Query 031148
Match_columns 165
No_of_seqs 113 out of 144
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 09:55:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031148.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031148hhsearch_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 2.1E-56 4.6E-61 366.5 16.4 125 4-129 1-126 (196)
2 KOG3289 Uncharacterized conser 100.0 2.4E-54 5.1E-59 352.2 14.6 130 6-139 4-133 (199)
3 cd08060 MPN_UPF0172 Mov34/MPN/ 100.0 1.1E-42 2.3E-47 282.5 15.6 117 8-126 1-117 (182)
4 cd07767 MPN Mpr1p, Pad1p N-ter 99.7 3.7E-17 8E-22 119.1 13.0 107 14-125 1-108 (116)
5 cd08069 MPN_RPN11_CSN5 Mov34/M 99.0 1.2E-08 2.7E-13 87.3 13.9 114 6-123 12-130 (268)
6 smart00232 JAB_MPN JAB/MPN dom 98.9 1.3E-07 2.7E-12 70.1 14.9 114 6-124 2-120 (135)
7 PF01398 JAB: JAB1/Mov34/MPN/P 98.9 2.3E-08 4.9E-13 73.7 10.1 104 6-113 6-114 (114)
8 cd08065 MPN_eIF3h Mpr1p, Pad1p 98.9 5.8E-08 1.3E-12 82.7 13.9 112 6-123 3-121 (266)
9 cd08057 MPN_euk_non_mb Mpr1p, 98.8 1.7E-07 3.6E-12 73.6 13.9 114 6-123 1-120 (157)
10 cd08067 MPN_2A_DUB Mov34/MPN/P 98.7 1.3E-06 2.7E-11 71.7 16.5 111 6-122 7-128 (187)
11 cd08062 MPN_RPN7_8 Mpr1p, Pad1 98.6 1.2E-06 2.6E-11 75.7 12.8 109 6-122 3-120 (280)
12 cd08058 MPN_euk_mb Mpr1p, Pad1 98.5 2E-06 4.2E-11 64.5 11.6 105 12-123 2-108 (119)
13 cd08064 MPN_eIF3f Mpr1p, Pad1p 98.4 2.5E-06 5.5E-11 72.5 11.2 109 6-122 1-116 (265)
14 cd08063 MPN_CSN6 Mpr1p, Pad1p 98.3 9.6E-06 2.1E-10 69.8 11.0 112 5-123 2-123 (288)
15 PLN03246 26S proteasome regula 98.2 3.2E-05 6.9E-10 67.8 12.3 108 6-121 8-124 (303)
16 cd08068 MPN_BRCC36 Mov34/MPN/P 98.1 8.7E-05 1.9E-09 63.6 13.8 114 6-120 4-129 (244)
17 cd08066 MPN_AMSH_like Mov34/MP 98.1 0.00012 2.7E-09 59.2 12.7 109 6-121 4-116 (173)
18 KOG1554 COP9 signalosome, subu 97.7 0.00038 8.2E-09 61.7 9.9 111 6-123 55-174 (347)
19 cd08070 MPN_like Mpr1p, Pad1p 97.5 0.0014 3.1E-08 49.5 9.4 85 11-102 2-92 (128)
20 PF14464 Prok-JAB: Prokaryotic 96.8 0.013 2.8E-07 41.9 8.7 78 10-101 2-80 (104)
21 cd08072 MPN_archaeal Mov34/MPN 95.6 0.092 2E-06 39.7 8.0 91 8-119 1-93 (117)
22 KOG1556 26S proteasome regulat 94.8 0.24 5.1E-06 43.6 8.9 109 6-124 11-130 (309)
23 COG1310 Predicted metal-depend 94.4 0.67 1.4E-05 35.2 9.9 88 7-102 3-91 (134)
24 TIGR02256 ICE_VC0181 integrati 93.2 1.3 2.9E-05 34.8 9.7 92 26-121 17-114 (131)
25 cd08059 MPN_prok_mb Mpr1p, Pad 92.9 1.2 2.6E-05 32.0 8.5 81 13-107 3-83 (101)
26 KOG1555 26S proteasome regulat 92.9 0.4 8.7E-06 42.9 7.1 113 6-121 33-156 (316)
27 KOG2975 Translation initiation 92.9 0.71 1.5E-05 40.7 8.4 108 6-121 23-135 (288)
28 KOG1560 Translation initiation 85.4 9 0.00019 34.4 9.5 112 6-126 15-143 (339)
29 cd08073 MPN_NLPC_P60 Mpr1p, Pa 81.9 11 0.00024 28.0 7.6 70 13-100 3-79 (108)
30 KOG3050 COP9 signalosome, subu 80.3 12 0.00027 33.0 8.3 95 25-135 36-136 (299)
31 TIGR02364 dha_pts dihydroxyace 47.6 83 0.0018 24.2 6.3 53 62-120 12-67 (125)
32 COG3933 Transcriptional antite 44.9 62 0.0013 30.7 6.1 93 10-129 89-182 (470)
33 smart00857 Resolvase Resolvase 44.8 1.2E+02 0.0027 22.2 7.8 62 63-126 17-79 (148)
34 TIGR03735 PRTRC_A PRTRC system 44.2 85 0.0019 26.3 6.3 67 7-90 74-145 (192)
35 cd03006 PDI_a_EFP1_N PDIa fami 43.7 85 0.0018 23.4 5.7 74 50-128 2-76 (113)
36 PF03808 Glyco_tran_WecB: Glyc 43.1 83 0.0018 24.9 5.8 46 77-128 73-118 (172)
37 PF14778 ODR4-like: Olfactory 41.9 46 0.001 29.8 4.6 57 30-88 1-72 (362)
38 KOG0706 Predicted GTPase-activ 39.6 22 0.00048 33.4 2.3 48 100-158 10-63 (454)
39 COG2343 Uncharacterized protei 38.3 42 0.00091 26.8 3.4 84 17-109 21-117 (132)
40 cd03770 SR_TndX_transposase Se 37.6 1.8E+02 0.0039 22.0 7.7 65 62-130 19-83 (140)
41 PF14097 SpoVAE: Stage V sporu 37.6 1E+02 0.0023 25.7 5.7 56 64-126 10-66 (180)
42 PF02971 FTCD: Formiminotransf 35.2 2.2 4.8E-05 34.4 -4.3 59 98-156 14-85 (145)
43 cd00338 Ser_Recombinase Serine 33.5 1.8E+02 0.004 20.9 7.8 61 64-125 17-78 (137)
44 PRK06934 flavodoxin; Provision 32.9 1.8E+02 0.004 24.6 6.6 37 77-113 35-86 (221)
45 PF12062 HSNSD: heparan sulfat 31.9 40 0.00086 32.1 2.7 27 64-90 126-152 (487)
46 KOG3096 Spliceosome-associated 29.5 61 0.0013 27.9 3.2 66 45-112 5-72 (225)
47 cd06533 Glyco_transf_WecG_TagA 28.8 90 0.0019 24.7 3.9 45 77-127 71-115 (171)
48 cd02989 Phd_like_TxnDC9 Phosdu 28.5 2.3E+02 0.0051 20.6 7.0 57 71-132 16-72 (113)
49 cd00651 TFold Tunnelling fold 28.0 1.1E+02 0.0024 21.8 4.0 36 94-129 68-104 (122)
50 PF00056 Ldh_1_N: lactate/mala 27.7 82 0.0018 24.1 3.4 24 98-121 96-119 (141)
51 COG1961 PinR Site-specific rec 27.1 3.3E+02 0.0073 21.9 7.6 58 64-124 18-75 (222)
52 KOG3265 Histone chaperone invo 25.8 40 0.00086 29.5 1.4 38 76-113 103-145 (250)
53 KOG0907 Thioredoxin [Posttrans 24.9 2.9E+02 0.0063 20.4 7.1 69 69-143 12-81 (106)
54 COG0698 RpiB Ribose 5-phosphat 23.9 2.5E+02 0.0054 22.8 5.6 50 69-122 17-68 (151)
55 cd03767 SR_Res_par Serine reco 23.7 3.3E+02 0.0072 20.7 7.1 57 64-125 15-72 (146)
56 cd02201 FtsZ_type1 FtsZ is a G 22.7 3.1E+02 0.0067 23.7 6.4 74 47-129 85-163 (304)
57 KOG0079 GTP-binding protein H- 21.0 81 0.0017 26.4 2.3 30 11-40 96-125 (198)
58 cd02986 DLP Dim1 family, Dim1- 21.0 3.9E+02 0.0084 20.5 6.4 50 76-133 13-66 (114)
59 cd03069 PDI_b_ERp57 PDIb famil 21.0 1.7E+02 0.0037 20.9 3.9 41 67-111 8-48 (104)
60 PF15120 DUF4561: Domain of un 20.4 36 0.00079 28.2 0.2 15 21-35 115-129 (171)
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=2.1e-56 Score=366.50 Aligned_cols=125 Identities=45% Similarity=0.706 Sum_probs=118.1
Q ss_pred ce-eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEE
Q 031148 4 LK-YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIV 82 (165)
Q Consensus 4 M~-v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~Iv 82 (165)
|+ |+||++||+||+|||+|||||+|||+|||++++++ +.+.|+|||||||++++|+||+|+||+|||+||+++|++||
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 99999999999999999999999999999976552 35999999999999999999999999999999999999999
Q ss_pred EEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccccccc
Q 031148 83 GYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPK 129 (165)
Q Consensus 83 GYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k 129 (165)
||||||||++|++|+++|+||||||+++|++|+++||||+||+..++
T Consensus 80 GyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~kl~~~~~ 126 (196)
T PF03665_consen 80 GYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKKLSSDCK 126 (196)
T ss_pred EEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcccccccC
Confidence 99999999999999999999999999999999999999999987333
No 2
>KOG3289 consensus Uncharacterized conserved protein encoded by sequence overlapping the COX4 gene [General function prediction only]
Probab=100.00 E-value=2.4e-54 Score=352.18 Aligned_cols=130 Identities=48% Similarity=0.773 Sum_probs=124.1
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY 85 (165)
|++|++||+||+|||+||||++|||+|||+.++.| ++++|+|||||||+++.|+||+|+||++||+||.+.|++|+|||
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 99999999999999999999999999999876555 69999999999999999999999999999999999999999999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCceeE
Q 031148 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQV 139 (165)
Q Consensus 86 ~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~~~~~~~~~~ 139 (165)
|||||++|.++.++|+||||||+|+||+|+++|+||+||+. +.+++|++++
T Consensus 83 ~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~~l~~---~~e~~~v~v~ 133 (199)
T KOG3289|consen 83 HANERVNDQSLNPVALKIADRISEFFPDAAILVLDNKKLVP---QCERPPVIVL 133 (199)
T ss_pred ecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEecccccc---ccCCCCEEEe
Confidence 99999999999999999999999999999999999998876 8888887765
No 3
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=100.00 E-value=1.1e-42 Score=282.54 Aligned_cols=117 Identities=47% Similarity=0.758 Sum_probs=112.2
Q ss_pred EeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEe
Q 031148 8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHA 87 (165)
Q Consensus 8 is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~A 87 (165)
|+++||.||++||+|||+++|||+|+|+.+.+ +.+.|+|+|||||+++.|+||+|+||.|||.||+++|+.||||||+
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 57899999999999999999999999997633 4689999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 031148 88 NERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (165)
Q Consensus 88 ne~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~ 126 (165)
|++++|++|+++|+||||||+++|++|++++|||+|++.
