Query 032531
Match_columns 139
No_of_seqs 108 out of 146
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 02:38:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032531.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032531hhsearch_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 1.5E-57 3.2E-62 362.0 16.2 127 4-131 1-129 (196)
2 KOG3289 Uncharacterized conser 100.0 7.2E-54 1.6E-58 337.9 14.8 124 6-130 4-128 (199)
3 cd08060 MPN_UPF0172 Mov34/MPN/ 100.0 3.3E-43 7.1E-48 276.8 14.5 119 8-128 1-120 (182)
4 cd07767 MPN Mpr1p, Pad1p N-ter 99.8 5.8E-18 1.3E-22 119.9 12.9 105 14-123 1-106 (116)
5 cd08069 MPN_RPN11_CSN5 Mov34/M 99.1 1.8E-09 4E-14 89.4 13.9 114 6-123 12-130 (268)
6 cd08065 MPN_eIF3h Mpr1p, Pad1p 99.0 9E-09 2E-13 85.0 13.8 112 6-123 3-121 (266)
7 PF01398 JAB: JAB1/Mov34/MPN/P 99.0 4.2E-09 9.2E-14 75.3 10.0 104 6-113 6-114 (114)
8 smart00232 JAB_MPN JAB/MPN dom 99.0 3.4E-08 7.3E-13 71.1 14.8 113 6-123 2-119 (135)
9 cd08057 MPN_euk_non_mb Mpr1p, 99.0 2.5E-08 5.5E-13 75.8 13.8 114 6-123 1-120 (157)
10 cd08067 MPN_2A_DUB Mov34/MPN/P 98.9 1.5E-07 3.2E-12 74.7 15.0 112 6-123 7-129 (187)
11 cd08062 MPN_RPN7_8 Mpr1p, Pad1 98.7 2.8E-07 6E-12 77.1 13.4 110 6-123 3-121 (280)
12 cd08058 MPN_euk_mb Mpr1p, Pad1 98.7 3.7E-07 8.1E-12 66.4 11.6 105 12-123 2-108 (119)
13 cd08064 MPN_eIF3f Mpr1p, Pad1p 98.6 4.8E-07 1E-11 74.5 11.6 110 6-123 1-117 (265)
14 cd08063 MPN_CSN6 Mpr1p, Pad1p 98.5 1.6E-06 3.5E-11 72.2 10.9 112 5-123 2-123 (288)
15 cd08068 MPN_BRCC36 Mov34/MPN/P 98.5 1E-05 2.2E-10 67.0 15.2 117 6-123 4-132 (244)
16 PLN03246 26S proteasome regula 98.4 4.8E-06 1E-10 70.6 12.2 110 6-123 8-126 (303)
17 cd08066 MPN_AMSH_like Mov34/MP 98.2 3.9E-05 8.5E-10 60.1 12.5 110 6-122 4-117 (173)
18 KOG1554 COP9 signalosome, subu 97.9 9E-05 2E-09 63.3 10.2 111 6-123 55-174 (347)
19 cd08070 MPN_like Mpr1p, Pad1p 97.6 0.00058 1.3E-08 50.0 9.2 98 11-120 2-105 (128)
20 PF14464 Prok-JAB: Prokaryotic 97.0 0.0075 1.6E-07 41.8 8.4 78 10-101 2-80 (104)
21 KOG1556 26S proteasome regulat 96.5 0.015 3.2E-07 49.2 7.8 108 6-123 11-129 (309)
22 cd08072 MPN_archaeal Mov34/MPN 96.0 0.051 1.1E-06 39.8 7.9 91 8-119 1-93 (117)
23 COG1310 Predicted metal-depend 95.6 0.23 5.1E-06 36.5 9.9 88 7-102 3-91 (134)
24 KOG2975 Translation initiation 94.8 0.19 4.1E-06 42.8 8.2 110 6-123 23-137 (288)
25 KOG1555 26S proteasome regulat 94.8 0.11 2.5E-06 44.7 6.9 114 6-122 33-157 (316)
26 TIGR02256 ICE_VC0181 integrati 93.6 1.1 2.4E-05 34.0 9.5 90 26-119 17-112 (131)
27 cd08059 MPN_prok_mb Mpr1p, Pad 93.5 0.93 2E-05 31.5 8.4 81 13-107 3-83 (101)
28 KOG1560 Translation initiation 93.2 1 2.2E-05 38.9 9.7 111 6-125 15-143 (339)
29 cd08073 MPN_NLPC_P60 Mpr1p, Pa 84.3 9.4 0.0002 27.5 7.8 85 13-120 3-94 (108)
30 KOG3050 COP9 signalosome, subu 83.3 6.5 0.00014 33.5 7.4 85 26-121 37-127 (299)
31 TIGR02364 dha_pts dihydroxyace 58.0 47 0.001 24.6 6.2 54 62-121 12-68 (125)
32 COG3933 Transcriptional antite 56.9 34 0.00073 31.3 6.1 87 10-123 89-176 (470)
33 PF03808 Glyco_tran_WecB: Glyc 56.5 37 0.00079 26.0 5.6 43 77-125 73-116 (172)
34 TIGR03735 PRTRC_A PRTRC system 52.9 76 0.0016 25.7 7.0 67 7-90 74-145 (192)
35 PF14097 SpoVAE: Stage V sporu 48.9 62 0.0013 26.1 5.8 53 64-123 10-63 (180)
36 smart00857 Resolvase Resolvase 47.4 1E+02 0.0022 22.0 7.8 47 63-110 17-64 (148)
37 COG1478 GTP and metal dependen 46.9 1.8E+02 0.0039 24.7 8.5 76 62-137 76-169 (257)
38 PF14778 ODR4-like: Olfactory 45.5 37 0.0008 29.3 4.5 57 30-88 1-72 (362)
39 PF12062 HSNSD: heparan sulfat 42.4 23 0.00049 32.5 2.7 26 64-89 126-151 (487)
40 cd03770 SR_TndX_transposase Se 40.3 1.4E+02 0.0031 21.7 7.6 52 63-114 20-71 (140)
41 COG0698 RpiB Ribose 5-phosphat 39.4 1.1E+02 0.0023 24.0 5.7 51 69-123 17-69 (151)
42 PRK06934 flavodoxin; Provision 37.0 1.3E+02 0.0029 24.5 6.3 56 59-114 13-87 (221)
43 KOG3096 Spliceosome-associated 37.0 40 0.00087 27.9 3.2 66 45-112 5-72 (225)
44 COG2343 Uncharacterized protei 36.3 32 0.00069 26.5 2.3 83 17-108 21-116 (132)
45 cd00338 Ser_Recombinase Serine 35.8 1.5E+02 0.0033 20.6 7.7 47 64-110 17-64 (137)
46 cd03767 SR_Res_par Serine reco 33.3 2E+02 0.0043 21.2 6.3 45 64-110 15-60 (146)
47 PF00056 Ldh_1_N: lactate/mala 33.3 59 0.0013 24.0 3.4 24 98-121 96-119 (141)
48 cd06533 Glyco_transf_WecG_TagA 32.9 63 0.0014 24.7 3.6 41 77-123 71-111 (171)
49 KOG3265 Histone chaperone invo 31.6 30 0.00065 29.1 1.7 47 75-121 102-155 (250)
50 KOG0079 GTP-binding protein H- 30.3 46 0.001 26.8 2.4 30 11-40 96-125 (198)
51 PRK13293 F420-0--gamma-glutamy 29.2 1.7E+02 0.0037 24.5 5.7 74 63-136 76-166 (245)
52 TIGR01916 F420_cofE F420-0:gam 28.1 3.6E+02 0.0078 22.6 8.6 75 62-136 73-165 (243)
53 cd03069 PDI_b_ERp57 PDIb famil 27.1 1.2E+02 0.0026 21.0 3.9 39 67-109 8-46 (104)
54 PF15120 DUF4561: Domain of un 24.0 28 0.00061 27.8 0.2 15 21-35 115-129 (171)
55 PF14201 DUF4318: Domain of un 23.8 72 0.0016 22.0 2.2 22 60-81 14-35 (74)
56 COG5137 Histone chaperone invo 22.5 21 0.00045 30.1 -0.8 94 28-123 57-162 (279)
57 PF02056 Glyco_hydro_4: Family 22.3 1.2E+02 0.0025 24.2 3.4 24 98-121 122-145 (183)
58 cd05296 GH4_P_beta_glucosidase 22.2 1.1E+02 0.0023 27.2 3.5 24 98-121 122-145 (419)
59 cd00651 TFold Tunnelling fold 22.2 2.5E+02 0.0054 19.2 4.8 35 94-128 68-104 (122)
60 cd01853 Toc34_like Toc34-like 21.3 4.5E+02 0.0098 21.3 9.0 67 42-112 79-145 (249)
61 cd05197 GH4_glycoside_hydrolas 21.0 1.1E+02 0.0023 27.3 3.2 24 98-121 121-144 (425)
62 PRK13413 mpi multiple promoter 20.8 3.8E+02 0.0083 20.5 6.1 25 63-87 15-39 (200)
63 PF04424 DUF544: Protein of un 20.3 35 0.00077 25.1 0.1 30 27-58 62-95 (121)
64 PF05021 NPL4: NPL4 family; I 20.2 3.6E+02 0.0078 23.1 6.2 84 29-114 2-107 (306)
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=1.5e-57 Score=361.96 Aligned_cols=127 Identities=40% Similarity=0.653 Sum_probs=119.0
Q ss_pred ce-eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEE
Q 032531 4 LK-YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIV 82 (139)
Q Consensus 4 M~-v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~Iv 82 (139)
|+ |+||++||+||+|||+|||||+|||+|||++++++ +.|.|+|||||||++++|+||+|+||+|||+||+++|++||
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 35999999999999999999999999999999999999999
Q ss_pred EEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC-CCCCCCCc
Q 032531 83 GYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS-KPYPRGKT 131 (139)
Q Consensus 83 GyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k-~~~~k~~~ 131 (139)
||||||||++|.+|+++|+|||+||+++|++|+++||||+| +...+...
T Consensus 80 GyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~~~~ 129 (196)
T PF03665_consen 80 GYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCKAPA 129 (196)
T ss_pred EEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccCCCc
Confidence 99999999999999999999999999999999999999999 77665543
No 2
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]
Probab=100.00 E-value=7.2e-54 Score=337.87 Aligned_cols=124 Identities=44% Similarity=0.715 Sum_probs=117.2
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEE
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY 85 (139)
|++|++||+||+|||+||||++|||+|||+.++.| +.++|+|||||||+++.|+||||+||++||.||.+.|++|+|||
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 99999999999999999999999999999876655 69999999999999999999999999999999999999999999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC-CCCCCCC
Q 032531 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS-KPYPRGK 130 (139)
Q Consensus 86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k-~~~~k~~ 130 (139)
|||||++|.++.++|+|||+||+|+||+|++||+||+| -...++.
