Query 028839
Match_columns 203
No_of_seqs 115 out of 152
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 03:21:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028839.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028839hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03665 UPF0172: Uncharacteri 100.0 1.6E-76 3.4E-81 496.8 21.0 193 4-203 1-196 (196)
2 KOG3289 Uncharacterized conser 100.0 1.2E-74 2.5E-79 472.9 17.6 189 6-203 4-193 (199)
3 cd08060 MPN_UPF0172 Mov34/MPN/ 100.0 1.2E-60 2.5E-65 396.7 20.0 182 8-198 1-182 (182)
4 cd07767 MPN Mpr1p, Pad1p N-ter 99.7 1.2E-16 2.7E-21 120.8 13.0 107 14-125 1-108 (116)
5 cd08069 MPN_RPN11_CSN5 Mov34/M 99.0 7.9E-09 1.7E-13 90.8 13.3 114 6-123 12-130 (268)
6 cd08065 MPN_eIF3h Mpr1p, Pad1p 99.0 3E-08 6.5E-13 86.9 15.5 127 6-144 3-136 (266)
7 cd08057 MPN_euk_non_mb Mpr1p, 98.9 7.5E-08 1.6E-12 77.8 15.4 129 6-143 1-135 (157)
8 PF01398 JAB: JAB1/Mov34/MPN/P 98.9 2.3E-08 5.1E-13 76.0 10.4 103 6-112 6-113 (114)
9 smart00232 JAB_MPN JAB/MPN dom 98.8 2.3E-07 5.1E-12 71.4 14.7 114 6-124 2-120 (135)
10 cd08067 MPN_2A_DUB Mov34/MPN/P 98.8 5.4E-07 1.2E-11 75.5 16.1 133 6-148 7-150 (187)
11 cd08062 MPN_RPN7_8 Mpr1p, Pad1 98.6 1.1E-06 2.4E-11 77.8 14.8 123 6-143 3-134 (280)
12 cd08064 MPN_eIF3f Mpr1p, Pad1p 98.5 2.1E-06 4.5E-11 75.1 13.0 123 6-143 1-130 (265)
13 cd08058 MPN_euk_mb Mpr1p, Pad1 98.5 2.2E-06 4.8E-11 66.0 11.3 105 12-123 2-108 (119)
14 cd08063 MPN_CSN6 Mpr1p, Pad1p 98.5 3E-06 6.4E-11 75.1 12.9 127 5-143 2-138 (288)
15 cd08068 MPN_BRCC36 Mov34/MPN/P 98.3 5.1E-05 1.1E-09 66.1 16.1 134 6-145 4-152 (244)
16 PLN03246 26S proteasome regula 98.3 1.6E-05 3.4E-10 71.3 12.4 122 6-142 8-138 (303)
17 cd08066 MPN_AMSH_like Mov34/MP 98.1 0.00011 2.5E-09 60.7 14.4 126 6-149 4-135 (173)
18 KOG1554 COP9 signalosome, subu 97.6 0.00054 1.2E-08 61.0 10.2 114 6-125 55-176 (347)
19 cd08070 MPN_like Mpr1p, Pad1p 97.5 0.0014 3.1E-08 50.9 9.7 114 11-145 2-121 (128)
20 PF14464 Prok-JAB: Prokaryotic 96.8 0.0062 1.3E-07 45.0 7.0 76 10-99 2-78 (104)
21 cd08072 MPN_archaeal Mov34/MPN 96.0 0.22 4.8E-06 38.4 11.8 108 8-145 1-110 (117)
22 KOG1556 26S proteasome regulat 95.4 0.48 1E-05 41.8 12.7 110 6-125 11-131 (309)
23 KOG1555 26S proteasome regulat 94.7 0.12 2.5E-06 46.8 7.2 113 6-121 33-156 (316)
24 KOG2975 Translation initiation 94.5 0.17 3.7E-06 44.8 7.4 109 6-122 23-136 (288)
25 COG1310 Predicted metal-depend 94.2 0.75 1.6E-05 35.8 10.0 88 7-102 3-91 (134)
26 TIGR02256 ICE_VC0181 integrati 93.5 1.1 2.3E-05 35.7 9.8 90 26-119 17-112 (131)
27 cd08059 MPN_prok_mb Mpr1p, Pad 93.0 1.2 2.5E-05 32.9 8.8 82 12-107 2-83 (101)
28 KOG1560 Translation initiation 88.3 5.1 0.00011 36.1 9.7 112 6-126 15-143 (339)
29 cd08073 MPN_NLPC_P60 Mpr1p, Pa 81.5 7.5 0.00016 29.5 6.7 70 12-99 2-78 (108)
30 KOG3050 COP9 signalosome, subu 68.1 21 0.00046 31.7 6.7 84 26-120 37-126 (299)
31 COG3933 Transcriptional antite 58.2 45 0.00097 32.0 7.4 91 10-128 89-181 (470)
32 TIGR03735 PRTRC_A PRTRC system 53.6 50 0.0011 28.0 6.3 67 7-90 74-145 (192)
33 PF14778 ODR4-like: Olfactory 50.7 28 0.0006 31.9 4.8 57 30-88 1-72 (362)
34 PF03808 Glyco_tran_WecB: Glyc 46.8 64 0.0014 26.1 5.9 44 77-126 73-116 (172)
35 PRK06934 flavodoxin; Provision 43.8 80 0.0017 27.2 6.3 56 59-114 13-87 (221)
36 cd03006 PDI_a_EFP1_N PDIa fami 43.4 1.4E+02 0.0031 22.5 7.2 90 50-145 2-95 (113)
37 COG2343 Uncharacterized protei 41.4 22 0.00047 28.5 2.2 83 17-108 21-116 (132)
38 smart00857 Resolvase Resolvase 40.9 1.6E+02 0.0034 22.3 7.9 63 63-126 17-79 (148)
39 TIGR02364 dha_pts dihydroxyace 38.9 1.2E+02 0.0026 23.6 6.1 53 62-120 12-67 (125)
40 KOG3096 Spliceosome-associated 38.5 36 0.00079 29.3 3.3 77 45-126 5-83 (225)
41 PF12062 HSNSD: heparan sulfat 32.8 38 0.00083 32.6 2.8 27 64-90 126-152 (487)
42 PRK02399 hypothetical protein; 32.7 1.3E+02 0.0029 28.4 6.3 32 161-192 355-388 (406)
43 cd03770 SR_TndX_transposase Se 30.8 2.5E+02 0.0054 21.6 7.7 63 62-125 19-81 (140)
44 cd06533 Glyco_transf_WecG_TagA 29.5 88 0.0019 25.3 4.1 44 77-126 71-114 (171)
45 cd08061 MPN_NPL4 Mov34/MPN/PAD 29.3 4.1E+02 0.0089 23.6 11.7 115 6-120 13-143 (274)
46 PF11732 Thoc2: Transcription- 29.1 44 0.00094 24.2 2.0 20 53-74 5-24 (77)
47 cd00338 Ser_Recombinase Serine 27.8 2.5E+02 0.0055 20.7 7.8 61 64-125 17-78 (137)
48 PF00056 Ldh_1_N: lactate/mala 26.6 88 0.0019 24.4 3.5 24 98-121 96-119 (141)
49 COG5137 Histone chaperone invo 25.4 16 0.00034 32.0 -1.1 62 27-90 56-117 (279)
50 PRK11558 putative ssRNA endonu 23.6 2.8E+02 0.0061 21.0 5.6 55 82-152 28-82 (97)
51 PF14201 DUF4318: Domain of un 21.6 85 0.0018 22.6 2.3 22 60-81 14-35 (74)
52 COG2065 PyrR Pyrimidine operon 21.5 1.7E+02 0.0037 24.6 4.3 40 64-111 18-57 (179)
53 cd03069 PDI_b_ERp57 PDIb famil 21.0 1.7E+02 0.0037 21.3 4.0 66 67-142 8-73 (104)
54 PF06792 UPF0261: Uncharacteri 20.3 2.1E+02 0.0047 27.0 5.3 33 161-193 354-389 (403)
55 PF09831 DUF2058: Uncharacteri 20.1 1E+02 0.0022 25.9 2.7 34 79-120 121-154 (177)
No 1
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=100.00 E-value=1.6e-76 Score=496.75 Aligned_cols=193 Identities=44% Similarity=0.743 Sum_probs=174.1
Q ss_pred cc-eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEE
Q 028839 4 LK-YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIV 82 (203)
Q Consensus 4 M~-v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~Iv 82 (203)
|+ |+||++||+||+|||||||||+|||||||+.++++ +.|.|+|||||||++++|+||||+||+|||+||+++|++||
T Consensus 1 m~~v~is~~AY~K~~LHaaKyP~~aVnGvLlg~~~~~~-~~v~i~DaVPLfH~~~~L~PmlEvAL~qvd~~~~~~gl~Iv 79 (196)
T PF03665_consen 1 MSSVEISSRAYAKMILHAAKYPHCAVNGVLLGKSSKSS-SEVEIVDAVPLFHHWLSLSPMLEVALAQVDAYAKSNGLVIV 79 (196)
T ss_pred CceEEEcHHHHHHHHHHhccCCCCceeeEEEeccCCCC-ceEEEeeceeccccccCcchHHHHHHHHHHHHHhhCCCEEE
Confidence 55 99999999999999999999999999999976653 45999999999999999999999999999999999999999
Q ss_pred EEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe--cCCCCeEEcCCCCCccee
Q 028839 83 GYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR--DASKNWKLVGSDGGCQLL 160 (203)
Q Consensus 83 GyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~--~~~~~W~~~~~~~~~~~~ 160 (203)
||||||||++|.+|+|+|+|||+||+++|++||++||||+||+. ..+.+.+.+|.+ .++++|++.+. .....
T Consensus 80 GyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~----~~~~~~~~~~~~~~~~~~~w~~~~~--~~~~~ 153 (196)
T PF03665_consen 80 GYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSS----DCKAPAISVYQRDGNSGGKWKSKDK--SSVLL 153 (196)
T ss_pred EEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECccccc----ccCCCcceeeeeeccCCCceeecCC--Cceee
Confidence 99999999999999999999999999999999999999999997 556677788884 34458988653 33343
Q ss_pred ecCcchHHHHHHHHhhcccCcccccccccCCCCCCCCCccCCC
Q 028839 161 TKEPAANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK 203 (203)
Q Consensus 161 ~~~~~~~~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N~~l~~ 203 (203)
...+++.+.+++++++++|++|+|||||||||++||+|++||+
T Consensus 154 ~~~~~~~~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N~~ln~ 196 (196)
T PF03665_consen 154 ESWEEALEIVSDLLKSKKYRQLVDFDDHLDDISKDWLNPELNK 196 (196)
T ss_pred eCcHHHHHHHHHHHHhCCcCcccchhhccCCCccccCChhhcC
Confidence 4456689999999999999999999999999999999999986
No 2
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]
Probab=100.00 E-value=1.2e-74 Score=472.85 Aligned_cols=189 Identities=41% Similarity=0.676 Sum_probs=175.0
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEE
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY 85 (203)
|++|++||+||+|||+||||++|||+|||+.++.| ++|+|+|||||||+++.|+|||||||+|||+||.+.|++|||||
T Consensus 4 veis~~aY~kmiLH~akyph~aVnGLLla~~~~kg-~~v~itdcVPLfH~~laLaPmlEvAl~lId~~~~~~GlviaGyy 82 (199)
T KOG3289|consen 4 VEISALAYVKMILHAAKYPHAAVNGLLLAPATGKG-ECVEITDCVPLFHSHLALAPMLEVALNLIDVWGAQAGLVIAGYY 82 (199)
T ss_pred eeehhhHHHHHHHHhccCcccceeeEEEeccCCCC-CeEEEEecchhhccccccccHHHHHHHHHHHHHHhcCeEEEEEe
Confidence 99999999999999999999999999999876665 79999999999999999999999999999999999999999999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCCCCeEEcCCCCCcceeecC-c
Q 028839 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKE-P 164 (203)
Q Consensus 86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W~~~~~~~~~~~~~~~-~ 164 (203)
|||||++|.++.++|+|||+||+|+||+|+++|+||++|+. +++.|.+.+|..++ .+|++.++ .... +.+ +
T Consensus 83 ~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~----~~e~~~v~v~e~~g-~rW~~~d~--~~~~-~~d~~ 154 (199)
T KOG3289|consen 83 HANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVP----QCERPPVIVLEDQG-LRWRPKDK--TLVQ-WSDWL 154 (199)
T ss_pred ecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEecccccc----ccCCCCEEEeeccC-cceeecCC--chhh-hhcch
Confidence 99999999999999999999999999999999999999997 78888899999666 59999864 2222 333 5
Q ss_pred chHHHHHHHHhhcccCcccccccccCCCCCCCCCccCCC
Q 028839 165 AANVVLMDYISSEKWQDVVDFDDHLDDISKDWLNPDLFK 203 (203)
Q Consensus 165 ~~~~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N~~l~~ 203 (203)
+.+.+++.+|++++|++|+|||||||||++||+|++||+
T Consensus 155 e~~~~ls~ll~~~~~r~LvDfDnHLDd~~~DwtN~~Lnn 193 (199)
T KOG3289|consen 155 EGRQMLSALLESRAYRDLVDFDNHLDDPRKDWTNPRLNN 193 (199)
T ss_pred hHHHHHHHHHhhhhhhhhcchhhcccCchhcccChhhhh
Confidence 688889999999999999999999999999999999985
No 3
>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=100.00 E-value=1.2e-60 Score=396.69 Aligned_cols=182 Identities=43% Similarity=0.699 Sum_probs=164.7
Q ss_pred EeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEe
Q 028839 8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHA 87 (203)
Q Consensus 8 is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~A 87 (203)
|+++||.||++||+|||+++|||+|||+.+.+ +.+.|+|+|||||+++.|+||+||||.|||.||+++|+.|||||||
T Consensus 1 is~~ay~ki~~HA~k~p~~evcGlLlG~~~~~--~~~~V~d~vPl~h~~~~l~P~~Eval~~ve~~~~~~gl~IvG~Yhs 78 (182)
T cd08060 1 LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSSG--GSVEITDAVPLFHSCLALAPMLEVALALVDAYCKSSGLVIVGYYQA 78 (182)
T ss_pred CCHHHHHHHHHHHHHcCCchheEEEEeeecCC--CCEEEEEEEEcCCCccccCHHHHHHHHHHHHHHHHCCCEEEEEEec
Confidence 58899999999999999999999999987534 5789999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCCCCeEEcCCCCCcceeecCcchH
Q 028839 88 NERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVGSDGGCQLLTKEPAAN 167 (203)
Q Consensus 88 ne~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W~~~~~~~~~~~~~~~~~~~ 167 (203)
|++++|.+|+++|+||||||+++|++||++||||+||.. ....+++.+|..+++ +|++.+. ........+++.