T Consensus 79 h~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~l~~ 117 (182)
T cd08060 79 NERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEKLTL 117 (182)
T ss_pred CCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCccccc
Confidence 999999999999999999999999999999999999976
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=99.75 E-value=3.7e-17 Score=119.08 Aligned_cols=107 Identities=24% Similarity=0.291 Sum_probs=93.2
Q ss_pred HHHHhhhhcCC-CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC
Q 031148 14 IKLVLHARKHK-TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD 92 (165)
Q Consensus 14 ~KmiLHAaKYP-~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~ 92 (165)
+|+++|++|++ ...|+|+|+|+.++ .+.++|++|++|+.....|+.+.++.+++.++...|+.||||||+++...
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 CCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 031148 93 DLELDSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (165)
Q Consensus 93 D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~ 125 (165)
..+++......+++++.+++++.+++|.++..
T Consensus 77 -~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~~ 108 (116)
T cd07767 77 -CFLSPNDLATHELFQRYFPEKVMIIVDVKPKD 108 (116)
T ss_pred -CccCHHHHHHHHHHHHhCCCCEEEEEECCCcc
Confidence 25666666677999999999999999999864
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=98.99 E-value=1.2e-08 Score=87.28 Aligned_cols=114 Identities=20% Similarity=0.265 Sum_probs=83.7
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch--HHHHHHHHHH-HHh--hhCCce
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIE-EHY--SAQGLG 80 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP--mlEvAL~qId-~~~--~~~gl~ 80 (165)
|.|++.|+.||+.||.+-....|+|+|+|+..+ +.+.|+||.|+-|....... -.|.-..+++ ... ...+..
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 889999999999999888778999999998644 47999999999876443311 1122222232 122 346799
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123 (165)
Q Consensus 81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k 123 (165)
+|||||...... .-|+.....+-..-++..+.++.+++|..+
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 457877777777777777889999999633
No 6
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=98.91 E-value=1.3e-07 Score=70.10 Aligned_cols=114 Identities=20% Similarity=0.255 Sum_probs=83.8
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCc----chHHHHHHHHHHH-HhhhCCce
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGL----LPNLEISLIMIEE-HYSAQGLG 80 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~L----sPmlEvAL~qId~-~~~~~gl~ 80 (165)
+.+++.++.||+-|+.+.....++|+|+|+..+ +.+.|++++|+-...-.= -++ +---.+.+. .....|+.
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 678999999999999999889999999998754 379999999986542110 111 111122232 23468899
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 031148 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL 124 (165)
Q Consensus 81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl 124 (165)
+||+||..... ...|+..-.+++.......+.++.+.+|..+-
T Consensus 78 ~vGwyhshp~~-~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s 120 (135)
T smart00232 78 IVGWYHSHPDE-SPFPSEVDVATHESYQAPWPISVVLIVDPIKS 120 (135)
T ss_pred EEEEEEcCCCC-CCCcCHHHHHHHHHHHhcCCceEEEEECCCcc
Confidence 99999997663 34688888888888888888888777887664
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=98.89 E-value=2.3e-08 Score=73.73 Aligned_cols=104 Identities=24% Similarity=0.275 Sum_probs=75.5
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcc----hHHHHHHHHHHHHhhh-CCce
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL----PNLEISLIMIEEHYSA-QGLG 80 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~Ls----PmlEvAL~qId~~~~~-~gl~ 80 (165)
|.|++.+..||+-|+.+.+...|.|+|+|...++ ..+.|+|++|+=|....-. +..+. -.+.+.+-+. ..+.
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 2899999999988644322 22122 3455554432 5599
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCC
Q 031148 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQ 113 (165)
Q Consensus 81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~ 113 (165)
+|||||...... ..|++....+-+..++..++
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 999999876553 46788888888877776553
No 8
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=98.88 E-value=5.8e-08 Score=82.72 Aligned_cols=112 Identities=16% Similarity=0.211 Sum_probs=78.2
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch-----HHHHHHHHHHHHhhhCCc-
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-----NLEISLIMIEEHYSAQGL- 79 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP-----mlEvAL~qId~~~~~~gl- 79 (165)
|.|++.++.||+-||-+.....|.|+|||...+ +.++|+||.|+=|....-.+ ..+--+.+.+ ..++.|.
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 889999999999999999999999999998764 48999999999997543332 1122233333 3566776
Q ss_pred -eEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148 80 -GIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123 (165)
Q Consensus 80 -~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k 123 (165)
.+|||||+.. . +...++.-...--.-....++++.+++|-.+
T Consensus 79 e~iVGWY~S~p-~-~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~ 121 (266)
T cd08065 79 HNHVGWYQSTY-L-GSFFTRDLIETQYNYQEAIEESVVLVYDPSK 121 (266)
T ss_pred CcEEEeEeecC-C-CCcCCHHHHHHHHHHhccCCCCEEEEECCCc
Confidence 9999999876 2 2333332222222223334778999999665
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=98.83 E-value=1.7e-07 Score=73.55 Aligned_cols=114 Identities=19% Similarity=0.183 Sum_probs=83.7
Q ss_pred eEEeHHhHHHHHhhhhcCC--CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcc--hHHHHHHHHHHHHhh-hCCce
Q 031148 6 YELSQNAYIKLVLHARKHK--TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLL--PNLEISLIMIEEHYS-AQGLG 80 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP--~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~Ls--PmlEvAL~qId~~~~-~~gl~ 80 (165)
|.+.+.+..||.=|+.+-. ...|.|+|||...+ +.+.|+||.|+=|....-. --.|---.+++.+-+ ..+..
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 4788999999999998887 78999999998764 4899999999998643221 123333344444433 25689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhh-CCCcEEEEEeCcc
Q 031148 81 IVGYFHANERFDDLELDSIAKNIGNHICRY-FPQCAVLLLDNKK 123 (165)
Q Consensus 81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~-~~~a~ll~vDn~k 123 (165)
+||||+...... +.+......|-+.+... .++++++++|-.+
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=98.73 E-value=1.3e-06 Score=71.72 Aligned_cols=111 Identities=22% Similarity=0.300 Sum_probs=79.1
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCC----CCcchHHHHHHHHHHHHhhhCCceE
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSH----LGLLPNLEISLIMIEEHYSAQGLGI 81 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~----l~LsPmlEvAL~qId~~~~~~gl~I 81 (165)
|+||..|..||+.||-.-. ..|+|+|+|+...++ ..+.|+++.|.-=.. ....|.-| ..+..++++.|+.+
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 478999999975422 12344333 33456678899999
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC-------CcEEEEEeCc
Q 031148 82 VGYFHANERFDDLELDSIAKNIGNHICRYFP-------QCAVLLLDNK 122 (165)
Q Consensus 82 vGYY~Ane~~~D~~~~~~a~kIadkI~~~~~-------~a~ll~vDn~ 122 (165)
|||||+..... ..||..-..---.-+..++ -.+.+++|-.
T Consensus 82 VGwYHSHP~~~-~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~ 128 (187)
T cd08067 82 VGWYHSHPTFP-PNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPY 128 (187)
T ss_pred EEEEecCCCCC-cCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccc
Confidence 99999987666 6677754444444444444 3566677643
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=98.57 E-value=1.2e-06 Score=75.67 Aligned_cols=109 Identities=18% Similarity=0.246 Sum_probs=79.9
Q ss_pred eEEeHHhHHHHHhhhhcCC---CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch-H----HHHHHHHHHHHhhh-
Q 031148 6 YELSQNAYIKLVLHARKHK---TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP-N----LEISLIMIEEHYSA- 76 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP---~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP-m----lEvAL~qId~~~~~- 76 (165)
|.+.+.+..||+=|..+.+ ...|.|+|||...+ ..++|+||.|+-|....-.+ . .|-.-.+.+.+-+-
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 48999999999886433333 1 23333444444332
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 031148 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK 122 (165)
Q Consensus 77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~ 122 (165)
.+..+||||+....++ +....|-+-+.+.+++++++++|-.
T Consensus 80 ~~e~vVGWY~tg~~~~-----~~d~~ih~~~~~~~~~pv~l~vd~~ 120 (280)
T cd08062 80 AKEKIVGWYSTGPKLR-----PNDLDINELFRRYCPNPVLVIIDVR 120 (280)
T ss_pred CCCCeEEEecCCCCCC-----cchHHHHHHHHHhCCCCEEEEEecC
Confidence 5699999999875543 3444666777778888999999943
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=98.54 E-value=2e-06 Score=64.54 Aligned_cols=105 Identities=19% Similarity=0.272 Sum_probs=71.6
Q ss_pred hHHHHHhhhhcCCCCeeeEEEEeeeCCCC--CceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCC
Q 031148 12 AYIKLVLHARKHKTAAVNGVLLGRVSPQN--DAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE 89 (165)
Q Consensus 12 AY~KmiLHAaKYP~~aVnGlLLG~~~~~~--~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane 89 (165)
|..||+-||.+-....++|+|+|+...+. +..+.|+++.|.-.. -.| .| ..+......+.|+.+||+||+..