T Consensus 83 ~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~~~e~~ 128 (199)
T KOG3289|consen 83 HANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVPQCERP 128 (199)
T ss_pred ecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEeccccccccCCC
Confidence 99999999999999999999999999999999999998 4444444
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=3.3e-43 Score=276.81 Aligned_cols=119 Identities=43% Similarity=0.693 Sum_probs=112.0
Q ss_pred EeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEe
Q 032531 8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHA 87 (139)
Q Consensus 8 is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~A 87 (139)
|+++||.||++||+|||+++|||+|+|+.+.+ +.+.|+|+|||||+++.|+||+|+||.|||.||+++|+.||||||+
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 57899999999999999999999999987633 4689999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC-CCCCC
Q 032531 88 NERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS-KPYPR 128 (139)
Q Consensus 88 ne~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k-~~~~k 128 (139)
|++++|.+|+++|+||||||+++|++|+++||||+| ..-.+
T Consensus 79 h~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~~~~ 120 (182)
T cd08060 79 NERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTLDCK 120 (182)
T ss_pred CCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCcccccccc
Confidence 999999999999999999999999999999999999 55443
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=99.78 E-value=5.8e-18 Score=119.94 Aligned_cols=105 Identities=23% Similarity=0.278 Sum_probs=91.9
Q ss_pred HHHHhhhhcCC-CCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC
Q 032531 14 IKLVLHARKHK-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD 92 (139)
Q Consensus 14 ~K~iLHAaKyP-~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane~~~ 92 (139)
+|+++|.+|++ ...|+|+|+|+..+ .+.++|++|++|+.....|+.+.++.+++.++...|+.||||||+++...
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 79999999998654 27788999999998888999999999999999999999999999987654
Q ss_pred CCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 93 DLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 93 d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
..|++......+++++.+++++++++|+++
T Consensus 77 -~~~s~~dv~~~~~~q~~~~~~v~li~~~~~ 106 (116)
T cd07767 77 -CFLSPNDLATHELFQRYFPEKVMIIVDVKP 106 (116)
T ss_pred -CccCHHHHHHHHHHHHhCCCCEEEEEECCC
Confidence 356666666779999999999999999988
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=99.12 E-value=1.8e-09 Score=89.45 Aligned_cols=114 Identities=19% Similarity=0.248 Sum_probs=84.3
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchh--HHHHHHHHHH-HHh--hhCCce
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIE-EHY--SAQGLG 80 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP--mlEvAL~~id-~~~--~~~~l~ 80 (139)
|.|+..++.||+.||.+-....|+|+|+|+..+ ..+.|+||+|+-|....-.. -.|.-..+++ ... ...+..
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 899999999999999888778999999998544 47999999999875443210 1122222232 122 346799
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
||||||...... ..|+..-..+-..-++..+.++.|++|..+
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 999999986555 567877777777667777889999999765
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=99.02 E-value=9e-09 Score=84.95 Aligned_cols=112 Identities=15% Similarity=0.193 Sum_probs=78.3
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchh-----HHHHHHHHHHHHhhhCCc-
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSAQGL- 79 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-----mlEvAL~~id~~~~~~~l- 79 (139)
|.|++.++.||+-|+-+.....|.|+|||...+ +.++|+||.|+=|....-.+ ..+--+.+++ ..++.|.
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 899999999999999999999999999998764 48999999999997543332 1122233333 3566776
Q ss_pred -eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 80 -GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 80 -~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
.||||||... .+ ...++.-...--......++++.|++|..+
T Consensus 79 e~iVGWY~S~p-~~-~~~~~s~id~~~~~q~~~~~~v~Li~D~~~ 121 (266)
T cd08065 79 HNHVGWYQSTY-LG-SFFTRDLIETQYNYQEAIEESVVLVYDPSK 121 (266)
T ss_pred CcEEEeEeecC-CC-CcCCHHHHHHHHHHhccCCCCEEEEECCCc
Confidence 9999999876 22 333332222222223334778999999875
No 7
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.
Probab=99.01 E-value=4.2e-09 Score=75.34 Aligned_cols=104 Identities=24% Similarity=0.275 Sum_probs=75.6
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCch----hHHHHHHHHHHHHhhh-CCce
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL----PNLEISLIMIEEHYSA-QGLG 80 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls----PmlEvAL~~id~~~~~-~~l~ 80 (139)
|.|++.+..||+-|+-+.+...|.|+|+|...++ ..+.|+|++|+=|....-. +.... -.+++.+-+- ..+.
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 8899999999999999988889999999987664 2899999999987643321 12122 3455554432 4599
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCC
Q 032531 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQ 113 (139)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~ 113 (139)
||||||...... ..|++....+-...++..++
T Consensus 83 iVGWY~s~p~~~-~~~S~~di~~q~~~q~~~~~ 114 (114)
T PF01398_consen 83 IVGWYHSHPNIS-CFPSPTDIETQKQYQRMNPN 114 (114)
T ss_dssp EEEEEEEESSS--SS--HHHHHHHHHHHHHTTT
T ss_pred EEEEEEccCCcc-ccCCHHHHHHHHHHHHhCCC
Confidence 999999876554 66788888888777776553
No 8
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=99.01 E-value=3.4e-08 Score=71.12 Aligned_cols=113 Identities=19% Similarity=0.242 Sum_probs=84.3
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccC----chhHHHHHHHHHHHH-hhhCCce
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG----LLPNLEISLIMIEEH-YSAQGLG 80 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~----LsPmlEvAL~~id~~-~~~~~l~ 80 (139)
+.+.+.++.||+-|+.+.....++|+|+|+..+ +.+.|++++|+-...-. --++ +---.+.+.+ ....++.
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 678999999999999999899999999998654 37999999998654211 0111 1111222332 3468899
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
+|||||...... ..|+..-..++.......+.++.+.+|..+
T Consensus 78 ~vGwyhshp~~~-~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~ 119 (135)
T smart00232 78 IVGWYHSHPDES-PFPSEVDVATHESYQAPWPISVVLIVDPIK 119 (135)
T ss_pred EEEEEEcCCCCC-CCcCHHHHHHHHHHHhcCCceEEEEECCCc
Confidence 999999976533 568888888888888888888888898877
No 9
>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=98.98 E-value=2.5e-08 Score=75.81 Aligned_cols=114 Identities=18% Similarity=0.173 Sum_probs=83.8
Q ss_pred eEEeHHHHHHHHhhhhcCC--CCeeeEEEeeecCCCCCceeEEEeceeccccccCch--hHHHHHHHHHHHHhh-hCCce
Q 032531 6 YELSQNAYIKLVLHARKHK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL--PNLEISLIMIEEHYS-AQGLG 80 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP--~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls--PmlEvAL~~id~~~~-~~~l~ 80 (139)
|.|.+.+..||+=|..+-. ...|.|+|||...+ +.+.|+||+|+-|..-.-. --.|---.+++.+-+ ..+..
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 4899999999998643221 123333344444433 25689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhh-CCCceEEEEeCCC
Q 032531 81 IVGYFHANERFDDLELDSIAKNIGNHICRY-FPQCAVLLITKSS 123 (139)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~-~~~a~ll~vDn~k 123 (139)
+||||+...... +.+......|-+.+... .+.++++++|-.+
T Consensus 78 vVGWY~~~~~~~-~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~ 120 (157)
T cd08057 78 IVGWYSIGSNNS-NEISKSDNSLHSQFSLISEENPLILILDPSL 120 (157)
T ss_pred EEEEEeecCCCC-CCCChhHHHHHHHHHhccCCCCEEEEEcCCc
Confidence 999999875433 44666677777777775 6778999999755
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=98.87 E-value=1.5e-07 Score=74.70 Aligned_cols=112 Identities=21% Similarity=0.304 Sum_probs=80.6
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccc----cCchhHHHHHHHHHHHHhhhCCceE
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSH----LGLLPNLEISLIMIEEHYSAQGLGI 81 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~----~~LsPmlEvAL~~id~~~~~~~l~I 81 (139)
|+||..|..||+.||-.-. ..|+|+|+|+...++ ..+.|+++.|.-=.. ....|.-| ..+..+.++.|+.+
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-QNLTILQAFPCRSRLTGLDCEMDPVSE---TEIRESLESRGLSV 81 (187)
T ss_pred EEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCC-CeEEEEEEEecCCCCCCcccccCHHHH---HHHHHHHHHcCCEE
Confidence 8999999999999999988 999999999854321 478999999975421 22344333 33456678899999
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-------CceEEEEeCCC
Q 032531 82 VGYFHANERFDDLELDSIAKNIGNHICRYFP-------QCAVLLITKSS 123 (139)
Q Consensus 82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~-------~a~ll~vDn~k 123 (139)
|||||+..... ..||..-..---..+..++ -.+.+++|...
T Consensus 82 VGwYHSHP~~~-~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~ 129 (187)
T cd08067 82 VGWYHSHPTFP-PNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYD 129 (187)
T ss_pred EEEEecCCCCC-cCCCHHHHHHHHHHHhhccccccCCCCeEEEEEcccc
Confidence 99999987666 6677754444444444444 36678887655
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=98.74 E-value=2.8e-07 Score=77.06 Aligned_cols=110 Identities=18% Similarity=0.226 Sum_probs=80.9
Q ss_pred eEEeHHHHHHHHhhhhcCC---CCeeeEEEeeecCCCCCceeEEEeceeccccccCchh-H----HHHHHHHHHHHhh-h
Q 032531 6 YELSQNAYIKLVLHARKHK---TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-N----LEISLIMIEEHYS-A 76 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP---~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP-m----lEvAL~~id~~~~-~ 76 (139)
|.|.+.+..||+=|..+.+ ...|.|+|||...+ ..++|+||.|+-|....=.+ . .+-.-.+.+.+-+ -
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 45699999998765 48999999999886433232 1 2333344444433 2
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
.+..+||||+....++ +....|-+-+.+..++++++++|-..
T Consensus 80 ~~e~vVGWY~tg~~~~-----~~d~~ih~~~~~~~~~pv~l~vd~~~ 121 (280)
T cd08062 80 AKEKIVGWYSTGPKLR-----PNDLDINELFRRYCPNPVLVIIDVRP 121 (280)
T ss_pred CCCCeEEEecCCCCCC-----cchHHHHHHHHHhCCCCEEEEEecCC
Confidence 5599999999875543 34446667777788889999999765
No 12
>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=98.71 E-value=3.7e-07 Score=66.39 Aligned_cols=105 Identities=18% Similarity=0.268 Sum_probs=71.8
Q ss_pred HHHHHHhhhhcCCCCeeeEEEeeecCCCC--CceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCC
Q 032531 12 AYIKLVLHARKHKTAAVNGVLLGRVSPQN--DAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE 89 (139)
Q Consensus 12 AY~K~iLHAaKyP~~aVnGvLlG~~~~~~--~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane 89 (139)
+..||+-||.+-....|+|+|+|....+. ...+.|+++.|.-.. -.| .| ..+......+.|+.+|||||+..
T Consensus 2 ~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~---~~~-~~--~~~~~~~~~~~g~~~vG~YHSHP 75 (119)
T cd08058 2 ALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDS---CTG-EN--VEELFNVQTGRPLLVVGWYHSHP 75 (119)
T ss_pred HHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCC---chh-HH--HHHHHHHHhCCCCeEEEEEecCC
Confidence 67899999999877899999999753211 135788888886442 223 22 22233445789999999999986
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 90 RFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 90 ~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
... ..||+.-.+.-..-+...|+++.+++|-.+
T Consensus 76 ~~~-~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~ 108 (119)
T cd08058 76 TFT-AWLSSVDIHTQASYQLMLPEAIAIVVSPKH 108 (119)
T ss_pred CCC-CccCHHHHHHHHHHhccCCCeEEEEECcCC
Confidence 544 556665544333334456899999998866
No 13
>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=98.64 E-value=4.8e-07 Score=74.51 Aligned_cols=110 Identities=20% Similarity=0.190 Sum_probs=80.2
Q ss_pred eEEeHHHHHHHHhhhhc--CCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhH--HHHHHHHHHHHhh-hCCce
Q 032531 6 YELSQNAYIKLVLHARK--HKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN--LEISLIMIEEHYS-AQGLG 80 (139)
Q Consensus 6 v~is~~AY~K~iLHAaK--yP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPm--lEvAL~~id~~~~-~~~l~ 80 (139)
|.|.+.+..||+=|.-+ .....|.|.|||...+ +.++|+||.|+=|....-... .|-...+.+.+-+ ..+..