T Consensus 79 h~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~----~~~~~~~~~~~~~~~-~Wk~~~~--~~~~~~~~~~~~ 151 (182)
T cd08060 79 NERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTL----DCKGNALVVYKDKGG-RWKVKEL--RGINLLLWESAN 151 (182)
T ss_pred CCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccc----cccCCceEEEEecCC-CceEccc--ccchhccchhHH
Confidence 999999999999999999999999999999999999986 555667889998886 9998653 222222335688
Q ss_pred HHHHHHHhhcccCcccccccccCCCCCCCCC
Q 028839 168 VVLMDYISSEKWQDVVDFDDHLDDISKDWLN 198 (203)
Q Consensus 168 ~~~~~~l~~~~~~~lvDFDdHLddi~~DW~N 198 (203)
+.++.++++++|++|+|||||||||++||+|
T Consensus 152 ~~~~~~l~~~~~~~l~DFDdHLddi~~Dw~N 182 (182)
T cd08060 152 EILSALLSSKAYRNLVDFDDHLDDISLDWLN 182 (182)
T ss_pred HHHHHHHhhCcccccccchhcccCCccCcCC
Confidence 9999999999999999999999999999998
No 4
>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=99.72 E-value=1.2e-16 Score=120.80 Aligned_cols=107 Identities=24% Similarity=0.291 Sum_probs=92.7
Q ss_pred HHHHhhhhcCC-CCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCCCC
Q 028839 14 IKLVLHARKHK-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD 92 (203)
Q Consensus 14 ~K~~LHAaKyP-~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~~~ 92 (203)
+|+++|++|++ ...|+|+|+|+..+ .+.+++++|++|......|+.+.++.+++.++...|+.||||||+++...
T Consensus 1 ~k~il~~a~~~~~~ev~G~L~G~~~~----~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iVGwyhshp~~~ 76 (116)
T cd07767 1 LKMFLDAAKSINGKEVIGLLYGSKTK----KVLDVDEVIAVPFDEGDKDDNVWFLMYLDFKKLNAGLRIVGWYHTHPKPS 76 (116)
T ss_pred CHhHHHHHhcCCCcEEEEEeEEEEcC----CEEEEEEEEecccCCCCCccHHHHHHHHHHHHhcCCCeEEEEEEcCCCCC
Confidence 48999999998 79999999998643 37788999999998888999999999999999999999999999987643
Q ss_pred CCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 028839 93 DLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (203)
Q Consensus 93 d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~ 125 (203)
..+++......+++++.+++++.+++|.++..
T Consensus 77 -~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~ 108 (116)
T cd07767 77 -CFLSPNDLATHELFQRYFPEKVMIIVDVKPKD 108 (116)
T ss_pred -CccCHHHHHHHHHHHHhCCCCEEEEEECCCcc
Confidence 35676666777999999999999999998763
No 5
>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=99.00 E-value=7.9e-09 Score=90.78 Aligned_cols=114 Identities=20% Similarity=0.261 Sum_probs=83.1
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch--HHHHHHHHHH-HHHh--hcCCe
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIE-EHYS--AQGLG 80 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP--mlEvAL~qvd-~~~~--~~~l~ 80 (203)
|.|++.|+.||+.||.+-....|+|+|+|...+ +++.|+||+|+-|....-.. -.|.-..+++ ...+ ..++.
T Consensus 12 V~Is~~allkil~Ha~~~~p~Ev~GlLlG~~~~---~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~~~~~~~~~~~~ 88 (268)
T cd08069 12 VYISSLALLKMLKHARAGGPIEVMGLMLGKVDD---YTIIVVDVFALPVEGTETRVNAQDEFQEYMVQYEMLKQTGRPEN 88 (268)
T ss_pred EEECHHHHHHHHHHHhccCCceEEEEEEeeecC---CeEEEEEEEECCcCCCCCceeccHHHHHHHHHHHHHHHhCCCce
Confidence 889999999999999888778999999998543 58999999999886543211 1122222232 1222 36799
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 028839 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123 (203)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k 123 (203)
|||+||...... .-|+..-..+-..-+...+.++.+++|..+
T Consensus 89 vVGWYHSHP~~g-~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~ 130 (268)
T cd08069 89 VVGWYHSHPGYG-CWLSGIDVNTQQLNQQLQDPFVAVVVDPIR 130 (268)
T ss_pred eEeeeccCCCcC-CcCCHHHHHHHHHHHhcCCCcEEEEEeCCc
Confidence 999999986544 567777777666666666788999999643
No 6
>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=98.96 E-value=3e-08 Score=86.87 Aligned_cols=127 Identities=16% Similarity=0.198 Sum_probs=85.4
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch-----HHHHHHHHHHHHHhhcCC-
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSAQGL- 79 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-----mlEvAL~qvd~~~~~~~l- 79 (203)
|.|++.++.||+-||-+.....|+|+|||...+ +.++|++|.|+=|....-.+ ..+--+.+++ .+++.|.
T Consensus 3 V~I~~~vllkIv~H~~~~~p~~v~G~LLG~~~~---~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~-~~r~v~~~ 78 (266)
T cd08065 3 VQIDGLVVLKIIKHCKEELPELVQGQLLGLDVG---GTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMR-LLREVNVD 78 (266)
T ss_pred EEEeHHHHHHHHHHHhcCCCcEEEEEEeeeEcC---CEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHH-HHHHhCCC
Confidence 899999999999999999999999999998754 48999999999997653332 1122233333 4567777
Q ss_pred -eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecC
Q 028839 80 -GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDA 144 (203)
Q Consensus 80 -~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~ 144 (203)
.||||||+.. .+ ...++.-.-.--.-....++++.|++|-.+-. .+...+..|....
T Consensus 79 e~iVGWY~S~p-~~-~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s~------~g~l~lkAyrl~~ 136 (266)
T cd08065 79 HNHVGWYQSTY-LG-SFFTRDLIETQYNYQEAIEESVVLVYDPSKTS------QGSLSLKAYRLSE 136 (266)
T ss_pred CcEEEeEeecC-CC-CcCCHHHHHHHHHHhccCCCCEEEEECCCccc------ccceeeEEEEEcH
Confidence 9999999876 22 33232221111122223377899999976521 2345677776543
No 7
>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=98.92 E-value=7.5e-08 Score=77.76 Aligned_cols=129 Identities=17% Similarity=0.180 Sum_probs=91.6
Q ss_pred eEEeHHHHHHHHhhhhcCC--CCceeEEEeeecCCCCCCceEEEeeeecccCCCCc--chHHHHHHHHHHHHHhh-cCCe
Q 028839 6 YELSQNAYIKLVLHARKHK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGL--LPNLEISLIMIEEHYSA-QGLG 80 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP--~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~L--sPmlEvAL~qvd~~~~~-~~l~ 80 (203)
|.|.+.+..||+=|+.+-. ...|.|+|||...+ ..+.|+||.|+-|....- .--.|-.-.+++.+-+- .+..
T Consensus 1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~---~~veV~nsF~lp~~~~~~~~~~d~~y~~~m~~~~~~v~~~~~ 77 (157)
T cd08057 1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDG---DKIEVTNSFELPFDEEEESIFIDTEYLEKRYNLHKKVYPQEK 77 (157)
T ss_pred CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeC---CEEEEEEeEEccccCCCcchhhhHHHHHHHHHHHHHhCCCCC
Confidence 5789999999999998887 78999999998764 589999999999975322 12234444455554432 5689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhh-CCCcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839 81 IVGYFHANERFDDLELDSIAKNIGNHICRY-FPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD 143 (203)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~-~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~ 143 (203)
+||||+...... +.+......|-+.+... .+.++.+++|-.+... .+.-.+.+|...
T Consensus 78 vVGWY~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~-----~~~l~i~ay~~~ 135 (157)
T cd08057 78 IVGWYSIGSNNS-NEISKSDNSLHSQFSLISEENPLILILDPSLQSD-----SEKLEISTFTSA 135 (157)
T ss_pred EEEEEeecCCCC-CCCChhHHHHHHHHHhccCCCCEEEEEcCCcccC-----CCcccEEEEEEe
Confidence 999999875533 45666677777777775 6778999999765321 122346666654
No 8
>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=98.88 E-value=2.3e-08 Score=76.02 Aligned_cols=103 Identities=24% Similarity=0.275 Sum_probs=75.4
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcc----hHHHHHHHHHHHHHhh-cCCe
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL----PNLEISLIMIEEHYSA-QGLG 80 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls----PmlEvAL~qvd~~~~~-~~l~ 80 (203)
|.|++.|..||+-|+.+.+...|.|+|+|...++ ..+.|+|++|+=|....-. +.... -.+++.+-+. ..+.
T Consensus 6 V~i~p~vll~i~~h~~r~~~~~v~G~LlG~~~~~--~~v~I~~~f~~p~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 82 (114)
T PF01398_consen 6 VQIHPLVLLKIIDHATRSSPNEVIGLLLGTQDGD--NTVEITNSFPVPHSESEDDCDMDDEDFQ-KKMIELLKKVNPNLE 82 (114)
T ss_dssp EEEEHHHHHHHHHHHHHHHCTEEEEEEEEEEETT---EEEEEEEEEESEEEESSEEEEECCHHH-HHHHHHHHHCSTTSE
T ss_pred EEECHHHHHHHHHHHhcCCCCEEEEEEEEEecCc--eEEEEEEEEEeeEecCccccccchhhHH-HHHHhhhccccccce
Confidence 8899999999999999988889999999987653 2899999999998754322 22222 4455555442 4599
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC
Q 028839 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP 112 (203)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~ 112 (203)
||||||...... ..|++.-..+-...++..+
T Consensus 83 iVGWY~s~p~~~-~~~S~~di~~q~~~q~~~~ 113 (114)
T PF01398_consen 83 IVGWYHSHPNIS-CFPSPTDIETQKQYQRMNP 113 (114)
T ss_dssp EEEEEEEESSS--SS--HHHHHHHHHHHHHTT
T ss_pred EEEEEEccCCcc-ccCCHHHHHHHHHHHHhCC
Confidence 999999876543 6678887777777776654
No 9
>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=98.83 E-value=2.3e-07 Score=71.35 Aligned_cols=114 Identities=20% Similarity=0.255 Sum_probs=83.2
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCc----chHHHHHHHHHHH-HHhhcCCe
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGL----LPNLEISLIMIEE-HYSAQGLG 80 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~L----sPmlEvAL~qvd~-~~~~~~l~ 80 (203)
+.+.+.++.||+-|+.+.....++|+|+|...+ +.+.|++++|+-...-.= -++ +---.+.+. .....|+.
