Query 024781
Match_columns 262
No_of_seqs 132 out of 700
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 07:22:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024781.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024781hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2975 Translation initiation 100.0 2.7E-57 5.8E-62 397.6 19.9 220 41-261 2-226 (288)
2 PLN03246 26S proteasome regula 100.0 3.7E-52 8E-57 381.2 24.4 205 56-261 2-216 (303)
3 cd08062 MPN_RPN7_8 Mpr1p, Pad1 100.0 1.8E-51 3.9E-56 373.6 23.7 200 61-261 2-210 (280)
4 cd08064 MPN_eIF3f Mpr1p, Pad1p 100.0 2.7E-51 5.8E-56 370.2 23.4 199 62-261 1-206 (265)
5 cd08063 MPN_CSN6 Mpr1p, Pad1p 100.0 4.9E-50 1.1E-54 366.0 20.1 200 60-261 1-214 (288)
6 KOG1556 26S proteasome regulat 100.0 2.4E-46 5.2E-51 325.8 18.4 205 56-261 5-218 (309)
7 KOG3050 COP9 signalosome, subu 100.0 5E-43 1.1E-47 304.6 14.2 206 54-261 3-219 (299)
8 cd08057 MPN_euk_non_mb Mpr1p, 100.0 2.9E-40 6.2E-45 276.7 15.9 150 62-219 1-157 (157)
9 cd08065 MPN_eIF3h Mpr1p, Pad1p 100.0 4.8E-35 1E-39 264.5 21.8 196 61-259 2-226 (266)
10 cd08069 MPN_RPN11_CSN5 Mov34/M 100.0 6.1E-29 1.3E-33 224.9 21.9 167 57-226 7-202 (268)
11 PF01398 JAB: JAB1/Mov34/MPN/P 99.9 1.5E-26 3.3E-31 183.2 9.9 107 58-167 2-114 (114)
12 KOG1560 Translation initiation 99.9 3.2E-24 7E-29 190.3 14.0 168 56-224 9-203 (339)
13 smart00232 JAB_MPN JAB/MPN dom 99.9 2.8E-22 6.2E-27 161.5 14.6 128 61-191 1-134 (135)
14 KOG1554 COP9 signalosome, subu 99.8 2.1E-20 4.5E-25 166.6 13.7 195 58-256 51-280 (347)
15 cd07767 MPN Mpr1p, Pad1p N-ter 99.7 4.7E-16 1E-20 122.3 11.9 111 70-187 2-116 (116)
16 cd08067 MPN_2A_DUB Mov34/MPN/P 99.6 9.1E-15 2E-19 126.0 15.3 146 59-213 4-164 (187)
17 cd08058 MPN_euk_mb Mpr1p, Pad1 99.6 1.9E-14 4.1E-19 115.1 10.8 110 68-190 2-119 (119)
18 cd08068 MPN_BRCC36 Mov34/MPN/P 99.3 3.4E-10 7.4E-15 101.1 20.8 148 60-212 2-169 (244)
19 cd08066 MPN_AMSH_like Mov34/MP 99.1 3.3E-09 7.1E-14 90.5 14.5 124 61-194 3-132 (173)
20 KOG1555 26S proteasome regulat 99.1 3.3E-09 7.2E-14 97.2 13.8 135 56-192 27-174 (316)
21 cd08070 MPN_like Mpr1p, Pad1p 98.5 4.2E-06 9.2E-11 67.5 13.9 113 68-190 3-119 (128)
22 cd08060 MPN_UPF0172 Mov34/MPN/ 98.5 2.5E-06 5.5E-11 73.3 13.1 118 65-190 2-130 (182)
23 PF03665 UPF0172: Uncharacteri 98.4 4.9E-06 1.1E-10 72.4 12.9 123 61-189 3-135 (196)
24 COG1310 Predicted metal-depend 98.2 1.7E-05 3.7E-10 64.5 10.6 100 62-174 2-105 (134)
25 PF13012 MitMem_reg: Maintenan 97.7 1.4E-05 3E-10 63.2 1.4 48 213-260 1-52 (115)
26 KOG3289 Uncharacterized conser 97.7 0.0011 2.3E-08 56.5 12.2 124 61-189 3-135 (199)
27 cd08056 MPN_PRP8 Mpr1p, Pad1p 96.9 0.006 1.3E-07 55.0 8.9 102 84-194 56-169 (252)
28 TIGR02256 ICE_VC0181 integrati 96.8 0.03 6.4E-07 45.8 11.7 80 68-149 1-84 (131)
29 cd08072 MPN_archaeal Mov34/MPN 96.7 0.045 9.8E-07 43.6 11.6 99 68-190 5-108 (117)
30 PF14464 Prok-JAB: Prokaryotic 96.3 0.031 6.8E-07 42.7 8.6 91 68-174 4-95 (104)
31 cd08073 MPN_NLPC_P60 Mpr1p, Pa 90.1 3.4 7.4E-05 32.3 9.1 65 69-149 3-70 (108)
32 cd08061 MPN_NPL4 Mov34/MPN/PAD 89.3 4.3 9.4E-05 37.2 10.3 108 84-193 34-161 (274)
33 PF05021 NPL4: NPL4 family; I 87.7 6.2 0.00014 36.7 10.4 105 87-193 2-144 (306)
34 cd08059 MPN_prok_mb Mpr1p, Pad 85.5 4 8.7E-05 31.0 6.8 63 71-149 5-67 (101)
35 KOG2880 SMAD6 interacting prot 81.0 3 6.4E-05 39.6 5.1 100 83-194 275-382 (424)
36 PF14778 ODR4-like: Olfactory 73.7 23 0.00049 33.6 9.0 100 88-189 1-127 (362)
37 PF06442 DHFR_2: R67 dihydrofo 72.7 1.9 4E-05 31.0 1.0 12 137-148 39-50 (78)
38 TIGR03735 PRTRC_A PRTRC system 67.1 30 0.00066 30.1 7.5 71 63-149 74-145 (192)
39 KOG2834 Nuclear pore complex, 44.7 34 0.00073 33.7 4.4 74 70-144 182-262 (510)
40 KOG1795 U5 snRNP spliceosome s 38.4 58 0.0012 36.3 5.3 117 70-195 2101-2225(2321)
41 PF13824 zf-Mss51: Zinc-finger 21.8 58 0.0013 22.6 1.4 26 113-138 27-52 (55)
42 KOG0130 RNA-binding protein RB 21.3 1.2E+02 0.0026 25.3 3.3 42 134-175 64-108 (170)
43 PF07620 SLEI_Leptospira: SLEI 20.6 76 0.0016 16.5 1.3 11 95-105 5-15 (16)
No 1
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-57 Score=397.55 Aligned_cols=220 Identities=46% Similarity=0.784 Sum_probs=209.2
Q ss_pred cccccceeeecCCCCCCCCcEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeec
Q 024781 41 AASDRTVLQFGPSSAATSNVTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALD 120 (262)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD 120 (262)
+..+..+.+.+.|++.++..+|.|||+|+|+|+|+|.||.+++.||||+|||+ .++|.|||||||++||+|.++++.+|
T Consensus 2 ~~~~~~v~~~~~~~~~ss~ltv~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~-~~~g~ieitNCFaVPhnEssdqvevd 80 (288)
T KOG2975|consen 2 QTPAPHVPGPALPSPFSSNLTVRLHPVVLFSIVDAYERRNKGAERVIGTLLGT-VDKGSVEVTNCFAVPHNESSDQVEVD 80 (288)
T ss_pred CCCcCcCCCcCCCCCCCCCceEEEcceEEeEeehhhhcCCccchhhhhheeec-ccCCeEEEEEeeeccCccccccceee
Confidence 44555677778888899999999999999999999999999999999999999 78999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhCCCCcEEEeecCCCCCCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEeeeeccCCcccc
Q 024781 121 IEYHHTMLKSHLKVNPQEVIVGWFSTGLGVTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSVNLSLGDRQLA 200 (262)
Q Consensus 121 ~~y~~~m~~l~kkV~p~e~vVGWY~t~~~~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~~~~~~~~~~~ 200 (262)
++|...|+++|+|+||+|.|||||+||++++.+++.||++|.+++++||||+||++.+++.+++|||.+++.|+++++.+
T Consensus 81 m~y~~~M~~l~~k~npnE~vvGWyaTg~dvt~~sslihdyYare~~~pvhLtVDT~~~n~rm~ikaYvss~~Gvpg~~~~ 160 (288)
T KOG2975|consen 81 MEYAKNMYELHKKVNPNELVVGWYATGHDVTEHSSLIHDYYAREAPNPVHLTVDTSLQNGRMSIKAYVSSLMGVPGRTMG 160 (288)
T ss_pred HHHHHHHHHHhcccCCCceeEEEEecCCCcccchhHHHHHhhccCCCCeEEEEeccccCCccceeEEEEeccCCCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceEEeeeEEecchhhHHHHHHhhccCCC-----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 201 AQFQEIPLDLRMIEAERVGFDILKSTSVD-----KLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 201 ~~F~~ip~~I~~~e~E~i~l~~l~k~~~~-----~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
..|.|+|++|.+.|+||+|++.|.|++.+ .+..+|+++..|..+|+++++++++|+++|++
T Consensus 161 ~mF~plpvel~~~~~ervgl~li~kt~~sp~r~~~l~~dLqQv~~at~~l~~~L~~Vl~YVedVl~ 226 (288)
T KOG2975|consen 161 VMFTPLPVELAYYDAERVGLDLIEKTSFSPSRVAGLSSDLQQVEGATARLQSLLERVLKYVEDVLA 226 (288)
T ss_pred eeeeeeeeEEeecchhhhHHHHHHHhccChhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 99999999999999999999999998743 47889999999999999999999999999975
No 2
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=100.00 E-value=3.7e-52 Score=381.18 Aligned_cols=205 Identities=31% Similarity=0.481 Sum_probs=186.6
Q ss_pred CCCCcEEEEehhhHhHHHHHHhhcCCC-CceEEEEeeeeEecCCeEEEEeeeecccCCCCcc---eeecHHHHHHHHHHH
Q 024781 56 ATSNVTAKVHPLVIFNICDCYVRRPDQ-AERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQ---VALDIEYHHTMLKSH 131 (262)
Q Consensus 56 ~~~~~~V~VhPlVll~I~dH~~R~~~~-~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~---~~iD~~y~~~m~~l~ 131 (262)
.++..+|.|||+|||+|+|||+|+..+ +.+|+|+|||. +.++.|||+|||++|+++++++ |++|.+|+++|+++|
T Consensus 2 ~~~~~~V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~-~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~ 80 (303)
T PLN03246 2 PRGIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGS-SFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMF 80 (303)
T ss_pred CCCCcEEEECcHHHHHHHHHHHhccCCCCCeeEEEEEee-ecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHH
Confidence 356779999999999999999999765 68999999999 7889999999999999876554 789999999999999
Q ss_pred hhhCCCCcEEEeecCCCCCCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEeeeeccCCcc--cccceEEeeeE
Q 024781 132 LKVNPQEVIVGWFSTGLGVTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSVNLSLGDRQ--LAAQFQEIPLD 209 (262)
Q Consensus 132 kkV~p~e~vVGWY~t~~~~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~~~~~~~~~--~~~~F~~ip~~ 209 (262)
++|||++.+||||+||++++++|+.||++|++++++||||++|+...++++|++||++.+.+.++++ .+..|+++|++
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 9999999999999999999999999999999999999999999988888899999999988776443 45789999999
Q ss_pred EecchhhHHHHHHhhccCCC----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 210 LRMIEAERVGFDILKSTSVD----KLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 210 I~~~e~E~i~l~~l~k~~~~----~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
|.++|+||||++|+++...+ .+..+|.++.+|+++|.+||+.|++||++|.+
T Consensus 161 i~~~EaE~Igve~l~r~~~~~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~ 216 (303)
T PLN03246 161 IGAHEAEEIGVEHLLRDVKDTTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVE 216 (303)
T ss_pred eeecCHHHHHHHHHHhcccCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999985543 35568999999999999999999999999975
No 3
>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=1.8e-51 Score=373.61 Aligned_cols=200 Identities=32% Similarity=0.491 Sum_probs=184.3
Q ss_pred EEEEehhhHhHHHHHHhhcCCC-CceEEEEeeeeEecCCeEEEEeeeecccCCCCcc---eeecHHHHHHHHHHHhhhCC
Q 024781 61 TAKVHPLVIFNICDCYVRRPDQ-AERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQ---VALDIEYHHTMLKSHLKVNP 136 (262)
Q Consensus 61 ~V~VhPlVll~I~dH~~R~~~~-~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~---~~iD~~y~~~m~~l~kkV~p 136 (262)
+|+|||+|||+|+|||+|+..+ +.+|+|+|||+ ..++.+||+|||++|+++++++ +++|.+|+++|+++|++|||
T Consensus 2 ~V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~-~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~ 80 (280)
T cd08062 2 KVVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGS-WKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNA 80 (280)
T ss_pred eEEEehHHHHHHHHHHhhhcCCCCceEEEEEEEE-EeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCC
Confidence 7999999999999999998755 78999999999 7899999999999999887665 57999999999999999999
Q ss_pred CCcEEEeecCCCCCCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEeeeeccCCcc-cccceEEeeeEEecchh
Q 024781 137 QEVIVGWFSTGLGVTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSVNLSLGDRQ-LAAQFQEIPLDLRMIEA 215 (262)
Q Consensus 137 ~e~vVGWY~t~~~~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~~~~~~~~~-~~~~F~~ip~~I~~~e~ 215 (262)