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 47889999999999887 3347899999998765 489999999998853221111 2233444454432 36689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CceEEEEeCCC
Q 032531 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLITKSS 123 (139)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~--~a~ll~vDn~k 123 (139)
+||||+... .+++....|-+.+.+..+ +++.+++|...
T Consensus 78 vVGWY~tg~-----~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~~ 117 (265)
T cd08064 78 IVGWYATGS-----EITEHSALIHDYYSRECTSYNPIHLTVDTSL 117 (265)
T ss_pred EEeeeeCCC-----CCCccHHHHHHHHHhhCCCCCCEEEEEeCCC
Confidence 999999875 344556678888888777 89999999876
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=98.49 E-value=1.6e-06 Score=72.24 Aligned_cols=112 Identities=19% Similarity=0.242 Sum_probs=82.5
Q ss_pred eeEEeHHHHHHHHhhhhcCC------CCeeeEEEeeecCCCCCceeEEEeceeccccccC---chhHHHHHHHHHHHHhh
Q 032531 5 KYELSQNAYIKLVLHARKHK------TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG---LLPNLEISLIMIEEHYS 75 (139)
Q Consensus 5 ~v~is~~AY~K~iLHAaKyP------~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~---LsPmlEvAL~~id~~~~ 75 (139)
.|.+.+.+..+|.=|..+.. ...|.|.|||...+ +.++|++++|+-|..-. ...=.|---.+.+.|-+
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 47888999999999998842 36899999997654 48999999999985322 11113333444454433
Q ss_pred -hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 76 -AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 76 -~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
-.+..|||||+.... .+.+....|-+.+.+.+++++++++|-..
T Consensus 79 V~~~~~vVGWY~tg~~----~~~~~~~~Ih~~~~~~~~~pv~L~~D~~~ 123 (288)
T cd08063 79 VFKDLDFVGWYTTGPG----GPTESDLPIHKQILEINESPVLLLLDPEA 123 (288)
T ss_pred hccCCceEEEEecCCC----CCCHHHHHHHHHHHhhCCCcEEEEEcccc
Confidence 256999999998644 46677788888888888889999999655
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=98.48 E-value=1e-05 Score=67.00 Aligned_cols=117 Identities=17% Similarity=0.238 Sum_probs=78.3
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCC----CCCceeEEEeceecccc-----ccCchhHHHH-HHHHHHHHhh
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP----QNDAVVEIADSVPLFHS-----HLGLLPNLEI-SLIMIEEHYS 75 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~----~~~~~v~i~DaVPLfH~-----~~~LsPmlEv-AL~~id~~~~ 75 (139)
|.|+..+|.||+.||..==-..|+|+|+|+... .....+.+...+|+-.. ...+.|--.+ |..+++.+.+
T Consensus 4 V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~~~~~ 83 (244)
T cd08068 4 VHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAERLTE 83 (244)
T ss_pred EEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHHHHHh
Confidence 789999999999999986558999999997642 01135556577776322 2345676443 5555665444
Q ss_pred h--CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 76 A--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 76 ~--~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
. .|+.+|||||...... ..||.+-.+-...-+...|..+-++++-..
T Consensus 84 ~~~rgl~vVGwYHSHP~~~-a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~ 132 (244)
T cd08068 84 ETGRPMRVVGWYHSHPHIT-VWPSHVDVRTQAMYQMMDSGFVGLIFSCFN 132 (244)
T ss_pred hccCCceEEEEEecCCCCC-CCCCHhHHHHHHHHHhhCCCcEEEEEEecC
Confidence 3 7899999999986555 567766555333333344777777776544
No 16
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=98.42 E-value=4.8e-06 Score=70.60 Aligned_cols=110 Identities=16% Similarity=0.196 Sum_probs=80.7
Q ss_pred eEEeHHHHHHHHhhhhcCCC---CeeeEEEeeecCCCCCceeEEEeceeccccccCchh---H--HHHHHHHHHHHhh-h
Q 032531 6 YELSQNAYIKLVLHARKHKT---AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---N--LEISLIMIEEHYS-A 76 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~---~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsP---m--lEvAL~~id~~~~-~ 76 (139)
|.+.+.+..+|+=|.-+... ..|.|.|||...+ +.++|++|.|+-|..-.=.+ . .+-...+.+.+-+ .
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 88999999999999988774 4599999998754 48999999999885321111 1 2334455555443 2
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
.+..+||||+....+ ++....|=+-+.+.++++++++||-..
T Consensus 85 ~~~~vVGWY~tg~~i-----~~~d~~IH~~~~~~~~~Pv~L~vD~~~ 126 (303)
T PLN03246 85 AKEHVVGWYSTGPKL-----RENDLDIHELFNDYVPNPVLVIIDVQP 126 (303)
T ss_pred CCCcEEeeecCCCCC-----CcchHHHHHHHHhhCCCCeEEEEecCC
Confidence 568999999976443 344567777888889999999998644
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=98.23 E-value=3.9e-05 Score=60.13 Aligned_cols=110 Identities=14% Similarity=0.158 Sum_probs=77.2
Q ss_pred eEEeHHHHHHHHhhhhcC-C-CCeeeEEEeeecCCCCCceeEEEece-eccccccC-chhHHHHHHHHHHHHhhhCCceE
Q 032531 6 YELSQNAYIKLVLHARKH-K-TAAVNGVLLGRVSPQNDAVVEIADSV-PLFHSHLG-LLPNLEISLIMIEEHYSAQGLGI 81 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKy-P-~~aVnGvLlG~~~~~~~~~v~i~DaV-PLfH~~~~-LsPmlEvAL~~id~~~~~~~l~I 81 (139)
+.|+...|-|++-||-+- | -..|+|+|.|+..+ +...|++.+ |--...-. ..++=+ .++..+++..|+.+
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 48899999997644 255666663 32111110 111111 12445677899999
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCC
Q 032531 82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKS 122 (139)
Q Consensus 82 vGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~ 122 (139)
+||||.... ....||+.-.+.-.+.....|+++.++++..
T Consensus 78 vGwyHSHP~-~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~ 117 (173)
T cd08066 78 LGWIHTHPT-QTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK 117 (173)
T ss_pred EEEEeccCC-CCCccCHHHHHHHHHHHhcCCCeEEEEECCC
Confidence 999999644 3467888888877787788899999998753
No 18
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.95 E-value=9e-05 Score=63.30 Aligned_cols=111 Identities=19% Similarity=0.308 Sum_probs=73.9
Q ss_pred eEEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHH-HHHHHHHH---hhhCC--c
Q 032531 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI-SLIMIEEH---YSAQG--L 79 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEv-AL~~id~~---~~~~~--l 79 (139)
|.||..|..||+.||-.=-.-.|-|++.|+..++ +++|-|+.-|=-.-+-...-.+. |.+-.=.| |+.-| .
T Consensus 55 vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g~---t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~gr~e 131 (347)
T KOG1554|consen 55 VKISALALLKMVMHARSGGNLEIMGLMQGKVDGD---TIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAKNVGRLE 131 (347)
T ss_pred hhhHHHHHHHHHHHHhcCCCeEEEeeecccccCC---eEEEEeccccccccccceechHHHHHHHHHHHHHHHHHhhhhh
Confidence 7899999999999999999999999999987664 89999998553333333322222 22222222 33333 6
Q ss_pred eEEEEEEeCCCCC--CCCCCHHHHHHHHHHHhhCCCc-eEEEEeCCC
Q 032531 80 GIVGYFHANERFD--DLELDSIAKNIGNHICRYFPQC-AVLLITKSS 123 (139)
Q Consensus 80 ~IvGyY~Ane~~~--d~~~~~~a~kIa~kI~~~~~~a-~ll~vDn~k 123 (139)
.+|||||.....+ =+..+--.++.-. .|.++ +.++||..+
T Consensus 132 nvVGWyHSHPgYgCWLSgIDVsTQ~lNQ----~fQePfvAvViDP~R 174 (347)
T KOG1554|consen 132 NVVGWYHSHPGYGCWLSGIDVSTQMLNQ----RFQEPFVAVVIDPTR 174 (347)
T ss_pred ceeeeeecCCCCCccccCcchhHHHHhh----hhcCCeEEEEecCcc
Confidence 7999999987554 1233333444444 45554 568899988
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=97.65 E-value=0.00058 Score=50.03 Aligned_cols=98 Identities=15% Similarity=0.305 Sum_probs=64.2
Q ss_pred HHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceec--cccc----cCchhHHHHHHHHHHHHhhhCCceEEEE
Q 032531 11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPL--FHSH----LGLLPNLEISLIMIEEHYSAQGLGIVGY 84 (139)
Q Consensus 11 ~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPL--fH~~----~~LsPmlEvAL~~id~~~~~~~l~IvGy 84 (139)
..+-+|+-||.+-.-..++|+|+|+.... ...|++.+|+ .+.. ..+.|. .+..+....+++|+.++|.
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 45779999999966688999999986543 3456888887 2221 123443 3345567778899999999
Q ss_pred EEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 032531 85 FHANERFDDLELDSIAKNIGNHICRYFPQCAVLLIT 120 (139)
Q Consensus 85 Y~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vD 120 (139)
||...... ..||..-.+.+ ..+....+++.
T Consensus 76 ~HSHP~~~-~~PS~~D~~~~-----~~~~~~~lIv~ 105 (128)
T cd08070 76 YHSHPDGP-ARPSETDLRLA-----WPPGVSYLIVS 105 (128)
T ss_pred EeCCCCCC-CCCCHHHHHhc-----cCCCCeEEEEE
Confidence 99986543 45665443333 23345555554
No 20
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=97.00 E-value=0.0075 Score=41.84 Aligned_cols=78 Identities=23% Similarity=0.263 Sum_probs=51.4
Q ss_pred HHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHH-HhhhCCceEEEEEEeC
Q 032531 10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-HYSAQGLGIVGYFHAN 88 (139)
Q Consensus 10 ~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~-~~~~~~l~IvGyY~An 88 (139)
.+++.+|+-|+...+....+|+|+|+... ....+++.++ ..|--+.+ ... .....++.++|.||..
T Consensus 2 ~~~~~~i~~~~~~~~p~E~~G~L~g~~~~---~~~~~~~~~~-------~~p~~~~~---~~~~~~~~~~~~~vg~~HSH 68 (104)
T PF14464_consen 2 EEVLEQIIAHARAAYPNEACGLLLGRRDD---QRFIVVPNVN-------PDPRDSFR---RERFEARERGLEIVGIWHSH 68 (104)
T ss_dssp -HHHHHHHHHHHHHTTS-EEEEEEEEEEC---CEEEEEEEEE---------HHCHHH---HHH-HHHHHT-EEEEEEEEE
T ss_pred HHHHHHHHHHHhhCCCCeEEEEEEEEecC---CEEEEEeCCC-------CCcHHHHH---HHhhhhhcccceeeEEEEcC
Confidence 46889999999999999999999998733 4677777777 22222222 222 5677999999999997
Q ss_pred CCCCCCCCCHHHH
Q 032531 89 ERFDDLELDSIAK 101 (139)
Q Consensus 89 e~~~d~~~~~~a~ 101 (139)
.... ..||..-.