T Consensus 2 v~i~~~v~~~i~~h~~~~~p~e~~G~L~G~~~~---~~~~i~~~~~~p~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 77 (135)
T smart00232 2 VKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNK---DRPEVKEVFAVPNEPQDDSVQEYDE-DYSHLMDEELKKVNKDLE 77 (135)
T ss_pred EEEcHHHHHHHHHHHhcCCCcEEEEEEEEEEcC---CEEEEEEEEecCcCCCCcchhhhhh-hHHHHHHHHHHhhCCCce
Confidence 678999999999999999889999999998643 479999999987653110 111 111122222 23468899
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 028839 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL 124 (203)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl 124 (203)
+||+||..... ...++..-..++.......+.++.+++|..+-
T Consensus 78 ~vGwyhshp~~-~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s 120 (135)
T smart00232 78 IVGWYHSHPDE-SPFPSEVDVATHESYQAPWPISVVLIVDPIKS 120 (135)
T ss_pred EEEEEEcCCCC-CCCcCHHHHHHHHHHHhcCCceEEEEECCCcc
Confidence 99999997653 35678777788888888877777777776654
No 10
>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=98.77 E-value=5.4e-07 Score=75.47 Aligned_cols=133 Identities=17% Similarity=0.218 Sum_probs=86.4
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCC----CCcchHHHHHHHHHHHHHhhcCCeE
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSH----LGLLPNLEISLIMIEEHYSAQGLGI 81 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~----~~LsPmlEvAL~qvd~~~~~~~l~I 81 (203)
|+||..|..||+.||-.-. ..|+|+|+|.....+ ..+.|+++.|.-=.. ....|.- ...+..++++.|+.+
T Consensus 7 V~Is~~all~m~~Ha~~~~-~EvcGlL~G~~d~~~-~~l~Vt~~~p~~~~~~~~~~e~dp~~---q~e~~~~l~~~gl~v 81 (187)
T cd08067 7 VTVSSNALLLMDFHCHLTT-SEVIGYLGGTWDPNT-QNLTILQAFPCRSRLTGLDCEMDPVS---ETEIRESLESRGLSV 81 (187)
T ss_pred EEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCC-CeEEEEEEEecCCCCCCcccccCHHH---HHHHHHHHHHcCCEE
Confidence 8999999999999999988 999999999853321 579999999976532 1234432 334456778899999
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-------CcEEEEEeCccccccccCCCCCCcEEEEEecCCCCe
Q 028839 82 VGYFHANERFDDLELDSIAKNIGNHICRYFP-------QCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNW 148 (203)
Q Consensus 82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~-------~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W 148 (203)
||+||+..... ..||..-..---.-+..++ ..+.++++-..-.. ....+.|.+|.-.....+
T Consensus 82 VGwYHSHP~~~-~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~----~~~~s~i~~f~~~~~~~~ 150 (187)
T cd08067 82 VGWYHSHPTFP-PNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRN----STPESQITCFWVMPPPEN 150 (187)
T ss_pred EEEEecCCCCC-cCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCC----CCCCCcEEEEEEECCCCC
Confidence 99999987655 6677643333223333333 35666666432211 122345666655544344
No 11
>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=98.64 E-value=1.1e-06 Score=77.81 Aligned_cols=123 Identities=20% Similarity=0.256 Sum_probs=88.3
Q ss_pred eEEeHHHHHHHHhhhhcCC---CCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch-----HHHHHHHHHHHHHhh-
Q 028839 6 YELSQNAYIKLVLHARKHK---TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSA- 76 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP---~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-----mlEvAL~qvd~~~~~- 76 (203)
|.|.+.+..||+=|+.+.+ ...|.|+|||...+ ..++|+||.|+-|....=.| -.+-.-.+.+.+-+-
T Consensus 3 V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~---~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~ 79 (280)
T cd08062 3 VVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKK---GVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVN 79 (280)
T ss_pred EEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeC---CEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhC
Confidence 7899999999999998875 45699999998754 48999999999997533333 123334455554432
Q ss_pred cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD 143 (203)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~ 143 (203)
.+..+||||+....+ ++....|-+-+.+.++++++++||-.. .....++.+|...
T Consensus 80 ~~e~vVGWY~tg~~~-----~~~d~~ih~~~~~~~~~pv~l~vd~~~-------~~~~lpi~aY~s~ 134 (280)
T cd08062 80 AKEKIVGWYSTGPKL-----RPNDLDINELFRRYCPNPVLVIIDVRP-------KDLGLPTEAYIAV 134 (280)
T ss_pred CCCCeEEEecCCCCC-----CcchHHHHHHHHHhCCCCEEEEEecCC-------CCCCCceEEEEEe
Confidence 559999999987554 334456777778888889999999543 1223457788764
No 12
>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=98.52 E-value=2.1e-06 Score=75.14 Aligned_cols=123 Identities=19% Similarity=0.195 Sum_probs=87.1
Q ss_pred eEEeHHHHHHHHhhhhc--CCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchH--HHHHHHHHHHHHh-hcCCe
Q 028839 6 YELSQNAYIKLVLHARK--HKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN--LEISLIMIEEHYS-AQGLG 80 (203)
Q Consensus 6 v~is~~AY~K~~LHAaK--yP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPm--lEvAL~qvd~~~~-~~~l~ 80 (203)
|.|.+.+..||+=|+.+ .....|.|.|||...+ +.++|+||.|+=|....=... .|-...+.+.|-+ ..+..
T Consensus 1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~---~~veItnsF~~p~~~~~~~~~~d~~y~~~m~~~~kkv~~~~~ 77 (265)
T cd08064 1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSE---GEVEITNCFAVPHNESEDQVAVDMEYHRTMYELHQKVNPKEV 77 (265)
T ss_pred CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeC---CEEEEEeCeecceeCCCCeEEEcHHHHHHHHHHHHHhCCCCc
Confidence 46899999999999887 3347899999998754 489999999999964321111 2333455554433 35689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLLDNKKLEALPKGKDRSPVMQLYIRD 143 (203)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~--~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~ 143 (203)
+||||++... +++....|-+.+++.++ +++.+++|-..- .+...+.+|...
T Consensus 78 vVGWY~tg~~-----~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~-------~~~l~i~ay~~~ 130 (265)
T cd08064 78 IVGWYATGSE-----ITEHSALIHDYYSRECTSYNPIHLTVDTSLD-------DGKMSIKAYVSS 130 (265)
T ss_pred EEeeeeCCCC-----CCccHHHHHHHHHhhCCCCCCEEEEEeCCCC-------CCCcceEEEEEE
Confidence 9999998753 44556678888888777 899999986432 113457788754
No 13
>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=98.50 E-value=2.2e-06 Score=66.04 Aligned_cols=105 Identities=19% Similarity=0.284 Sum_probs=69.6
Q ss_pred HHHHHHhhhhcCCCCceeEEEeeecCCCC--CCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCC
Q 028839 12 AYIKLVLHARKHKTAAVNGVLLGRVSPQN--DAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE 89 (203)
Q Consensus 12 AY~K~~LHAaKyP~~aVnGvLlG~~~~~~--~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane 89 (203)
|..||+-||.+-....|+|+|+|....++ +..+.|+++.|.-... .|. | ..++.......|+.+||+||+..
T Consensus 2 ~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~---~~~-~--~~~~~~~~~~~g~~~vG~YHSHP 75 (119)
T cd08058 2 ALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSC---TGE-N--VEELFNVQTGRPLLVVGWYHSHP 75 (119)
T ss_pred HHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCCc---hhH-H--HHHHHHHHhCCCCeEEEEEecCC
Confidence 67899999999877899999999753210 1357788888864422 232 2 22333455679999999999976
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 028839 90 RFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123 (203)
Q Consensus 90 ~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k 123 (203)
... ..||+.-.+.-..-+...|+++.+++|-.+
T Consensus 76 ~~~-~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~ 108 (119)
T cd08058 76 TFT-AWLSSVDIHTQASYQLMLPEAIAIVVSPKH 108 (119)
T ss_pred CCC-CccCHHHHHHHHHHhccCCCeEEEEECcCC
Confidence 543 456655444222223445888888888654
No 14
>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=98.47 E-value=3e-06 Score=75.08 Aligned_cols=127 Identities=19% Similarity=0.237 Sum_probs=91.2
Q ss_pred ceEEeHHHHHHHHhhhhcCC------CCceeEEEeeecCCCCCCceEEEeeeecccCCCC---cchHHHHHHHHHHHHHh
Q 028839 5 KYELSQNAYIKLVLHARKHK------TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG---LLPNLEISLIMIEEHYS 75 (203)
Q Consensus 5 ~v~is~~AY~K~~LHAaKyP------~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~---LsPmlEvAL~qvd~~~~ 75 (203)
.|.|.+.+..+|.=|..+.. ...|.|.|||...+ ..|+|++|.|+-|.... ...=.|--..+.+.|-+
T Consensus 2 ~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~---~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kk 78 (288)
T cd08063 2 SVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDG---REIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQ 78 (288)
T ss_pred eEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcC---CEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHH
Confidence 37889999999999999842 37899999997644 48999999999996422 11123444455555544
Q ss_pred -hcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEec
Q 028839 76 -AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD 143 (203)
Q Consensus 76 -~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~ 143 (203)
-.+..|||||+.... ++.+....|-+.+.+.+++++++++|-..-.. .+.-++.+|...
T Consensus 79 V~~~~~vVGWY~tg~~----~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~~~~-----~~~lpi~ay~s~ 138 (288)
T cd08063 79 VFKDLDFVGWYTTGPG----GPTESDLPIHKQILEINESPVLLLLDPEANAS-----GKDLPVTIYESV 138 (288)
T ss_pred hccCCceEEEEecCCC----CCCHHHHHHHHHHHhhCCCcEEEEEccccccC-----CCCCceeEEEEE
Confidence 256999999997644 46777888888898888889999999654311 223457888654
No 15
>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=98.30 E-value=5.1e-05 Score=66.14 Aligned_cols=134 Identities=16% Similarity=0.196 Sum_probs=83.9
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCC-----CCCCceEEEeeeecccC-----CCCcchHHHH-HHHHHHHHH
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP-----QNDAVVEIADSVPLFHS-----HLGLLPNLEI-SLIMIEEHY 74 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~-----~~~~~v~i~DaVPLfH~-----~~~LsPmlEv-AL~qvd~~~ 74 (203)
|.|+..+|.||+.||..==-..|+|+|+|+... .. ..+.|...+|+-.. ...+.|.-.+ |..+++.+.