++.+||||+||++++..|+.||++|++++++||+|++||..+++++|++||++.+.+.++++ ....|.|+|++|.++|+
T Consensus 81 ~e~vVGWY~tg~~~~~~d~~ih~~~~~~~~~pv~l~vd~~~~~~~lpi~aY~s~~~~~~~g~~~~~~F~~vp~~i~~~ea 160 (280)
T cd08062 81 KEKIVGWYSTGPKLRPNDLDINELFRRYCPNPVLVIIDVRPKDLGLPTEAYIAVEEVHDDGTPTSKTFVHVPSEIGAEEA 160 (280)
T ss_pred CCCeEEEecCCCCCCcchHHHHHHHHHhCCCCEEEEEecCCCCCCCceEEEEEeeeccCCCCcceeEEEEcceEeeccch
Confidence 99999999999999999999999999999999999999999888999999999998876665 78899999999999999
Q ss_pred hHHHHHHhhccCCC----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 216 ERVGFDILKSTSVD----KLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 216 E~i~l~~l~k~~~~----~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
||||++|+++...+ .+..++.++.+|+++|+.||+.+++||++|.+
T Consensus 161 E~igve~l~r~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~ 210 (280)
T cd08062 161 EEVGVEHLLRDIKDVTVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVE 210 (280)
T ss_pred HHHHHHHHHhhccCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 99999999975332 35568999999999999999999999999974
No 4
>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=2.7e-51 Score=370.25 Aligned_cols=199 Identities=50% Similarity=0.859 Sum_probs=185.7
Q ss_pred EEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEE
Q 024781 62 AKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIV 141 (262)
Q Consensus 62 V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vV 141 (262)
|+|||+|||+|+|||+|++.++.+|+|+|||+ ..++.+||||||++|++++++++.+|.+|+++|+++|++|||++.+|
T Consensus 1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~-~~~~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~vV 79 (265)
T cd08064 1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGT-RSEGEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEVIV 79 (265)
T ss_pred CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEE-EeCCEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCcEE
Confidence 68999999999999999987789999999999 78899999999999999988889999999999999999999999999
Q ss_pred EeecCCCCCCCchhHHHHHHhhhCC--CcEEEEEeCCCCCCcceeEEEEeeeeccCCcccccceEEeeeEEecchhhHHH
Q 024781 142 GWFSTGLGVTGGSALIHEFYCREVP--NPVHLTVDTGFRNGEGTVKAYVSVNLSLGDRQLAAQFQEIPLDLRMIEAERVG 219 (262)
Q Consensus 142 GWY~t~~~~~~~~~~ih~~~~~~~~--~PI~L~vD~~~~~~~l~ikAy~~~~~~~~~~~~~~~F~~ip~~I~~~e~E~i~ 219 (262)
|||+||+.++.++..||++|+++++ +||+|++||...++++|++||++.+.++.+++....|+|+|++|.++|+||||
T Consensus 80 GWY~tg~~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~~~~l~i~ay~~~~~~~~~~~~~~~F~~ip~~i~~~eaE~i~ 159 (265)
T cd08064 80 GWYATGSEITEHSALIHDYYSRECTSYNPIHLTVDTSLDDGKMSIKAYVSSPLGVPGKTLGSMFVPIPLELLYSEAERVA 159 (265)
T ss_pred eeeeCCCCCCccHHHHHHHHHhhCCCCCCEEEEEeCCCCCCCcceEEEEEEecccCCCCcceEEEEcceeeecCcHHHHH
Confidence 9999999999999999999999988 99999999998777999999999998877777889999999999999999999
Q ss_pred HHHhhccCCC-----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 220 FDILKSTSVD-----KLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 220 l~~l~k~~~~-----~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
++++.+...+ .+.++++++.+|+++|..||+.+++||++|.+
T Consensus 160 v~~l~~~~~~~~~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~ 206 (265)
T cd08064 160 LDLLAKTLASPSRSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLA 206 (265)
T ss_pred HHHHHhhccCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 9999986543 24578999999999999999999999999964
No 5
>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=4.9e-50 Score=365.95 Aligned_cols=200 Identities=28% Similarity=0.425 Sum_probs=183.1
Q ss_pred cEEEEehhhHhHHHHHHhhcCCC----CceEEEEeeeeEecCCeEEEEeeeecccCCCC-cceeecHHHHHHHHHHHhhh
Q 024781 60 VTAKVHPLVIFNICDCYVRRPDQ----AERVIGTLLGSVLPDGTVDIRNSYVVPHNEFS-DQVALDIEYHHTMLKSHLKV 134 (262)
Q Consensus 60 ~~V~VhPlVll~I~dH~~R~~~~----~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~-~~~~iD~~y~~~m~~l~kkV 134 (262)
.+|.|||+|||+|+|||+|+..+ +.+|+|+|||+ ++|++|||+|||++|+++++ +++.+|.+|+++|+++||+|
T Consensus 1 ~~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~-~~~~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kkV 79 (288)
T cd08063 1 LSVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQ-QDGREIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQV 79 (288)
T ss_pred CeEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEE-EcCCEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHHh
Confidence 37999999999999999998653 58999999998 89999999999999999887 67899999999999999999
Q ss_pred CCCCcEEEeecCCCC-CCCchhHHHHHHhhhCCCcEEEEEeCCC--CCCcceeEEEEeeeeccCCcccccceEEeeeEEe
Q 024781 135 NPQEVIVGWFSTGLG-VTGGSALIHEFYCREVPNPVHLTVDTGF--RNGEGTVKAYVSVNLSLGDRQLAAQFQEIPLDLR 211 (262)
Q Consensus 135 ~p~e~vVGWY~t~~~-~~~~~~~ih~~~~~~~~~PI~L~vD~~~--~~~~l~ikAy~~~~~~~~~~~~~~~F~~ip~~I~ 211 (262)
||++.+||||+||+. ++.+++.||++|++.+++||+|++||.. .++++|++||++...+.++ .....|+|+|++|+
T Consensus 80 ~~~~~vVGWY~tg~~~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~~~~lpi~ay~s~~~~~~~-~~~~~F~~i~~~i~ 158 (288)
T cd08063 80 FKDLDFVGWYTTGPGGPTESDLPIHKQILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDG-EATLRFRELPYTIE 158 (288)
T ss_pred ccCCceEEEEecCCCCCCHHHHHHHHHHHhhCCCcEEEEEccccccCCCCCceeEEEEEEeccCC-ccccEEEeeeeEEE
Confidence 999999999999998 9999999999999999999999999998 5788999999999887765 56688999999999
Q ss_pred cchhhHHHHHHhhccCC--C----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 212 MIEAERVGFDILKSTSV--D----KLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 212 ~~e~E~i~l~~l~k~~~--~----~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
++|+||||++|+++... + .+..+++.+.+|+++|++||+.|++||++|.+
T Consensus 159 ~~eaErIgv~~l~~~~~~~~~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~ 214 (288)
T cd08063 159 TGEAERIGVDHVARGGASGSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLKAVPV 214 (288)
T ss_pred eccCceeeHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999998652 1 24578999999999999999999999999974
No 6
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.4e-46 Score=325.78 Aligned_cols=205 Identities=30% Similarity=0.470 Sum_probs=187.6
Q ss_pred CCCCcEEEEehhhHhHHHHHHhhcCC-CCceEEEEeeeeEecCCeEEEEeeeecccCCCCcc---eeecHHHHHHHHHHH
Q 024781 56 ATSNVTAKVHPLVIFNICDCYVRRPD-QAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQ---VALDIEYHHTMLKSH 131 (262)
Q Consensus 56 ~~~~~~V~VhPlVll~I~dH~~R~~~-~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~---~~iD~~y~~~m~~l~ 131 (262)
..+..+|.|||||||+++|||.|... +++||+|+|||. ..++++.|+|||++|++|++++ |++|.+|++.|+++|
T Consensus 5 ~~~~~kViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~-~~~~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mf 83 (309)
T KOG1556|consen 5 ELTVEKVIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGS-WNGDVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMF 83 (309)
T ss_pred ccccceeeeehhHHHHHHHHHhhhccCcCceEEEEEEec-CCCCeEEeecceeccccccCCCCceEEeccHHHHHHHHHH
Confidence 45567999999999999999999864 468999999999 7788999999999999998877 899999999999999
Q ss_pred hhhCCCCcEEEeecCCCCCCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEeeeeccCC-cccccceEEeeeEE
Q 024781 132 LKVNPQEVIVGWFSTGLGVTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSVNLSLGD-RQLAAQFQEIPLDL 210 (262)
Q Consensus 132 kkV~p~e~vVGWY~t~~~~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~~~~~~~-~~~~~~F~~ip~~I 210 (262)
+|||.+|.+||||||||.+..+|+.|++++.+++++|+.+++|..+++-++|..||...+....+ .+....|+.+|++|
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 99999999999999999999999999999999999999999999988888999999999876653 45577899999999
Q ss_pred ecchhhHHHHHHhhccCCC----CCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 211 RMIEAERVGFDILKSTSVD----KLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 211 ~~~e~E~i~l~~l~k~~~~----~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
++.|||+||++|+.|...+ .++..+.++..+++-|+.++..|.+||++|.+
T Consensus 164 ~AeEAEEvGVEHLlRDikd~t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~Vi~ 218 (309)
T KOG1556|consen 164 EAEEAEEVGVEHLLRDIKDTTVGTLATRITNQLMSLKGLQSRLREIRSYLDKVID 218 (309)
T ss_pred chhHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999986543 46778889999999999999999999999975
No 7
>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=5e-43 Score=304.57 Aligned_cols=206 Identities=26% Similarity=0.392 Sum_probs=183.1
Q ss_pred CCCCCCcEEEEehhhHhHHHHHHhhcCCC--C--ceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeecHHHHHHHHH
Q 024781 54 SAATSNVTAKVHPLVIFNICDCYVRRPDQ--A--ERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLK 129 (262)
Q Consensus 54 ~~~~~~~~V~VhPlVll~I~dH~~R~~~~--~--~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~ 129 (262)
++++++.+|.+|||||+||+|||+|.+.+ + .+|+|+|+|. +.|++|||.|||++..+..++...+|.+|++++-+
T Consensus 3 ps~S~s~tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~-Q~GR~vEi~NSFeL~~d~~~~~~~~dke~l~kk~e 81 (299)
T KOG3050|consen 3 PSSSGSVTVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGK-QRGRNVEIMNSFELKMDTEEDTETIDKEYLEKKEE 81 (299)
T ss_pred CCCCCceeEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheec-ccCceEEEeeeeEEEecchhhhhhccHHHHHHHHH
Confidence 44577889999999999999999999742 2 4899999998 99999999999999988776666899999999999
Q ss_pred HHhhhCCCCcEEEeecCCCCCCCchhHHHHHHhhhCCCcEEEEEeCCCC-CCcceeEEEEeeeeccCCcccccceEEeee
Q 024781 130 SHLKVNPQEVIVGWFSTGLGVTGGSALIHEFYCREVPNPVHLTVDTGFR-NGEGTVKAYVSVNLSLGDRQLAAQFQEIPL 208 (262)
Q Consensus 130 l~kkV~p~e~vVGWY~t~~~~~~~~~~ih~~~~~~~~~PI~L~vD~~~~-~~~l~ikAy~~~~~~~~~~~~~~~F~~ip~ 208 (262)
+||+|||+..++|||+||.+.++.|+.||.+++..++.|++|.++|..+ ..+.|+..|++.-..+ ++.....|+|+.|
T Consensus 82 qykqVFpdl~vlGwYttG~d~t~sd~~i~k~l~~i~esplflkLNp~t~~t~~~pv~lfese~dvi-dg~~q~~f~~~ty 160 (299)
T KOG3050|consen 82 QYKQVFPDLYVLGWYTTGSDPTPSDIHIHKQLMDINESPLFLKLNPATNHTDKDPVTLFESEIDVI-DGEAQMLFVPLTY 160 (299)
T ss_pred HHHHhcccceEEEEeecCCCCChhhhHHHHHHHhhhcCceEEEecchhccccCCCceeeeeeheee-cCcceeeeeeeEE
Confidence 9999999999999999999999999999999999999999999999874 4556999998874444 4556788999999
Q ss_pred EEecchhhHHHHHHhhccCC------CCCcccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024781 209 DLRMIEAERVGFDILKSTSV------DKLPSDLEGMEVLMERLLTLINDIYKYVDDTVR 261 (262)