T Consensus 69 P~~~-a~pS~~D~ 80 (104)
T PF14464_consen 69 PSGP-AFPSSTDI 80 (104)
T ss_dssp SSSS-SS--HHHH
T ss_pred CCCC-CCCCHHHH
Confidence 6544 25554433
No 21
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=96.48 E-value=0.015 Score=49.23 Aligned_cols=108 Identities=21% Similarity=0.340 Sum_probs=66.0
Q ss_pred eEEeHHHHHHHHhhh---hcCCCCeeeEEEeeecCCCCCceeEEEe--ceecc------ccccCchhHHHHHHHHHHHHh
Q 032531 6 YELSQNAYIKLVLHA---RKHKTAAVNGVLLGRVSPQNDAVVEIAD--SVPLF------HSHLGLLPNLEISLIMIEEHY 74 (139)
Q Consensus 6 v~is~~AY~K~iLHA---aKyP~~aVnGvLlG~~~~~~~~~v~i~D--aVPLf------H~~~~LsPmlEvAL~~id~~~ 74 (139)
|.+.+.-..-.+=|= +|--...|-|+|||...+ +.+-|+. |||.= -.|+-=.-.+|--..+.-.-
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 444555544444443 344448899999997544 3677765 44541 00211122333322221111
Q ss_pred hhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 75 SAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 75 ~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
..+..||||||.-.++..+.+ .|-+-+.+++|+++|++||-+.
T Consensus 87 -NakekivGWYhTGPkl~~nDl-----~In~l~k~y~pnpvLvIIdvkp 129 (309)
T KOG1556|consen 87 -NAKEKVVGWYHTGPKLRENDL-----DINELLKRYVPNPVLVIIDVKP 129 (309)
T ss_pred -cchhheeeeeccCCccccchh-----hHHHHHhhcCCCceEEEEeccc
Confidence 245889999999887776654 5888899999999999999876
No 22
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=96.03 E-value=0.051 Score=39.77 Aligned_cols=91 Identities=12% Similarity=0.118 Sum_probs=54.8
Q ss_pred EeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhH--HHHHHHHHHHHhhhCCceEEEEE
Q 032531 8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN--LEISLIMIEEHYSAQGLGIVGYF 85 (139)
Q Consensus 8 is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPm--lEvAL~~id~~~~~~~l~IvGyY 85 (139)
|+...+-.|+-||.+-.-..++|+|+|+.+ .|++..|+==.... .+. +++ .....|+.|+|.|
T Consensus 1 i~~~~~~~i~~ha~~~~P~E~CGlL~G~~~-------~v~~~~~~~n~~~~-~~~~~f~~-------~~~~~g~~ivgi~ 65 (117)
T cd08072 1 ISRDLLDSILEAAKSSHPNEFAALLRGKDG-------VITELLILPGTESG-EVSAVFPL-------LMLPLDMSIVGSV 65 (117)
T ss_pred CCHHHHHHHHHHHhhcCCceEEEEEEeecc-------EEEEEEECCCCCCC-Ccceeech-------HHhcCCCeEEEEE
Confidence 456788999999996655788899999531 45666654211110 111 111 1346899999999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEE
Q 032531 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLI 119 (139)
Q Consensus 86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~v 119 (139)
|....- ...||+.-.+.+ ..++..-+++
T Consensus 66 HSHP~~-~~~PS~~D~~~~-----~~~~~~~lIv 93 (117)
T cd08072 66 HSHPSG-SPRPSDADLSFF-----SKTGLVHIIV 93 (117)
T ss_pred EcCCCC-CCCCCHHHHHhh-----hcCCCEEEEE
Confidence 997542 355665543333 2355555554
No 23
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=95.58 E-value=0.23 Score=36.52 Aligned_cols=88 Identities=15% Similarity=0.175 Sum_probs=56.0
Q ss_pred EEeHHHHHHHHhhhhcC-CCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEE
Q 032531 7 ELSQNAYIKLVLHARKH-KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (139)
Q Consensus 7 ~is~~AY~K~iLHAaKy-P~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY 85 (139)
.|+....-+|+-||.+- | ..+.|+|.|+..+.....+..++.-|..+. -..|+..+ ....+...|+.+||+|
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 57788888899998765 6 999999999754410012334444454443 34565544 2444677889999999
Q ss_pred EeCCCCCCCCCCHHHHH
Q 032531 86 HANERFDDLELDSIAKN 102 (139)
Q Consensus 86 ~Ane~~~d~~~~~~a~k 102 (139)
|...... ..||..-.+
T Consensus 76 HSHP~~~-~~pS~~D~~ 91 (134)
T COG1310 76 HSHPGGP-PYPSEADRR 91 (134)
T ss_pred cCCCCCC-CCcCHHHHh
Confidence 9875433 345544333
No 24
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]
Probab=94.80 E-value=0.19 Score=42.76 Aligned_cols=110 Identities=20% Similarity=0.241 Sum_probs=81.3
Q ss_pred eEEeHHHHHHHHhhhhcCCC--CeeeEEEeeecCCCCCceeEEEeceecccccc--CchhHHHHHHHHHHHHhhh-CCce
Q 032531 6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHL--GLLPNLEISLIMIEEHYSA-QGLG 80 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~--~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~--~LsPmlEvAL~~id~~~~~-~~l~ 80 (139)
+.+.+.-|.-++=|--+.|. ..|.|-|||..+++ .|+|+.|.-.=|--. .+.-=+|-|..+.|.+-+. .+-+
T Consensus 23 v~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g---~ieitNCFaVPhnEssdqvevdm~y~~~M~~l~~k~npnE~ 99 (288)
T KOG2975|consen 23 VRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKG---SVEVTNCFAVPHNESSDQVEVDMEYAKNMYELHKKVNPNEL 99 (288)
T ss_pred EEEcceEEeEeehhhhcCCccchhhhhheeecccCC---eEEEEEeeeccCccccccceeeHHHHHHHHHHhcccCCCce
Confidence 55555555555555556665 56999999987754 899999887766533 3455567788888888764 5699
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 81 IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
|||||--. .+++..+.-|-|-.++.+++.+-+.||-.-
T Consensus 100 vvGWyaTg-----~dvt~~sslihdyYare~~~pvhLtVDT~~ 137 (288)
T KOG2975|consen 100 VVGWYATG-----HDVTEHSSLIHDYYAREAPNPVHLTVDTSL 137 (288)
T ss_pred eEEEEecC-----CCcccchhHHHHHhhccCCCCeEEEEeccc
Confidence 99999854 334556678888889999999999998765
No 25
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=94.77 E-value=0.11 Score=44.75 Aligned_cols=114 Identities=14% Similarity=0.203 Sum_probs=68.6
Q ss_pred eEEeHHHHHHHHhhh-hcCCCCeeeEEE-eeec---CCCCCceeEEEe---ceeccccccCchhHHHHHH-HHHHHHhhh
Q 032531 6 YELSQNAYIKLVLHA-RKHKTAAVNGVL-LGRV---SPQNDAVVEIAD---SVPLFHSHLGLLPNLEISL-IMIEEHYSA 76 (139)
Q Consensus 6 v~is~~AY~K~iLHA-aKyP~~aVnGvL-lG~~---~~~~~~~v~i~D---aVPLfH~~~~LsPmlEvAL-~~id~~~~~ 76 (139)
+.++..|-.||..|+ ++=|...|.|++ +|+. -.. -++.++| .-+-+=....+.|-+.-.. +|.....+.
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 467777799999 9932 111 2333444 3322222111123222222 444555555
Q ss_pred CC--ceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCC
Q 032531 77 QG--LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKS 122 (139)
Q Consensus 77 ~~--l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~ 122 (139)
.| +.+|||||....+. ..|+.+-..--..-+..++.++..+||-.
T Consensus 111 tGrp~~VVGWYHSHP~f~-~wpS~vDi~tQ~syq~~~~r~~a~~v~~i 157 (316)
T KOG1555|consen 111 TGRPELVVGWYHSHPGFG-CWPSLVDIDTQQSYQALSSRAVAVVVDPI 157 (316)
T ss_pred cCCcceEEeeccCCCCCC-CCccccchhHHHHHhhhccCCcceeeecc
Confidence 55 55999999998877 44554444444444455777777777653
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=93.60 E-value=1.1 Score=33.97 Aligned_cols=90 Identities=18% Similarity=0.165 Sum_probs=58.4
Q ss_pred CeeeEEEeeecCCCCCceeEEEeceecccc----ccCchhHHHHHHHHHHHHhh-hCC-ceEEEEEEeCCCCCCCCCCHH
Q 032531 26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHS----HLGLLPNLEISLIMIEEHYS-AQG-LGIVGYFHANERFDDLELDSI 99 (139)
Q Consensus 26 ~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~----~~~LsPmlEvAL~~id~~~~-~~~-l~IvGyY~Ane~~~d~~~~~~ 99 (139)
..-.|+|+|+..+ ..+.|+|+.+=-.. ....-+=-+-.-.+++.+.+ ++| +.-+|-+|....... .||..
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 4789999998764 37888888842221 11222222333345566554 444 889999999766553 79999
Q ss_pred HHHHHHHHHhhCCCceEEEE
Q 032531 100 AKNIGNHICRYFPQCAVLLI 119 (139)
Q Consensus 100 a~kIa~kI~~~~~~a~ll~v 119 (139)
-.+-..++.+.....++|++
T Consensus 93 D~~~~~~~~~~~~~~l~iIv 112 (131)
T TIGR02256 93 DRRSWRTIIRSPEAMLLLIV 112 (131)
T ss_pred HHHHHHHHHhCCCeeEEEEE
Confidence 99999999887554333444
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=93.48 E-value=0.93 Score=31.51 Aligned_cols=81 Identities=12% Similarity=0.166 Sum_probs=53.7
Q ss_pred HHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC
Q 032531 13 YIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD 92 (139)
Q Consensus 13 Y~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane~~~ 92 (139)
|-.|.-|+.+-....+.|+|+|+..+ .+....++.=.....+|.- +..+...|..+||.||.... .
T Consensus 3 ~~~i~~~~~~~~p~E~~gll~~~~~~------~~~~~~~~~~~~~~~~~~~-------~~~a~~~~~~~v~i~HsHP~-g 68 (101)
T cd08059 3 LKTILVHAKDAHPDEFCGFLSGSKDN------VMDELIFLPFVSGSVSAVI-------DLAALEIGMKVVGLVHSHPS-G 68 (101)
T ss_pred HHHHHHHHHhcCChhhheeeecCCCC------eEEEEEeCCCcCCccChHH-------HHHHhhCCCcEEEEEecCcC-C
Confidence 44566777777456788999996321 3455566654444556653 55677899999999998754 3
Q ss_pred CCCCCHHHHHHHHHH
Q 032531 93 DLELDSIAKNIGNHI 107 (139)
Q Consensus 93 d~~~~~~a~kIa~kI 107 (139)
+..||..-.+.+.++
T Consensus 69 ~~~PS~~D~~~~~~~ 83 (101)
T cd08059 69 SCRPSEADLSLFTRF 83 (101)
T ss_pred CCCCCHHHHHHHHhc
Confidence 466777666655544
No 28
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=93.23 E-value=1 Score=38.88 Aligned_cols=111 Identities=20% Similarity=0.212 Sum_probs=72.1
Q ss_pred eEEeHHHHHHHHhhhhcCCC--CeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHH-----------HHHHHH
Q 032531 6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEIS-----------LIMIEE 72 (139)
Q Consensus 6 v~is~~AY~K~iLHAaKyP~--~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvA-----------L~~id~ 72 (139)
|++...--.||+-|+-.--+ ..+-|+|+|=.-+ +.++|+.|.|.--. + ||=+=| ..|.+.