T Consensus 4 V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~-~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~~~~ 82 (244)
T cd08068 4 VHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEV-AIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAERLT 82 (244)
T ss_pred EEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccc-eeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHHHHH
Confidence 789999999999999986458999999997642 11 45666677776432 1346675333 444555544
Q ss_pred hh--cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc--ccccccCCCCCCcEEEEEecCC
Q 028839 75 SA--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK--LEALPKGKDRSPVMQLYIRDAS 145 (203)
Q Consensus 75 ~~--~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~k--l~~~~~~~~~~~~l~~~~~~~~ 145 (203)
+. .|+.|||+||...... ..||.+-.+-...-+...|..+-++++-.. -.. ..+.+.+..|....+
T Consensus 83 ~~~~rgl~vVGwYHSHP~~~-a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~----~~~~~~i~aFr~~~g 152 (244)
T cd08068 83 EETGRPMRVVGWYHSHPHIT-VWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKST----KMGEVQVTCFQSVQG 152 (244)
T ss_pred hhccCCceEEEEEecCCCCC-CCCCHhHHHHHHHHHhhCCCcEEEEEEecCCcccc----ccCCEEEEEEEecCC
Confidence 43 7899999999986543 556765544322222234666666664221 111 233456777776553
No 16
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=98.26 E-value=1.6e-05 Score=71.31 Aligned_cols=122 Identities=16% Similarity=0.197 Sum_probs=87.8
Q ss_pred eEEeHHHHHHHHhhhhcCCC---CceeEEEeeecCCCCCCceEEEeeeecccCCCCcch---H--HHHHHHHHHHHHh-h
Q 028839 6 YELSQNAYIKLVLHARKHKT---AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---N--LEISLIMIEEHYS-A 76 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~---~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP---m--lEvAL~qvd~~~~-~ 76 (203)
|.+.+.+..+|+=|.-+... ..|.|.|||...+ ..|+|++|.|+-|..-.=.+ . .+-...+.+.+-+ -
T Consensus 8 V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~---~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k~V~ 84 (303)
T PLN03246 8 VVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFR---GRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMFKRIN 84 (303)
T ss_pred EEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecC---CEEEEEeccccCcccCCCCccceeecHHHHHHHHHHHHHhC
Confidence 88999999999999988874 4599999998754 48999999999986422111 1 2334455665544 2
Q ss_pred cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe
Q 028839 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR 142 (203)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~ 142 (203)
.+..+||||+....+ ++....|-+-+.+.++++++++||-.. . ....++.+|..
T Consensus 85 ~~~~vVGWY~tg~~i-----~~~d~~IH~~~~~~~~~Pv~L~vD~~~-~------~~~lpi~aY~s 138 (303)
T PLN03246 85 AKEHVVGWYSTGPKL-----RENDLDIHELFNDYVPNPVLVIIDVQP-K------ELGIPTKAYYA 138 (303)
T ss_pred CCCcEEeeecCCCCC-----CcchHHHHHHHHhhCCCCeEEEEecCC-C------CCCCceEEEEE
Confidence 568999999976444 445567778888889999999998432 1 12245778874
No 17
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al
Probab=98.15 E-value=0.00011 Score=60.75 Aligned_cols=126 Identities=13% Similarity=0.105 Sum_probs=85.5
Q ss_pred eEEeHHHHHHHHhhhhcC-C-CCceeEEEeeecCCCCCCceEEEeeeecccCCCC--cchHHHHHHHHHHHHHhhcCCeE
Q 028839 6 YELSQNAYIKLVLHARKH-K-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG--LLPNLEISLIMIEEHYSAQGLGI 81 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKy-P-~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~--LsPmlEvAL~qvd~~~~~~~l~I 81 (203)
+.|+...|-|++-||-.- | -..|+|+|.|+..+ +...|++.+..-..... ..++=+ .++..+++..|+.+
T Consensus 4 l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~---~~~~I~~i~~~~q~~~~~~~~~~~~---~e~~~~~~~~gle~ 77 (173)
T cd08066 4 VVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSN---NAFFITHLIIPKQSGTSDSCQTTNE---EELFDFQDQHDLIT 77 (173)
T ss_pred EEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCC---CeEEEEEEEeccccCCCceecCCCH---HHHHHHHHhCCCee
Confidence 789999999999999875 3 47899999997543 35667776332211111 111111 12445677899999
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEec--CCCCeE
Q 028839 82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRD--ASKNWK 149 (203)
Q Consensus 82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~--~~~~W~ 149 (203)
+|+||.... ....||+.-.+.--+.....|+++.++++-. .+.+..|... .+-.|.
T Consensus 78 vGwyHSHP~-~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~-----------~~~l~afrl~~~~g~~~~ 135 (173)
T cd08066 78 LGWIHTHPT-QTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK-----------YNEFGIFRLTDPPGLDEI 135 (173)
T ss_pred EEEEeccCC-CCCccCHHHHHHHHHHHhcCCCeEEEEECCC-----------CcEEeEEEeecCCcceec
Confidence 999999654 3467888887777777777899998888732 2456666655 345773
No 18
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.62 E-value=0.00054 Score=60.97 Aligned_cols=114 Identities=18% Similarity=0.318 Sum_probs=74.9
Q ss_pred eEEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeee--ecccCCCCcchHHHHHHHHHHH---HHhhcC--
Q 028839 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSV--PLFHSHLGLLPNLEISLIMIEE---HYSAQG-- 78 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaV--PLfH~~~~LsPmlEvAL~qvd~---~~~~~~-- 78 (203)
|.||..|..||+.||-.=-.-.|-|++.|+..+ .+++|-||. |+-=+-+-..--+ -|.+-.-+ -|+.-|
T Consensus 55 vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g---~t~IvmD~FaLPVeGTETRVNAq~-~AyEYmv~Y~e~~k~~gr~ 130 (347)
T KOG1554|consen 55 VKISALALLKMVMHARSGGNLEIMGLMQGKVDG---DTIIVMDSFALPVEGTETRVNAQA-EAYEYMVQYIEEAKNVGRL 130 (347)
T ss_pred hhhHHHHHHHHHHHHhcCCCeEEEeeecccccC---CeEEEEeccccccccccceechHH-HHHHHHHHHHHHHHHhhhh
Confidence 789999999999999999999999999998754 589999987 5554443333222 23322222 244444
Q ss_pred CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCc-EEEEEeCcccc
Q 028839 79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQC-AVLLLDNKKLE 125 (203)
Q Consensus 79 l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a-~~l~ldn~kl~ 125 (203)
..+|||||.....+ .=++.+- -...++.+.|.++ +.+|||-.+-.
T Consensus 131 envVGWyHSHPgYg-CWLSgID-VsTQ~lNQ~fQePfvAvViDP~Rtl 176 (347)
T KOG1554|consen 131 ENVVGWYHSHPGYG-CWLSGID-VSTQMLNQRFQEPFVAVVIDPTRTL 176 (347)
T ss_pred hceeeeeecCCCCC-ccccCcc-hhHHHHhhhhcCCeEEEEecCcccc
Confidence 77999999987654 3333211 1123445556655 56778976543
No 19
>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=97.46 E-value=0.0014 Score=50.90 Aligned_cols=114 Identities=14% Similarity=0.272 Sum_probs=72.3
Q ss_pred HHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecc--cCC----CCcchHHHHHHHHHHHHHhhcCCeEEEE
Q 028839 11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF--HSH----LGLLPNLEISLIMIEEHYSAQGLGIVGY 84 (203)
Q Consensus 11 ~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf--H~~----~~LsPmlEvAL~qvd~~~~~~~l~IvGy 84 (203)
..+-+|+-||.+-.-..++|+|+|+.... ...|++.+|+= +.. ..+.|. .+..+...+++.|+.+||.
T Consensus 2 ~~~~~il~ha~~~~P~E~cGlL~G~~~~~---~~~i~~~~p~~n~~~~~~~~f~~d~~---~~~~~~~~~~~~g~~~vG~ 75 (128)
T cd08070 2 ELLEAILAHAEAEYPEECCGLLLGKGGGV---TAIVTEVYPVRNVAESPRRRFEIDPA---EQLAAQREARERGLEVVGI 75 (128)
T ss_pred HHHHHHHHHHHhCCCCceEEEEEeecCCC---CceEEEEEEccCCCCCCCceEEECHH---HHHHHHHHHHHCCCeEEEE
Confidence 45779999999955688999999986443 44668888873 221 123442 3446667778899999999
Q ss_pred EEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCC
Q 028839 85 FHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDAS 145 (203)
Q Consensus 85 Y~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~ 145 (203)
||..... ...||..=.+.+ ..+....+++... ...+.+..|..+++
T Consensus 76 ~HSHP~~-~~~PS~~D~~~~-----~~~~~~~lIv~~~---------~~~~~~~~~~~~~~ 121 (128)
T cd08070 76 YHSHPDG-PARPSETDLRLA-----WPPGVSYLIVSLA---------GGAPELRAWRLEGG 121 (128)
T ss_pred EeCCCCC-CCCCCHHHHHhc-----cCCCCeEEEEECC---------CCCcEEEEEEEcCC
Confidence 9997653 345665433332 2334555555421 11456777776553
No 20
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=96.79 E-value=0.0062 Score=44.96 Aligned_cols=76 Identities=24% Similarity=0.281 Sum_probs=50.5
Q ss_pred HHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHH-HHhhcCCeEEEEEEeC
Q 028839 10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-HYSAQGLGIVGYFHAN 88 (203)
Q Consensus 10 ~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~-~~~~~~l~IvGyY~An 88 (203)
.++|.+|+-|+...+....+|+|+|+... +.+.+++.++ ..|--+++. .. .....|+.++|.||..
T Consensus 2 ~~~~~~i~~~~~~~~p~E~~G~L~g~~~~---~~~~~~~~~~-------~~p~~~~~~---~~~~~~~~~~~~vg~~HSH 68 (104)
T PF14464_consen 2 EEVLEQIIAHARAAYPNEACGLLLGRRDD---QRFIVVPNVN-------PDPRDSFRR---ERFEARERGLEIVGIWHSH 68 (104)
T ss_dssp -HHHHHHHHHHHHHTTS-EEEEEEEEEEC---CEEEEEEEEE---------HHCHHHH---HH-HHHHHT-EEEEEEEEE
T ss_pred HHHHHHHHHHHhhCCCCeEEEEEEEEecC---CEEEEEeCCC-------CCcHHHHHH---HhhhhhcccceeeEEEEcC
Confidence 46899999999998899999999998733 4678888877 223322222 22 5567999999999997
Q ss_pred CCCCCCCCCHH
Q 028839 89 ERFDDLELDSI 99 (203)
Q Consensus 89 e~~~d~~~~~~ 99 (203)
.... ..||..
T Consensus 69 P~~~-a~pS~~ 78 (104)
T PF14464_consen 69 PSGP-AFPSST 78 (104)
T ss_dssp SSSS-SS--HH
T ss_pred CCCC-CCCCHH
Confidence 6543 245543
No 21
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=95.99 E-value=0.22 Score=38.38 Aligned_cols=108 Identities=12% Similarity=0.107 Sum_probs=64.6
Q ss_pred EeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcch--HHHHHHHHHHHHHhhcCCeEEEEE
Q 028839 8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIEEHYSAQGLGIVGYF 85 (203)
Q Consensus 8 is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP--mlEvAL~qvd~~~~~~~l~IvGyY 85 (203)
|+...+-.|+-||.+-.-..++|+|+|+. + .|++..|+==..-+ .+ .+++ .....|+.|+|.|
T Consensus 1 i~~~~~~~i~~ha~~~~P~E~CGlL~G~~-----~--~v~~~~~~~n~~~~-~~~~~f~~-------~~~~~g~~ivgi~ 65 (117)
T cd08072 1 ISRDLLDSILEAAKSSHPNEFAALLRGKD-----G--VITELLILPGTESG-EVSAVFPL-------LMLPLDMSIVGSV 65 (117)
T ss_pred CCHHHHHHHHHHHhhcCCceEEEEEEeec-----c--EEEEEEECCCCCCC-Ccceeech-------HHhcCCCeEEEEE
Confidence 45678899999999655578889999953 1 45666654311111 11 1111 1346899999999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCC
Q 028839 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDAS 145 (203)
Q Consensus 86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~ 145 (203)
|.... ....||+.=.+.| ..++...+++. + ..+.+.+..|..+++
T Consensus 66 HSHP~-~~~~PS~~D~~~~-----~~~~~~~lIvs---~------~~~~~~~~a~~~~g~ 110 (117)
T cd08072 66 HSHPS-GSPRPSDADLSFF-----SKTGLVHIIVG---Y------PYDEDDWRAYDSDGE 110 (117)
T ss_pred EcCCC-CCCCCCHHHHHhh-----hcCCCEEEEEE---C------cCCCCCEEEEecCCC
Confidence 99754 3455665543332 23566655553 1 112356788877664
No 22
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=95.42 E-value=0.48 Score=41.83 Aligned_cols=110 Identities=23% Similarity=0.360 Sum_probs=69.8
Q ss_pred eEEeHHHHHHHHhhh---hcCCCCceeEEEeeecCCCCCCceEEEe--eeecccC------CCCcchHHHHHHHHHHHHH
Q 028839 6 YELSQNAYIKLVLHA---RKHKTAAVNGVLLGRVSPQNDAVVEIAD--SVPLFHS------HLGLLPNLEISLIMIEEHY 74 (203)
Q Consensus 6 v~is~~AY~K~~LHA---aKyP~~aVnGvLlG~~~~~~~~~v~i~D--aVPLfH~------~~~LsPmlEvAL~qvd~~~ 74 (203)
|.+.+.-..-.+=|- +|--...|-|||||...+ +++-|+. |||.=-- |.-=.-.+|--..+...-
T Consensus 11 ViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~---~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mfkKv- 86 (309)
T KOG1556|consen 11 VIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNG---DVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMFKKV- 86 (309)
T ss_pred eeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCC---CeEEeecceeccccccCCCCceEEeccHHHHHHHHHHHHh-
Confidence 556666655555553 344448999999996533 4677775 4453211 110112333322222221
Q ss_pred hhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 028839 75 SAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (203)
Q Consensus 75 ~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~ 125 (203)
..+..||||||.-.++..+.+ .|-+-+.+++|++++++||-+.=+
T Consensus 87 -NakekivGWYhTGPkl~~nDl-----~In~l~k~y~pnpvLvIIdvkpk~ 131 (309)
T KOG1556|consen 87 -NAKEKVVGWYHTGPKLRENDL-----DINELLKRYVPNPVLVIIDVKPKE 131 (309)
T ss_pred -cchhheeeeeccCCccccchh-----hHHHHHhhcCCCceEEEEeccccc
Confidence 245889999999888876665 588889999999999999977554
No 23
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=94.70 E-value=0.12 Score=46.83 Aligned_cols=113 Identities=15% Similarity=0.215 Sum_probs=66.6
Q ss_pred eEEeHHHHHHHHhhh-hcCCCCceeEEE-eee---cCCCCCCceEEEee---eecccCCCCcchHHHHHH-HHHHHHHhh
Q 028839 6 YELSQNAYIKLVLHA-RKHKTAAVNGVL-LGR---VSPQNDAVVEIADS---VPLFHSHLGLLPNLEISL-IMIEEHYSA 76 (203)
Q Consensus 6 v~is~~AY~K~~LHA-aKyP~~aVnGvL-lG~---~~~~~~~~v~i~Da---VPLfH~~~~LsPmlEvAL-~qvd~~~~~ 76 (203)
+.++..|-.||..|+ ++=|...|.|++ +|+ .-.. -++.++|. -+-+=....+.|-+.-.. +|.....+.
