Query 032608
Match_columns 137
No_of_seqs 151 out of 366
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 03:37:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032608.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032608hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3389 NADH:ubiquinone oxidor 100.0 1.4E-48 2.9E-53 304.1 7.5 115 22-137 42-160 (178)
2 PF04800 ETC_C1_NDUFA4: ETC co 100.0 1.1E-44 2.3E-49 264.8 7.6 83 52-137 1-84 (101)
3 PF09954 DUF2188: Uncharacteri 86.4 0.53 1.2E-05 30.7 1.9 25 105-129 22-51 (62)
4 PF08727 P3A: Poliovirus 3A pr 80.6 1.1 2.3E-05 30.3 1.5 16 112-127 30-45 (57)
5 PHA02552 4 head completion pro 80.3 1.6 3.4E-05 34.3 2.6 70 52-132 60-141 (151)
6 PF05573 NosL: NosL; InterPro 78.4 2.9 6.3E-05 31.8 3.5 50 72-122 77-135 (149)
7 PRK05370 argininosuccinate syn 75.6 2 4.3E-05 39.1 2.2 23 106-128 164-186 (447)
8 PF08722 Tn7_Tnp_TnsA_N: TnsA 70.1 4.7 0.0001 27.5 2.6 19 111-129 69-87 (88)
9 PF11360 DUF3110: Protein of u 68.2 8 0.00017 27.5 3.5 25 107-131 53-77 (86)
10 PF03462 PCRF: PCRF domain; I 62.8 5.5 0.00012 29.1 1.9 15 115-129 73-87 (115)
11 PF11360 DUF3110: Protein of u 59.2 8.5 0.00018 27.4 2.3 19 99-120 23-41 (86)
12 PF08803 ydhR: Putative mono-o 57.0 7.4 0.00016 28.6 1.7 29 91-121 38-66 (97)
13 PF07045 DUF1330: Protein of u 56.1 11 0.00025 24.5 2.3 14 105-118 43-56 (65)
14 PF06194 Phage_Orf51: Phage Co 54.9 10 0.00022 27.1 2.0 23 105-127 51-73 (80)
15 KOG2854 Possible pfkB family c 54.9 10 0.00023 33.5 2.5 21 105-125 216-236 (343)
16 PRK04527 argininosuccinate syn 54.5 8.6 0.00019 34.4 2.0 22 107-128 150-171 (400)
17 PF10075 PCI_Csn8: COP9 signal 54.5 7.1 0.00015 28.8 1.3 20 106-126 107-126 (143)
18 PF13031 DUF3892: Protein of u 54.1 12 0.00025 25.8 2.2 23 106-128 28-50 (85)
19 KOG4748 Subunit of Golgi manno 51.2 11 0.00023 33.6 2.0 23 110-132 127-149 (364)
20 PF01071 GARS_A: Phosphoribosy 50.8 17 0.00037 29.3 3.0 25 105-129 20-44 (194)
21 PF03108 DBD_Tnp_Mut: MuDR fam 49.8 20 0.00043 23.2 2.7 29 105-133 7-39 (67)
22 COG3341 Predicted double-stran 49.3 11 0.00024 31.5 1.8 14 107-120 39-52 (225)
23 PF12518 DUF3721: Protein of u 48.9 16 0.00035 22.2 2.0 16 108-123 1-16 (34)
24 PF07862 Nif11: Nitrogen fixat 47.3 9.7 0.00021 23.5 0.9 21 108-128 26-46 (49)
25 PF01693 Cauli_VI: Caulimoviru 46.4 21 0.00046 21.8 2.3 13 105-117 32-44 (44)
26 PRK11118 putative monooxygenas 45.4 28 0.0006 25.9 3.1 29 91-121 41-69 (100)
27 PRK05773 3,4-dihydroxy-2-butan 44.4 18 0.00039 29.9 2.3 17 109-125 191-207 (219)
28 COG0108 RibB 3,4-dihydroxy-2-b 44.3 18 0.00038 29.9 2.2 18 109-126 172-189 (203)
29 PF02844 GARS_N: Phosphoribosy 43.2 24 0.00053 25.7 2.6 28 105-132 45-72 (100)
30 PLN00139 hypothetical protein; 42.5 22 0.00048 30.4 2.6 26 106-131 195-220 (320)