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-L---ENEDDAVNKSVSDEARQAYQLAM 87 (339)
T ss_pred eeehhHHHHHHHHHHHhhcCCcchhhheeeeeeec---ceeEeecccCCCcc-C---CCccchhhhhhhHHHHHHHHHHH
Confidence 78889999999999865433 6899999996543 48999999996432 2 332222 111111
Q ss_pred H--hh--hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC-CC
Q 032531 73 H--YS--AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS-KP 125 (139)
Q Consensus 73 ~--~~--~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k-~~ 125 (139)
. .+ .-+.-+|||||...-- +.+++.--.-.=..+...|+.++++.|..| .+
T Consensus 88 lrrlr~vnid~~hVGwYqs~~vg--s~lS~~lveSqy~YQ~a~pesVvliYD~~kssq 143 (339)
T KOG1560|consen 88 LRRLRYVNIDHLHVGWYQSAYVG--SFLSPALVESQYAYQKAIPESVVLIYDPIKSSQ 143 (339)
T ss_pred HHHhhhcCccceeeeeeeeehhc--cccCHHHHHHHHHHHhcCCccEEEEeccccccC
Confidence 1 01 1346699999985432 345544333344456678899999999988 44
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=84.31 E-value=9.4 Score=27.45 Aligned_cols=85 Identities=13% Similarity=0.167 Sum_probs=46.1
Q ss_pred HHHHHhhh-hcCCCCeeeEEEeeecCCCCCceeEEEeceecc---c---cccCchhHHHHHHHHHHHHhhhCCceEEEEE
Q 032531 13 YIKLVLHA-RKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---H---SHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (139)
Q Consensus 13 Y~K~iLHA-aKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf---H---~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY 85 (139)
|-.|+-|| ..|| ...+|+|+|+.. ++..+|+= . ....+.|.-.++. + +.+ .|+|.|
T Consensus 3 ~~~i~~ha~~~~P-~E~CGll~g~~~--------~~~~~p~~N~~~~p~~~F~idp~e~~~a---~----~~~-~ivgi~ 65 (108)
T cd08073 3 EDAILAHAKAEYP-REACGLVVRKGR--------KLRYIPCRNIAADPEEHFEISPEDYAAA---E----DEG-EIVAVV 65 (108)
T ss_pred HHHHHHHHhHCCC-CcceEEEEecCC--------ceEEEECccCCCCccceEEeCHHHHHHH---h----cCC-CEEEEE
Confidence 56788899 6777 556699999641 12234542 1 1123455433321 1 233 899999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEe
Q 032531 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLIT 120 (139)
Q Consensus 86 ~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vD 120 (139)
|.... ....||..-.+ ....++..-+++.
T Consensus 66 HSHP~-~~a~PS~~D~~-----~~~~~~~~~iIvs 94 (108)
T cd08073 66 HSHPD-GSPAPSEADRA-----QQEATGLPWIIVS 94 (108)
T ss_pred EcCCC-CCCCCCHHHHH-----HhhcCCCcEEEEE
Confidence 99754 23456654322 2233555555554
No 30
>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=83.34 E-value=6.5 Score=33.51 Aligned_cols=85 Identities=21% Similarity=0.250 Sum_probs=49.9
Q ss_pred CeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHH----HHHHHHHHhhh--CCceEEEEEEeCCCCCCCCCCHH
Q 032531 26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI----SLIMIEEHYSA--QGLGIVGYFHANERFDDLELDSI 99 (139)
Q Consensus 26 ~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEv----AL~~id~~~~~--~~l~IvGyY~Ane~~~d~~~~~~ 99 (139)
..|.|.|||++.+ ..|+|-...-|.-... -+-|+ =|.+=++.+++ ..+.++|||.+-+. +.|-
T Consensus 37 ~~VyGaliG~Q~G---R~vEi~NSFeL~~d~~---~~~~~~dke~l~kk~eqykqVFpdl~vlGwYttG~d-----~t~s 105 (299)
T KOG3050|consen 37 KQVYGALIGKQRG---RNVEIMNSFELKMDTE---EDTETIDKEYLEKKEEQYKQVFPDLYVLGWYTTGSD-----PTPS 105 (299)
T ss_pred HHhhhhheecccC---ceEEEeeeeEEEecch---hhhhhccHHHHHHHHHHHHHhcccceEEEEeecCCC-----CChh
Confidence 4899999998655 5899988887643311 12221 12222222222 67999999997532 2344
Q ss_pred HHHHHHHHHhhCCCceEEEEeC
Q 032531 100 AKNIGNHICRYFPQCAVLLITK 121 (139)
Q Consensus 100 a~kIa~kI~~~~~~a~ll~vDn 121 (139)
-..|-.+|.+-...++.+.++.
T Consensus 106 d~~i~k~l~~i~esplflkLNp 127 (299)
T KOG3050|consen 106 DIHIHKQLMDINESPLFLKLNP 127 (299)
T ss_pred hhHHHHHHHhhhcCceEEEecc
Confidence 4556666655555566666643
No 31
>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=57.99 E-value=47 Score=24.64 Aligned_cols=54 Identities=15% Similarity=-0.007 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHhh-hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CceEEEEeC
Q 032531 62 NLEISLIMIEEHYS-AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLITK 121 (139)
Q Consensus 62 mlEvAL~~id~~~~-~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~--~a~ll~vDn 121 (139)
+.|=....++..+. +.++..+|.| .|.+++...++|.+.|.+..+ +.++++.|=
T Consensus 12 lA~Gi~~~~~~~~g~~~~i~~~gg~------~d~~~gt~~~~I~~ai~~~~~~~dgVlvl~DL 68 (125)
T TIGR02364 12 IAEGIKELIKQMAGDDVTIISAGGT------DDGRLGTSPDKIIEAIEKADNEADGVLIFYDL 68 (125)
T ss_pred HHHHHHHHHHHHcCCCccEEEEecC------CCCCccchHHHHHHHHHHhcCCCCCEEEEEcC
Confidence 55555666676664 5567777776 557788899999999999865 678888874
No 32
>COG3933 Transcriptional antiterminator [Transcription]
Probab=56.94 E-value=34 Score=31.32 Aligned_cols=87 Identities=17% Similarity=0.170 Sum_probs=64.9
Q ss_pred HHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCC
Q 032531 10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE 89 (139)
Q Consensus 10 ~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane 89 (139)
..-|.-|++|.++.-... + -+-+|=+-|+..+-+-|.|+|=.++++ +.|+|=.
T Consensus 89 Ev~~Lal~l~~~~~~~~~-----------~------~v~vIiiAHG~sTASSmaevanrLL~~----------~~~~aiD 141 (470)
T COG3933 89 EVLYLALFLHECRHYTQN-----------P------RVKVIIIAHGYSTASSMAEVANRLLGE----------EIFIAID 141 (470)
T ss_pred HHHHHHHHHHHhhhcccC-----------C------ceeEEEEecCcchHHHHHHHHHHHhhc----------cceeeec
Confidence 445788888887764321 1 123344568888889999999888874 4677777
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCc-eEEEEeCCC
Q 032531 90 RFDDLELDSIAKNIGNHICRYFPQC-AVLLITKSS 123 (139)
Q Consensus 90 ~~~d~~~~~~a~kIa~kI~~~~~~a-~ll~vDn~k 123 (139)
..=|.+|+-+.+++.+++.++-... +++++|=..
T Consensus 142 MPLdvsp~~vle~l~e~~k~~~~~~GlllLVDMGS 176 (470)
T COG3933 142 MPLDVSPSDVLEKLKEYLKERDYRSGLLLLVDMGS 176 (470)
T ss_pred CCCcCCHHHHHHHHHHHHHhcCccCceEEEEecch
Confidence 7778999999999999999987775 888888543
No 33
>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=56.51 E-value=37 Score=25.97 Aligned_cols=43 Identities=26% Similarity=0.272 Sum_probs=31.5
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC-CC
Q 032531 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS-KP 125 (139)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k-~~ 125 (139)
.|+.|||+|+..- -..-.++|.+.|.+.-++-+++-+-.-| |.
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 5899999998753 2234678889999988887777666555 43
No 34
>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=52.89 E-value=76 Score=25.66 Aligned_cols=67 Identities=12% Similarity=0.007 Sum_probs=44.8
Q ss_pred EEeHHHHHHHHhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceecc---ccccC--chhHHHHHHHHHHHHhhhCCceE
Q 032531 7 ELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---HSHLG--LLPNLEISLIMIEEHYSAQGLGI 81 (139)
Q Consensus 7 ~is~~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLf---H~~~~--LsPmlEvAL~~id~~~~~~~l~I 81 (139)
+|...-|.+++-||-+-+-..++|++.|..++. .. -.+|+- ++... .-|. -.+.|..+
T Consensus 74 ~Ip~~l~~~ii~hAr~~~P~EacG~Iag~~~~~---~~---r~~p~~N~~~Sp~~~~~d~~-----------~~~~ge~l 136 (192)
T TIGR03735 74 PIPASLLEEFAEAARAALPNEVAAWIVWNSETG---SL---RLAALESIEASPGHIDYRRP-----------RLDDGEHL 136 (192)
T ss_pred CCCHHHHHHHHHHHHhcCCcceEEEEEEcCCCC---EE---EEEeccccccCCceEEEcch-----------HHhCCCeE
Confidence 466788999999999999999999999963222 22 224442 22111 1122 22689999
Q ss_pred EEEEEeCCC
Q 032531 82 VGYFHANER 90 (139)
Q Consensus 82 vGyY~Ane~ 90 (139)
|+-||++-.
T Consensus 137 V~iyHSH~~ 145 (192)
T TIGR03735 137 VVDLHSHGT 145 (192)
T ss_pred EEEEcCCCC
Confidence 999998643
No 35
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=48.89 E-value=62 Score=26.07 Aligned_cols=53 Identities=9% Similarity=0.029 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHH-HHHHHHHHHhhCCCceEEEEeCCC
Q 032531 64 EISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSI-AKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 64 EvAL~~id~~~~~~~l~IvGyY~Ane~~~d~~~~~~-a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
++|-.-||.-+++-|.+-+..=+.| |++. .+.+.+-|.+--.+++++|+|.+-
T Consensus 10 ~~A~ravE~aa~~iGgRCIS~S~GN-------PT~lsG~elV~lIk~a~~DPV~VMfDD~G 63 (180)
T PF14097_consen 10 EYAKRAVEIAAKNIGGRCISQSAGN-------PTPLSGEELVELIKQAPHDPVLVMFDDKG 63 (180)
T ss_pred HHHHHHHHHHHHHhCcEEEeccCCC-------CCcCCHHHHHHHHHhCCCCCEEEEEeCCC
Confidence 5677888888888888877655544 4443 789999999999999999999865
No 36
>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=47.36 E-value=1e+02 Score=21.96 Aligned_cols=47 Identities=13% Similarity=0.091 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCC-CHHHHHHHHHHHhh
Q 032531 63 LEISLIMIEEHYSAQGLGIVGYFHANERFDDLEL-DSIAKNIGNHICRY 110 (139)
Q Consensus 63 lEvAL~~id~~~~~~~l~IvGyY~Ane~~~d~~~-~~~a~kIa~kI~~~ 110 (139)
+|-=...++.||.++|+.|++.|.-+. .+.... -|-=.++.+.+.+.