T Consensus 33 v~i~slall~m~rh~r~~~p~e~v~Glm~lg~~~~fv~~--~Tv~vv~v~am~~sg~~is~~~e~~d~V~q~q~~~~l~~ 110 (316)
T KOG1555|consen 33 VYISSLALLKMLRHDRAGSPEETVMGLMSLGRLPEFVDD--YTVRVVDVFAMPQSGTGISKFVEAVDPVFQTQMMDLLKQ 110 (316)
T ss_pred eeeehhhhhhcccccccCCchhhccceeecccccceeee--cceeeeeeeccccccceecccchhccHHHHHHHHHHHHh
Confidence 789999999999997 577777799999 993 2222 23444442 222211111223333333 555556666
Q ss_pred cC--CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 028839 77 QG--LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121 (203)
Q Consensus 77 ~~--l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn 121 (203)
.| +.+|||||....|. ..|+.+-..--..-+..++.++..+||-
T Consensus 111 tGrp~~VVGWYHSHP~f~-~wpS~vDi~tQ~syq~~~~r~~a~~v~~ 156 (316)
T KOG1555|consen 111 TGRPELVVGWYHSHPGFG-CWPSLVDIDTQQSYQALSSRAVAVVVDP 156 (316)
T ss_pred cCCcceEEeeccCCCCCC-CCccccchhHHHHHhhhccCCcceeeec
Confidence 66 55999999988776 3333332222222333366677766663
No 24
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]
Probab=94.45 E-value=0.17 Score=44.78 Aligned_cols=109 Identities=20% Similarity=0.260 Sum_probs=82.9
Q ss_pred eEEeHHHHHHHHhhhhcCCC--CceeEEEeeecCCCCCCceEEEeeeecccCCC--CcchHHHHHHHHHHHHHhh-cCCe
Q 028839 6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHL--GLLPNLEISLIMIEEHYSA-QGLG 80 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~--~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~--~LsPmlEvAL~qvd~~~~~-~~l~ 80 (203)
+.+.+.-|.-++=|--+.|. ..|.|-|||+.++ ++|+|+.|.-.=|--. .+.-=+|-|..+.+.+-+. .+-.
T Consensus 23 v~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~---g~ieitNCFaVPhnEssdqvevdm~y~~~M~~l~~k~npnE~ 99 (288)
T KOG2975|consen 23 VRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDK---GSVEVTNCFAVPHNESSDQVEVDMEYAKNMYELHKKVNPNEL 99 (288)
T ss_pred EEEcceEEeEeehhhhcCCccchhhhhheeecccC---CeEEEEEeeeccCccccccceeeHHHHHHHHHHhcccCCCce
Confidence 56666666666666667775 5699999998875 4899999987767543 3555678888888888764 5699
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 028839 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK 122 (203)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~ 122 (203)
|||||--. .+++..+.-|-|--++.+++++-+.||..
T Consensus 100 vvGWyaTg-----~dvt~~sslihdyYare~~~pvhLtVDT~ 136 (288)
T KOG2975|consen 100 VVGWYATG-----HDVTEHSSLIHDYYAREAPNPVHLTVDTS 136 (288)
T ss_pred eEEEEecC-----CCcccchhHHHHHhhccCCCCeEEEEecc
Confidence 99999853 33455667888888999999999998854
No 25
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=94.17 E-value=0.75 Score=35.84 Aligned_cols=88 Identities=15% Similarity=0.175 Sum_probs=55.7
Q ss_pred EEeHHHHHHHHhhhhcC-CCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEE
Q 028839 7 ELSQNAYIKLVLHARKH-KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (203)
Q Consensus 7 ~is~~AY~K~~LHAaKy-P~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY 85 (203)
.|+....-+|+-||.+= | ..|+|+|.|+...-....+..++.-|..+. -..||..+ ....++..|+.+||.|
T Consensus 3 ~i~~~~l~~il~~a~~~~p-~E~~g~l~~~~~~~~~~~~~n~~~~~~~~~--~~~~~~~~----~~~~~~~~g~~vvg~y 75 (134)
T COG1310 3 VIPKEVLGAILEHARREHP-REVCGLLAGTREGERYFPLKNVSVEPVEYF--EIDPEYSL----FYLAAEDAGEVVVGWY 75 (134)
T ss_pred eecHHHHHHHHHHHHhcCC-hheEEEEEeecccceeeccccccCCcceeE--eeCHHHHH----HHHHHhhCCCEEEEEE
Confidence 57788888999998765 6 999999999753200012344455554443 34565544 3344567899999999
Q ss_pred EeCCCCCCCCCCHHHHH
Q 028839 86 HANERFDDLELDSIAKN 102 (203)
Q Consensus 86 ~Ane~~~d~~~~~~a~k 102 (203)
|...... ..||..=.+
T Consensus 76 HSHP~~~-~~pS~~D~~ 91 (134)
T COG1310 76 HSHPGGP-PYPSEADRR 91 (134)
T ss_pred cCCCCCC-CCcCHHHHh
Confidence 9876432 445544333
No 26
>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=93.55 E-value=1.1 Score=35.72 Aligned_cols=90 Identities=18% Similarity=0.160 Sum_probs=58.0
Q ss_pred CceeEEEeeecCCCCCCceEEEeeeecccC----CCCcchHHHHHHHHHHHHHh-hcC-CeEEEEEEeCCCCCCCCCCHH
Q 028839 26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHS----HLGLLPNLEISLIMIEEHYS-AQG-LGIVGYFHANERFDDLELDSI 99 (203)
Q Consensus 26 ~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~----~~~LsPmlEvAL~qvd~~~~-~~~-l~IvGyY~Ane~~~d~~~~~~ 99 (203)
..-.|+|+|+... +.+.|+|+++=-.. ....-+=-+-.-.+++.+.+ +.| +..+|-+|....... .||..
T Consensus 17 ~EtGGiLiG~~~~---~~~ii~~~t~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGeWHtHP~~~p-~PS~~ 92 (131)
T TIGR02256 17 TETGGVLIGERRG---AHAVITKISEPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGEWHTHPEDQP-EPSWT 92 (131)
T ss_pred CccceEEEEEEcC---CcEEEEEEEcCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEecCcCCCCCC-CCCHH
Confidence 4789999998753 47889988842222 12233323333445666554 445 899999999765443 78888
Q ss_pred HHHHHHHHHhhCCCcEEEEE
Q 028839 100 AKNIGNHICRYFPQCAVLLL 119 (203)
Q Consensus 100 a~kIa~kI~~~~~~a~~l~l 119 (203)
-.+-..++.+.....+++++
T Consensus 93 D~~~~~~~~~~~~~~l~iIv 112 (131)
T TIGR02256 93 DRRSWRTIIRSPEAMLLLIV 112 (131)
T ss_pred HHHHHHHHHhCCCeeEEEEE
Confidence 88888888886444333333
No 27
>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=92.99 E-value=1.2 Score=32.85 Aligned_cols=82 Identities=12% Similarity=0.161 Sum_probs=54.2
Q ss_pred HHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCCC
Q 028839 12 AYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERF 91 (203)
Q Consensus 12 AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~~ 91 (203)
.|-.|.-|+.+-....++|+|+|+.. . .+....++.=.....+|.- ...+...|..+||.||....
T Consensus 2 ~~~~i~~~~~~~~p~E~~gll~~~~~----~--~~~~~~~~~~~~~~~~~~~-------~~~a~~~~~~~v~i~HsHP~- 67 (101)
T cd08059 2 LLKTILVHAKDAHPDEFCGFLSGSKD----N--VMDELIFLPFVSGSVSAVI-------DLAALEIGMKVVGLVHSHPS- 67 (101)
T ss_pred HHHHHHHHHHhcCChhhheeeecCCC----C--eEEEEEeCCCcCCccChHH-------HHHHhhCCCcEEEEEecCcC-
Confidence 35567778877745778899999531 1 4456666664444556653 55677899999999998754
Q ss_pred CCCCCCHHHHHHHHHH
Q 028839 92 DDLELDSIAKNIGNHI 107 (203)
Q Consensus 92 ~d~~~~~~a~kIa~kI 107 (203)
++..||..=.+.+.++
T Consensus 68 g~~~PS~~D~~~~~~~ 83 (101)
T cd08059 68 GSCRPSEADLSLFTRF 83 (101)
T ss_pred CCCCCCHHHHHHHHhc
Confidence 4566776655555443
No 28
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=88.32 E-value=5.1 Score=36.09 Aligned_cols=112 Identities=21% Similarity=0.237 Sum_probs=71.3
Q ss_pred eEEeHHHHHHHHhhhhcCCC--CceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHH-----------HHHHHH
Q 028839 6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEIS-----------LIMIEE 72 (203)
Q Consensus 6 v~is~~AY~K~~LHAaKyP~--~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvA-----------L~qvd~ 72 (203)
|++...--.||+-|+----+ ..+-|+|+|=.-+ +.++|+.|.|---. .||=+=| ..|.+.
T Consensus 15 v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd---~~LeITncFp~p~~----~~~edda~~~~~~de~rq~~~l~m 87 (339)
T KOG1560|consen 15 VELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVD---GRLEITNCFPFPSV----LENEDDAVNKSVSDEARQAYQLAM 87 (339)
T ss_pred eeehhHHHHHHHHHHHhhcCCcchhhheeeeeeec---ceeEeecccCCCcc----CCCccchhhhhhhHHHHHHHHHHH
Confidence 78888999999999875433 6899999996544 48999999996542 2332222 111111
Q ss_pred H--Hhh--cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 028839 73 H--YSA--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (203)
Q Consensus 73 ~--~~~--~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~ 126 (203)
. .+. -..-+||||+...- .+.++|.--.--=.-+.-.|..++++.|-.|=+.