Q Consensus 209 ~I~~~e~E~i~l~~l~k~~~------~~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~~ 261 (262)
+|.+.|+||||+||+++-.. +.+..|++.+..|+++|+.|++.|++||++|.+
T Consensus 161 tl~teEaERIgVdHVA~lt~~~gge~s~VaeHl~AQdsA~~ml~~Rvklil~Y~k~~e~ 219 (299)
T KOG3050|consen 161 TLATEEAERIGVDHVARLTPSDGGEGSSVAEHLEAQDSAIKMLDNRVKLILAYLKKVEA 219 (299)
T ss_pred EEeehhhhhccchhheeeccCCCCCcchHHHHHhhHHHHHHHHhhHHHHHHHHHhhhhc
Confidence 99999999999999998432 236789999999999999999999999999975
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=2.9e-40 Score=276.69 Aligned_cols=150 Identities=31% Similarity=0.552 Sum_probs=137.1
Q ss_pred EEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEE
Q 024781 62 AKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIV 141 (262)
Q Consensus 62 V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vV 141 (262)
|+|||+|||||+|||+|+..++.+|+|+|||+ ..+++++|+|||++|++++++.+.+|.+|+++|++++++|+|++.+|
T Consensus 1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~-~~~~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~vV 79 (157)
T cd08057 1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGY-VDGDKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEKIV 79 (157)
T ss_pred CEEccHHHhhHHHHHHhccCCCCeEEEEEEeE-EeCCEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCCEE
Confidence 68999999999999999976678999999999 78999999999999999887778899999999999999999999999
Q ss_pred EeecCCCC----CCCchhHHHHHHhhh-CCCcEEEEEeCCC--CCCcceeEEEEeeeeccCCcccccceEEeeeEEecch
Q 024781 142 GWFSTGLG----VTGGSALIHEFYCRE-VPNPVHLTVDTGF--RNGEGTVKAYVSVNLSLGDRQLAAQFQEIPLDLRMIE 214 (262)
Q Consensus 142 GWY~t~~~----~~~~~~~ih~~~~~~-~~~PI~L~vD~~~--~~~~l~ikAy~~~~~~~~~~~~~~~F~~ip~~I~~~e 214 (262)
|||++++. ++..+..||++|.++ .++||+|++||.. .+++++++||++.+... .+.++|++|.+.|
T Consensus 80 GWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~~~~l~i~ay~~~~~~~-------~~~~~~~~i~~~e 152 (157)
T cd08057 80 GWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQSDSEKLEISTFTSAQREE-------NGAEITYEIGTEE 152 (157)
T ss_pred EEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcccCCCcccEEEEEEecCCC-------CCceeeeEEeccc
Confidence 99999987 889999999999998 8889999999987 47899999999985432 1339999999999
Q ss_pred hhHHH
Q 024781 215 AERVG 219 (262)
Q Consensus 215 ~E~i~ 219 (262)
+||||
T Consensus 153 ~E~I~ 157 (157)
T cd08057 153 TERIA 157 (157)
T ss_pred ccccC
Confidence 99985
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=100.00 E-value=4.8e-35 Score=264.54 Aligned_cols=196 Identities=22% Similarity=0.277 Sum_probs=163.1
Q ss_pred EEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcc---eeecHHHHHHHHHHHhhhCCC
Q 024781 61 TAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQ---VALDIEYHHTMLKSHLKVNPQ 137 (262)
Q Consensus 61 ~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~---~~iD~~y~~~m~~l~kkV~p~ 137 (262)
+|+|||+|+++|+|||.|+. +.+|+|+|||. ..++.+||||||++|+.+++++ +..|.+|+.+|++++++++++
T Consensus 2 ~V~I~~~vllkIv~H~~~~~--p~~v~G~LLG~-~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~ 78 (266)
T cd08065 2 SVQIDGLVVLKIIKHCKEEL--PELVQGQLLGL-DVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVD 78 (266)
T ss_pred EEEEeHHHHHHHHHHHhcCC--CcEEEEEEeee-EcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCC
Confidence 69999999999999998874 78999999999 6789999999999999887665 466789999999999999999
Q ss_pred CcEEEeecCCC-CCCCchhHHHHHHhhhC--CCcEEEEEeCCC-CCCcceeEEEEeeeeccC---------------Ccc
Q 024781 138 EVIVGWFSTGL-GVTGGSALIHEFYCREV--PNPVHLTVDTGF-RNGEGTVKAYVSVNLSLG---------------DRQ 198 (262)
Q Consensus 138 e~vVGWY~t~~-~~~~~~~~ih~~~~~~~--~~PI~L~vD~~~-~~~~l~ikAy~~~~~~~~---------------~~~ 198 (262)
+.+||||+|++ +...+...||.++..+. +++|+|++||.+ +++.++++||++.+.+++ +.+
T Consensus 79 e~iVGWY~S~p~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~~g~l~lkAyrl~~~~~~~~~~~~~~~~~l~~~~~~ 158 (266)
T cd08065 79 HNHVGWYQSTYLGSFFTRDLIETQYNYQEAIEESVVLVYDPSKTSQGSLSLKAYRLSEKFMELYKEGKFSTESLREANLT 158 (266)
T ss_pred CcEEEeEeecCCCCcCCHHHHHHHHHHhccCCCCEEEEECCCcccccceeeEEEEEcHHHHHHhhcCCcCHHHHHHhcCc
Confidence 99999999999 55666788999988874 778999999988 578899999999998764 356
Q ss_pred cccceEEeeeEEecchhhHHHHHHhhccCCCC-------CcccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024781 199 LAAQFQEIPLDLRMIEAERVGFDILKSTSVDK-------LPSDLEGMEVLMERLLTLINDIYKYVDDT 259 (262)
Q Consensus 199 ~~~~F~~ip~~I~~~e~E~i~l~~l~k~~~~~-------~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V 259 (262)
...+|.|||++|++++.+++.+..+....... .......+...+..|.+.+|.+..+.++.
T Consensus 159 ~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~~e~~~~ 226 (266)
T cd08065 159 FSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKF 226 (266)
T ss_pred hhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999996533221 11234456666666666666666666554
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=99.97 E-value=6.1e-29 Score=224.90 Aligned_cols=167 Identities=16% Similarity=0.223 Sum_probs=149.2
Q ss_pred CCCcEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeecHHHHHHHHH--HHhhh
Q 024781 57 TSNVTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLK--SHLKV 134 (262)
Q Consensus 57 ~~~~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~--l~kkV 134 (262)
....+|.|+|+|+++|++|+.|. .+.+|+|+|+|. .+++.++|++||++|+.++++.+..+.+|++.|++ +++++
T Consensus 7 ~~~~~V~Is~~allkil~Ha~~~--~p~Ev~GlLlG~-~~~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~~~ 83 (268)
T cd08069 7 DYFEKVYISSLALLKMLKHARAG--GPIEVMGLMLGK-VDDYTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLKQT 83 (268)
T ss_pred CcccEEEECHHHHHHHHHHHhcc--CCceEEEEEEee-ecCCeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHHHh
Confidence 44668999999999999999874 578999999998 78899999999999998888878888899999999 99999
Q ss_pred CCCCcEEEeecCCCC----CCCchhHHHHHHhhhCCCcEEEEEeCCCC--CCcceeEEEEeeeeccC----Cc-------
Q 024781 135 NPQEVIVGWFSTGLG----VTGGSALIHEFYCREVPNPVHLTVDTGFR--NGEGTVKAYVSVNLSLG----DR------- 197 (262)
Q Consensus 135 ~p~e~vVGWY~t~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~--~~~l~ikAy~~~~~~~~----~~------- 197 (262)
++++.+||||||+++ ++..|+.+|..|++.++++|+|++||..+ .|++.++||++.+.+.. +.
T Consensus 84 ~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~g~~~i~Afr~~~~~~~~~~~~~~~s~~~~ 163 (268)
T cd08069 84 GRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVKGKVVIGAFRTIPPGYKPLEPRQTTSNIGH 163 (268)
T ss_pred CCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccCCcceeeEEEEECccccccCcccCccccCc
Confidence 999999999999997 78999999999999888889999998764 78899999999988754 12
Q ss_pred ----------ccccceEEeeeEEecchhhHHHHHHhhcc
Q 024781 198 ----------QLAAQFQEIPLDLRMIEAERVGFDILKST 226 (262)
Q Consensus 198 ----------~~~~~F~~ip~~I~~~e~E~i~l~~l~k~ 226 (262)
.....|.+||++|..++.|+..++.+.+.
T Consensus 164 ~~~~~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~ 202 (268)
T cd08069 164 LPKPKIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNK 202 (268)
T ss_pred cCcHHHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHH
Confidence 25678999999999999999999999764
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=1.5e-26 Score=183.15 Aligned_cols=107 Identities=36% Similarity=0.576 Sum_probs=94.1
Q ss_pred CCcEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCC-eEEEEeeeecccCCCCcce-eecHHHHHHHHHHHhhhC
Q 024781 58 SNVTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDG-TVDIRNSYVVPHNEFSDQV-ALDIEYHHTMLKSHLKVN 135 (262)
Q Consensus 58 ~~~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~-~veVtnsF~vP~~~~~~~~-~iD~~y~~~m~~l~kkV~ 135 (262)
+..+|.|||+|+++|+||+.|+.. .+|+|+|+|+ .+++ .++|+|||++|+.+++++. ..+.++.++|++++++++
T Consensus 2 s~~~V~i~p~vll~i~~h~~r~~~--~~v~G~LlG~-~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (114)
T PF01398_consen 2 SVQTVQIHPLVLLKIIDHATRSSP--NEVIGLLLGT-QDGDNTVEITNSFPVPHSESEDDCDMDDEDFQKKMIELLKKVN 78 (114)
T ss_dssp SCEEEEEEHHHHHHHHHHHHHHHC--TEEEEEEEEE-EETT-EEEEEEEEEESEEEESSEEEEECCHHHHHHHHHHHHCS
T ss_pred CcEEEEECHHHHHHHHHHHhcCCC--CEEEEEEEEE-ecCceEEEEEEEEEeeEecCccccccchhhHHHHHHhhhcccc
Confidence 467999999999999999999853 4999999999 7787 9999999999999877664 456667799999999999
Q ss_pred CCCcEEEeecCCCCC----CCchhHHHHHHhhhCCC
Q 024781 136 PQEVIVGWFSTGLGV----TGGSALIHEFYCREVPN 167 (262)
Q Consensus 136 p~e~vVGWY~t~~~~----~~~~~~ih~~~~~~~~~ 167 (262)
|++.+||||+|++.. +..|+.+|.+|++.+++
T Consensus 79 ~~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~ 114 (114)
T PF01398_consen 79 PNLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN 114 (114)
T ss_dssp TTSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred ccceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence 999999999999876 89999999999987653
No 12
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=3.2e-24 Score=190.31 Aligned_cols=168 Identities=23% Similarity=0.362 Sum_probs=137.6
Q ss_pred CCCCcEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCC--CCcce---eecH---HHHHHH
Q 024781 56 ATSNVTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNE--FSDQV---ALDI---EYHHTM 127 (262)
Q Consensus 56 ~~~~~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~--~~~~~---~iD~---~y~~~m 127 (262)
+.+...|.+..||+|+|++||.....+..-+.|+|+|. .-++.+|||||||.|... +++.+ ..|. .|+..|
T Consensus 9 ~p~vk~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Gl-vvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l~m 87 (339)
T KOG1560|consen 9 SPPVKRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGL-VVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQLAM 87 (339)
T ss_pred CCccceeeehhHHHHHHHHHHHhhcCCcchhhheeeee-eecceeEeecccCCCccCCCccchhhhhhhHHHHHHHHHHH
Confidence 46678999999999999999987766667899999998 679999999999999754 22322 2332 599999
Q ss_pred HHHHhhhCCCCcEEEeecCCC-CCCCchhHHHHHHhhh--CCCcEEEEEeCCC-CCCcceeEEEEeeeeccC--------
Q 024781 128 LKSHLKVNPQEVIVGWFSTGL-GVTGGSALIHEFYCRE--VPNPVHLTVDTGF-RNGEGTVKAYVSVNLSLG-------- 195 (262)
Q Consensus 128 ~~l~kkV~p~e~vVGWY~t~~-~~~~~~~~ih~~~~~~--~~~PI~L~vD~~~-~~~~l~ikAy~~~~~~~~-------- 195 (262)
++.++.+|.+..+||||++.- +..-+-..+..+|.++ +++.|+|++||.+ ++|.|.++||+..|..+.