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 67899999999877899999999754211 135788888886442 223 22 22333445789999999999986
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148 90 RFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123 (165)
Q Consensus 90 ~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k 123 (165)
... ..||+.-.+.-..-+...|+++.+++|-.+
T Consensus 76 ~~~-~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~ 108 (119)
T cd08058 76 TFT-AWLSSVDIHTQASYQLMLPEAIAIVVSPKH 108 (119)
T ss_pred CCC-CccCHHHHHHHHHHhccCCCeEEEEECcCC
Confidence 444 356665544333334456889999988755
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=98.44 E-value=2.5e-06 Score=72.52 Aligned_cols=109 Identities=20% Similarity=0.204 Sum_probs=78.9
Q ss_pred eEEeHHhHHHHHhhhhc--CCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchH--HHHHHHHHHHHhh-hCCce
Q 031148 6 YELSQNAYIKLVLHARK--HKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPN--LEISLIMIEEHYS-AQGLG 80 (165)
Q Consensus 6 v~is~~AY~KmiLHAaK--YP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPm--lEvAL~qId~~~~-~~gl~ 80 (165)
|.+.+.+..||+=|.-+ .....|.|.|||...+ +.++|+||.|+=|....-... .|-...+.+.+-+ ..+..
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 46889999999999887 3347899999998765 489999999998854321111 2233444444432 36689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CcEEEEEeCc
Q 031148 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLLDNK 122 (165)
Q Consensus 81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~--~a~ll~vDn~ 122 (165)
+||||++.. .+++....|-+.+++..+ +++.+.+|-.
T Consensus 78 vVGWY~tg~-----~~~~~~~~Ih~~~~~~~~~~~pI~L~~D~~ 116 (265)
T cd08064 78 IVGWYATGS-----EITEHSALIHDYYSRECTSYNPIHLTVDTS 116 (265)
T ss_pred EEeeeeCCC-----CCCccHHHHHHHHHhhCCCCCCEEEEEeCC
Confidence 999999875 344456678888888777 8999888864
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=98.27 E-value=9.6e-06 Score=69.83 Aligned_cols=112 Identities=21% Similarity=0.257 Sum_probs=82.2
Q ss_pred eeEEeHHhHHHHHhhhhcCC------CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCC---cchHHHHHHHHHHHHhh
Q 031148 5 KYELSQNAYIKLVLHARKHK------TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLG---LLPNLEISLIMIEEHYS 75 (165)
Q Consensus 5 ~v~is~~AY~KmiLHAaKYP------~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~---LsPmlEvAL~qId~~~~ 75 (165)
.|.+.+.+..+|.=|..+.. ...|.|.|||...+ +.++|++|.|+-|.... ...=.|---.+.+.+-+
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 37888999999999998842 36899999998654 48999999999985322 11113334444454433
Q ss_pred -hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcc
Q 031148 76 -AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKK 123 (165)
Q Consensus 76 -~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~k 123 (165)
-.+..+||||+.... .+.+....|-+.+.+.+++++++++|-..
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 266999999998644 46677788888888888889999999544
No 15
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=98.18 E-value=3.2e-05 Score=67.80 Aligned_cols=108 Identities=17% Similarity=0.207 Sum_probs=79.5
Q ss_pred eEEeHHhHHHHHhhhhcCCC---CeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch---H--HHHHHHHHHHHhh-h
Q 031148 6 YELSQNAYIKLVLHARKHKT---AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP---N--LEISLIMIEEHYS-A 76 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~---~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP---m--lEvAL~qId~~~~-~ 76 (165)
|.+.+.+..+|+=|.-+... ..|.|.|||...+ +.++|++|.|+-|..-.=.+ . .|-...+.+.+-+ .
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 48999999999885322111 1 2334455555443 2
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn 121 (165)
.+..+||||+....+ ++....|=+-+.+.+++++++++|-
T Consensus 85 ~~~~vVGWY~tg~~i-----~~~d~~IH~~~~~~~~~Pv~L~vD~ 124 (303)
T PLN03246 85 AKEHVVGWYSTGPKL-----RENDLDIHELFNDYVPNPVLVIIDV 124 (303)
T ss_pred CCCcEEeeecCCCCC-----CcchHHHHHHHHhhCCCCeEEEEec
Confidence 568999999976444 3445677778888899999999983
No 16
>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=98.13 E-value=8.7e-05 Score=63.58 Aligned_cols=114 Identities=18% Similarity=0.258 Sum_probs=76.1
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCC----CCCceeEEEeeeecccC-----CCCcchHHHH-HHHHHHHHhh
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSP----QNDAVVEIADSVPLFHS-----HLGLLPNLEI-SLIMIEEHYS 75 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~----~~~~~v~I~DaVPLfH~-----~l~LsPmlEv-AL~qId~~~~ 75 (165)
|.|+..+|.||+.||..==-..|+|+|+|+... ..+..+.+...+|+-.. ...+.|.-.. |..+++...+
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 789999999999999986558999999998642 01135666677776432 2345676443 5556665444
Q ss_pred h--CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEe
Q 031148 76 A--QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLD 120 (165)
Q Consensus 76 ~--~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vD 120 (165)
. .|+.+||+||...... ..||..-.+-...-+...|+.+-++++
T Consensus 84 ~~~rgl~vVGwYHSHP~~~-a~PS~~Dv~tq~~~q~~~p~~v~lIvS 129 (244)
T cd08068 84 ETGRPMRVVGWYHSHPHIT-VWPSHVDVRTQAMYQMMDSGFVGLIFS 129 (244)
T ss_pred hccCCceEEEEEecCCCCC-CCCCHhHHHHHHHHHhhCCCcEEEEEE
Confidence 3 7899999999986555 357766555333333344676766664
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=98.07 E-value=0.00012 Score=59.24 Aligned_cols=109 Identities=14% Similarity=0.154 Sum_probs=76.7
Q ss_pred eEEeHHhHHHHHhhhhcC-C-CCeeeEEEEeeeCCCCCceeEEEeee-ecccCCCC-cchHHHHHHHHHHHHhhhCCceE
Q 031148 6 YELSQNAYIKLVLHARKH-K-TAAVNGVLLGRVSPQNDAVVEIADSV-PLFHSHLG-LLPNLEISLIMIEEHYSAQGLGI 81 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKY-P-~~aVnGlLLG~~~~~~~~~v~I~DaV-PLfH~~l~-LsPmlEvAL~qId~~~~~~gl~I 81 (165)
+.|+...|-|++-||-+- | -..|+|+|.|+..+ +...|++.+ |--...-. ..++=+ .++..+++..|+.+
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 47899999998644 255677663 32111110 111111 12445677899999
Q ss_pred EEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148 82 VGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 82 vGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn 121 (165)
+|+||.... ....|++.-.+.-.+.....|+++.++++-
T Consensus 78 vGwyHSHP~-~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp 116 (173)
T cd08066 78 LGWIHTHPT-QTCFLSSVDLHTHCSYQLMLPEAIAIVCAP 116 (173)
T ss_pred EEEEeccCC-CCCccCHHHHHHHHHHHhcCCCeEEEEECC
Confidence 999999644 345788888887777777889999999874
No 18
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.67 E-value=0.00038 Score=61.66 Aligned_cols=111 Identities=19% Similarity=0.329 Sum_probs=73.2
Q ss_pred eEEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHH-HHHHHHHH---hhhCC--c
Q 031148 6 YELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI-SLIMIEEH---YSAQG--L 79 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEv-AL~qId~~---~~~~g--l 79 (165)
|.||..|..||+.||-.=-.-.|-|++.|+..++ +++|-||.-|=-.-+-...-.+. |.+-.-+| |+.-| .
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 7899999999999999999999999999997664 79999988553333333333322 33222222 33333 6
Q ss_pred eEEEEEEeCCCCC--CCCCCHHHHHHHHHHHhhCCCc-EEEEEeCcc
Q 031148 80 GIVGYFHANERFD--DLELDSIAKNIGNHICRYFPQC-AVLLLDNKK 123 (165)
Q Consensus 80 ~IvGYY~Ane~~~--D~~~~~~a~kIadkI~~~~~~a-~ll~vDn~k 123 (165)
..|||||.....+ =+..+--.++.-.| |.+. +.++||..+
T Consensus 132 nvVGWyHSHPgYgCWLSgIDVsTQ~lNQ~----fQePfvAvViDP~R 174 (347)
T KOG1554|consen 132 NVVGWYHSHPGYGCWLSGIDVSTQMLNQR----FQEPFVAVVIDPTR 174 (347)
T ss_pred ceeeeeecCCCCCccccCcchhHHHHhhh----hcCCeEEEEecCcc
Confidence 7999999987554 12333334444444 4443 567788754
No 19
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=97.46 E-value=0.0014 Score=49.49 Aligned_cols=85 Identities=15% Similarity=0.267 Sum_probs=58.5
Q ss_pred HhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeec--ccCC----CCcchHHHHHHHHHHHHhhhCCceEEEE
Q 031148 11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPL--FHSH----LGLLPNLEISLIMIEEHYSAQGLGIVGY 84 (165)
Q Consensus 11 ~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPL--fH~~----l~LsPmlEvAL~qId~~~~~~gl~IvGY 84 (165)
..+-+|+-||.+-.-..++|+|+|+.... ...|+|.+|+ .+.. ..+.|. .+.++....+++|+.++|.
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 35679999999966688999999986543 3456888887 2222 123442 3445667778899999999
Q ss_pred EEeCCCCCCCCCCHHHHH
Q 031148 85 FHANERFDDLELDSIAKN 102 (165)
Q Consensus 85 Y~Ane~~~D~~~~~~a~k 102 (165)
||...... ..||..-.+
T Consensus 76 ~HSHP~~~-~~PS~~D~~ 92 (128)
T cd08070 76 YHSHPDGP-ARPSETDLR 92 (128)
T ss_pred EeCCCCCC-CCCCHHHHH
Confidence 99986543 456654433
No 20
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=96.83 E-value=0.013 Score=41.91 Aligned_cols=78 Identities=23% Similarity=0.267 Sum_probs=51.8
Q ss_pred HHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHH-HhhhCCceEEEEEEeC
Q 031148 10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-HYSAQGLGIVGYFHAN 88 (165)
Q Consensus 10 ~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~-~~~~~gl~IvGYY~An 88 (165)
++++.+|+-|+...+....+|+|+|+..+ +...+++.++ ..|--+.+ ... .....++.++|.||..