T Consensus 88 lrrlr~vnid~~hVGwYqs~~v--gs~lS~~lveSqy~YQ~a~pesVvliYD~~kssq 143 (339)
T KOG1560|consen 88 LRRLRYVNIDHLHVGWYQSAYV--GSFLSPALVESQYAYQKAIPESVVLIYDPIKSSQ 143 (339)
T ss_pred HHHhhhcCccceeeeeeeeehh--ccccCHHHHHHHHHHHhcCCccEEEEeccccccC
Confidence 0 111 33569999998532 2445554333333445667889999999776543
No 29
>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=81.55 E-value=7.5 Score=29.47 Aligned_cols=70 Identities=14% Similarity=0.170 Sum_probs=40.1
Q ss_pred HHHHHHhhh-hcCCCCceeEEEeeecCCCCCCceEEEeeeecc---cC---CCCcchHHHHHHHHHHHHHhhcCCeEEEE
Q 028839 12 AYIKLVLHA-RKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---HS---HLGLLPNLEISLIMIEEHYSAQGLGIVGY 84 (203)
Q Consensus 12 AY~K~~LHA-aKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf---H~---~~~LsPmlEvAL~qvd~~~~~~~l~IvGy 84 (203)
.|-.|+-|| ..|| ...+|+|+|+. + + +-.+|+= .. ...+.|.-.++.. +.| .|+|.
T Consensus 2 i~~~i~~ha~~~~P-~E~CGll~g~~--~----~--~~~~p~~N~~~~p~~~F~idp~e~~~a~-------~~~-~ivgi 64 (108)
T cd08073 2 LEDAILAHAKAEYP-REACGLVVRKG--R----K--LRYIPCRNIAADPEEHFEISPEDYAAAE-------DEG-EIVAV 64 (108)
T ss_pred HHHHHHHHHhHCCC-CcceEEEEecC--C----c--eEEEECccCCCCccceEEeCHHHHHHHh-------cCC-CEEEE
Confidence 356788899 6777 56669999953 1 1 2235543 11 1234554333221 233 89999
Q ss_pred EEeCCCCCCCCCCHH
Q 028839 85 FHANERFDDLELDSI 99 (203)
Q Consensus 85 Y~Ane~~~d~~~~~~ 99 (203)
||.... ....||..
T Consensus 65 ~HSHP~-~~a~PS~~ 78 (108)
T cd08073 65 VHSHPD-GSPAPSEA 78 (108)
T ss_pred EEcCCC-CCCCCCHH
Confidence 999754 33556654
No 30
>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=68.09 E-value=21 Score=31.69 Aligned_cols=84 Identities=19% Similarity=0.177 Sum_probs=48.1
Q ss_pred CceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHH-----HHHHHHHHHHhh-cCCeEEEEEEeCCCCCCCCCCHH
Q 028839 26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLE-----ISLIMIEEHYSA-QGLGIVGYFHANERFDDLELDSI 99 (203)
Q Consensus 26 ~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlE-----vAL~qvd~~~~~-~~l~IvGyY~Ane~~~d~~~~~~ 99 (203)
..|.|.|||+.. | .+|+|-.+.-|.-.. .-|.| -=+.--|.|-+- ..+.++|||.+-+.. .|-
T Consensus 37 ~~VyGaliG~Q~-G--R~vEi~NSFeL~~d~---~~~~~~~dke~l~kk~eqykqVFpdl~vlGwYttG~d~-----t~s 105 (299)
T KOG3050|consen 37 KQVYGALIGKQR-G--RNVEIMNSFELKMDT---EEDTETIDKEYLEKKEEQYKQVFPDLYVLGWYTTGSDP-----TPS 105 (299)
T ss_pred HHhhhhheeccc-C--ceEEEeeeeEEEecc---hhhhhhccHHHHHHHHHHHHHhcccceEEEEeecCCCC-----Chh
Confidence 489999999864 3 579998888665432 11222 111111222221 679999999986433 333
Q ss_pred HHHHHHHHHhhCCCcEEEEEe
Q 028839 100 AKNIGNHICRYFPQCAVLLLD 120 (203)
Q Consensus 100 a~kIa~kI~~~~~~a~~l~ld 120 (203)
-..|-.+|.+-...++.+.++
T Consensus 106 d~~i~k~l~~i~esplflkLN 126 (299)
T KOG3050|consen 106 DIHIHKQLMDINESPLFLKLN 126 (299)
T ss_pred hhHHHHHHHhhhcCceEEEec
Confidence 445555555544455555544
No 31
>COG3933 Transcriptional antiterminator [Transcription]
Probab=58.22 E-value=45 Score=31.97 Aligned_cols=91 Identities=18% Similarity=0.183 Sum_probs=68.4
Q ss_pred HHHHHHHHhhhhcCCCC-ceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeC
Q 028839 10 QNAYIKLVLHARKHKTA-AVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHAN 88 (203)
Q Consensus 10 ~~AY~K~~LHAaKyP~~-aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~An 88 (203)
..-|.-|++|.++.-+. +. +-+|=+-|+..+-|-|.|+|=.+.+. +.|+|=
T Consensus 89 Ev~~Lal~l~~~~~~~~~~~------------------v~vIiiAHG~sTASSmaevanrLL~~----------~~~~ai 140 (470)
T COG3933 89 EVLYLALFLHECRHYTQNPR------------------VKVIIIAHGYSTASSMAEVANRLLGE----------EIFIAI 140 (470)
T ss_pred HHHHHHHHHHHhhhcccCCc------------------eeEEEEecCcchHHHHHHHHHHHhhc----------cceeee
Confidence 34588889998876432 22 22344568887888899999999986 457776
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhCCCc-EEEEEeCccccccc
Q 028839 89 ERFDDLELDSIAKNIGNHICRYFPQC-AVLLLDNKKLEALP 128 (203)
Q Consensus 89 e~~~d~~~~~~a~kIa~kI~~~~~~a-~~l~ldn~kl~~~~ 128 (203)
.-.=|.+|+-+.+++.+++.++-... +++++|-.-|..+.
T Consensus 141 DMPLdvsp~~vle~l~e~~k~~~~~~GlllLVDMGSL~~f~ 181 (470)
T COG3933 141 DMPLDVSPSDVLEKLKEYLKERDYRSGLLLLVDMGSLTSFG 181 (470)
T ss_pred cCCCcCCHHHHHHHHHHHHHhcCccCceEEEEecchHHHHH
Confidence 66667889999999999999997764 88899987766543
No 32
>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=53.57 E-value=50 Score=28.01 Aligned_cols=67 Identities=12% Similarity=0.018 Sum_probs=45.2
Q ss_pred EEeHHHHHHHHhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecc---cCCCC--cchHHHHHHHHHHHHHhhcCCeE
Q 028839 7 ELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---HSHLG--LLPNLEISLIMIEEHYSAQGLGI 81 (203)
Q Consensus 7 ~is~~AY~K~~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf---H~~~~--LsPmlEvAL~qvd~~~~~~~l~I 81 (203)
+|...-|.+|+-||-+-+-..++|++.|..++ .... .+|+- ++... .-|. ....|..+
T Consensus 74 ~Ip~~l~~~ii~hAr~~~P~EacG~Iag~~~~---~~~r---~~p~~N~~~Sp~~~~~d~~-----------~~~~ge~l 136 (192)
T TIGR03735 74 PIPASLLEEFAEAARAALPNEVAAWIVWNSET---GSLR---LAALESIEASPGHIDYRRP-----------RLDDGEHL 136 (192)
T ss_pred CCCHHHHHHHHHHHHhcCCcceEEEEEEcCCC---CEEE---EEeccccccCCceEEEcch-----------HHhCCCeE
Confidence 46678899999999999999999999995322 1222 24443 22211 1122 22789999
Q ss_pred EEEEEeCCC
Q 028839 82 VGYFHANER 90 (203)
Q Consensus 82 vGyY~Ane~ 90 (203)
|+-||++-.
T Consensus 137 V~iyHSH~~ 145 (192)
T TIGR03735 137 VVDLHSHGT 145 (192)
T ss_pred EEEEcCCCC
Confidence 999998743
No 33
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=50.70 E-value=28 Score=31.89 Aligned_cols=57 Identities=18% Similarity=0.209 Sum_probs=37.4
Q ss_pred EEEeeecCCCCCCceEEEeeeecccCCCCcc---------hHHHHHHHHHHHHHhh------cCCeEEEEEEeC
Q 028839 30 GVLLGRVSPQNDAVVEIADSVPLFHSHLGLL---------PNLEISLIMIEEHYSA------QGLGIVGYFHAN 88 (203)
Q Consensus 30 GvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls---------PmlEvAL~qvd~~~~~------~~l~IvGyY~An 88 (203)
|+|||+.+.+ +.-.|+.++|-=+.....- -...+--.-|-+||++ -|+.|+|.|--.
T Consensus 1 GLlIGq~~s~--~kd~Vv~l~~tP~~d~~~~~~~~~~~~~~~~~id~~WVaeHA~qVsRMLPGGi~VlGifvv~ 72 (362)
T PF14778_consen 1 GLLIGQSSSS--QKDYVVHLARTPPEDTDDEESDVRTSDSSIKDIDEEWVAEHARQVSRMLPGGISVLGIFVVA 72 (362)
T ss_pred CeEeccccCC--CcceEEEecCCCCccccccccccccccccccccCHHHHHHHHHHHHhhCCCCcEEEEEEEEc
Confidence 8999987444 3567888887666542222 1122444555667776 789999999943
No 34
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=46.79 E-value=64 Score=26.09 Aligned_cols=44 Identities=32% Similarity=0.309 Sum_probs=32.4
Q ss_pred cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 028839 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (203)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~ 126 (203)
.|+.|||+|+..- -..-.++|.+.|.+.-++-+++-+..-|.+.
T Consensus 73 P~l~ivg~~~g~f------~~~~~~~i~~~I~~~~pdiv~vglG~PkQE~ 116 (172)
T PF03808_consen 73 PGLRIVGYHHGYF------DEEEEEAIINRINASGPDIVFVGLGAPKQER 116 (172)
T ss_pred CCeEEEEecCCCC------ChhhHHHHHHHHHHcCCCEEEEECCCCHHHH
Confidence 4899999999754 1335678999999988877766676655553
No 35
>PRK06934 flavodoxin; Provisional
Probab=43.83 E-value=80 Score=27.18 Aligned_cols=56 Identities=13% Similarity=0.057 Sum_probs=34.9
Q ss_pred cchHHHHHHHHHHHHHh----hcCCeEEEEEEeCCCC---------------CCCCCCHHHHHHHHHHHhhCCCc
Q 028839 59 LLPNLEISLIMIEEHYS----AQGLGIVGYFHANERF---------------DDLELDSIAKNIGNHICRYFPQC 114 (203)
Q Consensus 59 LsPmlEvAL~qvd~~~~----~~~l~IvGyY~Ane~~---------------~d~~~~~~a~kIa~kI~~~~~~a 114 (203)
|.|.|-+++..+-+.+. .++=.+|-||...++. .|.++....++||+.|++....-
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~k~Lv~yfs~~~~~~~~~~~~~~~~s~~~~~~~~~GnTk~vAe~Ia~~~gaD 87 (221)
T PRK06934 13 LILFLAVAVSSLSLIAEAADRNARRVLIVYFSQPEDVKLEGVDGVSGASILQKNGEVLGSTQYVAQIIQEETGGD 87 (221)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCceEEEEEeccCCcccccccccccccccccCCCCCCHHHHHHHHHHHHHCCC
Confidence 34544555544444332 2345688999876532 24455678999999999987543
No 36
>cd03006 PDI_a_EFP1_N PDIa family, N-terminal EFP1 subfamily; EFP1 is a binding partner protein of thyroid oxidase (ThOX), also called Duox. ThOX proteins are responsible for the generation of hydrogen peroxide, a crucial substrate of thyroperoxidase, which functions to iodinate thyroglobulin and synthesize thyroid hormones. EFP1 was isolated through a yeast two-hybrid method using the EF-hand fragment of dog Duox1 as a bait. It could be one of the partners in the assembly of a multiprotein complex constituting the thyroid hydrogen peroxide generating system. EFP1 contains two TRX domains related to the redox active TRX domains of protein disulfide isomerase (PDI). This subfamily is composed of the N-terminal TRX domain of EFP1, which contains a CXXS sequence in place of the typical CXXC motif, similar to ERp44. The CXXS motif allows the formation of stable mixed disulfides, crucial for the ER-retention function of ERp44.