31 PRK12354 carbamate kinase; Rev 41.5 21 0.00045 30.9 2.3 22 107-128 125-146 (307)
32 PF03793 PASTA: PASTA domain; 39.8 32 0.00069 21.6 2.5 22 109-130 9-30 (63)
33 PF03682 UPF0158: Uncharacteri 39.3 23 0.00051 27.6 2.1 20 111-130 127-146 (163)
34 COG0137 ArgG Argininosuccinate 38.8 23 0.0005 32.0 2.2 21 107-128 151-171 (403)
35 PF05637 Glyco_transf_34: gala 38.6 20 0.00043 29.2 1.7 17 112-128 31-47 (239)
36 PF05406 WGR: WGR domain; Int 37.1 29 0.00064 23.4 2.1 45 71-120 19-64 (81)
37 PF00568 WH1: WH1 domain; Int 37.1 33 0.00072 24.6 2.4 29 86-120 78-106 (111)
38 COG5470 Uncharacterized conser 36.9 32 0.00069 25.4 2.3 21 95-118 50-70 (96)
39 smart00461 WH1 WASP homology r 36.0 31 0.00067 24.8 2.2 17 105-121 86-102 (106)
40 PF14259 RRM_6: RNA recognitio 35.7 41 0.00088 20.9 2.5 18 105-122 43-60 (70)
41 PRK13864 type IV secretion sys 35.7 51 0.0011 27.9 3.7 23 105-127 69-94 (245)
42 PRK00823 phhB pterin-4-alpha-c 35.6 38 0.00083 23.9 2.6 34 86-121 16-49 (97)
43 TIGR00746 arcC carbamate kinas 35.3 35 0.00076 29.3 2.7 24 107-130 131-154 (310)
44 cd01207 Ena-Vasp Enabled-VASP- 35.0 29 0.00064 25.9 1.9 45 71-121 54-103 (111)
45 smart00156 PP2Ac Protein phosp 34.3 67 0.0014 26.7 4.2 40 83-129 176-218 (271)
46 PRK08179 prfH peptide chain re 34.0 31 0.00067 28.2 2.1 17 115-131 27-43 (200)
47 cd00913 PCD_DCoH_subfamily_a P 33.9 54 0.0012 22.1 3.0 29 90-120 1-29 (76)
48 PRK09437 bcp thioredoxin-depen 33.8 42 0.00091 24.3 2.6 26 105-130 69-94 (154)
49 PF02786 CPSase_L_D2: Carbamoy 33.3 44 0.00096 26.8 2.9 21 109-129 25-45 (211)
50 PF09383 NIL: NIL domain; Int 33.0 40 0.00087 22.1 2.2 24 105-128 49-76 (76)
51 TIGR01465 cobM_cbiF precorrin- 32.7 60 0.0013 25.3 3.5 33 89-129 74-106 (229)
52 PF00076 RRM_1: RNA recognitio 32.5 51 0.0011 19.9 2.5 18 105-122 43-61 (70)
53 cd00837 EVH1 EVH1 (Enabled, Va 32.4 46 0.001 23.7 2.6 16 105-120 84-99 (104)
54 PLN00200 argininosuccinate syn 32.2 31 0.00068 30.8 2.0 20 107-126 152-171 (404)
55 COG0007 CysG Uroporphyrinogen- 31.7 62 0.0013 27.3 3.5 28 94-129 89-116 (244)
56 COG4314 NosL Predicted lipopro 31.2 35 0.00076 27.6 1.9 21 105-125 130-150 (176)
57 cd00914 PCD_DCoH_subfamily_b P 30.9 52 0.0011 22.2 2.5 29 90-120 1-29 (76)
58 PRK01792 ribB 3,4-dihydroxy-2- 30.5 42 0.0009 27.8 2.3 18 108-125 182-199 (214)
59 TIGR00506 ribB 3,4-dihydroxy-2 30.5 46 0.00099 27.1 2.5 18 108-125 172-189 (199)
60 PF10009 DUF2252: Uncharacteri 29.4 29 0.00063 30.5 1.3 42 82-123 287-335 (385)
61 TIGR03072 release_prfH putativ 29.3 41 0.00089 27.4 2.1 17 115-131 26-42 (200)
62 PF14657 Integrase_AP2: AP2-li 29.2 45 0.00097 20.4 1.8 13 108-120 24-36 (46)
63 PF14791 DNA_pol_B_thumb: DNA 29.0 5.9 0.00013 26.6 -2.4 11 88-98 2-12 (64)
64 KOG1706 Argininosuccinate synt 29.0 33 0.00071 30.8 1.5 23 107-129 154-176 (412)
65 PF12123 Amidase02_C: N-acetyl 28.8 68 0.0015 20.5 2.6 18 110-127 28-45 (45)