T Consensus 17 ~~~Q~~~~~~~a~~~g~~i~~~~~d~~-~Sg~~~~Rp~l~~ll~~~~~g 64 (148)
T smart00857 17 LERQLEALRAYAKANGWEVVRIYEDEG-VSGKKADRPGLQRLLADLRAG 64 (148)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEeCC-CcCCCCCCHHHHHHHHHHHcC
Confidence 455556678999999999999998763 121222 25556666667664
No 37
>COG1478 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]
Probab=46.88 E-value=1.8e+02 Score=24.69 Aligned_cols=76 Identities=25% Similarity=0.316 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHhhhCCceEE-----EEEEeCCCCCCCC------------CCHHHHHHHHHHHhhCCCceEEEEeCCC-
Q 032531 62 NLEISLIMIEEHYSAQGLGIV-----GYFHANERFDDLE------------LDSIAKNIGNHICRYFPQCAVLLITKSS- 123 (139)
Q Consensus 62 mlEvAL~~id~~~~~~~l~Iv-----GyY~Ane~~~d~~------------~~~~a~kIa~kI~~~~~~a~ll~vDn~k- 123 (139)
..|+=|...+++.....-.|+ |.-.+|..+|.+. |+.-|++|.++|.+.+..-+-++|-.+.
T Consensus 76 ~~e~Il~Ea~evl~~~~~~i~~~~k~G~v~~nAGIDeSNv~~g~l~llP~dPd~Sa~~i~~~L~~~~g~~vgVIItDt~g 155 (257)
T COG1478 76 FVELILDEADEVLFVKPNFILTETKLGIVCANAGIDESNVDEGFLLLLPKDPDASAETIRERLRELLGVKVGVIITDTHG 155 (257)
T ss_pred HHHHHHHHHHHHhccCCceEEEEeccceeecccCcccccCCCceEeeCCCChHHHHHHHHHHHHHHhCCceEEEEeCCCC
Confidence 345666666776654442222 7777887666443 5567999999999999887888887777
Q ss_pred CCCCCCCcceeeee
Q 032531 124 KPYPRGKTGVLLCS 137 (139)
Q Consensus 124 ~~~~k~~~~~~~~~ 137 (139)
-.+.+++.+.+.|.
T Consensus 156 rp~R~G~~gvAiG~ 169 (257)
T COG1478 156 RPFRRGQTGVAIGI 169 (257)
T ss_pred CccccCcceEEEee
Confidence 88999999999985
No 38
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=45.54 E-value=37 Score=29.35 Aligned_cols=57 Identities=18% Similarity=0.209 Sum_probs=35.0
Q ss_pred EEEeeecCCCCCceeEEEeceeccccccCch---------hHHHHHHHHHHHHhhh------CCceEEEEEEeC
Q 032531 30 GVLLGRVSPQNDAVVEIADSVPLFHSHLGLL---------PNLEISLIMIEEHYSA------QGLGIVGYFHAN 88 (139)
Q Consensus 30 GvLlG~~~~~~~~~v~i~DaVPLfH~~~~Ls---------PmlEvAL~~id~~~~~------~~l~IvGyY~An 88 (139)
|+|||+.+.+ +.-.|+.++|-=+.....- -...+--.-|-+||++ .|+.|+|.|--.
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 8999987333 3467788887655432221 1112333445556765 789999999843
No 39
>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=42.37 E-value=23 Score=32.55 Aligned_cols=26 Identities=31% Similarity=0.648 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCC
Q 032531 64 EISLIMIEEHYSAQGLGIVGYFHANE 89 (139)
Q Consensus 64 EvAL~~id~~~~~~~l~IvGyY~Ane 89 (139)
..=-.+.|.||++-+.-|+|++.++|
T Consensus 126 ~wNR~LLdkYC~ey~VGiIgF~~~~E 151 (487)
T PF12062_consen 126 SWNRELLDKYCREYGVGIIGFFKANE 151 (487)
T ss_pred HHHHHHHHHHhHccCccEEEEecCCC
Confidence 34456889999999999999999977
No 40
>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=40.26 E-value=1.4e+02 Score=21.70 Aligned_cols=52 Identities=12% Similarity=-0.064 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCc
Q 032531 63 LEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQC 114 (139)
Q Consensus 63 lEvAL~~id~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a 114 (139)
+|-=...++.||+++|+.|++.|.-.....-..--|--.++.+.+.+.--+.
T Consensus 20 le~Q~~~l~~~a~~~g~~i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd~ 71 (140)
T cd03770 20 IENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDI 71 (140)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCCE
Confidence 4544556788999999999999985321111111355666667776654443
No 41
>COG0698 RpiB Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]
Probab=39.44 E-value=1.1e+02 Score=23.96 Aligned_cols=51 Identities=14% Similarity=0.340 Sum_probs=36.9
Q ss_pred HHHHHhhhCCceEEEE--EEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 69 MIEEHYSAQGLGIVGY--FHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 69 ~id~~~~~~~l~IvGy--Y~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
.|-.|.+++|..++=| |...+ +...+-++.++|++|.++ ..-.-|+++.+-
T Consensus 17 ~I~~~Lk~~g~~v~D~G~~~~~~---~~dyp~~a~~va~~v~~~-~~d~GIliCGTG 69 (151)
T COG0698 17 IIIDHLKSKGYEVIDFGTYTDEG---SVDYPDYAKKVAEAVLNG-EADLGILICGTG 69 (151)
T ss_pred HHHHHHHHCCCEEEeccccCCCC---CcchHHHHHHHHHHHHcC-CCCeeEEEecCC
Confidence 5667888999888865 54432 234677999999999987 444667777765
No 42
>PRK06934 flavodoxin; Provisional
Probab=37.00 E-value=1.3e+02 Score=24.51 Aligned_cols=56 Identities=13% Similarity=0.054 Sum_probs=34.4
Q ss_pred chhHHHHHHHHHHHHh----hhCCceEEEEEEeCCCC---------------CCCCCCHHHHHHHHHHHhhCCCc
Q 032531 59 LLPNLEISLIMIEEHY----SAQGLGIVGYFHANERF---------------DDLELDSIAKNIGNHICRYFPQC 114 (139)
Q Consensus 59 LsPmlEvAL~~id~~~----~~~~l~IvGyY~Ane~~---------------~d~~~~~~a~kIa~kI~~~~~~a 114 (139)
|.|.|-+++..+-... ..++=.+|-||...++. .|.++....++||+.|++....-
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~k~Lv~yfs~~~~~~~~~~~~~~~~s~~~~~~~~~GnTk~vAe~Ia~~~gaD 87 (221)
T PRK06934 13 LILFLAVAVSSLSLIAEAADRNARRVLIVYFSQPEDVKLEGVDGVSGASILQKNGEVLGSTQYVAQIIQEETGGD 87 (221)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCceEEEEEeccCCcccccccccccccccccCCCCCCHHHHHHHHHHHHHCCC
Confidence 3444444444444332 23445688999876432 34556678999999999886543
No 43
>KOG3096 consensus Spliceosome-associated coiled-coil protein [Function unknown]
Probab=36.98 E-value=40 Score=27.92 Aligned_cols=66 Identities=14% Similarity=0.078 Sum_probs=45.1
Q ss_pred EEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC--CCCCCHHHHHHHHHHHhhCC
Q 032531 45 EIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD--DLELDSIAKNIGNHICRYFP 112 (139)
Q Consensus 45 ~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane~~~--d~~~~~~a~kIa~kI~~~~~ 112 (139)
+++||.|.|-+...-.-.=+.|..+||.-|+..+ =.-.|.-.-.+. |...+++-.+--+|+...-|
T Consensus 5 v~vDALPY~D~~Y~e~~~Rs~a~~lVEeE~rr~r--ptknyl~~lp~p~~s~f~t~~m~ne~er~~~k~p 72 (225)
T KOG3096|consen 5 VSVDALPYFDSGYNEPGDRSAAAALVEEECRRYR--PTKNYLDHLPLPDYSAFLTDRMENEFERAGKKEP 72 (225)
T ss_pred eeeccccccccccCchhhHHHHHHHHHHHHHhhc--chhhhhhcCCCcccchhhhhHHHHHHHHHhccCc
Confidence 6799999999865444488999999999998733 222354443333 34466777777777776444
No 44
>COG2343 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.26 E-value=32 Score=26.45 Aligned_cols=83 Identities=23% Similarity=0.346 Sum_probs=55.5
Q ss_pred HhhhhcCCCCeeeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHH-----HhhhCCceEEEEEEe---C
Q 032531 17 VLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-----HYSAQGLGIVGYFHA---N 88 (139)
Q Consensus 17 iLHAaKyP~~aVnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~-----~~~~~~l~IvGyY~A---n 88 (139)
+++..++...-.||..|+++.. ..+++.-..|--|- + |.-.|-++..+. +|-=+| ++|||.- .
T Consensus 21 v~ps~~~V~v~~nG~viAdS~~---~~~l~E~~~pp~~Y-i---P~~Di~~e~l~~t~~~T~Cp~KG--~AsYysv~~~~ 91 (132)
T COG2343 21 VEPSSRRVQVIFNGEVIADSRR---AVVLVETSYPPVHY-I---PPEDIRFEYLIPTPTHTYCPYKG--TASYYSVVVGG 91 (132)
T ss_pred eecCCCeEEEEECCEEEeecCC---ceEEEecCCCceee-c---CHHHchHhhcccCCCccccCccc--ccceEEEEcCC
Confidence 3556667777889999997543 36666676776664 2 566666665543 555455 6899984 3
Q ss_pred CCCCCC-----CCCHHHHHHHHHHH
Q 032531 89 ERFDDL-----ELDSIAKNIGNHIC 108 (139)
Q Consensus 89 e~~~d~-----~~~~~a~kIa~kI~ 108 (139)
++.+|. .|.+.+++|.+.++
T Consensus 92 ~~~~naaW~Y~~P~p~a~~Ik~~vA 116 (132)
T COG2343 92 ERNPDAAWTYPNPKPAARAIKGHVA 116 (132)
T ss_pred ccCCCceEecCCCcHHHHHhcccee
Confidence 444443 37788999988775
No 45
>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=35.81 E-value=1.5e+02 Score=20.62 Aligned_cols=47 Identities=15% Similarity=0.065 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCC-CCCCHHHHHHHHHHHhh
Q 032531 64 EISLIMIEEHYSAQGLGIVGYFHANERFDD-LELDSIAKNIGNHICRY 110 (139)
Q Consensus 64 EvAL~~id~~~~~~~l~IvGyY~Ane~~~d-~~~~~~a~kIa~kI~~~ 110 (139)
+-=...++.||..+|..|+.+|.-+..... ..--|--.++.+.+.+.
T Consensus 17 ~~Q~~~~~~~a~~~g~~i~~~~~d~~~s~~~~~~R~~~~~ll~~~~~~ 64 (137)
T cd00338 17 ERQREALREYAARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAG 64 (137)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEeCCCCcccccCCHHHHHHHHHHHcC
Confidence 444566788999999999999986543331 22235555666666653
No 46
>cd03767 SR_Res_par Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; 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. This subgroup is composed of proteins similar to the E. coli resolvase found in the par region of the RP4 plasmid, which encodes a highly efficient partitioning system. This protein is part of a complex stabilization system involved in the resolution of plasmid dimers during cell division. Similar to Tn3 and other resolvases, members of this family may contain a C-terminal DNA binding domain.
Probab=33.31 E-value=2e+02 Score=21.22 Aligned_cols=45 Identities=13% Similarity=0.137 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCC-CHHHHHHHHHHHhh
Q 032531 64 EISLIMIEEHYSAQGLGIVGYFHANERFDDLEL-DSIAKNIGNHICRY 110 (139)
Q Consensus 64 EvAL~~id~~~~~~~l~IvGyY~Ane~~~d~~~-~~~a~kIa~kI~~~ 110 (139)
|-=...++.||+.+|+.++.+|.-.. +.... -|--.++.+.+.+.