Probab=43.43 E-value=1.4e+02 Score=22.51 Aligned_cols=90 Identities=16% Similarity=0.141 Sum_probs=45.6
Q ss_pred eecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcE-EEEEeCccccccc
Q 028839 50 VPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCA-VLLLDNKKLEALP 128 (203)
Q Consensus 50 VPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~-~l~ldn~kl~~~~ 128 (203)
||+|-+...+..+-+--+..+....+++++.+|-||..- ..+......+-+++++.+.+.+ +.-||..+-..++
T Consensus 2 ~~~~~~~~~v~~l~~~~f~~~~~v~~~~~~vlV~FyA~W-----C~~Ck~l~p~~~~la~~~~~~v~~~~Vd~d~~~~l~ 76 (113)
T cd03006 2 VPFFSQRSPVLDFYKGQLDYAEELRTDAEVSLVMYYAPW-----DAQSQAARQEFEQVAQKLSDQVLFVAINCWWPQGKC 76 (113)
T ss_pred CCccCCCCCeEEechhhhHHHHhcccCCCEEEEEEECCC-----CHHHHHHHHHHHHHHHHhcCCeEEEEEECCCChHHH
Confidence 677766543333323233322222456778888888531 2222223334444444455543 3458876554443
Q ss_pred c---CCCCCCcEEEEEecCC
Q 028839 129 K---GKDRSPVMQLYIRDAS 145 (203)
Q Consensus 129 ~---~~~~~~~l~~~~~~~~ 145 (203)
+ +-..-|.+.+|. ++.
T Consensus 77 ~~~~~I~~~PTl~lf~-~g~ 95 (113)
T cd03006 77 RKQKHFFYFPVIHLYY-RSR 95 (113)
T ss_pred HHhcCCcccCEEEEEE-CCc
Confidence 1 124578888884 443
No 37
>COG2343 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.44 E-value=22 Score=28.47 Aligned_cols=83 Identities=23% Similarity=0.327 Sum_probs=58.2
Q ss_pred HhhhhcCCCCceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHH-----HHHhhcCCeEEEEEEe---C
Q 028839 17 VLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIE-----EHYSAQGLGIVGYFHA---N 88 (203)
Q Consensus 17 ~LHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd-----~~~~~~~l~IvGyY~A---n 88 (203)
+++..++...-.||..|++... ..+++.-..|--|-. |.-.|-++..+ ++|-=|| ++|||.- .
T Consensus 21 v~ps~~~V~v~~nG~viAdS~~---~~~l~E~~~pp~~Yi----P~~Di~~e~l~~t~~~T~Cp~KG--~AsYysv~~~~ 91 (132)
T COG2343 21 VEPSSRRVQVIFNGEVIADSRR---AVVLVETSYPPVHYI----PPEDIRFEYLIPTPTHTYCPYKG--TASYYSVVVGG 91 (132)
T ss_pred eecCCCeEEEEECCEEEeecCC---ceEEEecCCCceeec----CHHHchHhhcccCCCccccCccc--ccceEEEEcCC
Confidence 3566677778889999997533 467777778877764 66677777765 3666677 6789984 2
Q ss_pred CCCCCC-----CCCHHHHHHHHHHH
Q 028839 89 ERFDDL-----ELDSIAKNIGNHIC 108 (203)
Q Consensus 89 e~~~d~-----~~~~~a~kIa~kI~ 108 (203)
++..|. .+.|.+++|.+.++
T Consensus 92 ~~~~naaW~Y~~P~p~a~~Ik~~vA 116 (132)
T COG2343 92 ERNPDAAWTYPNPKPAARAIKGHVA 116 (132)
T ss_pred ccCCCceEecCCCcHHHHHhcccee
Confidence 344443 47788999988774
No 38
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=40.88 E-value=1.6e+02 Score=22.31 Aligned_cols=63 Identities=11% Similarity=0.014 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHhhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 028839 63 LEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (203)
Q Consensus 63 lEvAL~qvd~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~ 126 (203)
+|-=...++.||.++|..|++.|.-+.......=-|-=.++.+.+.+.-- -++++-+-.+|..
T Consensus 17 ~~~Q~~~~~~~a~~~g~~i~~~~~d~~~Sg~~~~Rp~l~~ll~~~~~g~~-~~ivv~~~~Rl~R 79 (148)
T smart00857 17 LERQLEALRAYAKANGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDI-DVLVVYKLDRLGR 79 (148)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEeCCCcCCCCCCHHHHHHHHHHHcCCC-CEEEEeccchhhC
Confidence 45556668899999999999999866321111113555666677766422 2555656556653
No 39
>TIGR02364 dha_pts dihydroxyacetone kinase, phosphotransfer subunit. In E. coli and many other bacteria, unlike the yeasts and a few bacteria such as Citrobacter freundii, the dihydroxyacetone kinase (also called glycerone kinase) transfers a phosphate from a phosphoprotein rather than from ATP and contains multiple subunits. This protein, which resembles proteins of PTS transport systems, is found with its gene adjacent to
Probab=38.94 E-value=1.2e+02 Score=23.58 Aligned_cols=53 Identities=17% Similarity=0.040 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHh-hcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CcEEEEEe
Q 028839 62 NLEISLIMIEEHYS-AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLLD 120 (203)
Q Consensus 62 mlEvAL~qvd~~~~-~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~--~a~~l~ld 120 (203)
+.|=....++..+. +.++..+|.| .|.+++-..++|.+.|.+..+ +.++++.|
T Consensus 12 lA~Gi~~~~~~~~g~~~~i~~~gg~------~d~~~gt~~~~I~~ai~~~~~~~dgVlvl~D 67 (125)
T TIGR02364 12 IAEGIKELIKQMAGDDVTIISAGGT------DDGRLGTSPDKIIEAIEKADNEADGVLIFYD 67 (125)
T ss_pred HHHHHHHHHHHHcCCCccEEEEecC------CCCCccchHHHHHHHHHHhcCCCCCEEEEEc
Confidence 55666666666654 4557777766 556788889999999999865 67888876
No 40
>KOG3096 consensus Spliceosome-associated coiled-coil protein [Function unknown]
Probab=38.51 E-value=36 Score=29.31 Aligned_cols=77 Identities=16% Similarity=0.083 Sum_probs=48.4
Q ss_pred EEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCCC--CCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 028839 45 EIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERF--DDLELDSIAKNIGNHICRYFPQCAVLLLDNK 122 (203)
Q Consensus 45 ~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~~--~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~ 122 (203)
+++||.|-|-+...=.-.=+.|..+||.-|+..+-. -.|.-.-.+ .|...+++-.+--+|+...-|=. .+|-+
T Consensus 5 v~vDALPY~D~~Y~e~~~Rs~a~~lVEeE~rr~rpt--knyl~~lp~p~~s~f~t~~m~ne~er~~~k~pm~---~l~ms 79 (225)
T KOG3096|consen 5 VSVDALPYFDSGYNEPGDRSAAAALVEEECRRYRPT--KNYLDHLPLPDYSAFLTDRMENEFERAGKKEPME---ALDMS 79 (225)
T ss_pred eeeccccccccccCchhhHHHHHHHHHHHHHhhcch--hhhhhcCCCcccchhhhhHHHHHHHHHhccCcch---hhhHH
Confidence 679999999987543338899999999999984422 234333222 23446666666677776643322 24555
Q ss_pred cccc
Q 028839 123 KLEA 126 (203)
Q Consensus 123 kl~~ 126 (203)
+-+.
T Consensus 80 Ryel 83 (225)
T KOG3096|consen 80 RYEL 83 (225)
T ss_pred hhcC
Confidence 5543
No 41
>PF12062 HSNSD: heparan sulfate-N-deacetylase; InterPro: IPR021930 This family of proteins is are heparan sulphate N-deacetylase enzymes. This protein is found in eukaryotes. This enzyme is often found associated with PF00685 from PFAM. ; GO: 0015016 [heparan sulfate]-glucosamine N-sulfotransferase activity, 0016787 hydrolase activity
Probab=32.81 E-value=38 Score=32.57 Aligned_cols=27 Identities=30% Similarity=0.628 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHhhcCCeEEEEEEeCCC
Q 028839 64 EISLIMIEEHYSAQGLGIVGYFHANER 90 (203)
Q Consensus 64 EvAL~qvd~~~~~~~l~IvGyY~Ane~ 90 (203)
.---.+.|.||++-+.-|+|++.++|.
T Consensus 126 ~wNR~LLdkYC~ey~VGiIgF~~~~E~ 152 (487)
T PF12062_consen 126 SWNRELLDKYCREYGVGIIGFFKANEN 152 (487)
T ss_pred HHHHHHHHHHhHccCccEEEEecCCCC
Confidence 445678999999999999999999874
No 42
>PRK02399 hypothetical protein; Provisional
Probab=32.74 E-value=1.3e+02 Score=28.37 Aligned_cols=32 Identities=16% Similarity=0.402 Sum_probs=22.4
Q ss_pred ecCcchHHHHHHHHhhcc--cCcccccccccCCC
Q 028839 161 TKEPAANVVLMDYISSEK--WQDVVDFDDHLDDI 192 (203)
Q Consensus 161 ~~~~~~~~~~~~~l~~~~--~~~lvDFDdHLddi 192 (203)
+.++++.+.+.+.|++.. ..+++..|.|++|+
T Consensus 355 f~Dpead~alf~~l~~~l~~~~~v~~~~~hIND~ 388 (406)
T PRK02399 355 FHDPEADAAFFDALEETVTETRRLIEVPAHINDP 388 (406)
T ss_pred ccChhHHHHHHHHHHHhCCCCceEEECCCCCCCH
Confidence 455666666666666543 56799999999886
No 43
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=30.78 E-value=2.5e+02 Score=21.62 Aligned_cols=63 Identities=14% Similarity=0.030 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 028839 62 NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (203)
Q Consensus 62 mlEvAL~qvd~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~ 125 (203)
.+|-=...++.||+.+|..|++.|.-....+-..--|--.++.+.+.+.--+ ++++-+-.+|.
T Consensus 19 sle~Q~~~l~~~a~~~g~~i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd-~vvv~~ldRl~ 81 (140)
T cd03770 19 SIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKID-IVIVKDMSRLG 81 (140)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCC-EEEEeccchhc
Confidence 3455556678899999999999998432111111236667777777765334 44554544554
No 44
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=29.55 E-value=88 Score=25.28 Aligned_cols=44 Identities=27% Similarity=0.259 Sum_probs=30.4
Q ss_pred cCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 028839 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (203)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~ 126 (203)
.|+.|||+++..-...+ ...|.++|.+.-|+-+++-+-.=|.+.
T Consensus 71 p~l~i~g~~~g~~~~~~------~~~i~~~I~~~~pdiv~vglG~PkQE~ 114 (171)
T cd06533 71 PGLKIVGYHHGYFGPEE------EEEIIERINASGADILFVGLGAPKQEL 114 (171)
T ss_pred CCcEEEEecCCCCChhh------HHHHHHHHHHcCCCEEEEECCCCHHHH
Confidence 68999999876543221 223899999988887777666655543
No 45
>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=29.25 E-value=4.1e+02 Score=23.60 Aligned_cols=115 Identities=15% Similarity=0.169 Sum_probs=72.8
Q ss_pred eEEeHHHHHHHHhh-hhcCCCCceeEEEeeecCCC---CCCceEEEeee--ecccCCC-CcchHHHHHHHHHHHHHhhcC
Q 028839 6 YELSQNAYIKLVLH-ARKHKTAAVNGVLLGRVSPQ---NDAVVEIADSV--PLFHSHL-GLLPNLEISLIMIEEHYSAQG 78 (203)
Q Consensus 6 v~is~~AY~K~~LH-AaKyP~~aVnGvLlG~~~~~---~~~~v~i~DaV--PLfH~~~-~LsPmlEvAL~qvd~~~~~~~ 78 (203)
+++...+...-.+. .-+.-..-=.|+|.|+-... +-+.-.+++|| |=-|... ++.-+=+--...||+-|+.-|
T Consensus 13 vef~~~~~~~~f~~~~w~~~~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~d~~~~~vd~iA~~lG 92 (274)
T cd08061 13 VEFDNPSIVEFFLYVFWRKTGQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLEDPNADTVDAIAAALG 92 (274)
T ss_pred EEEecHHHHHHHHHHHHHhhcceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEccchhhhHHHHHHHHcC
Confidence 66777776666666 33333455579999974221 00135678999 8887753 222222234455899999999
Q ss_pred CeEEEEEEeCCCC---CCCCCCHHHHHHHHHHHh-----hCCCcEE-EEEe
Q 028839 79 LGIVGYFHANERF---DDLELDSIAKNIGNHICR-----YFPQCAV-LLLD 120 (203)
Q Consensus 79 l~IvGyY~Ane~~---~d~~~~~~a~kIa~kI~~-----~~~~a~~-l~ld 120 (203)
|..||+=...-.- ++--++..=...|.+.+. .|.+-++ +++.