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 56889999999999999999999998733 4677888777 22322222 222 5677999999999997
Q ss_pred CCCCCCCCCHHHH
Q 031148 89 ERFDDLELDSIAK 101 (165)
Q Consensus 89 e~~~D~~~~~~a~ 101 (165)
..... .||..-.
T Consensus 69 P~~~a-~pS~~D~ 80 (104)
T PF14464_consen 69 PSGPA-FPSSTDI 80 (104)
T ss_dssp SSSSS-S--HHHH
T ss_pred CCCCC-CCCHHHH
Confidence 65442 5554433
No 21
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=95.62 E-value=0.092 Score=39.71 Aligned_cols=91 Identities=12% Similarity=0.121 Sum_probs=54.5
Q ss_pred EeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcch--HHHHHHHHHHHHhhhCCceEEEEE
Q 031148 8 LSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLP--NLEISLIMIEEHYSAQGLGIVGYF 85 (165)
Q Consensus 8 is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsP--mlEvAL~qId~~~~~~gl~IvGYY 85 (165)
|+...+-.|+-||.+-.-..++|+|+|+.+ .|++..|+==...+ .+ .+++ .....|+.|+|.|
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 456788899999996555788899999531 45666654211110 11 1111 1346899999999
Q ss_pred EeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEE
Q 031148 86 HANERFDDLELDSIAKNIGNHICRYFPQCAVLLL 119 (165)
Q Consensus 86 ~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~v 119 (165)
|.... ....||+.-.+.+ ..++..-+.+
T Consensus 66 HSHP~-~~~~PS~~D~~~~-----~~~~~~~lIv 93 (117)
T cd08072 66 HSHPS-GSPRPSDADLSFF-----SKTGLVHIIV 93 (117)
T ss_pred EcCCC-CCCCCCHHHHHhh-----hcCCCEEEEE
Confidence 99754 3345665543333 2355554443
No 22
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=94.76 E-value=0.24 Score=43.60 Aligned_cols=109 Identities=22% Similarity=0.348 Sum_probs=65.5
Q ss_pred eEEeHHhHHHHHhhh---hcCCCCeeeEEEEeeeCCCCCceeEEEe--eeeccc------CCCCcchHHHHHHHHHHHHh
Q 031148 6 YELSQNAYIKLVLHA---RKHKTAAVNGVLLGRVSPQNDAVVEIAD--SVPLFH------SHLGLLPNLEISLIMIEEHY 74 (165)
Q Consensus 6 v~is~~AY~KmiLHA---aKYP~~aVnGlLLG~~~~~~~~~v~I~D--aVPLfH------~~l~LsPmlEvAL~qId~~~ 74 (165)
|.+.+.-..-.+=|= +|--...|-|+|||...+ +.+-|+. |||.=- .|.-=.-.+|--..+.-.-
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 334444444444442 344447899999997544 3677765 455410 0111122333322221111
Q ss_pred hhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 031148 75 SAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL 124 (165)
Q Consensus 75 ~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl 124 (165)
..+.+||||||.-.++..+.+ .|-+-+.+++|+.+++.||-+.=
T Consensus 87 -NakekivGWYhTGPkl~~nDl-----~In~l~k~y~pnpvLvIIdvkpk 130 (309)
T KOG1556|consen 87 -NAKEKVVGWYHTGPKLRENDL-----DINELLKRYVPNPVLVIIDVKPK 130 (309)
T ss_pred -cchhheeeeeccCCccccchh-----hHHHHHhhcCCCceEEEEecccc
Confidence 245889999999887776655 58888999999999999997643
No 23
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=94.44 E-value=0.67 Score=35.21 Aligned_cols=88 Identities=15% Similarity=0.161 Sum_probs=55.6
Q ss_pred EEeHHhHHHHHhhhhcC-CCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148 7 ELSQNAYIKLVLHARKH-KTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (165)
Q Consensus 7 ~is~~AY~KmiLHAaKY-P~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY 85 (165)
.++....-+|+-||.+- | ..+.|+|.|+..+.....+..++.-|..+. ...|+.... ...+...|+.+||+|
T Consensus 3 ~i~~~~l~~il~~a~~~~p-~E~~g~l~~~~~~~~~~~~~n~~~~~~~~~--~~~~~~~~~----~~~~~~~g~~vvg~y 75 (134)
T COG1310 3 VIPKEVLGAILEHARREHP-REVCGLLAGTREGERYFPLKNVSVEPVEYF--EIDPEYSLF----YLAAEDAGEVVVGWY 75 (134)
T ss_pred eecHHHHHHHHHHHHhcCC-hheEEEEEeecccceeeccccccCCcceeE--eeCHHHHHH----HHHHhhCCCEEEEEE
Confidence 57788888889998765 6 999999999854310012334444454433 345655442 444677899999999
Q ss_pred EeCCCCCCCCCCHHHHH
Q 031148 86 HANERFDDLELDSIAKN 102 (165)
Q Consensus 86 ~Ane~~~D~~~~~~a~k 102 (165)
|...... ..||..-.+
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
>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=93.24 E-value=1.3 Score=34.79 Aligned_cols=92 Identities=17% Similarity=0.159 Sum_probs=59.6
Q ss_pred CeeeEEEEeeeCCCCCceeEEEeeeecccC----CCCcchHHHHHHHHHHHHhh-hCC-ceEEEEEEeCCCCCCCCCCHH
Q 031148 26 AAVNGVLLGRVSPQNDAVVEIADSVPLFHS----HLGLLPNLEISLIMIEEHYS-AQG-LGIVGYFHANERFDDLELDSI 99 (165)
Q Consensus 26 ~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~----~l~LsPmlEvAL~qId~~~~-~~g-l~IvGYY~Ane~~~D~~~~~~ 99 (165)
..-.|+|+|+..+ +.+.|+|+.+=-.. ....-+=-+-.-.+++++.+ ++| +.-+|-+|....... .||..
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 37888888842222 12223323333445666554 444 889999999766554 79999
Q ss_pred HHHHHHHHHhhCCCcEEEEEeC
Q 031148 100 AKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 100 a~kIadkI~~~~~~a~ll~vDn 121 (165)
-.+-..++.+.....+++.+-+
T Consensus 93 D~~~~~~~~~~~~~~l~iIvG~ 114 (131)
T TIGR02256 93 DRRSWRTIIRSPEAMLLLIVGR 114 (131)
T ss_pred HHHHHHHHHhCCCeeEEEEEcC
Confidence 9999999988754433333433
No 25
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=92.89 E-value=1.2 Score=31.96 Aligned_cols=81 Identities=12% Similarity=0.166 Sum_probs=53.8
Q ss_pred HHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC
Q 031148 13 YIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD 92 (165)
Q Consensus 13 Y~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~ 92 (165)
|-.+.-|+.+-......|+|+|+..+ .+....++.=.....+|.- +..+...|..+||.||.... .
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 4
Q ss_pred CCCCCHHHHHHHHHH
Q 031148 93 DLELDSIAKNIGNHI 107 (165)
Q Consensus 93 D~~~~~~a~kIadkI 107 (165)
+..||..-.+.+.++
T Consensus 69 ~~~PS~~D~~~~~~~ 83 (101)
T cd08059 69 SCRPSEADLSLFTRF 83 (101)
T ss_pred CCCCCHHHHHHHHhc
Confidence 556777666655544
No 26
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=92.88 E-value=0.4 Score=42.90 Aligned_cols=113 Identities=15% Similarity=0.214 Sum_probs=68.3
Q ss_pred eEEeHHhHHHHHhhh-hcCCCCeeeEEE-Eee---eCCCCCceeEEEe---eeecccCCCCcchHHHHHH-HHHHHHhhh
Q 031148 6 YELSQNAYIKLVLHA-RKHKTAAVNGVL-LGR---VSPQNDAVVEIAD---SVPLFHSHLGLLPNLEISL-IMIEEHYSA 76 (165)
Q Consensus 6 v~is~~AY~KmiLHA-aKYP~~aVnGlL-LG~---~~~~~~~~v~I~D---aVPLfH~~l~LsPmlEvAL-~qId~~~~~ 76 (165)
+.++..|-.||..|+ ++=|...|.|++ +|+ --.. -++.++| .-+-.=....+.|-+.-.. +|.....++
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 993 2111 2333444 3222222111223333322 455555566
Q ss_pred CC--ceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148 77 QG--LGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 77 ~g--l~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn 121 (165)
.| +.+|||||....+. ..|+.+-..--..-+..++.++...+|-
T Consensus 111 tGrp~~VVGWYHSHP~f~-~wpS~vDi~tQ~syq~~~~r~~a~~v~~ 156 (316)
T KOG1555|consen 111 TGRPELVVGWYHSHPGFG-CWPSLVDIDTQQSYQALSSRAVAVVVDP 156 (316)
T ss_pred cCCcceEEeeccCCCCCC-CCccccchhHHHHHhhhccCCcceeeec
Confidence 66 55999999988777 3455444444444445577777777664
No 27
>KOG2975 consensus Translation initiation factor 3, subunit f (eIF-3f) [Translation, ribosomal structure and biogenesis]
Probab=92.87 E-value=0.71 Score=40.73 Aligned_cols=108 Identities=20% Similarity=0.257 Sum_probs=78.5
Q ss_pred eEEeHHhHHHHHhhhhcCCC--CeeeEEEEeeeCCCCCceeEEEeeeecccCCC--CcchHHHHHHHHHHHHhhh-CCce
Q 031148 6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHL--GLLPNLEISLIMIEEHYSA-QGLG 80 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~--~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l--~LsPmlEvAL~qId~~~~~-~gl~ 80 (165)
+.+.+.-|.-++=|--+.|. ..|.|-|||..+++ .|+|+.|.-.=|--. .+.-=+|-|..+.|.+-+. .+-+
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 44555555555555555555 56999999987754 899999876666533 3455567788888888764 5689
Q ss_pred EEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148 81 IVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 81 IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn 121 (165)
|||||--. .+++..+.-|-|-.++.+++.+.+.||-
T Consensus 100 vvGWyaTg-----~dvt~~sslihdyYare~~~pvhLtVDT 135 (288)
T KOG2975|consen 100 VVGWYATG-----HDVTEHSSLIHDYYAREAPNPVHLTVDT 135 (288)
T ss_pred eEEEEecC-----CCcccchhHHHHHhhccCCCCeEEEEec
Confidence 99999854 2355566788888899999999999884
No 28
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=85.39 E-value=9 Score=34.44 Aligned_cols=112 Identities=21% Similarity=0.227 Sum_probs=72.0
Q ss_pred eEEeHHhHHHHHhhhhcCCC--CeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHH-----------HHHHHH
Q 031148 6 YELSQNAYIKLVLHARKHKT--AAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEIS-----------LIMIEE 72 (165)
Q Consensus 6 v~is~~AY~KmiLHAaKYP~--~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvA-----------L~qId~ 72 (165)
|++...--.||+-|+-.--+ ..+-|+|+|=.-+ +.++|+.|.|---. + ||=+=| ..|.+.