T Consensus 15 ~~Q~~~l~~~a~~~g~~~~~i~~d~~--SG~~~~Rp~~~~ll~~~~~g 60 (146)
T cd03767 15 TRAKESLEAFATERGFYIAGFYVENA--SGAKLDRPELFRLLDDAQSG 60 (146)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEECC--cCCCCCCHHHHHHHHHhhCC
Confidence 33335678899999999999998543 22222 25556666667654
No 47
>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=33.26 E-value=59 Score=24.03 Aligned_cols=24 Identities=33% Similarity=0.688 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhhCCCceEEEEeC
Q 032531 98 SIAKNIGNHICRYFPQCAVLLITK 121 (139)
Q Consensus 98 ~~a~kIa~kI~~~~~~a~ll~vDn 121 (139)
++.+.++++|.++.|+++++++-|
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 467889999999999999998754
No 48
>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=32.90 E-value=63 Score=24.68 Aligned_cols=41 Identities=22% Similarity=0.234 Sum_probs=28.2
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCceEEEEeCCC
Q 032531 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLITKSS 123 (139)
Q Consensus 77 ~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~~a~ll~vDn~k 123 (139)
.|+.|+|+++..-..++ ...|.++|.+.-|+-+++-+-.-|
T Consensus 71 p~l~i~g~~~g~~~~~~------~~~i~~~I~~~~pdiv~vglG~Pk 111 (171)
T cd06533 71 PGLKIVGYHHGYFGPEE------EEEIIERINASGADILFVGLGAPK 111 (171)
T ss_pred CCcEEEEecCCCCChhh------HHHHHHHHHHcCCCEEEEECCCCH
Confidence 78999998776533222 123888888888887777665544
No 49
>KOG3265 consensus Histone chaperone involved in gene silencing [Transcription; Chromatin structure and dynamics]
Probab=31.55 E-value=30 Score=29.10 Aligned_cols=47 Identities=17% Similarity=0.162 Sum_probs=25.9
Q ss_pred hhCCceEEEEEEeCCCC----CCCCCC-HHHHHHHHHHHhhCCC--ceEEEEeC
Q 032531 75 SAQGLGIVGYFHANERF----DDLELD-SIAKNIGNHICRYFPQ--CAVLLITK 121 (139)
Q Consensus 75 ~~~~l~IvGyY~Ane~~----~d~~~~-~~a~kIa~kI~~~~~~--a~ll~vDn 121 (139)
+.+...=||||..|+-. +.+.|+ +.-.|+...|...-|. .+=|.-|+
T Consensus 102 ~gQEFIRvGYyVnNeY~~~elrEnpP~k~~idKv~RnIlaekpRvTrF~I~wd~ 155 (250)
T KOG3265|consen 102 RGQEFIRVGYYVNNEYTEEELRENPPSKPLIDKLQRNILAEKPRVTRFPINWDD 155 (250)
T ss_pred cCceeEEEEEEecCCCCchhhccCCCCchhHHHHHHHhhccCCceeEeeeeccC
Confidence 34446678999999843 333343 4456666666544333 23344454
No 50
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=30.29 E-value=46 Score=26.76 Aligned_cols=30 Identities=20% Similarity=0.221 Sum_probs=25.1
Q ss_pred HHHHHHHhhhhcCCCCeeeEEEeeecCCCC
Q 032531 11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQN 40 (139)
Q Consensus 11 ~AY~K~iLHAaKyP~~aVnGvLlG~~~~~~ 40 (139)
-.-+|-+||-++.-...|.|||+|.+.+.+
T Consensus 96 F~Nv~rWLeei~~ncdsv~~vLVGNK~d~~ 125 (198)
T KOG0079|consen 96 FNNVKRWLEEIRNNCDSVPKVLVGNKNDDP 125 (198)
T ss_pred hHhHHHHHHHHHhcCccccceecccCCCCc
Confidence 345789999999998999999999876553
No 51
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=29.16 E-value=1.7e+02 Score=24.53 Aligned_cols=74 Identities=20% Similarity=0.262 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHhhhCCceE----EEEEEeCCCCCCCC------------CCHHHHHHHHHHHhhCCCceEEEEeCCC-CC
Q 032531 63 LEISLIMIEEHYSAQGLGI----VGYFHANERFDDLE------------LDSIAKNIGNHICRYFPQCAVLLITKSS-KP 125 (139)
Q Consensus 63 lEvAL~~id~~~~~~~l~I----vGyY~Ane~~~d~~------------~~~~a~kIa~kI~~~~~~a~ll~vDn~k-~~ 125 (139)
+|+-|..-+.+....+..| -|+..||...|.+. |+..|++|-++|.+.+.--+-++|-.+. -.
T Consensus 76 vq~Il~Es~~iv~~~~~~i~~~~~G~v~anAGID~SNv~~g~~~LLP~DPd~SA~~ir~~l~~~~g~~v~VIItDt~gr~ 155 (245)
T PRK13293 76 VQAVLDESREIVVEAPFILTETKHGHVCANAGIDESNVPDGDLLLLPENPDESAERIREGLEELTGKKVGVIITDTNGRP 155 (245)
T ss_pred HHHHHHhcceEEeeCCeEEEEeccceEEeccccccccCCCCeEEecCCCHHHHHHHHHHHHHHHHCCCEEEEEEcCCCcc
Confidence 3444444333332333333 47888888777432 5578999999999998877666665555 66
Q ss_pred CCCCCcceeee
Q 032531 126 YPRGKTGVLLC 136 (139)
Q Consensus 126 ~~k~~~~~~~~ 136 (139)
+-+++.+.+.+
T Consensus 156 ~R~G~t~vAIG 166 (245)
T PRK13293 156 FRKGQRGVAIG 166 (245)
T ss_pred cccCCcceeee
Confidence 67777776654
No 52
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=28.08 E-value=3.6e+02 Score=22.57 Aligned_cols=75 Identities=21% Similarity=0.246 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHhh-hCCceEE----EEEEeCCCCCCCC------------CCHHHHHHHHHHHhhCCCceEEEEeCCC-
Q 032531 62 NLEISLIMIEEHYS-AQGLGIV----GYFHANERFDDLE------------LDSIAKNIGNHICRYFPQCAVLLITKSS- 123 (139)
Q Consensus 62 mlEvAL~~id~~~~-~~~l~Iv----GyY~Ane~~~d~~------------~~~~a~kIa~kI~~~~~~a~ll~vDn~k- 123 (139)
+.|+=|..-+..-+ ..+..|+ |+.-+|...|.+. |+..|++|-++|.+.+.--+-++|-.+.
T Consensus 73 ~~e~il~Es~~vv~~~~~~~i~~~~~G~v~anAGID~SN~~~g~v~LLP~DPd~sA~~ir~~l~~~~g~~v~VIItDt~g 152 (243)
T TIGR01916 73 FVQAILDEAVEVVAVGTPFLITETRHGHVCANAGIDESNVGNGELLLLPEDPDASAEKIRRGLRELTGVDVGVIITDTNG 152 (243)
T ss_pred HHHHHHHHHHHHHhccCCeEEEEecCceEEeccccccccCCCCeEEecCCChHHHHHHHHHHHHHHHCCCEEEEEECCCC
Confidence 35666655555443 4665554 8888998776432 4568999999999988886666665444
Q ss_pred CCCCCCCcceeee
Q 032531 124 KPYPRGKTGVLLC 136 (139)
Q Consensus 124 ~~~~k~~~~~~~~ 136 (139)
-.+..++.+.+.+
T Consensus 153 r~~R~G~~gvAIG 165 (243)
T TIGR01916 153 RPFREGQVGVAIG 165 (243)
T ss_pred CccccCCCCeeee
Confidence 5666666666544
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=27.14 E-value=1.2e+02 Score=20.96 Aligned_cols=39 Identities=18% Similarity=0.263 Sum_probs=24.1
Q ss_pred HHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHh
Q 032531 67 LIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICR 109 (139)
Q Consensus 67 L~~id~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~ 109 (139)
...++..-+.....||||+...+. ..-..=.++|+..++
T Consensus 8 ~~~l~~f~~~~~~~Vvg~f~~~~~----~~~~~F~~vA~~~R~ 46 (104)
T cd03069 8 EAEFEKFLSDDDASVVGFFEDEDS----KLLSEFLKAADTLRE 46 (104)
T ss_pred HHHHHHHhccCCcEEEEEEcCCCc----hHHHHHHHHHHhhhh
Confidence 345566667788999999975321 222344566666654
No 54
>PF15120 DUF4561: Domain of unknown function (DUF4561)
Probab=24.01 E-value=28 Score=27.82 Aligned_cols=15 Identities=20% Similarity=0.087 Sum_probs=12.7
Q ss_pred hcCCCCeeeEEEeee
Q 032531 21 RKHKTAAVNGVLLGR 35 (139)
Q Consensus 21 aKyP~~aVnGvLlG~ 35 (139)
+||||..|||+==.+
T Consensus 115 a~yPhd~vNhLScdE 129 (171)
T PF15120_consen 115 AKYPHDVVNHLSCDE 129 (171)
T ss_pred hcCCccccCCCCcHH
Confidence 599999999996554
No 55
>PF14201 DUF4318: Domain of unknown function (DUF4318)
Probab=23.78 E-value=72 Score=22.00 Aligned_cols=22 Identities=23% Similarity=0.187 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHhhhCCceE
Q 032531 60 LPNLEISLIMIEEHYSAQGLGI 81 (139)
Q Consensus 60 sPmlEvAL~~id~~~~~~~l~I 81 (139)
-|..|.-..-||.||.+++..+
T Consensus 14 yPs~e~i~~aIE~YC~~~~~~l 35 (74)
T PF14201_consen 14 YPSKEEICEAIEKYCIKNGESL 35 (74)
T ss_pred CCCHHHHHHHHHHHHHHcCCce
Confidence 4788999999999999988654
No 56
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=22.48 E-value=21 Score=30.08 Aligned_cols=94 Identities=19% Similarity=0.260 Sum_probs=51.5
Q ss_pred eeEEEeeecCCCCCceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCCCC-------CCCCCCHH-
Q 032531 28 VNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERF-------DDLELDSI- 99 (139)
Q Consensus 28 VnGvLlG~~~~~~~~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane~~-------~d~~~~~~- 99 (139)
..-+|+|....+ ..=.+.||=|=--.-++|+-|+-+-..++---++.+..+=||||.-|+-- +|..-.+.
T Consensus 57 Ld~ilVgPiP~G--~nkFvf~ADpP~v~liPlse~~gvTvILlsc~Y~g~eFvRvGYyVnney~gi~~~e~~d~E~p~~k 134 (279)
T COG5137 57 LDEILVGPIPKG--KNKFVFDADPPDVNLIPLSEMFGVTVILLSCRYKGQEFVRVGYYVNNEYPGITKLEKSDVEEPSEK 134 (279)
T ss_pred hhheeecccccc--ceeEEeecCCCCccccchhhhhceeEEEEEEeecCceeEEEEEEeccCCcchhhhhhhhhcCCchh
Confidence 345778876554 23344566554444455666655554555534455667889999998733 23322221
Q ss_pred --HHHHHHHHHhhCCC--ceEEEEeCCC
Q 032531 100 --AKNIGNHICRYFPQ--CAVLLITKSS 123 (139)
Q Consensus 100 --a~kIa~kI~~~~~~--a~ll~vDn~k 123 (139)
-.+|-..|...-|. .+-|+-||..
