7.6
Q ss_pred CceeEEEecCCCC
Q psy401 117 LDFLGWYTTGDTV 129 (326)
Q Consensus 117 ~~iVGWY~tg~~~ 129 (326)
-.|||||+|.-.+
T Consensus 40 g~vvgwy~t~ltp 52 (78)
T PF06442_consen 40 GQVVGWYCTKLTP 52 (78)
T ss_dssp EEEEEEE--SS-S
T ss_pred ceEeEEEeccccc
Confidence 4799999986433
No 36
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].
Probab=63.30 E-value=72 Score=30.66 Aligned_cols=60 Identities=18% Similarity=0.158 Sum_probs=39.9
Q ss_pred EEEEeeEEeC-------CEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC
Q psy401 67 IGALIGIQVG-------RKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD 127 (326)
Q Consensus 67 iG~LLG~~~~-------~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~ 127 (326)
+|.|.|+.+. -++.|.--||=|...+.+.+.+..+-.++..+...+ .-.+..|||=-|..
T Consensus 2 ~G~LYG~Y~~~~~vplGika~VeaIYEPpQ~~~~d~~~l~~d~~~~~vd~iA~-~lGL~rVG~IfTdl 68 (306)
T PF05021_consen 2 FGFLYGRYEEYDDVPLGIKAVVEAIYEPPQEGEPDGFTLLPDENEERVDAIAS-ALGLERVGWIFTDL 68 (306)
T ss_pred eEEEEEEEeccCCCCCceEEEEEEEECCCcCCCCCCEEEcCCccHHHHHHHHH-HCCCEEEEEEEecC
Confidence 7999999862 378999999999877666665532223333333222 23899999987753
No 37
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=56.75 E-value=94 Score=24.31 Aligned_cols=85 Identities=15% Similarity=0.323 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCH-HHHHHHHHHHhcCCCCChhHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q psy401 220 TAQYNAIKMLHVRIKILLDYLKEVESGTLPVNH-DILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCN 298 (326)
Q Consensus 220 ~~~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~-~ilR~i~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~ 298 (326)
....+.+......+..+-+-|.....|+...+. +++..+.+.|..+. +.+.+.+....+|- +|+.+...-.
T Consensus 7 ~k~~~~l~~v~~~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r----~~i~~li~~~~dee----~l~~lL~~ND 78 (100)
T PF03127_consen 7 SKRRSELEKVKNNAKLLNEMLDNYDPGEESSSDNELIQELYESCKSMR----PRIQRLIEEVEDEE----LLGELLQAND 78 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHH----HHHHHHHHTSTTCH----HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHH----HHHHHHHhhcCcHH----HHHHHHHHHH
Confidence 334566777777777777777787777755443 78888888887763 23334443332332 6777778888
Q ss_pred HHHHHHHHhhhhhc
Q psy401 299 DLNQFVNKFNVLFD 312 (326)
Q Consensus 299 ~l~~~~~k~~~~~~ 312 (326)
.|+..+.+|..+..
T Consensus 79 ~L~~~l~~Y~~l~~ 92 (100)
T PF03127_consen 79 ELNQALERYDRLVK 92 (100)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHc
Confidence 89999999988765
No 38
>TIGR03735 PRTRC_A PRTRC system protein A. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated protein A.
Probab=55.20 E-value=40 Score=30.15 Aligned_cols=77 Identities=12% Similarity=-0.025 Sum_probs=49.7
Q ss_pred EEehhhHhhHHHHHhHhcccCCCCceEEEEEeeEEeCCEEEEEEEEeecccccc-cchhhhHHHHHHHHHHHHHhCCCCc
Q psy401 40 SLHPLVIMNISEHYTRRRAQEGKPVQVIGALIGIQVGRKLEIKNSFELVYNIIE-DEMIINRDYYTLKEEQFKQVFCDLD 118 (326)
Q Consensus 40 ~IHPlVll~I~dH~~R~~~~~~~~~~viG~LLG~~~~~~veI~nsF~vp~~e~~-~~~~iD~~y~~~m~~l~k~V~p~~~ 118 (326)
.|-.-.+=.|+.|+.+. .+..++|.|.|..+++.. ..+++...+.+ +.+..|.. |. ..++.