T Consensus 88 lrrlr~vnid~~hVGwYqs~~vgs~lS~~lveSqy~YQ~a~pesVvliYD~~kssqG~L~lrAyrLTp~am~~~kekdwt 167 (339)
T KOG1560|consen 88 LRRLRYVNIDHLHVGWYQSAYVGSFLSPALVESQYAYQKAIPESVVLIYDPIKSSQGTLSLRAYRLTPEAMAAHKEKDWT 167 (339)
T ss_pred HHHhhhcCccceeeeeeeeehhccccCHHHHHHHHHHHhcCCccEEEEeccccccCceEEeehhhcCHHHHHHHhcCCCC
Confidence 999999999999999999652 3333345667777776 5677999999999 689999999999987542
Q ss_pred -------CcccccceEEeeeEEecchhhHHHHHHhh
Q 024781 196 -------DRQLAAQFQEIPLDLRMIEAERVGFDILK 224 (262)
Q Consensus 196 -------~~~~~~~F~~ip~~I~~~e~E~i~l~~l~ 224 (262)
+.+..+.|.++|+.|+++..-.+-+..+.
T Consensus 168 pealk~~nltyenmfeElPIVIknS~L~nvlmseLs 203 (339)
T KOG1560|consen 168 PEALKSANLTYENMFEELPIVIKNSHLANVLMSELS 203 (339)
T ss_pred HHHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhcc
Confidence 35677899999999999999888888887
No 13
>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=99.89 E-value=2.8e-22 Score=161.54 Aligned_cols=128 Identities=31% Similarity=0.442 Sum_probs=113.0
Q ss_pred EEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcce-eecHHHHHHHHHHHhhhCCCCc
Q 024781 61 TAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQV-ALDIEYHHTMLKSHLKVNPQEV 139 (262)
Q Consensus 61 ~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~-~iD~~y~~~m~~l~kkV~p~e~ 139 (262)
.|+|||+|+++|++|+.|. .+.+++|+|+|. ..++.++|+++|++|...+++.+ ..+.+|.+.|.++++++++++.
T Consensus 1 ~v~i~~~v~~~i~~h~~~~--~p~e~~G~L~G~-~~~~~~~i~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (135)
T smart00232 1 EVKVHPLVPLNILKHAIRD--GPEEVCGVLLGK-SNKDRPEVKEVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKDLE 77 (135)
T ss_pred CEEEcHHHHHHHHHHHhcC--CCcEEEEEEEEE-EcCCEEEEEEEEecCcCCCCcchhhhhhhHHHHHHHHHHhhCCCce
Confidence 4789999999999999886 478999999998 67889999999999987765554 6789999999999999999999
Q ss_pred EEEeecCCCC----CCCchhHHHHHHhhhCCCcEEEEEeCCCC-CCcceeEEEEeee
Q 024781 140 IVGWFSTGLG----VTGGSALIHEFYCREVPNPVHLTVDTGFR-NGEGTVKAYVSVN 191 (262)
Q Consensus 140 vVGWY~t~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~-~~~l~ikAy~~~~ 191 (262)
+||||||++. ++..|+.+|..+......++++++|+..+ .++++++||++.+
T Consensus 78 ~vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s~~g~~~~~af~~~~ 134 (135)
T smart00232 78 IVGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSFQGRLSLRAFRLTP 134 (135)
T ss_pred EEEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCccccCcEEEEEEEecC
Confidence 9999999873 56778888988888888899999999985 4889999999863
No 14
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=99.84 E-value=2.1e-20 Score=166.58 Aligned_cols=195 Identities=14% Similarity=0.218 Sum_probs=142.3
Q ss_pred CCcEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeec---HHHHHHHHHHHhhh
Q 024781 58 SNVTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALD---IEYHHTMLKSHLKV 134 (262)
Q Consensus 58 ~~~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD---~~y~~~m~~l~kkV 134 (262)
....|+|..|++|+|+-|..| +++-.|||.++|+ .+|+++.|.+||++|.+++|.++... .+|+....+..+.+
T Consensus 51 ~fk~vkISalAllKm~~hA~~--GgnlEiMGlm~Gk-v~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~ 127 (347)
T KOG1554|consen 51 YFKHVKISALALLKMVMHARS--GGNLEIMGLMQGK-VDGDTIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAKNV 127 (347)
T ss_pred hhhhhhhHHHHHHHHHHHHhc--CCCeEEEeeeccc-ccCCeEEEEeccccccccccceechHHHHHHHHHHHHHHHHHh
Confidence 355899999999999998855 4789999999999 89999999999999999998877432 67888888999999
Q ss_pred CCCCcEEEeecCCCCC----CCchhHHHHHHhhhCCCc-EEEEEeCCC--CCCcceeEEEEeeeeccCC-----------
Q 024781 135 NPQEVIVGWFSTGLGV----TGGSALIHEFYCREVPNP-VHLTVDTGF--RNGEGTVKAYVSVNLSLGD----------- 196 (262)
Q Consensus 135 ~p~e~vVGWY~t~~~~----~~~~~~ih~~~~~~~~~P-I~L~vD~~~--~~~~l~ikAy~~~~~~~~~----------- 196 (262)
...|++|||||++|+. +..|+..|. +++.+..| +++++||.+ ..+++.|.|||+.|.+...
T Consensus 128 gr~envVGWyHSHPgYgCWLSgIDVsTQ~-lNQ~fQePfvAvViDP~Rtlsagkv~iGAFRTyp~gyk~~d~~~seyqti 206 (347)
T KOG1554|consen 128 GRLENVVGWYHSHPGYGCWLSGIDVSTQM-LNQRFQEPFVAVVIDPTRTLSAGKVNIGAFRTYPKGYKPPDEPPSEYQTI 206 (347)
T ss_pred hhhhceeeeeecCCCCCccccCcchhHHH-HhhhhcCCeEEEEecCccccccCceeeceeecccCCCCCCCCCchhhhcc
Confidence 9999999999999974 445554454 34446778 899999998 5889999999999987521
Q ss_pred --------cccccceEEeeeEEecchhhHHHHHHhhcc------CCCCCcccHHHHHHHHHHHHHHHHHHHHHH
Q 024781 197 --------RQLAAQFQEIPLDLRMIEAERVGFDILKST------SVDKLPSDLEGMEVLMERLLTLINDIYKYV 256 (262)
Q Consensus 197 --------~~~~~~F~~ip~~I~~~e~E~i~l~~l~k~------~~~~~~~~l~~l~~sl~~L~~~l~~i~~Yl 256 (262)
+-.+..+..+++.+--+-.++--++.|-.. ..+++.++.+.+...+..|..++++.-+.+
T Consensus 207 pl~kied~gvHck~yysl~isyfks~ld~kll~~Lwnkywv~Tlsss~ll~N~dy~~~qi~d~~ekl~q~~~~l 280 (347)
T KOG1554|consen 207 PLNKIEDFGVHCKQYYSLEISYFKSSLDMKLLELLWNKYWVRTLSSSPLLKNIDYLNGQIRDLSEKLEQREDSL 280 (347)
T ss_pred chhhhhhcccceEEeeccchhhhhhhhhHHHHHHHHhhhhhcccccccccccchhhcchhhhHHHHHHhhhhhc
Confidence 112233334444443344444445544321 123466667777777777766666644443
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=99.68 E-value=4.7e-16 Score=122.34 Aligned_cols=111 Identities=25% Similarity=0.355 Sum_probs=88.6
Q ss_pred hHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecCCCC
Q 024781 70 FNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFSTGLG 149 (262)
Q Consensus 70 l~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t~~~ 149 (262)
.+|++|+.+. .+.+|+|.|+|+ ..++.++|+++|++|...++.. .+... -|....+.+..++.+||||+|++.
T Consensus 2 k~il~~a~~~--~~~ev~G~L~G~-~~~~~~~i~~~~~~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~iVGwyhshp~ 74 (116)
T cd07767 2 KMFLDAAKSI--NGKEVIGLLYGS-KTKKVLDVDEVIAVPFDEGDKD--DNVWF--LMYLDFKKLNAGLRIVGWYHTHPK 74 (116)
T ss_pred HhHHHHHhcC--CCcEEEEEeEEE-EcCCEEEEEEEEecccCCCCCc--cHHHH--HHHHHHHHhcCCCeEEEEEEcCCC
Confidence 4688888663 368999999999 7778899999999998765432 22222 266667778899999999999975
Q ss_pred ----CCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEE
Q 024781 150 ----VTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAY 187 (262)
Q Consensus 150 ----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy 187 (262)
++..|+..|..+++..+++++|++|+...+.+++++||
T Consensus 75 ~~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~~~~~~~~~ 116 (116)
T cd07767 75 PSCFLSPNDLATHELFQRYFPEKVMIIVDVKPKDLGNSWKCY 116 (116)
T ss_pred CCCccCHHHHHHHHHHHHhCCCCEEEEEECCCccCCCCcccC
Confidence 67888888888888788899999999886667888887
No 16
>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=99.63 E-value=9.1e-15 Score=126.00 Aligned_cols=146 Identities=14% Similarity=0.095 Sum_probs=108.0
Q ss_pred CcEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEec-CCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCC
Q 024781 59 NVTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLP-DGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQ 137 (262)
Q Consensus 59 ~~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~-~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~ 137 (262)
..+|+|+++|+|+|..|+... ...++|.|+|.+.. ++.++|+++|++|.....++..+|.+++.+|.+..++.+
T Consensus 4 pf~V~Is~~all~m~~Ha~~~---~~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~dp~~q~e~~~~l~~~g-- 78 (187)
T cd08067 4 PFKVTVSSNALLLMDFHCHLT---TSEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEMDPVSETEIRESLESRG-- 78 (187)
T ss_pred CEEEEECHHHHHHHHHHhcCC---CcEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccccCHHHHHHHHHHHHHcC--
Confidence 679999999999999999754 28899999998433 468999999999987766667789999999999988766
Q ss_pred CcEEEeecCCCC----CCCchhHHHHHHhhhCC------Cc-EEEEEeCCCC---CCcceeEEEEeeeeccCCcccccce
Q 024781 138 EVIVGWFSTGLG----VTGGSALIHEFYCREVP------NP-VHLTVDTGFR---NGEGTVKAYVSVNLSLGDRQLAAQF 203 (262)
Q Consensus 138 e~vVGWY~t~~~----~~~~~~~ih~~~~~~~~------~P-I~L~vD~~~~---~~~l~ikAy~~~~~~~~~~~~~~~F 203 (262)
+.+|||||+++. ++..|+..|..|+...+ .| |.+++||-.. +..-.+++|...+..-.. ..-
T Consensus 79 l~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~~~~~~----~~~ 154 (187)
T cd08067 79 LSVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMPPPENR----PNE 154 (187)
T ss_pred CEEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEECCCCCC----Ccc
Confidence 699999999974 34444555544554433 34 9999999763 234579999998654221 122
Q ss_pred EEeeeEEecc
Q 024781 204 QEIPLDLRMI 213 (262)
Q Consensus 204 ~~ip~~I~~~ 213 (262)
..+|+.+.+.