T Consensus 93 L~~VG~IfT~l~~~~~d~~~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs 143 (274)
T cd08061 93 LERVGWIFTDLPREDKDGYFLSAEEVILAAKFQLKHPTGKFGSKFVTVVVT 143 (274)
T ss_pred CeEEEEEEecCCCCCCCceeECHHHHHHHHHHhhhcccCCcCCeEEEEEEe
Confidence 9999998875322 245688887778888885 3555443 4443
No 46
>PF11732 Thoc2: Transcription- and export-related complex subunit; InterPro: IPR021726 The THO/TREX complex is the transcription- and export-related complex associated with spliceosomes that preferentially deal with spliced mRNAs as opposed to unspliced mRNAs. Thoc2 plays a role in RNA polymerase II (RNA pol II)-dependent transcription and is required for the stability of DNA repeats []. In humans, the TRE complex is comprised of the exon-junction-associated proteins Aly/REF and UAP56 together with the THO proteins THOC1 (hHpr1/p84), Thoc2 (hRlr1), THOC3 (hTex1), THOC5 (fSAP79), THOC6 (fSAP35), and THOC7 (fSAP24). Although much evidence indicates that the function of the TREX complex as an adaptor between the mRNA and components of the export machinery is conserved among eukaryotes, in Drosophila the majority of mRNAs can be exported from the nucleus independently of the THO complex []. This entry represents a conserved domain found towards the N terminus of these proteins.
Probab=29.14 E-value=44 Score=24.25 Aligned_cols=20 Identities=30% Similarity=0.213 Sum_probs=15.8
Q ss_pred ccCCCCcchHHHHHHHHHHHHH
Q 028839 53 FHSHLGLLPNLEISLIMIEEHY 74 (203)
Q Consensus 53 fH~~~~LsPmlEvAL~qvd~~~ 74 (203)
.|+ ...+.++.+|.|||+|=
T Consensus 5 shs--nP~~vf~~il~Qie~Yd 24 (77)
T PF11732_consen 5 SHS--NPLIVFDVILSQIESYD 24 (77)
T ss_pred hcc--CcHHHHHHHHHHHHHhh
Confidence 454 36678999999999983
No 47
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=27.82 E-value=2.5e+02 Score=20.72 Aligned_cols=61 Identities=16% Similarity=0.067 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhhcCCeEEEEEEeCCCCCC-CCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 028839 64 EISLIMIEEHYSAQGLGIVGYFHANERFDD-LELDSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (203)
Q Consensus 64 EvAL~qvd~~~~~~~l~IvGyY~Ane~~~d-~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~ 125 (203)
+-=...++.||..+|..|+.+|.-...... ..--|--.++.+.+.+.- .-++++-+-.+|.
T Consensus 17 ~~Q~~~~~~~a~~~g~~i~~~~~d~~~s~~~~~~R~~~~~ll~~~~~~~-~d~ivv~~~~Rl~ 78 (137)
T cd00338 17 ERQREALREYAARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGK-IDVVLVEKLDRLS 78 (137)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEeCCCCcccccCCHHHHHHHHHHHcCC-CCEEEEEecchhh
Confidence 444567789999999999999986543321 222455556666676532 2355555555554
No 48
>PF00056 Ldh_1_N: lactate/malate dehydrogenase, NAD binding domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR001236 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the N-terminal, and is thought to be a Rossmann NAD-binding fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IB6_B 3HHP_C 1IE3_A 2PWZ_A 1EMD_A 2CMD_A 1EZ4_D 9LDT_B 9LDB_B 2D4A_C ....
Probab=26.60 E-value=88 Score=24.44 Aligned_cols=24 Identities=33% Similarity=0.677 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhhCCCcEEEEEeC
Q 028839 98 SIAKNIGNHICRYFPQCAVLLLDN 121 (203)
Q Consensus 98 ~~a~kIa~kI~~~~~~a~~l~ldn 121 (203)
++.+.++++|.++.|+++++++-|
T Consensus 96 ~i~~~~~~~i~~~~p~~~vivvtN 119 (141)
T PF00056_consen 96 KIVKEIAKKIAKYAPDAIVIVVTN 119 (141)
T ss_dssp HHHHHHHHHHHHHSTTSEEEE-SS
T ss_pred hHHHHHHHHHHHhCCccEEEEeCC
Confidence 578889999999999999988744
No 49
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=25.37 E-value=16 Score=31.97 Aligned_cols=62 Identities=21% Similarity=0.331 Sum_probs=39.6
Q ss_pred ceeEEEeeecCCCCCCceEEEeeeecccCCCCcchHHHHHHHHHHHHHhhcCCeEEEEEEeCCC
Q 028839 27 AVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANER 90 (203)
Q Consensus 27 aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~qvd~~~~~~~l~IvGyY~Ane~ 90 (203)
-..-+|+|....| ..=.+-||=|=--.-++|+-|+-+-..++.--++.+..+=||||.-|+-
T Consensus 56 vLd~ilVgPiP~G--~nkFvf~ADpP~v~liPlse~~gvTvILlsc~Y~g~eFvRvGYyVnney 117 (279)
T COG5137 56 VLDEILVGPIPKG--KNKFVFDADPPDVNLIPLSEMFGVTVILLSCRYKGQEFVRVGYYVNNEY 117 (279)
T ss_pred hhhheeecccccc--ceeEEeecCCCCccccchhhhhceeEEEEEEeecCceeEEEEEEeccCC
Confidence 3456788877555 3344556665544445666676666556654445566788999999874
No 50
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=23.56 E-value=2.8e+02 Score=20.95 Aligned_cols=55 Identities=9% Similarity=0.089 Sum_probs=35.5
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEecCCCCeEEcC
Q 028839 82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIRDASKNWKLVG 152 (203)
Q Consensus 82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~~~~~~W~~~~ 152 (203)
.|.|.++ ++ ..+.++|-+++.+.+++.-++|+.... .++.+.+.+... .+|.+.+
T Consensus 28 ~GVyVg~--~S----~rVRd~lW~~v~~~~~~G~avmv~~~~---------~eqG~~~~t~G~-~rr~~vD 82 (97)
T PRK11558 28 AGVYVGD--VS----RRIREMIWQQVTQLAEEGNVVMAWATN---------TESGFEFQTFGE-NRRIPVD 82 (97)
T ss_pred CCcEEcC--CC----HHHHHHHHHHHHHhCCCCcEEEEEcCC---------CCCCcEEEecCC-CCccEEe
Confidence 4788873 33 458999999999999987777776432 233555555433 2555543
No 51
>PF14201 DUF4318: Domain of unknown function (DUF4318)
Probab=21.62 E-value=85 Score=22.58 Aligned_cols=22 Identities=23% Similarity=0.187 Sum_probs=18.9
Q ss_pred chHHHHHHHHHHHHHhhcCCeE
Q 028839 60 LPNLEISLIMIEEHYSAQGLGI 81 (203)
Q Consensus 60 sPmlEvAL~qvd~~~~~~~l~I 81 (203)
-|..|.-+.-||.||.++|..+
T Consensus 14 yPs~e~i~~aIE~YC~~~~~~l 35 (74)
T PF14201_consen 14 YPSKEEICEAIEKYCIKNGESL 35 (74)
T ss_pred CCCHHHHHHHHHHHHHHcCCce
Confidence 4888999999999999988654
No 52
>COG2065 PyrR Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=21.53 E-value=1.7e+02 Score=24.58 Aligned_cols=40 Identities=20% Similarity=0.183 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhC
Q 028839 64 EISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYF 111 (203)
Q Consensus 64 EvAL~qvd~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~ 111 (203)
-+|-..||......++++||-+.- =-++|++|+++|.+.-
T Consensus 18 Ria~eIiErnk~~~~~vlvGIktr--------Gv~lA~rl~~~i~~~E 57 (179)
T COG2065 18 RIAHEIIERNKGLDNLVLVGIKTR--------GVPLAERLAERIEELE 57 (179)
T ss_pred HHHHHHHHHhCCCCceEEEeEecC--------CHHHHHHHHHHHHHHh
Confidence 378889998888888999999873 2578999999998764
No 53
>cd03069 PDI_b_ERp57 PDIb family, ERp57 subfamily, first redox inactive TRX-like domain b; ERp57 (or ERp60) exhibits both disulfide oxidase and reductase functions like PDI, by catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER and acting as isomerases to correct any non-native disulfide bonds. It also displays chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. ERp57 contains two redox-active TRX (a) domains and two redox inactive TRX-like (b) domains. It shares the same domain arrangement of abb'a' as PDI, but lacks the C-terminal acid-rich region (c domain) that is present in PDI. ERp57 interacts with the lectin chaperones, calnexin and calreticulin, and specifically promotes the oxidative folding of glycoproteins. Similar to PDI, the b domain of ERp57 is likely involved in binding to substrates.
Probab=20.98 E-value=1.7e+02 Score=21.34 Aligned_cols=66 Identities=18% Similarity=0.160 Sum_probs=36.0
Q ss_pred HHHHHHHHhhcCCeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCcEEEEEe
Q 028839 67 LIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQLYIR 142 (203)
Q Consensus 67 L~qvd~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ldn~kl~~~~~~~~~~~~l~~~~~ 142 (203)
...++..-......||||+...+ ...-..=.++|+..++.+ .+ .+..+..+.. +-.. .+.+.+|..
T Consensus 8 ~~~l~~f~~~~~~~Vvg~f~~~~----~~~~~~F~~vA~~~R~d~--~F-~~~~~~~~~~--~~~~-~~~ivl~~p 73 (104)
T cd03069 8 EAEFEKFLSDDDASVVGFFEDED----SKLLSEFLKAADTLRESF--RF-AHTSDKQLLE--KYGY-GEGVVLFRP 73 (104)
T ss_pred HHHHHHHhccCCcEEEEEEcCCC----chHHHHHHHHHHhhhhcC--EE-EEEChHHHHH--hcCC-CCceEEEec
Confidence 34556666678899999997522 123344556777776654 23 3333333321 0112 456778754
No 54
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=20.34 E-value=2.1e+02 Score=26.96 Aligned_cols=33 Identities=24% Similarity=0.428 Sum_probs=24.1
Q ss_pred ecCcchHHHHHHHHhhcc---cCcccccccccCCCC
Q 028839 161 TKEPAANVVLMDYISSEK---WQDVVDFDDHLDDIS 193 (203)
Q Consensus 161 ~~~~~~~~~~~~~l~~~~---~~~lvDFDdHLddi~ 193 (203)
+.+|++.+.+.+.|++.. ...++..|-|++|+.
T Consensus 354 f~Dpead~al~~~l~~~l~~~~i~v~~~~~hIND~~ 389 (403)
T PF06792_consen 354 FYDPEADEALFDALRENLDGSGIEVIEVDAHINDPE 389 (403)
T ss_pred CcChhHHHHHHHHHHHhCCCCCcEEEECCCCCCCHH
Confidence 456777677666666644 458999999999863
No 55
>PF09831 DUF2058: Uncharacterized protein conserved in bacteria (DUF2058); InterPro: IPR018636 This family, found in various prokaryotic proteins, has no known function.
Probab=20.06 E-value=1e+02 Score=25.85 Aligned_cols=34 Identities=26% Similarity=0.366 Sum_probs=21.8
Q ss_pred CeEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEe
Q 028839 79 LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120 (203)
Q Consensus 79 l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~~l~ld 120 (203)
|.||-| +.+..-+-..+|+||++..|+++++..+
T Consensus 121 LaIv~l--------~~~y~lVP~~vAeKI~~rd~~~iv~~~~ 154 (177)
T PF09831_consen 121 LAIVRL--------EGGYELVPAEVAEKIAERDPSAIVLLND 154 (177)
T ss_pred EEEEEE--------CCEEEEeeHHHHHHHHHhCCCeEEEccC
Confidence 788866 1222334457788888888887765544
Done!