T Consensus 74 ~Ip~~l~~~ii~hAr~~-----~P~EacG~Iag~~~~~~~---r~~p~~N~~~Sp~~~~~d~~----~~------~~ge~ 135 (192)
T TIGR03735 74 PIPASLLEEFAEAARAA-----LPNEVAAWIVWNSETGSL---RLAALESIEASPGHIDYRRP----RL------DDGEH 135 (192)
T ss_pred CCCHHHHHHHHHHHHhc-----CCcceEEEEEEcCCCCEE---EEEeccccccCCceEEEcch----HH------hCCCe
Confidence 34555677888988775 367899999998555554 33666544322 22344433 22 67899
Q ss_pred eeEEEecCCC----CChhhH
Q psy401 119 FLGWYTTGDT----VNELDI 134 (326)
Q Consensus 119 iVGWY~tg~~----~~~~d~ 134 (326)
+|+-|++.+. ++..|.
T Consensus 136 lV~iyHSH~~spA~PS~tD~ 155 (192)
T TIGR03735 136 LVVDLHSHGTGSAFFSETDD 155 (192)
T ss_pred EEEEEcCCCCCCCCCCcccc
Confidence 9999999863 455554
No 39
>KOG2880|consensus
Probab=54.20 E-value=5.5 Score=38.77 Aligned_cols=91 Identities=18% Similarity=0.124 Sum_probs=58.2
Q ss_pred CceEEEEEeeEEeCCEEEEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCceeEEEecCC----CCChhhHHHHH
Q psy401 63 PVQVIGALIGIQVGRKLEIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDFLGWYTTGD----TVNELDIKVHK 138 (326)
Q Consensus 63 ~~~viG~LLG~~~~~~veI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~iVGWY~tg~----~~~~~d~~ih~ 138 (326)
+-..||+|-|.-..+..-||.- -+|..+...+ ..+..--++.++- +---++-.+||-+|.+ .+++-|+..|-
T Consensus 275 nlETCGiL~g~L~~n~f~IThl-iiPkQeatsd-~C~t~neeelF~v--Qdq~~L~tlGWIHTHPTQt~FmSSVDlHTHc 350 (424)
T KOG2880|consen 275 NLETCGILAGKLERNEFYITHL-IIPKQEATSD-SCNTMNEEELFEV--QDQHELLTLGWIHTHPTQTCFMSSVDLHTHC 350 (424)
T ss_pred cchHHHHhhhHhhcCcEEEEEE-EeecccCCCc-cccccCHHHHhee--cccccceeeeeeecCCccchhheeccccccc
Confidence 3478999999999999999865 4565543211 1111111111110 1113578899999987 45677877777
Q ss_pred HHHhhCCCceEEEEcCCCC
Q psy401 139 QICEINESPIFLKLNPHPI 157 (326)
Q Consensus 139 ~~~~~~~~pI~L~vD~~~~ 157 (326)
.|+-..+.+|+++.-|...
T Consensus 351 SYQiMlPEAiAIV~aPk~~ 369 (424)
T KOG2880|consen 351 SYQIMLPEAIAIVCAPKSK 369 (424)
T ss_pred eeeeecchheeEEeccccC
Confidence 7776667778888888754
No 40
>KOG2834|consensus
Probab=35.85 E-value=47 Score=33.58 Aligned_cols=76 Identities=18% Similarity=0.196 Sum_probs=49.8
Q ss_pred hhHHHHHhHhcccCCCCceEEEEEeeEEe-CCEE------EEEEEEeecccccccchhhhHHHHHHHHHHHHHhCCCCce
Q psy401 47 MNISEHYTRRRAQEGKPVQVIGALIGIQV-GRKL------EIKNSFELVYNIIEDEMIINRDYYTLKEEQFKQVFCDLDF 119 (326)
Q Consensus 47 l~I~dH~~R~~~~~~~~~~viG~LLG~~~-~~~v------eI~nsF~vp~~e~~~~~~iD~~y~~~m~~l~k~V~p~~~i 119 (326)
-+|.+||.+.+... ...-+|-|.|... .+.| +|--=||=|....+|.+.+.++=-.++++.-. ..-.+..