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 77888888999999875433 6899999996544 48999999996432 2 232222 111111
Q ss_pred H--hh--hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 031148 73 H--YS--AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (165)
Q Consensus 73 ~--~~--~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~ 126 (165)
. .+ .-..-+|||||...-- +.+++.--.-.=..+...|+.++++.|-.|=++
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 1346699999986433 245554333334456678899999999877543
No 29
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains. This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=81.91 E-value=11 Score=28.01 Aligned_cols=70 Identities=16% Similarity=0.193 Sum_probs=39.6
Q ss_pred HHHHHhhh-hcCCCCeeeEEEEeeeCCCCCceeEEEeeeecc---c---CCCCcchHHHHHHHHHHHHhhhCCceEEEEE
Q 031148 13 YIKLVLHA-RKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---H---SHLGLLPNLEISLIMIEEHYSAQGLGIVGYF 85 (165)
Q Consensus 13 Y~KmiLHA-aKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLf---H---~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY 85 (165)
+-.|+-|| ..|| ...+|+|+|+.. ++..+|+= . ....+.|.-.++. + +.+ .|+|.|
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 55788899 6777 556699999641 12235542 1 1123445433331 1 233 899999
Q ss_pred EeCCCCCCCCCCHHH
Q 031148 86 HANERFDDLELDSIA 100 (165)
Q Consensus 86 ~Ane~~~D~~~~~~a 100 (165)
|.... ....||..-
T Consensus 66 HSHP~-~~a~PS~~D 79 (108)
T cd08073 66 HSHPD-GSPAPSEAD 79 (108)
T ss_pred EcCCC-CCCCCCHHH
Confidence 99754 334566543
No 30
>KOG3050 consensus COP9 signalosome, subunit CSN6 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=80.33 E-value=12 Score=33.01 Aligned_cols=95 Identities=22% Similarity=0.282 Sum_probs=53.8
Q ss_pred CCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHH----HHHHHHHHhhh--CCceEEEEEEeCCCCCCCCCCH
Q 031148 25 TAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEI----SLIMIEEHYSA--QGLGIVGYFHANERFDDLELDS 98 (165)
Q Consensus 25 ~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEv----AL~qId~~~~~--~gl~IvGYY~Ane~~~D~~~~~ 98 (165)
-..|-|.|||++.+ ..|+|-...-|.-.. .-+.|+ =|.+=++.+++ ..+.++|||.+-+. ++|
T Consensus 36 ~~~VyGaliG~Q~G---R~vEi~NSFeL~~d~---~~~~~~~dke~l~kk~eqykqVFpdl~vlGwYttG~d-----~t~ 104 (299)
T KOG3050|consen 36 VKQVYGALIGKQRG---RNVEIMNSFELKMDT---EEDTETIDKEYLEKKEEQYKQVFPDLYVLGWYTTGSD-----PTP 104 (299)
T ss_pred HHHhhhhheecccC---ceEEEeeeeEEEecc---hhhhhhccHHHHHHHHHHHHHhcccceEEEEeecCCC-----CCh
Confidence 34899999998754 589988887664331 112221 12222222222 77999999997532 244
Q ss_pred HHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCC
Q 031148 99 IAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSP 135 (165)
Q Consensus 99 ~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~~~~~~ 135 (165)
--..|-.++.+-....+.+.+ ..+.++.+..|
T Consensus 105 sd~~i~k~l~~i~esplflkL-----Np~t~~t~~~p 136 (299)
T KOG3050|consen 105 SDIHIHKQLMDINESPLFLKL-----NPATNHTDKDP 136 (299)
T ss_pred hhhHHHHHHHhhhcCceEEEe-----cchhccccCCC
Confidence 445556666555455555543 44444555544
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=47.62 E-value=83 Score=24.15 Aligned_cols=53 Identities=17% Similarity=0.040 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHhh-hCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCC--CcEEEEEe
Q 031148 62 NLEISLIMIEEHYS-AQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFP--QCAVLLLD 120 (165)
Q Consensus 62 mlEvAL~qId~~~~-~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~--~a~ll~vD 120 (165)
+.|=....++..+. +.++..+|.| +|.+++...++|.+.|.+..+ +.++++.|
T Consensus 12 lA~Gi~~~~~~~~g~~~~i~~~gg~------~d~~~gt~~~~I~~ai~~~~~~~dgVlvl~D 67 (125)
T TIGR02364 12 IAEGIKELIKQMAGDDVTIISAGGT------DDGRLGTSPDKIIEAIEKADNEADGVLIFYD 67 (125)
T ss_pred HHHHHHHHHHHHcCCCccEEEEecC------CCCCccchHHHHHHHHHHhcCCCCCEEEEEc
Confidence 55666666677664 5567777766 456788899999999999865 67888865
No 32
>COG3933 Transcriptional antiterminator [Transcription]
Probab=44.86 E-value=62 Score=30.71 Aligned_cols=93 Identities=17% Similarity=0.176 Sum_probs=69.2
Q ss_pred HHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCC
Q 031148 10 QNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANE 89 (165)
Q Consensus 10 ~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane 89 (165)
..-|.-|++|.+++-+.. + . +-+|=.-|+..+-|-|.|+|=.+.++ +.|+|=.
T Consensus 89 Ev~~Lal~l~~~~~~~~~-----------~---~---v~vIiiAHG~sTASSmaevanrLL~~----------~~~~aiD 141 (470)
T COG3933 89 EVLYLALFLHECRHYTQN-----------P---R---VKVIIIAHGYSTASSMAEVANRLLGE----------EIFIAID 141 (470)
T ss_pred HHHHHHHHHHHhhhcccC-----------C---c---eeEEEEecCcchHHHHHHHHHHHhhc----------cceeeec
Confidence 456788888888764322 1 1 23344568887889999999888874 4577766
Q ss_pred CCCCCCCCHHHHHHHHHHHhhCCCc-EEEEEeCcccccccc
Q 031148 90 RFDDLELDSIAKNIGNHICRYFPQC-AVLLLDNKKLEALPK 129 (165)
Q Consensus 90 ~~~D~~~~~~a~kIadkI~~~~~~a-~ll~vDn~kl~~l~k 129 (165)
..=|.+|+.+.+++.+++.++-+.. +++++|=.-|+.+..
T Consensus 142 MPLdvsp~~vle~l~e~~k~~~~~~GlllLVDMGSL~~f~~ 182 (470)
T COG3933 142 MPLDVSPSDVLEKLKEYLKERDYRSGLLLLVDMGSLTSFGS 182 (470)
T ss_pred CCCcCCHHHHHHHHHHHHHhcCccCceEEEEecchHHHHHH
Confidence 6778899999999999999988775 888899776665443
No 33
>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=44.82 E-value=1.2e+02 Score=22.24 Aligned_cols=62 Identities=11% Similarity=0.083 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCC-CHHHHHHHHHHHhhCCCcEEEEEeCccccc
Q 031148 63 LEISLIMIEEHYSAQGLGIVGYFHANERFDDLEL-DSIAKNIGNHICRYFPQCAVLLLDNKKLEA 126 (165)
Q Consensus 63 lEvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~-~~~a~kIadkI~~~~~~a~ll~vDn~kl~~ 126 (165)
+|-=...++.||+++|+.|++.|.-+. .+.... -|-=.++.+.+.+.--+ ++++-+-..|.+
T Consensus 17 ~~~Q~~~~~~~a~~~g~~i~~~~~d~~-~Sg~~~~Rp~l~~ll~~~~~g~~~-~ivv~~~~Rl~R 79 (148)
T smart00857 17 LERQLEALRAYAKANGWEVVRIYEDEG-VSGKKADRPGLQRLLADLRAGDID-VLVVYKLDRLGR 79 (148)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEeCC-CcCCCCCCHHHHHHHHHHHcCCCC-EEEEeccchhhC
Confidence 455556678999999999999998763 121122 25566667777665222 555555555543
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=44.23 E-value=85 Score=26.30 Aligned_cols=67 Identities=12% Similarity=0.007 Sum_probs=45.1
Q ss_pred EEeHHhHHHHHhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecc---cCCCC--cchHHHHHHHHHHHHhhhCCceE
Q 031148 7 ELSQNAYIKLVLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLF---HSHLG--LLPNLEISLIMIEEHYSAQGLGI 81 (165)
Q Consensus 7 ~is~~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLf---H~~l~--LsPmlEvAL~qId~~~~~~gl~I 81 (165)
+|...-|.+++-||-+-+-..++|++.|..++. .. -.+|+- |+... ..|. ..+.|..+
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 467788999999999999999999999963322 22 224442 22111 1122 22689999
Q ss_pred EEEEEeCCC
Q 031148 82 VGYFHANER 90 (165)
Q Consensus 82 vGYY~Ane~ 90 (165)
|+-||++-.