T Consensus 155 ~~~p~~~~~~ 164 (187)
T cd08067 155 YGVPMLMSYT 164 (187)
T ss_pred CCcCeEEEec
Confidence 3356665554
No 17
>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=99.57 E-value=1.9e-14 Score=115.08 Aligned_cols=110 Identities=13% Similarity=0.209 Sum_probs=83.0
Q ss_pred hHhHHHHHHhhcCCCCceEEEEeeeeEec----CCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEe
Q 024781 68 VIFNICDCYVRRPDQAERVIGTLLGSVLP----DGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGW 143 (262)
Q Consensus 68 Vll~I~dH~~R~~~~~~~ViG~LLG~~~~----~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGW 143 (262)
|+++|++|+.+. .+..++|.|+|...+ ...++|+++|+.|...+. .+.|..+.+...-++.+|||
T Consensus 2 ~~~~i~~ha~~~--~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~---------~~~~~~~~~~~~~g~~~vG~ 70 (119)
T cd08058 2 ALLKMLQHAESN--TGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTG---------ENVEELFNVQTGRPLLVVGW 70 (119)
T ss_pred HHHHHHHHhcCC--CCeEEEEEeeeEEecCccceeEEEEeecCCCCCCchh---------HHHHHHHHHHhCCCCeEEEE
Confidence 789999999774 478999999998432 345899999999875431 22455566678899999999
Q ss_pred ecCCCC----CCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEee
Q 024781 144 FSTGLG----VTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSV 190 (262)
Q Consensus 144 Y~t~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~ 190 (262)
||++++ ++..|+..|.+|....++-++|++||... ...++||+++
T Consensus 71 YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~~--~~~~~a~rl~ 119 (119)
T cd08058 71 YHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKHR--NKDTGIFRLT 119 (119)
T ss_pred EecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCCC--CcccceEEeC
Confidence 999984 45666555555555556779999999663 7889999863
No 18
>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=99.33 E-value=3.4e-10 Score=101.14 Aligned_cols=148 Identities=17% Similarity=0.185 Sum_probs=99.5
Q ss_pred cEEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEe------cCCeEEEEeeeecccCC-CCcceeecHH----HHHHHH
Q 024781 60 VTAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVL------PDGTVDIRNSYVVPHNE-FSDQVALDIE----YHHTML 128 (262)
Q Consensus 60 ~~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~------~~~~veVtnsF~vP~~~-~~~~~~iD~~----y~~~m~ 128 (262)
.+|.|.+.++.+|++|+.+. .+..++|.|+|.+. .++.+.|..-++.+..+ ..+.+.+|.+ .++.+.
T Consensus 2 ~~V~Is~~~l~~il~HA~~~--~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~ 79 (244)
T cd08068 2 SKVHLSADVYLVCLTHALST--EKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAE 79 (244)
T ss_pred cEEEECHHHHHHHHHHHHhC--CCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHH
Confidence 37999999999999999775 57899999999832 13345554444443332 3345778864 334556
Q ss_pred HHHhhhCCCCcEEEeecCCCC----CCCchhHHHHHHhhhCCCcEEEEEeCCC-----CCCcceeEEEEeeeeccCCccc
Q 024781 129 KSHLKVNPQEVIVGWFSTGLG----VTGGSALIHEFYCREVPNPVHLTVDTGF-----RNGEGTVKAYVSVNLSLGDRQL 199 (262)
Q Consensus 129 ~l~kkV~p~e~vVGWY~t~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~-----~~~~l~ikAy~~~~~~~~~~~~ 199 (262)
++.+.+..++.+|||||++++ ++..|...|..|....+.-++|++++.. ..++..+++|+..+.. ...
T Consensus 80 ~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g~---~~~ 156 (244)
T cd08068 80 RLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQGN---KAG 156 (244)
T ss_pred HHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCCC---CCC
Confidence 677778899999999999985 3455544433333223444899887533 2357889999997431 122
Q ss_pred ccceEEeeeEEec
Q 024781 200 AAQFQEIPLDLRM 212 (262)
Q Consensus 200 ~~~F~~ip~~I~~ 212 (262)
.....++|+.|..
T Consensus 157 ~~~~~e~pl~i~~ 169 (244)
T cd08068 157 QYERIEVPLEIVP 169 (244)
T ss_pred cceEEEeeeEEec
Confidence 3557788888875
No 19
>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=99.09 E-value=3.3e-09 Score=90.47 Aligned_cols=124 Identities=13% Similarity=0.143 Sum_probs=90.9
Q ss_pred EEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCccee-ecHHHHHHHHHHHhhhCCCCc
Q 024781 61 TAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVA-LDIEYHHTMLKSHLKVNPQEV 139 (262)
Q Consensus 61 ~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~-iD~~y~~~m~~l~kkV~p~e~ 139 (262)
.+.|-.-.+-+|+.|+.++-..+..+.|.|+|. ..++..+|++.+-.|...++..+. +|.. ++++. .-..++.
T Consensus 3 ~l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~-~~~~~~~I~~i~~~~q~~~~~~~~~~~~~---e~~~~--~~~~gle 76 (173)
T cd08066 3 QVVVPADLMDKFLQLAEPNTSRNLETCGILCGK-LSNNAFFITHLIIPKQSGTSDSCQTTNEE---ELFDF--QDQHDLI 76 (173)
T ss_pred EEEECHHHHHHHHHHHHhCCCCCCeEEEEEEeE-cCCCeEEEEEEEeccccCCCceecCCCHH---HHHHH--HHhCCCe
Confidence 455666778889999977632357999999998 677888999998878777655443 3321 12221 1235899
Q ss_pred EEEeecCCCC----CCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEee-eecc
Q 024781 140 IVGWFSTGLG----VTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSV-NLSL 194 (262)
Q Consensus 140 vVGWY~t~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~-~~~~ 194 (262)
+||||||+++ ++..|+..|..|....+..++|+++|. ...++||+.. +.++
T Consensus 77 ~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~----~~~l~afrl~~~~g~ 132 (173)
T cd08066 77 TLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK----YNEFGIFRLTDPPGL 132 (173)
T ss_pred eEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC----CcEEeEEEeecCCcc
Confidence 9999999874 577888888877776677799999973 6789999999 6665
No 20
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=3.3e-09 Score=97.21 Aligned_cols=135 Identities=21% Similarity=0.322 Sum_probs=109.3
Q ss_pred CCCCcEEEEehhhHhHHHHHHhhcCCCCce-EEEEe-ee---eEecCCeEEEEeeeecccCCCCcc--e-eecHHHHHHH
Q 024781 56 ATSNVTAKVHPLVIFNICDCYVRRPDQAER-VIGTL-LG---SVLPDGTVDIRNSYVVPHNEFSDQ--V-ALDIEYHHTM 127 (262)
Q Consensus 56 ~~~~~~V~VhPlVll~I~dH~~R~~~~~~~-ViG~L-LG---~~~~~~~veVtnsF~vP~~~~~~~--~-~iD~~y~~~m 127 (262)
+....+|.++.++++.+++|- |.. .+.. ++|.+ +| .+.+..++.|.+.|+.|+...+-. + ..|.-|+.+|
T Consensus 27 ~~~~e~v~i~slall~m~rh~-r~~-~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~q~ 104 (316)
T KOG1555|consen 27 SDEKETVYISSLALLKMLRHD-RAG-SPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQTQM 104 (316)
T ss_pred ccCcceeeeehhhhhhccccc-ccC-CchhhccceeecccccceeeecceeeeeeeccccccceecccchhccHHHHHHH
Confidence 466779999999999999987 442 3344 89999 99 556778899999999999876432 2 5889999999
Q ss_pred HHHHhhhCCCCcEEEeecCCCC----CCCchhHHHHHHhhhCCCcEEEEEeCCCC-CCcceeEEEEeeee
Q 024781 128 LKSHLKVNPQEVIVGWFSTGLG----VTGGSALIHEFYCREVPNPVHLTVDTGFR-NGEGTVKAYVSVNL 192 (262)
Q Consensus 128 ~~l~kkV~p~e~vVGWY~t~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~-~~~l~ikAy~~~~~ 192 (262)
.++.++....+.||||||++++ ++..|+..|+-|....+..+..++||..+ .|+.-+.||+..+.
T Consensus 105 ~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~~g~vv~d~f~~In~ 174 (316)
T KOG1555|consen 105 MDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSPYGKVVPDAFSSINP 174 (316)
T ss_pred HHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCCCCCccCChhhhcCc
Confidence 9999999888999999999986 45677777877877777789999999874 56666678887654
No 21
>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=98.52 E-value=4.2e-06 Score=67.49 Aligned_cols=113 Identities=15% Similarity=0.057 Sum_probs=78.5
Q ss_pred hHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCc--ceeecHHHHHHHHHHHhhhCCCCcEEEeec
Q 024781 68 VIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSD--QVALDIEYHHTMLKSHLKVNPQEVIVGWFS 145 (262)
Q Consensus 68 Vll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~--~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~ 145 (262)
++-+|++|+.+. .+.+++|.|+|. .++....|+..|++|....+. ...+|.+.+.+..+..++. ++.+|||||
T Consensus 3 ~~~~il~ha~~~--~P~E~cGlL~G~-~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~~~~~~~~~~~~--g~~~vG~~H 77 (128)
T cd08070 3 LLEAILAHAEAE--YPEECCGLLLGK-GGGVTAIVTEVYPVRNVAESPRRRFEIDPAEQLAAQREARER--GLEVVGIYH 77 (128)
T ss_pred HHHHHHHHHHhC--CCCceEEEEEee-cCCCCceEEEEEEccCCCCCCCceEEECHHHHHHHHHHHHHC--CCeEEEEEe
Confidence 456889999774 478999999998 666666678999998765443 4568887777776666544 699999999
Q ss_pred CCCCC--CCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEee
Q 024781 146 TGLGV--TGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSV 190 (262)
Q Consensus 146 t~~~~--~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~ 190 (262)
|+++- ..+...+..+ . ....++|++..... ...+++|...
T Consensus 78 SHP~~~~~PS~~D~~~~--~-~~~~~~lIv~~~~~--~~~~~~~~~~ 119 (128)
T cd08070 78 SHPDGPARPSETDLRLA--W-PPGVSYLIVSLAGG--APELRAWRLE 119 (128)
T ss_pred CCCCCCCCCCHHHHHhc--c-CCCCeEEEEECCCC--CcEEEEEEEc
Confidence 99862 2333223221 1 12357888875333 4678999886
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=98.51 E-value=2.5e-06 Score=73.34 Aligned_cols=118 Identities=19% Similarity=0.211 Sum_probs=79.9
Q ss_pred ehhhHhHHHHHHhhcCCCCceEEEEeeeeEec-CCeEEEEeeeecccCCCCcceeecHHH--HHHHHHHHhhhCCCCcEE
Q 024781 65 HPLVIFNICDCYVRRPDQAERVIGTLLGSVLP-DGTVDIRNSYVVPHNEFSDQVALDIEY--HHTMLKSHLKVNPQEVIV 141 (262)
Q Consensus 65 hPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~-~~~veVtnsF~vP~~~~~~~~~iD~~y--~~~m~~l~kkV~p~e~vV 141 (262)
.+.+..+|..|+.+. .+..|.|.|+|+ .. ++.+.|++++|+.+.. ..++... .....+.+-+- .+..||
T Consensus 2 s~~ay~ki~~HA~k~--p~~evcGlLlG~-~~~~~~~~V~d~vPl~h~~----~~l~P~~Eval~~ve~~~~~-~gl~Iv 73 (182)
T cd08060 2 STLAYVKMLLHAAKY--PHCAVNGLLLGK-KSSGGSVEITDAVPLFHSC----LALAPMLEVALALVDAYCKS-SGLVIV 73 (182)
T ss_pred CHHHHHHHHHHHHHc--CCchheEEEEee-ecCCCCEEEEEEEEcCCCc----cccCHHHHHHHHHHHHHHHH-CCCEEE
Confidence 356788999999885 356999999998 55 7789999999999852 3455432 22333333333 379999
Q ss_pred EeecCCCCCC-----CchhHHHHHHhhhCCCcEEEEEeCCCC--C-CcceeEEEEee
Q 024781 142 GWFSTGLGVT-----GGSALIHEFYCREVPNPVHLTVDTGFR--N-GEGTVKAYVSV 190 (262)
Q Consensus 142 GWY~t~~~~~-----~~~~~ih~~~~~~~~~PI~L~vD~~~~--~-~~l~ikAy~~~ 190 (262)
|+||+++... .....|-+.+.+.++++++|++|-.+- + ..-.+.+|...