66 KOG0097 GTPase Rab14, small G 28.7 41 0.0009 27.2 1.9 42 85-126 99-151 (215)
67 COG0216 PrfA Protein chain rel 28.7 44 0.00096 29.9 2.3 18 115-132 139-156 (363)
68 PF10566 Glyco_hydro_97: Glyco 28.6 53 0.0011 27.9 2.7 25 105-129 28-52 (273)
69 PF01329 Pterin_4a: Pterin 4 a 28.4 53 0.0012 23.0 2.3 31 86-120 15-46 (95)
70 cd03421 SirA_like_N SirA_like_ 28.3 61 0.0013 20.8 2.4 21 110-130 37-57 (67)
71 cd06576 PASTA_Pbp2x-like_1 PAS 28.0 94 0.002 18.1 3.1 22 109-130 8-29 (55)
72 PF03795 YCII: YCII-related do 27.9 41 0.00089 22.6 1.6 17 104-120 61-77 (95)
73 PTZ00056 glutathione peroxidas 27.9 56 0.0012 25.7 2.6 21 108-128 88-108 (199)
74 PF11823 DUF3343: Protein of u 27.7 88 0.0019 20.6 3.2 24 105-128 44-69 (73)
75 TIGR03798 ocin_TIGR03798 bacte 27.6 28 0.00061 22.8 0.7 22 107-128 23-44 (64)
76 PF13911 AhpC-TSA_2: AhpC/TSA 27.4 39 0.00085 23.5 1.5 29 105-133 18-46 (115)
77 PRK00910 ribB 3,4-dihydroxy-2- 27.0 52 0.0011 27.3 2.3 19 108-126 183-201 (218)
78 PF00926 DHBP_synthase: 3,4-di 26.9 57 0.0012 26.4 2.5 19 108-126 167-185 (194)
79 PRK12454 carbamate kinase-like 26.7 55 0.0012 28.4 2.5 22 107-128 134-155 (313)
80 PRK00014 ribB 3,4-dihydroxy-2- 26.1 55 0.0012 27.4 2.3 18 108-125 187-204 (230)
81 PF02177 APP_N: Amyloid A4 N-t 25.9 56 0.0012 24.3 2.1 23 105-127 31-53 (102)
82 PF12745 HGTP_anticodon2: Anti 25.8 75 0.0016 26.8 3.1 23 109-131 44-66 (273)
83 cd01206 Homer Homer type EVH1 25.7 74 0.0016 24.0 2.7 23 96-120 79-102 (111)
84 cd03017 PRX_BCP Peroxiredoxin 25.4 77 0.0017 22.1 2.7 26 105-130 62-87 (140)
85 PF09691 PulS_OutS: Bacterial 25.0 47 0.001 24.7 1.5 14 112-125 53-66 (109)
86 cd04438 DEP_dishevelled DEP (D 24.7 85 0.0018 22.0 2.7 24 108-131 46-72 (84)
87 PF08759 DUF1792: Domain of un 24.6 40 0.00086 28.2 1.2 26 40-65 125-153 (225)
88 KOG0098 GTPase Rab2, small G p 24.3 58 0.0013 27.2 2.1 103 21-126 21-146 (216)
89 PF14542 Acetyltransf_CG: GCN5 24.1 69 0.0015 21.6 2.1 17 111-127 44-60 (78)
90 PF00764 Arginosuc_synth: Argi 23.9 42 0.00091 30.0 1.3 18 111-128 147-164 (388)
91 KOG0081 GTPase Rab27, small G 23.6 60 0.0013 26.8 2.0 21 107-127 140-160 (219)
92 KOG2741 Dimeric dihydrodiol de 23.3 57 0.0012 29.1 2.0 20 105-124 37-56 (351)
93 cd04235 AAK_CK AAK_CK: Carbama 23.3 90 0.002 26.9 3.2 23 107-129 130-152 (308)
94 cd03012 TlpA_like_DipZ_like Tl 23.0 67 0.0015 22.5 2.0 22 109-130 71-92 (126)
95 KOG0369 Pyruvate carboxylase [ 22.8 77 0.0017 31.5 2.9 22 108-129 170-191 (1176)
96 COG2154 Pterin-4a-carbinolamin 22.6 90 0.002 23.0 2.6 32 85-120 15-48 (101)
97 COG5079 SAC3 Nuclear protein e 22.5 47 0.001 31.6 1.3 25 105-129 356-380 (646)
98 KOG1769 Ubiquitin-like protein 22.4 47 0.001 24.6 1.1 12 115-126 48-59 (99)
99 smart00481 POLIIIAc DNA polyme 22.3 1.2E+02 0.0027 19.1 3.0 24 109-132 15-38 (67)