T Consensus 137 V~iyHSH~~ 145 (192)
T TIGR03735 137 VVDLHSHGT 145 (192)
T ss_pred EEEEcCCCC
Confidence 999998743
No 35
>cd03006 PDI_a_EFP1_N PDIa family, N-terminal EFP1 subfamily; EFP1 is a binding partner protein of thyroid oxidase (ThOX), also called Duox. ThOX proteins are responsible for the generation of hydrogen peroxide, a crucial substrate of thyroperoxidase, which functions to iodinate thyroglobulin and synthesize thyroid hormones. EFP1 was isolated through a yeast two-hybrid method using the EF-hand fragment of dog Duox1 as a bait. It could be one of the partners in the assembly of a multiprotein complex constituting the thyroid hydrogen peroxide generating system. EFP1 contains two TRX domains related to the redox active TRX domains of protein disulfide isomerase (PDI). This subfamily is composed of the N-terminal TRX domain of EFP1, which contains a CXXS sequence in place of the typical CXXC motif, similar to ERp44. The CXXS motif allows the formation of stable mixed disulfides, crucial for the ER-retention function of ERp44.
Probab=43.71 E-value=85 Score=23.35 Aligned_cols=74 Identities=14% Similarity=0.097 Sum_probs=38.5
Q ss_pred eecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCc-EEEEEeCccccccc
Q 031148 50 VPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQC-AVLLLDNKKLEALP 128 (165)
Q Consensus 50 VPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a-~ll~vDn~kl~~l~ 128 (165)
||+|-+...+..+-+--+..+....+++++.+|=+|..- ..++.....+-+++++.+++. .+.-||..+-..++
T Consensus 2 ~~~~~~~~~v~~l~~~~f~~~~~v~~~~~~vlV~FyA~W-----C~~Ck~l~p~~~~la~~~~~~v~~~~Vd~d~~~~l~ 76 (113)
T cd03006 2 VPFFSQRSPVLDFYKGQLDYAEELRTDAEVSLVMYYAPW-----DAQSQAARQEFEQVAQKLSDQVLFVAINCWWPQGKC 76 (113)
T ss_pred CCccCCCCCeEEechhhhHHHHhcccCCCEEEEEEECCC-----CHHHHHHHHHHHHHHHHhcCCeEEEEEECCCChHHH
Confidence 566765444433333333332223467778888888532 122233334445555555553 44558877666665
No 36
>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=43.06 E-value=83 Score=24.85 Aligned_cols=46 Identities=30% Similarity=0.272 Sum_probs=32.9
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccc
Q 031148 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALP 128 (165)
Q Consensus 77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~ 128 (165)
.|+.|+|+|+..- -..-.++|.+.|.+.-++-+++-+..-|-+.+.
T Consensus 73 P~l~ivg~~~g~f------~~~~~~~i~~~I~~~~pdiv~vglG~PkQE~~~ 118 (172)
T PF03808_consen 73 PGLRIVGYHHGYF------DEEEEEAIINRINASGPDIVFVGLGAPKQERWI 118 (172)
T ss_pred CCeEEEEecCCCC------ChhhHHHHHHHHHHcCCCEEEEECCCCHHHHHH
Confidence 5899999998754 123467899999998888777766665544433
No 37
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=41.88 E-value=46 Score=29.76 Aligned_cols=57 Identities=18% Similarity=0.209 Sum_probs=35.8
Q ss_pred EEEEeeeCCCCCceeEEEeeeecccCCCCcc---------hHHHHHHHHHHHHhhh------CCceEEEEEEeC
Q 031148 30 GVLLGRVSPQNDAVVEIADSVPLFHSHLGLL---------PNLEISLIMIEEHYSA------QGLGIVGYFHAN 88 (165)
Q Consensus 30 GlLLG~~~~~~~~~v~I~DaVPLfH~~l~Ls---------PmlEvAL~qId~~~~~------~gl~IvGYY~An 88 (165)
|+|||+.+.+ +.-.|+.++|-=+...... -...+--.-|-+||++ .|+.|+|.|--.
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 8999987433 3467788887655432222 1112334445567765 889999999843
No 38
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=39.58 E-value=22 Score=33.45 Aligned_cols=48 Identities=21% Similarity=0.427 Sum_probs=31.1
Q ss_pred HHHHHHHHHhhCCC-cEEEEEeCccccccccCCCCCCc-eeEEEEEEEEEec----cceeeEeee
Q 031148 100 AKNIGNHICRYFPQ-CAVLLLDNKKLEALPKGKDRSPV-MQVSAVFVCIELS----NYGVSVSFL 158 (165)
Q Consensus 100 a~kIadkI~~~~~~-a~ll~vDn~kl~~l~k~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~ 158 (165)
-.++-.||.+.-.| .| +.= +...|+. -..|.+|.||+-| |.||-.||+
T Consensus 10 ~~~vfkkLRs~~~NKvC--------FDC---gAknPtWaSVTYGIFLCiDCSAvHRnLGVHiSFV 63 (454)
T KOG0706|consen 10 IQTVFKKLRSQSENKVC--------FDC---GAKNPTWASVTYGIFLCIDCSAVHRNLGVHISFV 63 (454)
T ss_pred HHHHHHHHhcCCCCcee--------ccc---CCCCCCceeecceEEEEEecchhhhccccceEEE
Confidence 34666777766444 23 121 1222332 6679999999987 899999986
No 39
>COG2343 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.34 E-value=42 Score=26.77 Aligned_cols=84 Identities=23% Similarity=0.309 Sum_probs=56.7
Q ss_pred HhhhhcCCCCeeeEEEEeeeCCCCCceeEEEeeeecccCCCCcchHHHHHHHHHHH-----HhhhCCceEEEEEEe---C
Q 031148 17 VLHARKHKTAAVNGVLLGRVSPQNDAVVEIADSVPLFHSHLGLLPNLEISLIMIEE-----HYSAQGLGIVGYFHA---N 88 (165)
Q Consensus 17 iLHAaKYP~~aVnGlLLG~~~~~~~~~v~I~DaVPLfH~~l~LsPmlEvAL~qId~-----~~~~~gl~IvGYY~A---n 88 (165)
+++..++.+.-.||..|+++.. ..+++.-..|--|-. |.-.+-++..+. +|-=|| ++|||+- .
T Consensus 21 v~ps~~~V~v~~nG~viAdS~~---~~~l~E~~~pp~~Yi----P~~Di~~e~l~~t~~~T~Cp~KG--~AsYysv~~~~ 91 (132)
T COG2343 21 VEPSSRRVQVIFNGEVIADSRR---AVVLVETSYPPVHYI----PPEDIRFEYLIPTPTHTYCPYKG--TASYYSVVVGG 91 (132)
T ss_pred eecCCCeEEEEECCEEEeecCC---ceEEEecCCCceeec----CHHHchHhhcccCCCccccCccc--ccceEEEEcCC
Confidence 3566677778889999997543 356666667766642 556666665543 555566 6899984 3
Q ss_pred CCCCCC-----CCCHHHHHHHHHHHh
Q 031148 89 ERFDDL-----ELDSIAKNIGNHICR 109 (165)
Q Consensus 89 e~~~D~-----~~~~~a~kIadkI~~ 109 (165)
++.+|. .|.+.+++|.+.++=
T Consensus 92 ~~~~naaW~Y~~P~p~a~~Ik~~vAF 117 (132)
T COG2343 92 ERNPDAAWTYPNPKPAARAIKGHVAF 117 (132)
T ss_pred ccCCCceEecCCCcHHHHHhccceee
Confidence 444444 478899999988753
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=37.63 E-value=1.8e+02 Score=21.98 Aligned_cols=65 Identities=14% Similarity=0.050 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccC
Q 031148 62 NLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKG 130 (165)
Q Consensus 62 mlEvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~ 130 (165)
.+|-=...++.||+++|..|++.|.-......+.--|--.++.+.+.+.--+ ++++-+ +++|+.+
T Consensus 19 sle~Q~~~l~~~a~~~g~~i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd-~vvv~~---ldRl~R~ 83 (140)
T cd03770 19 SIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKID-IVIVKD---MSRLGRN 83 (140)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCC-EEEEec---cchhccC
Confidence 3454455678899999999999998542111111236667777777765445 344433 4554444
No 41
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=37.62 E-value=1e+02 Score=25.74 Aligned_cols=56 Identities=13% Similarity=0.080 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHH-HHHHHHHHHhhCCCcEEEEEeCccccc
Q 031148 64 EISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSI-AKNIGNHICRYFPQCAVLLLDNKKLEA 126 (165)
Q Consensus 64 EvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~~~~-a~kIadkI~~~~~~a~ll~vDn~kl~~ 126 (165)
+.|-.-+|.-+++-|.+-+..=+.| |++. ++.+.+-|.+--.+.+++|+|.+=...
T Consensus 10 ~~A~ravE~aa~~iGgRCIS~S~GN-------PT~lsG~elV~lIk~a~~DPV~VMfDD~G~~g 66 (180)
T PF14097_consen 10 EYAKRAVEIAAKNIGGRCISQSAGN-------PTPLSGEELVELIKQAPHDPVLVMFDDKGFIG 66 (180)
T ss_pred HHHHHHHHHHHHHhCcEEEeccCCC-------CCcCCHHHHHHHHHhCCCCCEEEEEeCCCCCC
Confidence 5777888888888888777654444 5543 789999999999999999999876543
No 42
>PF02971 FTCD: Formiminotransferase domain; InterPro: IPR013802 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. In humans, deficiency of this enzyme results in a disease phenotype []. This entry represents the C-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 1QD1_B 2PFD_C.
Probab=35.19 E-value=2.2 Score=34.36 Aligned_cols=59 Identities=24% Similarity=0.258 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhhC-----------CCcEEEEEeCccccccccCCCCCCceeEEEEE--EEEEeccceeeEe
Q 031148 98 SIAKNIGNHICRYF-----------PQCAVLLLDNKKLEALPKGKDRSPVMQVSAVF--VCIELSNYGVSVS 156 (165)
Q Consensus 98 ~~a~kIadkI~~~~-----------~~a~ll~vDn~kl~~l~k~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 156 (165)
..|+|||..|++.- =.|.-+.+|.+.+.+.+-...+-..-+++.|| +|.|-..|||.|.