T Consensus 74 G~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~~~~~~~~~~~~~~ 130 (182)
T cd08060 74 GYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTLDCKGNALVVYKDK 130 (182)
T ss_pred EEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccccccCCceEEEEec
Confidence 9999998543 233334455666778899999997652 1 22234555554
No 23
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=98.42 E-value=4.9e-06 Score=72.37 Aligned_cols=123 Identities=16% Similarity=0.198 Sum_probs=87.3
Q ss_pred EEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCe--EEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCC
Q 024781 61 TAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGT--VDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQE 138 (262)
Q Consensus 61 ~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~--veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e 138 (262)
+|.+++.+..+|+=|+.+.. ...|.|+|||. ..++. |+|+||.|+=|.... ..--.|---.+.+.|-+. .+.
T Consensus 3 ~v~is~~AY~K~~LHaaKyP--~~aVnGvLlg~-~~~~~~~v~i~DaVPLfH~~~~--L~PmlEvAL~qvd~~~~~-~gl 76 (196)
T PF03665_consen 3 SVEISSRAYAKMILHAAKYP--HCAVNGVLLGK-SSKSSSEVEIVDAVPLFHHWLS--LSPMLEVALAQVDAYAKS-NGL 76 (196)
T ss_pred eEEEcHHHHHHHHHHhccCC--CCceeeEEEec-cCCCCceEEEeeceeccccccC--cchHHHHHHHHHHHHHhh-CCC
Confidence 78999999999999998864 47899999999 54443 999999999985421 222344445556666654 579
Q ss_pred cEEEeecCCCCC-----CCchhHHHHHHhhhCCCcEEEEEeCCC-C--CCcceeEEEEe
Q 024781 139 VIVGWFSTGLGV-----TGGSALIHEFYCREVPNPVHLTVDTGF-R--NGEGTVKAYVS 189 (262)
Q Consensus 139 ~vVGWY~t~~~~-----~~~~~~ih~~~~~~~~~PI~L~vD~~~-~--~~~l~ikAy~~ 189 (262)
.|||+|+....+ +.....|-+.+.+.++++++|++|-.+ . .+...+.+|..
T Consensus 77 ~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~~~~~~~~~~ 135 (196)
T PF03665_consen 77 VIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCKAPAISVYQR 135 (196)
T ss_pred EEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccCCCcceeeee
Confidence 999999987533 333334555666678889999999766 2 22334566763
No 24
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=98.21 E-value=1.7e-05 Score=64.53 Aligned_cols=100 Identities=19% Similarity=0.245 Sum_probs=64.8
Q ss_pred EEEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCC--cceeecHHHHHHHHHHHhhhCCCCc
Q 024781 62 AKVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFS--DQVALDIEYHHTMLKSHLKVNPQEV 139 (262)
Q Consensus 62 V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~--~~~~iD~~y~~~m~~l~kkV~p~e~ 139 (262)
+.+-..++-.|+.|..|. .+.+++|.|+|+ ..+ ...|+++....+ ....++.++.. ++...... ++.
T Consensus 2 ~~i~~~~l~~il~~a~~~--~p~E~~g~l~~~-~~~-----~~~~~~~n~~~~~~~~~~~~~~~~~-~~~~~~~~--g~~ 70 (134)
T COG1310 2 LVIPKEVLGAILEHARRE--HPREVCGLLAGT-REG-----ERYFPLKNVSVEPVEYFEIDPEYSL-FYLAAEDA--GEV 70 (134)
T ss_pred ceecHHHHHHHHHHHHhc--CChheEEEEEee-ccc-----ceeeccccccCCcceeEeeCHHHHH-HHHHHhhC--CCE
Confidence 345677888999999886 358999999998 555 444555443322 22355666555 44444333 399
Q ss_pred EEEeecCCCC--CCCchhHHHHHHhhhCCCcEEEEEe
Q 024781 140 IVGWFSTGLG--VTGGSALIHEFYCREVPNPVHLTVD 174 (262)
Q Consensus 140 vVGWY~t~~~--~~~~~~~ih~~~~~~~~~PI~L~vD 174 (262)
+||||||+++ ...++..++ ++...+.|.+++..
T Consensus 71 vvg~yHSHP~~~~~pS~~D~~--~~~~~~~~~~iv~~ 105 (134)
T COG1310 71 VVGWYHSHPGGPPYPSEADRR--LSKLGPLPWLIVSV 105 (134)
T ss_pred EEEEEcCCCCCCCCcCHHHHh--hccccCCCEEEEEc
Confidence 9999999985 445555555 66655666566554
No 25
>PF13012 MitMem_reg: Maintenance of mitochondrial structure and function; PDB: 2O96_B 2O95_A.
Probab=97.70 E-value=1.4e-05 Score=63.16 Aligned_cols=48 Identities=31% Similarity=0.419 Sum_probs=12.5
Q ss_pred chhhHHHHHHhhccCC----CCCcccHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024781 213 IEAERVGFDILKSTSV----DKLPSDLEGMEVLMERLLTLINDIYKYVDDTV 260 (262)
Q Consensus 213 ~e~E~i~l~~l~k~~~----~~~~~~l~~l~~sl~~L~~~l~~i~~Yl~~V~ 260 (262)
.||||||++|+.+... +.+.++++.++.++.+|..+++.+..||++|.
T Consensus 1 eEaErigv~~l~~~~~~~~~s~~~~~l~~~~~al~~L~~~l~~i~~Yl~~v~ 52 (115)
T PF13012_consen 1 EEAERIGVDHLARGLGDHYYSSLSSQLENEQNALKMLHKRLWQILDYLEDVI 52 (115)
T ss_dssp SHHHHHHHHHHHHH--S-----------------------------------
T ss_pred CchHHHHHHHHHccCCCccccHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4899999999988533 35778999999999999999999999999994
No 26
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]
Probab=97.66 E-value=0.0011 Score=56.54 Aligned_cols=124 Identities=16% Similarity=0.167 Sum_probs=87.3
Q ss_pred EEEEehhhHhHHHHHHhhcCCCCceEEEEeeeeE-ecCCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCc
Q 024781 61 TAKVHPLVIFNICDCYVRRPDQAERVIGTLLGSV-LPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEV 139 (262)
Q Consensus 61 ~V~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~-~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~ 139 (262)
.|++..++..+|+=|+.|.. ..-|-|.|+|.. ..|+.++|++|.|+=|+.-. +.--.|-.-.|++-+-+ --+..
T Consensus 3 ~veis~~aY~kmiLH~akyp--h~aVnGLLla~~~~kg~~v~itdcVPLfH~~la--LaPmlEvAl~lId~~~~-~~Glv 77 (199)
T KOG3289|consen 3 EVEISALAYVKMILHAAKYP--HAAVNGLLLAPATGKGECVEITDCVPLFHSHLA--LAPMLEVALNLIDVWGA-QAGLV 77 (199)
T ss_pred ceeehhhHHHHHHHHhccCc--ccceeeEEEeccCCCCCeEEEEecchhhccccc--cccHHHHHHHHHHHHHH-hcCeE
Confidence 58899999999999999875 468999999931 56778999999999877531 22234555555555543 45899
Q ss_pred EEEeecCCCCCCC-----chhHHHHHHhhhCCCcEEEEEeCCC-C--CCcceeEEEEe
Q 024781 140 IVGWFSTGLGVTG-----GSALIHEFYCREVPNPVHLTVDTGF-R--NGEGTVKAYVS 189 (262)
Q Consensus 140 vVGWY~t~~~~~~-----~~~~ih~~~~~~~~~PI~L~vD~~~-~--~~~l~ikAy~~ 189 (262)
|+|.|++...+.. --..|-+-.++.+++..+|++|-.+ . -+.-++-+|+-
T Consensus 78 iaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~~~e~~~v~v~e~ 135 (199)
T KOG3289|consen 78 IAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVPQCERPPVIVLED 135 (199)
T ss_pred EEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEeccccccccCCCCEEEeec
Confidence 9999998864432 2234556677778887777777654 1 23457888883
No 27
>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=96.88 E-value=0.006 Score=55.03 Aligned_cols=102 Identities=23% Similarity=0.302 Sum_probs=73.0
Q ss_pred ceEEEEeeeeEecC---CeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecCCCC----CCCchhH
Q 024781 84 ERVIGTLLGSVLPD---GTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFSTGLG----VTGGSAL 156 (262)
Q Consensus 84 ~~ViG~LLG~~~~~---~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t~~~----~~~~~~~ 156 (262)
..+.|.|.|. ... +.-||+.-...|...+.+.+.+..+- -.+. ---++..|||=+|.+. +++.|+.
T Consensus 56 tQ~~GyLyG~-~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~~~-----~~~~-~l~~Le~LGWIHTqp~e~~~Lss~Dv~ 128 (252)
T cd08056 56 TQIAGYLYGK-SPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQL-----PQHE-YLEDLEPLGWIHTQPNELPQLSPQDVT 128 (252)
T ss_pred ceEEEEEecc-CCCCCCCeEEEEEEEECCEeCCcCcEECCccC-----ccch-hhCCCEeeEEEEcCCCCccccCHHHHH
Confidence 5799999998 655 56789888888888877666442110 1111 1236889999999863 5788888
Q ss_pred HHHHHhhhCC-----CcEEEEEeCCCCCCcceeEEEEeeeecc
Q 024781 157 IHEFYCREVP-----NPVHLTVDTGFRNGEGTVKAYVSVNLSL 194 (262)
Q Consensus 157 ih~~~~~~~~-----~PI~L~vD~~~~~~~l~ikAy~~~~~~~ 194 (262)
.|..+...++ +.|.+++ +...|..++.||...+.++
T Consensus 129 tha~~~~~~~~w~~~~~V~it~--SftpGs~sl~ay~LT~~G~ 169 (252)
T cd08056 129 THAKILADNPSWDGEKTVILTC--SFTPGSCSLTAYKLTPEGY 169 (252)
T ss_pred HHHHHHHhccccCCCcEEEEEE--cCCCCceEEEEEecCHHHH
Confidence 8988887765 3455554 4457789999999998765
No 28
>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=96.81 E-value=0.03 Score=45.81 Aligned_cols=80 Identities=16% Similarity=0.161 Sum_probs=54.4
Q ss_pred hHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCC-Ccc--eeecHHHHHHHHHH-HhhhCCCCcEEEe
Q 024781 68 VIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEF-SDQ--VALDIEYHHTMLKS-HLKVNPQEVIVGW 143 (262)
Q Consensus 68 Vll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~-~~~--~~iD~~y~~~m~~l-~kkV~p~e~vVGW 143 (262)
+++.++..|......+.+.-|+|+|. ..+..+.|++.- .|..++ ... ..-+.+.+++.++. +++.+-....||=
T Consensus 1 ~v~~~~~~~~Q~~~~~~EtGGiLiG~-~~~~~~ii~~~t-~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGe 78 (131)
T TIGR02256 1 VVVAMLKSYRQWHDLSTETGGVLIGE-RRGAHAVITKIS-EPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGE 78 (131)
T ss_pred CHHHHHHHHHhCcCCCCccceEEEEE-EcCCcEEEEEEE-cCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEe
Confidence 46777888866655678999999998 566677777744 444332 122 23456677766654 4455555899999
Q ss_pred ecCCCC
Q 024781 144 FSTGLG 149 (262)
Q Consensus 144 Y~t~~~ 149 (262)
+||+|.
T Consensus 79 WHtHP~ 84 (131)
T TIGR02256 79 WHTHPE 84 (131)
T ss_pred cCcCCC
Confidence 999986
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=96.66 E-value=0.045 Score=43.60 Aligned_cols=99 Identities=18% Similarity=0.213 Sum_probs=62.4
Q ss_pred hHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcce-eecHHHHHHHHHHHhhhCCCCcEEEeecC
Q 024781 68 VIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQV-ALDIEYHHTMLKSHLKVNPQEVIVGWFST 146 (262)
Q Consensus 68 Vll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~-~iD~~y~~~m~~l~kkV~p~e~vVGWY~t 146 (262)
.+-.|++|+.+. .+.++.|.|+|+ .. .|++.+++|....++.- ..+.+ |. -.+..+||-|||
T Consensus 5 ~~~~i~~ha~~~--~P~E~CGlL~G~-~~----~v~~~~~~~n~~~~~~~~~f~~~----~~------~~g~~ivgi~HS 67 (117)
T cd08072 5 LLDSILEAAKSS--HPNEFAALLRGK-DG----VITELLILPGTESGEVSAVFPLL----ML------PLDMSIVGSVHS 67 (117)
T ss_pred HHHHHHHHHhhc--CCceEEEEEEee-cc----EEEEEEECCCCCCCCcceeechH----Hh------cCCCeEEEEEEc
Confidence 345788998765 478999999997 32 58899999965443221 22221 11 248999999999
Q ss_pred CCC----CCCchhHHHHHHhhhCCCcEEEEEeCCCCCCcceeEEEEee
Q 024781 147 GLG----VTGGSALIHEFYCREVPNPVHLTVDTGFRNGEGTVKAYVSV 190 (262)
Q Consensus 147 ~~~----~~~~~~~ih~~~~~~~~~PI~L~vD~~~~~~~l~ikAy~~~ 190 (262)
+++ ++..|. . ++.. +.-.+|++.... +.-.++||...