T Consensus 135 vd~~~v~r~ilaEkprvtrfnIvwDn~~ 162 (279)
T COG5137 135 VDEEDVEREILAEKPRVTRFNIVWDNDE 162 (279)
T ss_pred cCHHHHHHHHhccCCcceeeeeEecCCc
Confidence 34555555444333 3446667765
No 57
>PF02056 Glyco_hydro_4: Family 4 glycosyl hydrolase; InterPro: IPR001088 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 4 GH4 from CAZY comprises enzymes with several known activities; 6-phospho-beta-glucosidase (3.2.1.86 from EC); 6-phospho-alpha-glucosidase (3.2.1.122 from EC); alpha-galactosidase (3.2.1.22 from EC). 6-phospho-alpha-glucosidase requires both NAD(H) and divalent metal (Mn2+, Fe2+, Co2+, or Ni2+) for activity [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1U8X_X 1S6Y_A 3FEF_B 1VJT_A 1UP4_A 1UP6_C 1UP7_E 1OBB_A.
Probab=22.32 E-value=1.2e+02 Score=24.16 Aligned_cols=24 Identities=17% Similarity=0.256 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhhCCCceEEEEeC
Q 032531 98 SIAKNIGNHICRYFPQCAVLLITK 121 (139)
Q Consensus 98 ~~a~kIa~kI~~~~~~a~ll~vDn 121 (139)
|+...|++.|.+.+|+|.++-.-|
T Consensus 122 pv~~~ia~~i~~~~PdAw~iNytN 145 (183)
T PF02056_consen 122 PVMLDIARDIEELCPDAWLINYTN 145 (183)
T ss_dssp HHHHHHHHHHHHHTTTSEEEE-SS
T ss_pred HHHHHHHHHHHHhCCCcEEEeccC
Confidence 577889999999999999876654
No 58
>cd05296 GH4_P_beta_glucosidase Glycoside Hydrolases Family 4; Phospho-beta-glucosidase. Some bacteria simultaneously translocate and phosphorylate disaccharides via the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). After translocation, these phospho-disaccharides may be hydrolyzed by the GH4 glycoside hydrolases such as the phospho-beta-glucosidases. Other organisms (such as archaea and Thermotoga maritima ) lack the PEP-PTS system, but have several enzymes normally associated with the PEP-PTS operon. The 6-phospho-beta-glucosidase from Thermotoga maritima hydrolylzes cellobiose 6-phosphate (6P) into glucose-6P and glucose, in an NAD+ and Mn2+ dependent fashion. The Escherichia coli 6-phospho-beta-glucosidase (also called celF) hydrolyzes a variety of phospho-beta-glucosides including cellobiose-6P, salicin-6P, arbutin-6P, and gentobiose-6P. Phospho-beta-glucosidases are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein
Probab=22.25 E-value=1.1e+02 Score=27.18 Aligned_cols=24 Identities=13% Similarity=0.253 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhhCCCceEEEEeC
Q 032531 98 SIAKNIGNHICRYFPQCAVLLITK 121 (139)
Q Consensus 98 ~~a~kIa~kI~~~~~~a~ll~vDn 121 (139)
|+...|+++|.+.+|+|.+|.+-|
T Consensus 122 ~ii~~i~~~i~~~~Pda~lin~TN 145 (419)
T cd05296 122 PVILDIAEDVEELAPDAWLINFTN 145 (419)
T ss_pred HHHHHHHHHHHHHCCCeEEEEecC
Confidence 688999999999999999999866
No 59
>cd00651 TFold Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl tetrahydropterin synthetase (PTPS), and uricase (UO,uroate/urate oxidase). They bind to substrates belonging to the purine or pterin families, and share a fold-related binding site with a glutamate or glutamine residue anchoring the substrate and a lot of conserved interactions. They also share a similar oligomerization mode: several T-folds join together to form a beta(2n)alpha(n) barrel, then two barrels join together in a head-to-head fashion to made up the native enzymes. The functional enzyme is a tetramer for UO, a hexamer for PTPS, an octamer for DHNA/DHNTPE and a decamer for GTPCH-1. The substrate is located in a deep and narrow pocket at the interface between monomers. In PTPS, the active site is located at the interface of thr
Probab=22.23 E-value=2.5e+02 Score=19.24 Aligned_cols=35 Identities=14% Similarity=0.172 Sum_probs=28.7
Q ss_pred CCCCHHHHHHHHHHHhhCC-CceEEEEeCCC-CCCCC
Q 032531 94 LELDSIAKNIGNHICRYFP-QCAVLLITKSS-KPYPR 128 (139)
Q Consensus 94 ~~~~~~a~kIa~kI~~~~~-~a~ll~vDn~k-~~~~k 128 (139)
..+.+.+++|++.|.++|+ ...-+.+-+.| +....
T Consensus 68 ~l~E~lae~i~~~i~~~~~~~~~~v~v~v~k~~~~~~ 104 (122)
T cd00651 68 QLIERLAEEIAYLIAEHFLSSVAEVKVEEKKPHAVIP 104 (122)
T ss_pred CCHHHHHHHHHHHHHHhcccCceEEEEEEeCCCCCCC
Confidence 4578899999999999998 56777888888 76663
No 60
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=21.28 E-value=4.5e+02 Score=21.35 Aligned_cols=67 Identities=18% Similarity=0.104 Sum_probs=41.0
Q ss_pred ceeEEEeceeccccccCchhHHHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC
Q 032531 42 AVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFP 112 (139)
Q Consensus 42 ~~v~i~DaVPLfH~~~~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane~~~d~~~~~~a~kIa~kI~~~~~ 112 (139)
..+.++|. |-|.....-.-.-+-++..+..|.+..+..++=|.. +++....+..-..+.+.|.+.|.
T Consensus 79 ~~i~vIDT-PGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~---rlD~~r~~~~d~~llk~I~e~fG 145 (249)
T cd01853 79 FKLNIIDT-PGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVD---RLDMYRRDYLDLPLLRAITDSFG 145 (249)
T ss_pred eEEEEEEC-CCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEE---cCCCCCCCHHHHHHHHHHHHHhC
Confidence 46888898 555542110113355778888888877777666665 34444445555677777777655
No 61
>cd05197 GH4_glycoside_hydrolases Glycoside Hydrases Family 4. Glycoside hydrolases cleave glycosidic bonds to release smaller sugars from oligo- or polysaccharides. Some bacteria simultaneously translocate and phosphorylate disaccharides via the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). After translocation, these phospho-disaccharides may be hydrolyzed by GH4 glycoside hydrolases. Other organisms (such as archaea and Thermotoga maritima) lack the PEP-PTS system, but have several enzymes normally associated with the PEP-PTS operon. GH4 family members include 6-phospho-beta-glucosidases, 6-phospho-alpha-glucosidases, alpha-glucosidases/alpha-glucuronidases (only from Thermotoga), and alpha-galactosidases. They require two cofactors, NAD+ and a divalent metal (Mn2+, Ni2+, Mg2+), for activity. Some also require reducing conditions. GH4 glycoside hydrolases are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families in
Probab=20.98 E-value=1.1e+02 Score=27.25 Aligned_cols=24 Identities=17% Similarity=0.149 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHhhCCCceEEEEeC
Q 032531 98 SIAKNIGNHICRYFPQCAVLLITK 121 (139)
Q Consensus 98 ~~a~kIa~kI~~~~~~a~ll~vDn 121 (139)
|+-..|+++|.+.+|+|.+|.+-|
T Consensus 121 ~ii~~i~~~i~~~~P~a~lin~TN 144 (425)
T cd05197 121 PYVLDIARKXEKLSPDAWYLNFTN 144 (425)
T ss_pred HHHHHHHHHHHHhCCCcEEEecCC
Confidence 588899999999999999999766
No 62
>PRK13413 mpi multiple promoter invertase; Provisional
Probab=20.85 E-value=3.8e+02 Score=20.53 Aligned_cols=25 Identities=16% Similarity=0.154 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhhhCCceEEEEEEe
Q 032531 63 LEISLIMIEEHYSAQGLGIVGYFHA 87 (139)
Q Consensus 63 lEvAL~~id~~~~~~~l~IvGyY~A 87 (139)
+|--...++.||..+|..|..||.-
T Consensus 15 ~~~Q~~~l~~~~~~~g~~i~~~~~e 39 (200)
T PRK13413 15 VENQRFEITNFAEKNNLTIDKWIEE 39 (200)
T ss_pred HHHHHHHHHHHHHHcCCcceEEEEE
Confidence 3556667899999999999888874
No 63
>PF04424 DUF544: Protein of unknown function (DUF544) ; InterPro: IPR007518 This is a eukaryotic protein of unknown function.
Probab=20.27 E-value=35 Score=25.05 Aligned_cols=30 Identities=27% Similarity=0.331 Sum_probs=16.9
Q ss_pred eeeEEEeeec--CCCCCceeEEEec--eeccccccC
Q 032531 27 AVNGVLLGRV--SPQNDAVVEIADS--VPLFHSHLG 58 (139)
Q Consensus 27 aVnGvLlG~~--~~~~~~~v~i~Da--VPLfH~~~~ 58 (139)
.||=-+-|-. ... ....+-|. |||+|+|+.
T Consensus 62 dVNp~F~~i~~Fe~t--~e~~lFdl~~I~LvHGWl~ 95 (121)
T PF04424_consen 62 DVNPKFTGIDGFEDT--PELSLFDLFNIPLVHGWLV 95 (121)
T ss_pred eeeeEecccCCcCCC--ccchhHHhhCCCceeeecc
Confidence 5555555511 112 23445554 699999974
No 64
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].
Probab=20.25 E-value=3.6e+02 Score=23.13 Aligned_cols=84 Identities=23% Similarity=0.313 Sum_probs=53.1
Q ss_pred eEEEeeecCCCCC---ceeEEEece--ecccccc---CchhHHHHHHHHHHHHhhhCCceEEEEEEeCCC----------
Q 032531 29 NGVLLGRVSPQND---AVVEIADSV--PLFHSHL---GLLPNLEISLIMIEEHYSAQGLGIVGYFHANER---------- 90 (139)
Q Consensus 29 nGvLlG~~~~~~~---~~v~i~DaV--PLfH~~~---~LsPmlEvAL~~id~~~~~~~l~IvGyY~Ane~---------- 90 (139)
.|.|.|+-...++ +.=.+|+|| |=-|... .|.|-- -...||..|+.-||+.||+=...-.
T Consensus 2 ~G~LYG~Y~~~~~vplGika~VeaIYEPpQ~~~~d~~~l~~d~--~~~~vd~iA~~lGL~rVG~IfTdl~~~~~~~g~v~ 79 (306)
T PF05021_consen 2 FGFLYGRYEEYDDVPLGIKAVVEAIYEPPQEGEPDGFTLLPDE--NEERVDAIASALGLERVGWIFTDLTDDGSGDGTVK 79 (306)
T ss_pred eEEEEEEEeccCCCCCceEEEEEEEECCCcCCCCCCEEEcCCc--cHHHHHHHHHHCCCEEEEEEEecCcccccCCCcee
Confidence 4889997432210 012467888 7766643 232221 2357899999999999999886532
Q ss_pred ----CCCCCCCHHHHHHHHHHHhhCCCc
Q 032531 91 ----FDDLELDSIAKNIGNHICRYFPQC 114 (139)
Q Consensus 91 ----~~d~~~~~~a~kIa~kI~~~~~~a 114 (139)
-++--++..=...|.+.+..+|+.
T Consensus 80 ~~r~~~~~~LSs~Eii~aA~~Q~~~p~~ 107 (306)
T PF05021_consen 80 CKRHKDSYFLSSLEIIFAAKLQNKHPNP 107 (306)
T ss_pred eccccccccccHHHHHHHHHHHHhcCcc
Confidence 233457777777788888766554
Done!