T Consensus 14 ~iA~~IA~~iR~sgrg~~~PGgl~~VkAiG~~l~~~~~aQVSmNltd~~~Tpl~~vfe~v~~eA~~~Gv~v~ 85 (145)
T PF02971_consen 14 EIAKKIAKAIRESGRGKDQPGGLKYVKAIGWYLEERGIAQVSMNLTDYEKTPLHRVFEEVKREAARYGVPVV 85 (145)
T ss_dssp HHHHHHHHHHCTTTTCTTC--SCTTEEEEEEEETTTTEEEEEEEES-TTTS-HHHHHHHHHHHHHCTT--EE
T ss_pred HHHHHHHHHHHhcCCCCCCCCCcceeeEeEEeeccCCeeEEEEeeecCCCCcHHHHHHHHHHHHHHhCCCcc
Confidence 89999999998765 13667777776555544445554445555555 5666677777663
No 43
>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=33.52 E-value=1.8e+02 Score=20.89 Aligned_cols=61 Identities=16% Similarity=0.064 Sum_probs=37.9
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCC-CCCCHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 031148 64 EISLIMIEEHYSAQGLGIVGYFHANERFDD-LELDSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (165)
Q Consensus 64 EvAL~qId~~~~~~gl~IvGYY~Ane~~~D-~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~ 125 (165)
|-=...++.||..+|..|+.+|.-+..... ..--|--.++.+.+.+.-. -++++-+-..|.
T Consensus 17 ~~Q~~~~~~~a~~~g~~i~~~~~d~~~s~~~~~~R~~~~~ll~~~~~~~~-d~ivv~~~~Rl~ 78 (137)
T cd00338 17 ERQREALREYAARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKI-DVVLVEKLDRLS 78 (137)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEeCCCCcccccCCHHHHHHHHHHHcCCC-CEEEEEecchhh
Confidence 444566789999999999999987643332 2223556666677766333 345554544443
No 44
>PRK06934 flavodoxin; Provisional
Probab=32.92 E-value=1.8e+02 Score=24.58 Aligned_cols=37 Identities=14% Similarity=0.078 Sum_probs=26.7
Q ss_pred CCceEEEEEEeCCCC---------------CCCCCCHHHHHHHHHHHhhCCC
Q 031148 77 QGLGIVGYFHANERF---------------DDLELDSIAKNIGNHICRYFPQ 113 (165)
Q Consensus 77 ~gl~IvGYY~Ane~~---------------~D~~~~~~a~kIadkI~~~~~~ 113 (165)
++=.+|-||...++. .|.++....++||+.|++....
T Consensus 35 ~~k~Lv~yfs~~~~~~~~~~~~~~~~s~~~~~~~~~GnTk~vAe~Ia~~~ga 86 (221)
T PRK06934 35 ARRVLIVYFSQPEDVKLEGVDGVSGASILQKNGEVLGSTQYVAQIIQEETGG 86 (221)
T ss_pred CCceEEEEEeccCCcccccccccccccccccCCCCCCHHHHHHHHHHHHHCC
Confidence 445688899876432 3556667899999999988644
No 45
>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=31.93 E-value=40 Score=32.10 Aligned_cols=27 Identities=30% Similarity=0.628 Sum_probs=23.0
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCC
Q 031148 64 EISLIMIEEHYSAQGLGIVGYFHANER 90 (165)
Q Consensus 64 EvAL~qId~~~~~~gl~IvGYY~Ane~ 90 (165)
..--.+.|.||++-+.-|+|++.++|.
T Consensus 126 ~wNR~LLdkYC~ey~VGiIgF~~~~E~ 152 (487)
T PF12062_consen 126 SWNRELLDKYCREYGVGIIGFFKANEN 152 (487)
T ss_pred HHHHHHHHHHhHccCccEEEEecCCCC
Confidence 345677899999999999999999873
No 46
>KOG3096 consensus Spliceosome-associated coiled-coil protein [Function unknown]
Probab=29.47 E-value=61 Score=27.91 Aligned_cols=66 Identities=14% Similarity=0.078 Sum_probs=44.9
Q ss_pred EEEeeeecccCCCCcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCC--CCCCCHHHHHHHHHHHhhCC
Q 031148 45 EIADSVPLFHSHLGLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFD--DLELDSIAKNIGNHICRYFP 112 (165)
Q Consensus 45 ~I~DaVPLfH~~l~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~--D~~~~~~a~kIadkI~~~~~ 112 (165)
+++||.|.|-+...-.-.=+.|..+||+-|+..+ =.-.|...-.+. |...+++-.+--+|+...-|
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 222344433333 34466777777777776544
No 47
>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=28.84 E-value=90 Score=24.68 Aligned_cols=45 Identities=27% Similarity=0.248 Sum_probs=30.5
Q ss_pred CCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCcccccc
Q 031148 77 QGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEAL 127 (165)
Q Consensus 77 ~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l 127 (165)
.|+.|+|+++..-..++ ...+.++|.+.-||-+++-+-.=|-|.+
T Consensus 71 p~l~i~g~~~g~~~~~~------~~~i~~~I~~~~pdiv~vglG~PkQE~~ 115 (171)
T cd06533 71 PGLKIVGYHHGYFGPEE------EEEIIERINASGADILFVGLGAPKQELW 115 (171)
T ss_pred CCcEEEEecCCCCChhh------HHHHHHHHHHcCCCEEEEECCCCHHHHH
Confidence 78999999776533222 1238899999888887777655444443
No 48
>cd02989 Phd_like_TxnDC9 Phosducin (Phd)-like family, Thioredoxin (TRX) domain containing protein 9 (TxnDC9) subfamily; composed of predominantly uncharacterized eukaryotic proteins, containing a TRX-like domain without the redox active CXXC motif. The gene name for the human protein is TxnDC9. The two characterized members are described as Phd-like proteins, PLP1 of Saccharomyces cerevisiae and PhLP3 of Dictyostelium discoideum. Gene disruption experiments show that both PLP1 and PhLP3 are non-essential proteins. Unlike Phd and most Phd-like proteins, members of this group do not contain the Phd N-terminal helical domain which is implicated in binding to the G protein betagamma subunit.
Probab=28.52 E-value=2.3e+02 Score=20.56 Aligned_cols=57 Identities=9% Similarity=0.059 Sum_probs=36.1
Q ss_pred HHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCC
Q 031148 71 EEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKD 132 (165)
Q Consensus 71 d~~~~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~~~ 132 (165)
++.-++.+.++|=+|... ..+......+-+++++.+++.-++-||..+...+++.-.
T Consensus 16 ~~~i~~~~~vvV~f~a~~-----c~~C~~~~p~l~~la~~~~~i~f~~Vd~~~~~~l~~~~~ 72 (113)
T cd02989 16 FEIVKSSERVVCHFYHPE-----FFRCKIMDKHLEILAKKHLETKFIKVNAEKAPFLVEKLN 72 (113)
T ss_pred HHHHhCCCcEEEEEECCC-----CccHHHHHHHHHHHHHHcCCCEEEEEEcccCHHHHHHCC
Confidence 333345677777666532 234445555666777788888788899988766665443
No 49
>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=27.95 E-value=1.1e+02 Score=21.83 Aligned_cols=36 Identities=22% Similarity=0.262 Sum_probs=29.5
Q ss_pred CCCCHHHHHHHHHHHhhCC-CcEEEEEeCcccccccc
Q 031148 94 LELDSIAKNIGNHICRYFP-QCAVLLLDNKKLEALPK 129 (165)
Q Consensus 94 ~~~~~~a~kIadkI~~~~~-~a~ll~vDn~kl~~l~k 129 (165)
..+.+.+++|++.|.++|+ ...-+.+-++|.....+
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 57777888888876554
No 50
>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=27.74 E-value=82 Score=24.09 Aligned_cols=24 Identities=33% Similarity=0.677 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHhhCCCcEEEEEeC
Q 031148 98 SIAKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 98 ~~a~kIadkI~~~~~~a~ll~vDn 121 (165)
+..+.++++|.++.|+++++++-|
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 467789999999999999999755
No 51
>COG1961 PinR Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]
Probab=27.08 E-value=3.3e+02 Score=21.88 Aligned_cols=58 Identities=10% Similarity=-0.023 Sum_probs=44.1
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccc
Q 031148 64 EISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKL 124 (165)
Q Consensus 64 EvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl 124 (165)
+--...++.+|..+|..++..+.......+.. -|.-+++.+.|.+.- + .+++-+=..|
T Consensus 18 ~~Q~~~l~~~~~~~g~~~~~~~~~sg~~~~~~-Rp~l~~ll~~i~~g~-d-~lvV~~lDRL 75 (222)
T COG1961 18 DNQREALEAYAKNKGCEIVFEDKDSGSSSGKN-RPGLQRLLEDIEEGK-D-TLVVYKLDRL 75 (222)
T ss_pred HHHHHHHHHHHHhCCCEEEEEeecCCccCCCC-CHHHHHHHHHHHcCC-c-EEEEEEechh
Confidence 66777889999999999998888887776655 788888999998776 4 4455444444
No 52
>KOG3265 consensus Histone chaperone involved in gene silencing [Transcription; Chromatin structure and dynamics]
Probab=25.83 E-value=40 Score=29.47 Aligned_cols=38 Identities=21% Similarity=0.270 Sum_probs=22.6
Q ss_pred hCCceEEEEEEeCCCC----CCCCCC-HHHHHHHHHHHhhCCC
Q 031148 76 AQGLGIVGYFHANERF----DDLELD-SIAKNIGNHICRYFPQ 113 (165)
Q Consensus 76 ~~gl~IvGYY~Ane~~----~D~~~~-~~a~kIadkI~~~~~~ 113 (165)
.+...=||||..|+-. +.+.|+ +.-.|+.+.|...-|.