T Consensus 68 HP~~~~~PS~~D~--~--~~~~-~~~~~lIvs~~~--~~~~~~a~~~~ 108 (117)
T cd08072 68 HPSGSPRPSDADL--S--FFSK-TGLVHIIVGYPY--DEDDWRAYDSD 108 (117)
T ss_pred CCCCCCCCCHHHH--H--hhhc-CCCEEEEEECcC--CCCCEEEEecC
Confidence 985 344442 2 2222 334777776432 22468898875
No 30
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=96.34 E-value=0.031 Score=42.66 Aligned_cols=91 Identities=15% Similarity=0.068 Sum_probs=50.4
Q ss_pred hHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeee-cccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecC
Q 024781 68 VIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYV-VPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFST 146 (262)
Q Consensus 68 Vll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~-vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t 146 (262)
++-.|+.|+.+. .+.+..|.|+|. ..+..+.++.... .|.+ +..... ++....+..+||+|||
T Consensus 4 ~~~~i~~~~~~~--~p~E~~G~L~g~-~~~~~~~~~~~~~~~p~~-----------~~~~~~--~~~~~~~~~~vg~~HS 67 (104)
T PF14464_consen 4 VLEQIIAHARAA--YPNEACGLLLGR-RDDQRFIVVPNVNPDPRD-----------SFRRER--FEARERGLEIVGIWHS 67 (104)
T ss_dssp HHHHHHHHHHHH--TTS-EEEEEEEE-EECCEEEEEEEEE--HHC-----------HHHHHH---HHHHHT-EEEEEEEE
T ss_pred HHHHHHHHHhhC--CCCeEEEEEEEE-ecCCEEEEEeCCCCCcHH-----------HHHHHh--hhhhcccceeeEEEEc
Confidence 455788888776 468999999998 5666666766655 1111 111111 0445678999999999
Q ss_pred CCCCCCchhHHHHHHhhhCCCcEEEEEe
Q 024781 147 GLGVTGGSALIHEFYCREVPNPVHLTVD 174 (262)
Q Consensus 147 ~~~~~~~~~~ih~~~~~~~~~PI~L~vD 174 (262)
+++-...=+............+++|++.
T Consensus 68 HP~~~a~pS~~D~~~~~~~~~~~~iI~~ 95 (104)
T PF14464_consen 68 HPSGPAFPSSTDIRSMRDLAPPSYIIVG 95 (104)
T ss_dssp ESSSSSS--HHHHHTHCCS-SCEEEEEE
T ss_pred CCCCCCCCCHHHHHhhhccCCeEEEEEe
Confidence 9864322222222222222255666664
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=90.10 E-value=3.4 Score=32.32 Aligned_cols=65 Identities=8% Similarity=-0.059 Sum_probs=40.5
Q ss_pred HhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCC--cceeecH-HHHHHHHHHHhhhCCCCcEEEeec
Q 024781 69 IFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFS--DQVALDI-EYHHTMLKSHLKVNPQEVIVGWFS 145 (262)
Q Consensus 69 ll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~--~~~~iD~-~y~~~m~~l~kkV~p~e~vVGWY~ 145 (262)
+-.|++|..+. .+.+..|.|+|. . + ++..++++....+ ....+|. ++++-+ + ...+||-||
T Consensus 3 ~~~i~~ha~~~--~P~E~CGll~g~-~--~---~~~~~p~~N~~~~p~~~F~idp~e~~~a~----~----~~~ivgi~H 66 (108)
T cd08073 3 EDAILAHAKAE--YPREACGLVVRK-G--R---KLRYIPCRNIAADPEEHFEISPEDYAAAE----D----EGEIVAVVH 66 (108)
T ss_pred HHHHHHHHhHC--CCCcceEEEEec-C--C---ceEEEECccCCCCccceEEeCHHHHHHHh----c----CCCEEEEEE
Confidence 34688888665 468899999997 3 2 3344666532221 3356775 444322 1 238999999
Q ss_pred CCCC
Q 024781 146 TGLG 149 (262)
Q Consensus 146 t~~~ 149 (262)
|+++
T Consensus 67 SHP~ 70 (108)
T cd08073 67 SHPD 70 (108)
T ss_pred cCCC
Confidence 9974
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=89.25 E-value=4.3 Score=37.18 Aligned_cols=108 Identities=19% Similarity=0.232 Sum_probs=68.4
Q ss_pred ceEEEEeeeeEecC------CeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecCCC------C--
Q 024781 84 ERVIGTLLGSVLPD------GTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFSTGL------G-- 149 (262)
Q Consensus 84 ~~ViG~LLG~~~~~------~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t~~------~-- 149 (262)
..-+|.|.|++.+. .++.|.--|+=|...+.+.+.+..+-.++..+... ..-+...|||=-|.. +
T Consensus 34 ~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~d~~~~~vd~iA-~~lGL~~VG~IfT~l~~~~~d~~~ 112 (274)
T cd08061 34 QQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLEDPNADTVDAIA-AALGLERVGWIFTDLPREDKDGYF 112 (274)
T ss_pred ceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEccchhhhHHHHHH-HHcCCeEEEEEEecCCCCCCCcee
Confidence 56799999995443 37889888898988877766544333333344443 334899999966553 2
Q ss_pred CCCchhHHHHHHhh-----hCCCc-EEEEEeCCCCCCcceeEEEEeeeec
Q 024781 150 VTGGSALIHEFYCR-----EVPNP-VHLTVDTGFRNGEGTVKAYVSVNLS 193 (262)
Q Consensus 150 ~~~~~~~ih~~~~~-----~~~~P-I~L~vD~~~~~~~l~ikAy~~~~~~ 193 (262)
+++..+.....++. ...+. +-+++.+.. ++.+.+.||..++..
T Consensus 113 LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~-~g~i~~~ayQvSdq~ 161 (274)
T cd08061 113 LSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDK-DGQIHFEAYQVSDQA 161 (274)
T ss_pred ECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCC-CCceeeeeeeecHHH
Confidence 23333333444442 23333 557777654 477899999998754
No 33
>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=87.74 E-value=6.2 Score=36.74 Aligned_cols=105 Identities=18% Similarity=0.165 Sum_probs=62.7
Q ss_pred EEEeeeeEecCC------eEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecCCCC-----------
Q 024781 87 IGTLLGSVLPDG------TVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFSTGLG----------- 149 (262)
Q Consensus 87 iG~LLG~~~~~~------~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t~~~----------- 149 (262)
+|.|.|++.+.. ++.|.--|+=|...+.+.+.+..+-.++..+...+-- +...|||=-|...
T Consensus 2 ~G~LYG~Y~~~~~vplGika~VeaIYEPpQ~~~~d~~~l~~d~~~~~vd~iA~~l-GL~rVG~IfTdl~~~~~~~g~v~~ 80 (306)
T PF05021_consen 2 FGFLYGRYEEYDDVPLGIKAVVEAIYEPPQEGEPDGFTLLPDENEERVDAIASAL-GLERVGWIFTDLTDDGSGDGTVKC 80 (306)
T ss_pred eEEEEEEEeccCCCCCceEEEEEEEECCCcCCCCCCEEEcCCccHHHHHHHHHHC-CCEEEEEEEecCcccccCCCceee
Confidence 799999854444 6889889999998877777653333333333333222 8999999444321
Q ss_pred --------CCCchhHHHHHHhhhC------------CCc-EEEEEeCCCCCCcceeEEEEeeeec
Q 024781 150 --------VTGGSALIHEFYCREV------------PNP-VHLTVDTGFRNGEGTVKAYVSVNLS 193 (262)
Q Consensus 150 --------~~~~~~~ih~~~~~~~------------~~P-I~L~vD~~~~~~~l~ikAy~~~~~~ 193 (262)
+++..+..-..++... .+. |-+++.+. .++.+.+.||..++..
T Consensus 81 ~r~~~~~~LSs~Eii~aA~~Q~~~p~~~~~s~~g~fgSkFVT~vvsg~-~~g~i~~~ayQvS~q~ 144 (306)
T PF05021_consen 81 KRHKDSYFLSSLEIIFAAKLQNKHPNPCKYSETGYFGSKFVTCVVSGD-EEGEIHFEAYQVSNQC 144 (306)
T ss_pred ccccccccccHHHHHHHHHHHHhcCccccccCCCccCCeEEEEEEeCC-CCCceeeEEeeehHHH
Confidence 2222222222232222 222 55566553 5678999999998754
No 34
>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=85.50 E-value=4 Score=30.98 Aligned_cols=63 Identities=13% Similarity=0.080 Sum_probs=39.9
Q ss_pred HHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecCCCC
Q 024781 71 NICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFSTGLG 149 (262)
Q Consensus 71 ~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t~~~ 149 (262)
.|.+|+.+. -+.+..|.|+|. .. + .+.+..++|... ..++..+ ......-+..+||-||++++
T Consensus 5 ~i~~~~~~~--~p~E~~gll~~~-~~-~--~~~~~~~~~~~~----~~~~~~~------~~~a~~~~~~~v~i~HsHP~ 67 (101)
T cd08059 5 TILVHAKDA--HPDEFCGFLSGS-KD-N--VMDELIFLPFVS----GSVSAVI------DLAALEIGMKVVGLVHSHPS 67 (101)
T ss_pred HHHHHHHhc--CChhhheeeecC-CC-C--eEEEEEeCCCcC----CccChHH------HHHHhhCCCcEEEEEecCcC
Confidence 456666543 257899999997 43 3 567778887443 1233333 22333457789999999974
No 35
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=80.95 E-value=3 Score=39.57 Aligned_cols=100 Identities=15% Similarity=0.211 Sum_probs=61.8
Q ss_pred CceEEEEeeeeEecCCeEEEEeeeecccC-CCCcce-eecHHHHHHHHHHHh-hhCCCCcEEEeecCCCC--CCCchhHH
Q 024781 83 AERVIGTLLGSVLPDGTVDIRNSYVVPHN-EFSDQV-ALDIEYHHTMLKSHL-KVNPQEVIVGWFSTGLG--VTGGSALI 157 (262)
Q Consensus 83 ~~~ViG~LLG~~~~~~~veVtnsF~vP~~-~~~~~~-~iD~~y~~~m~~l~k-kV~p~e~vVGWY~t~~~--~~~~~~~i 157 (262)
+-.-.|+|-|. -..|..-||+-. +|.. .+.|-+ ..|.+- +|. +---++--+||-||++. ..-+++.+
T Consensus 275 nlETCGiL~g~-L~~n~f~IThli-iPkQeatsd~C~t~neee------lF~vQdq~~L~tlGWIHTHPTQt~FmSSVDl 346 (424)
T KOG2880|consen 275 NLETCGILAGK-LERNEFYITHLI-IPKQEATSDSCNTMNEEE------LFEVQDQHELLTLGWIHTHPTQTCFMSSVDL 346 (424)
T ss_pred cchHHHHhhhH-hhcCcEEEEEEE-eecccCCCccccccCHHH------HheecccccceeeeeeecCCccchhheeccc
Confidence 45678999999 788888897755 4544 333322 122111 111 11235667999999985 33455566
Q ss_pred HHHHhhh--CCCcEEEEEeCCCCCCcceeEEEEee-eecc
Q 024781 158 HEFYCRE--VPNPVHLTVDTGFRNGEGTVKAYVSV-NLSL 194 (262)
Q Consensus 158 h~~~~~~--~~~PI~L~vD~~~~~~~l~ikAy~~~-~~~~ 194 (262)
|.-++++ .+..|++++-|..++ -.+|++. +.|+
T Consensus 347 HTHcSYQiMlPEAiAIV~aPk~~~----tGiFrLt~~~Gm 382 (424)
T KOG2880|consen 347 HTHCSYQIMLPEAIAIVCAPKSKT----TGIFRLTDPGGM 382 (424)
T ss_pred cccceeeeecchheeEEeccccCC----cceEEecCCcch
Confidence 7767776 577899999887432 3467776 4444
No 36
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=73.66 E-value=23 Score=33.63 Aligned_cols=100 Identities=15% Similarity=0.164 Sum_probs=63.1
Q ss_pred EEeeeeEe-cCCeEEEEeeeecccCCCCcc-----------eeecHHHHHHHHHHHhhhCCC-CcEEEeecCCCCC-CCc
Q 024781 88 GTLLGSVL-PDGTVDIRNSYVVPHNEFSDQ-----------VALDIEYHHTMLKSHLKVNPQ-EVIVGWFSTGLGV-TGG 153 (262)
Q Consensus 88 G~LLG~~~-~~~~veVtnsF~vP~~~~~~~-----------~~iD~~y~~~m~~l~kkV~p~-e~vVGWY~t~~~~-~~~ 153 (262)
|.|+|. . .++.--|.+..+-|.++++++ -.+|.++..+-..+-.+--|+ ..|||.|..+++. ...