T Consensus 182 ~~~v~~Fl~~wr~s--g~QR~GflyG~y~e~~~vPLGika~V~aIYEPPQ~~~~dgl~l~~~~e~~~vD~~a-~~lGLrR 258 (510)
T KOG2834|consen 182 AELVNHFLNEWRAS--GVQRFGFLYGRYTEHGNVPLGIKAVVAAIYEPPQHGEEDGLELLEDDEAKRVDAIA-EGLGLRR 258 (510)
T ss_pred hHHHHHHHHHHHHh--hhhhcceEEEeecccccccccceeeEEEEecCCccCCcCCeEEeccchhhhHHHHH-HhcCcee
Confidence 47888998876643 2567999999985 3555 88888998887666666555222222222211 2356899
Q ss_pred eEEEec
Q psy401 120 LGWYTT 125 (326)
Q Consensus 120 VGWY~t 125 (326)
|||--|
T Consensus 259 VG~IFT 264 (510)
T KOG2834|consen 259 VGWIFT 264 (510)
T ss_pred eEEEEe
Confidence 999765
No 41
>PF14071 YlbD_coat: Putative coat protein
Probab=33.74 E-value=85 Score=26.12 Aligned_cols=37 Identities=14% Similarity=0.110 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcc
Q psy401 288 TYLGTITKGCNDLNQFVNKFNVLFDKQMLGRKLRGIL 324 (326)
Q Consensus 288 ~yLa~ltk~~~~l~~~~~k~~~~~~~~~~~~~~~~~~ 324 (326)
.+|+++++...+++.++.+|.--......++.-.||.
T Consensus 84 ~hl~~~sqai~~vQ~~l~qFq~~~~~~~~~~~~~PFs 120 (124)
T PF14071_consen 84 KHLNNVSQAIGSVQQVLSQFQGNGQKQSQRSPEHPFS 120 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCc
Confidence 5788999999999999999987655443333334543
No 42
>cd07604 BAR_ASAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ASAPs (ArfGAP with SH3 domain, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) with similarity to ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins) in that they contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and ankyrin (ANK) repeats. However, ASAPs contain an additional C-terminal SH3 domain. ASAPs function in regulating cell growth, migration, and invasion. Vertebrates contain at least three members, ASAP1, ASAP2, and ASAP3. ASAP1 and ASAP2 shows GTPase activating protein (GAP) activity towards Arf1 and Arf5. They do not show GAP activity towards Arf6, but is able to mediate
Probab=33.23 E-value=2.9e+02 Score=25.04 Aligned_cols=57 Identities=14% Similarity=0.191 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHhcCCCCChhHHHHHHHhhhhhHHHHHHHHHHHHH-HHHHH-HHHHHhhhh
Q psy401 251 NHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKG-CNDLN-QFVNKFNVL 310 (326)
Q Consensus 251 d~~ilR~i~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLa~ltk~-~~~l~-~~~~k~~~~ 310 (326)
|++|+..+...-..+--+ .++.+.+..+.+++++ .-|-++.|. ..... ++-++|.-.
T Consensus 58 ~~~i~~~l~kF~~~l~El--~~~~~~L~~~~~~~i~-~pL~~f~k~dL~~~k~e~KK~fdK~ 116 (215)
T cd07604 58 EEDLGAAFLKFSVFTKEL--AALFKNLMQNLNNIIM-FPLDSLLKGDLKGSKGDLKKPFDKA 116 (215)
T ss_pred cHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH-HHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 345666555544443333 3566777778777765 456666666 33333 555555543
No 43
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=32.79 E-value=3.3e+02 Score=23.69 Aligned_cols=45 Identities=22% Similarity=0.330 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc-CCCCCCHHHHH-HHHHHHh
Q psy401 219 LTAQYNAIKMLHVRIKILLDYLKEVES-GTLPVNHDILR-ELNALRH 263 (326)
Q Consensus 219 l~~~~~ai~~L~~~i~~i~~Yl~~V~~-G~~~~d~~ilR-~i~~lv~ 263 (326)
+.....++..+...+..+.+|...|.. +..-.|.+++. .|..-+.