T Consensus 103 gQEFIRvGYyVnNeY~~~elrEnpP~k~~idKv~RnIlaekpR 145 (250)
T KOG3265|consen 103 GQEFIRVGYYVNNEYTEEELRENPPSKPLIDKLQRNILAEKPR 145 (250)
T ss_pred CceeEEEEEEecCCCCchhhccCCCCchhHHHHHHHhhccCCc
Confidence 4445678999999843 333344 4456666666544443
No 53
>KOG0907 consensus Thioredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=24.92 E-value=2.9e+02 Score=20.43 Aligned_cols=69 Identities=16% Similarity=0.194 Sum_probs=37.9
Q ss_pred HHHHHhhhC-CceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCccccccccCCCCCCceeEEEEE
Q 031148 69 MIEEHYSAQ-GLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNKKLEALPKGKDRSPVMQVSAVF 143 (165)
Q Consensus 69 qId~~~~~~-gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~kl~~l~k~~~~~~~~~~~~~~ 143 (165)
...+...+. .+.++=+| |.=+-....+.| .-+++++.+|++.++-+|-.+...+++..... .++-|..|
T Consensus 12 ~~~~~~~~~~kliVvdF~-a~wCgPCk~i~P----~~~~La~~y~~v~Flkvdvde~~~~~~~~~V~-~~PTf~f~ 81 (106)
T KOG0907|consen 12 LVLSAAEAGDKLVVVDFY-ATWCGPCKAIAP----KFEKLAEKYPDVVFLKVDVDELEEVAKEFNVK-AMPTFVFY 81 (106)
T ss_pred HHHHHhhCCCCeEEEEEE-CCCCcchhhhhh----HHHHHHHHCCCCEEEEEecccCHhHHHhcCce-EeeEEEEE
Confidence 334444454 45555554 443444444444 55667778999888887766555545533332 25554444
No 54
>COG0698 RpiB Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]
Probab=23.90 E-value=2.5e+02 Score=22.77 Aligned_cols=50 Identities=12% Similarity=0.319 Sum_probs=36.0
Q ss_pred HHHHHhhhCCceEEEE--EEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeCc
Q 031148 69 MIEEHYSAQGLGIVGY--FHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDNK 122 (165)
Q Consensus 69 qId~~~~~~gl~IvGY--Y~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn~ 122 (165)
.|-.|.+++|..++=| |..++ +...+-++.++|++|.++ ..-.-|+++++
T Consensus 17 ~I~~~Lk~~g~~v~D~G~~~~~~---~~dyp~~a~~va~~v~~~-~~d~GIliCGT 68 (151)
T COG0698 17 IIIDHLKSKGYEVIDFGTYTDEG---SVDYPDYAKKVAEAVLNG-EADLGILICGT 68 (151)
T ss_pred HHHHHHHHCCCEEEeccccCCCC---CcchHHHHHHHHHHHHcC-CCCeeEEEecC
Confidence 5667888999988865 54332 234667999999999987 44567777775
No 55
>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=23.74 E-value=3.3e+02 Score=20.72 Aligned_cols=57 Identities=14% Similarity=0.174 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCC-CHHHHHHHHHHHhhCCCcEEEEEeCcccc
Q 031148 64 EISLIMIEEHYSAQGLGIVGYFHANERFDDLEL-DSIAKNIGNHICRYFPQCAVLLLDNKKLE 125 (165)
Q Consensus 64 EvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~-~~~a~kIadkI~~~~~~a~ll~vDn~kl~ 125 (165)
|-=...++.||+.+|..++.+|.-.. +.... -|--.++.+.+.+. + ++++-+=.+|.
T Consensus 15 ~~Q~~~l~~~a~~~g~~~~~i~~d~~--SG~~~~Rp~~~~ll~~~~~g--d-~lvv~~ldRl~ 72 (146)
T cd03767 15 TRAKESLEAFATERGFYIAGFYVENA--SGAKLDRPELFRLLDDAQSG--D-VLLVEQIDRLS 72 (146)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEECC--cCCCCCCHHHHHHHHHhhCC--C-EEEEEeCcccc
Confidence 33345678899999999999998543 22222 25566666777654 3 56665544443
No 56
>cd02201 FtsZ_type1 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=22.67 E-value=3.1e+02 Score=23.68 Aligned_cols=74 Identities=16% Similarity=0.095 Sum_probs=44.4
Q ss_pred EeeeecccCCC-----CcchHHHHHHHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhCCCcEEEEEeC
Q 031148 47 ADSVPLFHSHL-----GLLPNLEISLIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYFPQCAVLLLDN 121 (165)
Q Consensus 47 ~DaVPLfH~~l-----~LsPmlEvAL~qId~~~~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~~~a~ll~vDn 121 (165)
.|.|=++|+-- +.+|.+ ...+++.|.-.++....+.......-.--|..-.++|.++. -+++++||
T Consensus 85 ~d~v~i~aglGGGTGSG~ap~i-------a~~a~e~g~~~~~vvt~Pf~~Eg~~~~~nA~~~l~~L~~~~--d~~ividN 155 (304)
T cd02201 85 ADMVFITAGMGGGTGTGAAPVI-------AKIAKEMGALTVAVVTKPFSFEGKKRMRQAEEGLEELRKHV--DTLIVIPN 155 (304)
T ss_pred CCEEEEeeccCCCcchhHHHHH-------HHHHHHcCCCEEEEEeCCccccchhHHHHHHHHHHHHHHhC--CEEEEEec
Confidence 56776677621 235553 23455666677888876654443222223666666776664 35668999
Q ss_pred cccccccc
Q 031148 122 KKLEALPK 129 (165)
Q Consensus 122 ~kl~~l~k 129 (165)
.+|...++
T Consensus 156 ~~L~~~~~ 163 (304)
T cd02201 156 DKLLEVVD 163 (304)
T ss_pred HHHHHhhc
Confidence 99987664
No 57
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=21.02 E-value=81 Score=26.39 Aligned_cols=30 Identities=20% Similarity=0.221 Sum_probs=24.9
Q ss_pred HhHHHHHhhhhcCCCCeeeEEEEeeeCCCC
Q 031148 11 NAYIKLVLHARKHKTAAVNGVLLGRVSPQN 40 (165)
Q Consensus 11 ~AY~KmiLHAaKYP~~aVnGlLLG~~~~~~ 40 (165)
-.-+|-+||-++.-...|.|+|+|.+.+.+
T Consensus 96 F~Nv~rWLeei~~ncdsv~~vLVGNK~d~~ 125 (198)
T KOG0079|consen 96 FNNVKRWLEEIRNNCDSVPKVLVGNKNDDP 125 (198)
T ss_pred hHhHHHHHHHHHhcCccccceecccCCCCc
Confidence 345788999999988999999999876553
No 58
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=20.99 E-value=3.9e+02 Score=20.47 Aligned_cols=50 Identities=14% Similarity=0.180 Sum_probs=33.7
Q ss_pred hCCceEEEEEEeCCCCCCCCCCHHHHH---HHHHHHhhCCC-cEEEEEeCccccccccCCCC
Q 031148 76 AQGLGIVGYFHANERFDDLELDSIAKN---IGNHICRYFPQ-CAVLLLDNKKLEALPKGKDR 133 (165)
Q Consensus 76 ~~gl~IvGYY~Ane~~~D~~~~~~a~k---IadkI~~~~~~-a~ll~vDn~kl~~l~k~~~~ 133 (165)
+.++++|=++.. -.+.++. +-+++++.+++ +.++.||-.....+++..+-
T Consensus 13 ~~klVVVdF~a~--------WC~pCk~mdp~l~ela~~~~~~~~f~kVDVDev~dva~~y~I 66 (114)
T cd02986 13 AEKVLVLRFGRD--------EDAVCLQLDDILSKTSHDLSKMASIYLVDVDKVPVYTQYFDI 66 (114)
T ss_pred CCCEEEEEEeCC--------CChhHHHHHHHHHHHHHHccCceEEEEEeccccHHHHHhcCc
Confidence 466777777662 2333333 44556677788 88999999998887776553
No 59
>cd03069 PDI_b_ERp57 PDIb family, ERp57 subfamily, first redox inactive TRX-like domain b; ERp57 (or ERp60) exhibits both disulfide oxidase and reductase functions like PDI, by catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER and acting as isomerases to correct any non-native disulfide bonds. It also displays chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. ERp57 contains two redox-active TRX (a) domains and two redox inactive TRX-like (b) domains. It shares the same domain arrangement of abb'a' as PDI, but lacks the C-terminal acid-rich region (c domain) that is present in PDI. ERp57 interacts with the lectin chaperones, calnexin and calreticulin, and specifically promotes the oxidative folding of glycoproteins. Similar to PDI, the b domain of ERp57 is likely involved in binding to substrates.
Probab=20.98 E-value=1.7e+02 Score=20.91 Aligned_cols=41 Identities=20% Similarity=0.292 Sum_probs=25.8
Q ss_pred HHHHHHHhhhCCceEEEEEEeCCCCCCCCCCHHHHHHHHHHHhhC
Q 031148 67 LIMIEEHYSAQGLGIVGYFHANERFDDLELDSIAKNIGNHICRYF 111 (165)
Q Consensus 67 L~qId~~~~~~gl~IvGYY~Ane~~~D~~~~~~a~kIadkI~~~~ 111 (165)
..+++..-+.....||||+...+. ..-..=.++|+..++.+
T Consensus 8 ~~~l~~f~~~~~~~Vvg~f~~~~~----~~~~~F~~vA~~~R~d~ 48 (104)
T cd03069 8 EAEFEKFLSDDDASVVGFFEDEDS----KLLSEFLKAADTLRESF 48 (104)
T ss_pred HHHHHHHhccCCcEEEEEEcCCCc----hHHHHHHHHHHhhhhcC
Confidence 345566667788999999975321 22344556677666554
No 60
>PF15120 DUF4561: Domain of unknown function (DUF4561)
Probab=20.44 E-value=36 Score=28.19 Aligned_cols=15 Identities=20% Similarity=0.087 Sum_probs=12.5
Q ss_pred hcCCCCeeeEEEEee
Q 031148 21 RKHKTAAVNGVLLGR 35 (165)
Q Consensus 21 aKYP~~aVnGlLLG~ 35 (165)
+||||..|||+==++
T Consensus 115 a~yPhd~vNhLScdE 129 (171)
T PF15120_consen 115 AKYPHDVVNHLSCDE 129 (171)
T ss_pred hcCCccccCCCCcHH
Confidence 599999999995554
Done!