T Consensus 1 GLlIGq-~~s~~kd~Vv~l~~tP~~d~~~~~~~~~~~~~~~~~id~~WVaeHA~qVsRMLPGGi~VlGifvv~~~~~~~~ 79 (362)
T PF14778_consen 1 GLLIGQ-SSSSQKDYVVHLARTPPEDTDDEESDVRTSDSSIKDIDEEWVAEHARQVSRMLPGGISVLGIFVVAPDDAFKD 79 (362)
T ss_pred CeEecc-ccCCCcceEEEecCCCCccccccccccccccccccccCHHHHHHHHHHHHhhCCCCcEEEEEEEEcCHHHhcc
Confidence 889998 5 565566889999998765544 148888888777777777776 8899999977642 221
Q ss_pred h---hHHHHHHh--h-----hC---CCcEEEEEeCCCCCCcceeEEEEe
Q 024781 154 S---ALIHEFYC--R-----EV---PNPVHLTVDTGFRNGEGTVKAYVS 189 (262)
Q Consensus 154 ~---~~ih~~~~--~-----~~---~~PI~L~vD~~~~~~~l~ikAy~~ 189 (262)
. ..+...+. . .. .+-+.|.++.+.. .++.-|.|..
T Consensus 80 ~~~~~~l~~l~~~~~~~~~~~~~~~~e~~~l~i~~st~-kk~~Ck~~~~ 127 (362)
T PF14778_consen 80 SSTLNKLKKLLFSSNSLWSVYNDDVSERLLLHICSSTS-KKLTCKSYDV 127 (362)
T ss_pred chHHHHHHHHHhhhcccccccCCCcccceEEEEEcccC-ceEEEEEEEe
Confidence 1 12222222 1 11 1236777776542 3566666655
No 37
>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=72.69 E-value=1.9 Score=31.01 Aligned_cols=12 Identities=50% Similarity=1.063 Sum_probs=7.7
Q ss_pred CCcEEEeecCCC
Q 024781 137 QEVIVGWFSTGL 148 (262)
Q Consensus 137 ~e~vVGWY~t~~ 148 (262)
+-.|||||+|.-
T Consensus 39 qg~vvgwy~t~l 50 (78)
T PF06442_consen 39 QGQVVGWYCTKL 50 (78)
T ss_dssp EEEEEEEE--SS
T ss_pred cceEeEEEeccc
Confidence 467999999863
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=67.08 E-value=30 Score=30.08 Aligned_cols=71 Identities=10% Similarity=0.018 Sum_probs=47.5
Q ss_pred EEehhhHhHHHHHHhhcCCCCceEEEEeeeeEecCCeEEEEeeeecccCCCCcc-eeecHHHHHHHHHHHhhhCCCCcEE
Q 024781 63 KVHPLVIFNICDCYVRRPDQAERVIGTLLGSVLPDGTVDIRNSYVVPHNEFSDQ-VALDIEYHHTMLKSHLKVNPQEVIV 141 (262)
Q Consensus 63 ~VhPlVll~I~dH~~R~~~~~~~ViG~LLG~~~~~~~veVtnsF~vP~~~~~~~-~~iD~~y~~~m~~l~kkV~p~e~vV 141 (262)
+|..-.+=.|+.|+.+. -+.++.|.|.|. .+++.. ..+++...+.+.. ...|.. |. ..++.+|
T Consensus 74 ~Ip~~l~~~ii~hAr~~--~P~EacG~Iag~-~~~~~~---r~~p~~N~~~Sp~~~~~d~~----~~------~~ge~lV 137 (192)
T TIGR03735 74 PIPASLLEEFAEAARAA--LPNEVAAWIVWN-SETGSL---RLAALESIEASPGHIDYRRP----RL------DDGEHLV 137 (192)
T ss_pred CCCHHHHHHHHHHHHhc--CCcceEEEEEEc-CCCCEE---EEEeccccccCCceEEEcch----HH------hCCCeEE
Confidence 44556677899999765 368999999996 455554 3366664443322 344433 22 6789999
Q ss_pred EeecCCCC
Q 024781 142 GWFSTGLG 149 (262)
Q Consensus 142 GWY~t~~~ 149 (262)
+-||+++.
T Consensus 138 ~iyHSH~~ 145 (192)
T TIGR03735 138 VDLHSHGT 145 (192)
T ss_pred EEEcCCCC
Confidence 99999875
No 39
>KOG2834 consensus Nuclear pore complex, rNpl4 component (sc Npl4) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=44.69 E-value=34 Score=33.68 Aligned_cols=74 Identities=16% Similarity=0.217 Sum_probs=48.7
Q ss_pred hHHHHHHhhcCC-CCceEEEEeeeeEecCCeE------EEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEE
Q 024781 70 FNICDCYVRRPD-QAERVIGTLLGSVLPDGTV------DIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVG 142 (262)
Q Consensus 70 l~I~dH~~R~~~-~~~~ViG~LLG~~~~~~~v------eVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVG 142 (262)
-+|.+|+.+.+. ....-+|-|.|.+.+.+.| +|---|+=|....++.+.+..+=-++..+.-. ..-+...||
T Consensus 182 ~~~v~~Fl~~wr~sg~QR~GflyG~y~e~~~vPLGika~V~aIYEPPQ~~~~dgl~l~~~~e~~~vD~~a-~~lGLrRVG 260 (510)
T KOG2834|consen 182 AELVNHFLNEWRASGVQRFGFLYGRYTEHGNVPLGIKAVVAAIYEPPQHGEEDGLELLEDDEAKRVDAIA-EGLGLRRVG 260 (510)
T ss_pred hHHHHHHHHHHHHhhhhhcceEEEeecccccccccceeeEEEEecCCccCCcCCeEEeccchhhhHHHHH-HhcCceeeE
Confidence 467788877652 2245689999997777778 99889999988877776555222222222222 234788999
Q ss_pred ee
Q 024781 143 WF 144 (262)
Q Consensus 143 WY 144 (262)
|-
T Consensus 261 ~I 262 (510)
T KOG2834|consen 261 WI 262 (510)
T ss_pred EE
Confidence 94
No 40
>KOG1795 consensus U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=38.40 E-value=58 Score=36.28 Aligned_cols=117 Identities=20% Similarity=0.242 Sum_probs=72.2
Q ss_pred hHHHHHHhhcCCCCceEEEEeeeeEecC--CeE-EEEeeeecccCCCCcceeecHHHHHHHHHHHhhhCCCCcEEEeecC
Q 024781 70 FNICDCYVRRPDQAERVIGTLLGSVLPD--GTV-DIRNSYVVPHNEFSDQVALDIEYHHTMLKSHLKVNPQEVIVGWFST 146 (262)
Q Consensus 70 l~I~dH~~R~~~~~~~ViG~LLG~~~~~--~~v-eVtnsF~vP~~~~~~~~~iD~~y~~~m~~l~kkV~p~e~vVGWY~t 146 (262)
.||++-+.+...-...+.|.+.|. ... .+| ||..---+|.-+.-..+.+- .++- -..+--+...+||-+|
T Consensus 2101 kNllkkFi~isD~r~qiag~~yG~-s~~d~pqvkeIr~ivmvPQ~gs~~~v~lp-~~lP-----~~~~l~d~e~Lgw~hT 2173 (2321)
T KOG1795|consen 2101 KNLLKKFITISDLRTQIAGYLYGV-SPPDNPQVKEIRCIVMVPQWGSHQGVHLP-SFLP-----IHGVLEDLEPLGWIHT 2173 (2321)
T ss_pred HHHHhhheeecchhhhhheeeecc-CCCCCCccceEEEEEeccccccccccccC-ccCC-----cchhccCCcccchhhc
Confidence 466666666543235688999996 433 344 66444445655443322110 0000 1123457888999999
Q ss_pred CCC----CCCchhHHHHHHhhhCC-CcEEEEEeCCCCCCcceeEEEEeeeeccC
Q 024781 147 GLG----VTGGSALIHEFYCREVP-NPVHLTVDTGFRNGEGTVKAYVSVNLSLG 195 (262)
Q Consensus 147 ~~~----~~~~~~~ih~~~~~~~~-~PI~L~vD~~~~~~~l~ikAy~~~~~~~~ 195 (262)
.++ ++..|+.+|..+....+ ..|.+++ +..-|..++.||..+++|.+
T Consensus 2174 q~~el~~lsp~dV~th~ki~~~~k~k~i~~t~--~~tpgs~sl~ay~lt~~G~e 2225 (2321)
T KOG1795|consen 2174 QPNELPQLSPQDVTTHAKILVDNKEKCIIITC--SFTPGSCSLTAYKLTPSGYE 2225 (2321)
T ss_pred CccccccCCHHHhhhhhhhhhcCccceEEEEe--eccCCcceeeeeccCccccc
Confidence 864 57888899988776543 3455554 34567899999999988764
No 41
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=21.76 E-value=58 Score=22.62 Aligned_cols=26 Identities=23% Similarity=0.221 Sum_probs=21.5
Q ss_pred CCcceeecHHHHHHHHHHHhhhCCCC
Q 024781 113 FSDQVALDIEYHHTMLKSHLKVNPQE 138 (262)
Q Consensus 113 ~~~~~~iD~~y~~~m~~l~kkV~p~e 138 (262)
+++.|.-|.+++.+....+++||-++
T Consensus 27 S~ehw~~D~e~H~~~c~~LRqvNede 52 (55)
T PF13824_consen 27 SEEHWEDDYEEHRQLCERLRQVNEDE 52 (55)
T ss_pred CHHHHHHhHHHHHHHHHHHHHhcccc
Confidence 44567888899999999999999765
No 42
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=21.34 E-value=1.2e+02 Score=25.31 Aligned_cols=42 Identities=29% Similarity=0.536 Sum_probs=30.3
Q ss_pred hCCCCcEEEe--ecCCCCCCCchhHHHHHHhhhCC-CcEEEEEeC
Q 024781 134 VNPQEVIVGW--FSTGLGVTGGSALIHEFYCREVP-NPVHLTVDT 175 (262)
Q Consensus 134 V~p~e~vVGW--Y~t~~~~~~~~~~ih~~~~~~~~-~PI~L~vD~ 175 (262)
=.|+-.|=|| |.||-....+.-.||+.|+.+-+ .-|||-+|.
T Consensus 64 pgPqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDR 108 (170)
T KOG0130|consen 64 PGPQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDR 108 (170)
T ss_pred CCCccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeecccc
Confidence 3588999999 45665444555579999999833 228999884
No 43
>PF07620 SLEI_Leptospira: SLEI; InterPro: IPR011512 This entry represents a highly conserved sequence motif found at the C-terminal of some hypothetical proteins from Leptospira interrogans.
Probab=20.57 E-value=76 Score=16.55 Aligned_cols=11 Identities=36% Similarity=0.667 Sum_probs=8.6
Q ss_pred ecCCeEEEEee
Q 024781 95 LPDGTVDIRNS 105 (262)
Q Consensus 95 ~~~~~veVtns 105 (262)
..++++||.|+
T Consensus 5 ~rdNsLeIsn~ 15 (16)
T PF07620_consen 5 LRDNSLEISNQ 15 (16)
T ss_pred ccCCeEEEeec
Confidence 46888999875
Done!