T Consensus 63 l~~~~~~~~~~~~~l~~~~~~~~~vd~~~~a~i~e~~L~~el~~~l~ 109 (204)
T PF04740_consen 63 LQGLILLLEEYQEALKFIKDFQSEVDSSSNAIIDEDFLESELKKKLN 109 (204)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHcccccccccHHHHHHHHHHHHH
Confidence 456677888888888888888888853 33345666666 5533333
No 44
>COG1561 Uncharacterized stress-induced protein [Function unknown]
Probab=26.91 E-value=3.7e+02 Score=25.67 Aligned_cols=67 Identities=16% Similarity=0.281 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhcCCCCChhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q psy401 222 QYNAIKMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRHRLPVLDNPAFKTDFYTQCNDVALITYLGTITKGCNDLN 301 (326)
Q Consensus 222 ~~~ai~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~~lP~~~~~~f~~~~~~~~~D~lmv~yLa~ltk~~~~l~ 301 (326)
+..-+..|...|....+-|++ |. .+||+| +-+-++||.+.|-+.-=+--+.+|+....|.
T Consensus 217 I~EEldRL~sHv~~~~~iL~~---~g-----~vGRkL------------DFl~QE~nREaNTl~SKS~~~~it~~~vElK 276 (290)
T COG1561 217 IAEELDRLKSHVKEFRNILEK---GG-----PVGRKL------------DFLMQEFNREANTLGSKSNAAEITAAVVELK 276 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHhc---CC-----ccchhH------------HHHHHHHhHHHHhhhhccchHHHHHHHHHHH
Confidence 344455666666666555533 32 478877 3445777777777766667788999999999
Q ss_pred HHHHHhh
Q psy401 302 QFVNKFN 308 (326)
Q Consensus 302 ~~~~k~~ 308 (326)
.+++||.
T Consensus 277 ~~IEqmR 283 (290)
T COG1561 277 VLIEQMR 283 (290)
T ss_pred HHHHHHH
Confidence 9999985
No 45
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=24.87 E-value=97 Score=19.40 Aligned_cols=17 Identities=24% Similarity=0.495 Sum_probs=13.8
Q ss_pred CCHHHHHHHHHHHhcCC
Q psy401 250 VNHDILRELNALRHRLP 266 (326)
Q Consensus 250 ~d~~ilR~i~~lv~~lP 266 (326)
...+|...+.+.|+.+|
T Consensus 23 t~~~I~~~l~~~C~~lP 39 (39)
T PF05184_consen 23 TEEEIKKALEKACNKLP 39 (39)
T ss_dssp HHHHHHHHHHHHHTTSC
T ss_pred cHHHHHHHHHHHHhhCc
Confidence 45788888888888887
No 46
>PF07097 DUF1359: Protein of unknown function (DUF1359); InterPro: IPR010772 This family consists of several hypothetical bacterial and phage proteins of around 100 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this species. The function of this family is unknown.
Probab=23.55 E-value=2.5e+02 Score=21.91 Aligned_cols=22 Identities=9% Similarity=0.197 Sum_probs=16.0
Q ss_pred HHHhhcCCCCCCHHHHHHHHHH
Q psy401 240 LKEVESGTLPVNHDILRELNAL 261 (326)
Q Consensus 240 l~~V~~G~~~~d~~ilR~i~~l 261 (326)
+++..+|.++.|...+-.+-+-
T Consensus 39 ~D~~k~~~i~~~~Kf~~~L~~~ 60 (102)
T PF07097_consen 39 LDDLKNNHIKKDTKFELNLGDR 60 (102)
T ss_pred HHHHhcCCCCCcchhceecccc
Confidence 4556679999988887776633
No 47
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=21.86 E-value=1.9e+02 Score=19.27 Aligned_cols=37 Identities=19% Similarity=0.238 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHh
Q psy401 227 KMLHVRIKILLDYLKEVESGTLPVNHDILRELNALRH 263 (326)
Q Consensus 227 ~~L~~~i~~i~~Yl~~V~~G~~~~d~~ilR~i~~lv~ 263 (326)
+.|-+++..=..++.+..+|+..++.+.+.+|...+.
T Consensus 13 ~~la~~~gis~~~i~~~~~g~~~~~~~~~~~ia~~l~ 49 (55)
T PF01381_consen 13 KELAEKLGISRSTISRIENGKRNPSLDTLKKIAKALG 49 (55)
T ss_dssp HHHHHHHTS-HHHHHHHHTTSSTSBHHHHHHHHHHHT
T ss_pred HHHHHHhCCCcchhHHHhcCCCCCCHHHHHHHHHHHC
Confidence 4555666666677788888998999999999998876
Done!