100 PRK06746 peptide chain release 22.1 65 0.0014 28.2 2.1 16 115-130 113-128 (326)
101 cd07202 cPLA2_Grp-IVC Group IV 22.0 44 0.00096 30.4 1.1 23 108-130 321-343 (430)
102 PF07476 MAAL_C: Methylasparta 21.8 72 0.0016 27.2 2.2 18 110-127 177-194 (248)
103 PRK00923 sirohydrochlorin coba 21.7 1.2E+02 0.0026 21.6 3.1 25 106-130 43-67 (126)
104 TIGR02540 gpx7 putative glutat 21.6 68 0.0015 23.4 1.8 21 108-128 71-92 (153)
105 TIGR01004 PulS_OutS lipoprotei 21.5 62 0.0013 25.0 1.6 13 113-125 70-82 (128)
106 PRK13010 purU formyltetrahydro 21.4 1.3E+02 0.0028 25.6 3.7 27 105-131 124-150 (289)
107 PF10686 DUF2493: Protein of u 21.4 1E+02 0.0022 20.8 2.6 19 113-131 48-66 (71)
108 PRK13820 argininosuccinate syn 21.4 70 0.0015 28.5 2.2 19 110-128 148-166 (394)
109 PF04895 DUF651: Archaeal prot 21.2 66 0.0014 24.0 1.7 17 105-121 67-83 (110)
110 PRK00509 argininosuccinate syn 21.2 67 0.0015 28.7 2.0 21 107-127 148-168 (399)
111 cd07419 MPP_Bsu1_C Arabidopsis 21.1 1.8E+02 0.0038 24.7 4.5 23 107-129 238-260 (311)
112 cd07417 MPP_PP5_C PP5, C-termi 21.0 2E+02 0.0043 24.7 4.8 24 105-129 228-251 (316)
113 PRK12686 carbamate kinase; Rev 20.9 71 0.0015 27.6 2.1 22 107-128 132-153 (312)
114 cd03593 CLECT_NK_receptors_lik 20.7 70 0.0015 21.6 1.7 19 109-127 20-38 (116)
115 PF01910 DUF77: Domain of unkn 20.5 87 0.0019 22.1 2.1 19 111-129 19-37 (92)
116 PF14555 UBA_4: UBA-like domai 20.3 99 0.0022 18.5 2.1 17 110-126 14-30 (43)
117 KOG1457 RNA binding protein (c 20.3 53 0.0011 28.2 1.1 68 40-132 37-109 (284)
118 PF00331 Glyco_hydro_10: Glyco 20.3 66 0.0014 27.2 1.7 22 105-126 55-76 (320)
119 cd00488 PCD_DCoH PCD_DCoH: The 20.2 1.3E+02 0.0028 20.1 2.8 16 105-120 13-28 (75)
120 PLN02626 malate synthase 20.1 44 0.00095 31.4 0.7 47 41-90 80-133 (551)
121 cd00860 ThrRS_anticodon ThrRS 20.1 1.4E+02 0.0031 19.2 3.0 23 108-130 37-59 (91)
122 cd06575 PASTA_Pbp2x-like_2 PAS 20.1 1.5E+02 0.0033 16.9 2.9 21 109-129 8-28 (54)
No 1
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=100.00 E-value=1.4e-48 Score=304.08 Aligned_cols=115 Identities=60% Similarity=1.063 Sum_probs=108.5
Q ss_pred ccccccccc-ccc--ccccccccccCCCcccc-cceEEEecCCCCCCCCCCCCCCCcEEEccCCCCccCCCcCccCCCCc
Q 032608 22 FSRAFSADA-LVE--VKPGEIGMVSGIPEEHL-RRRVVIYTPARTATQQGSGKLGRWKINFMSTQKWENPLMGWTSTGDP 97 (137)
Q Consensus 22 ~~r~fs~d~-~~~--~~~~e~~~vSG~P~e~~-~R~vrIY~Pak~amQSG~~~~~~W~LeFe~~~rw~nPLMGWtsS~D~ 97 (137)
+.|.|+.|+ .|+ .+-+|||-|+|+|+||+ .|+||||.|+|++||||.+|+++|+|||+...+||||||||+|++||
T Consensus 42 la~~~~~Dak~ve~d~kld~i~~v~GvPeeH~~sRkvrIf~PAR~~tQSg~gntkkWkiefd~r~rWENPLMGWtsTaDP 121 (178)
T KOG3389|consen 42 LARPFATDAKVVESDYKLDEIGKVSGVPEEHLDSRKVRIFSPARTATQSGSGNTKKWKIEFDSRLRWENPLMGWTSTADP 121 (178)
T ss_pred ccccccccceeEeehhhhcccccccCCChHHhcceeEEEecchhhhhhcccCCccceEEEecchhhccCccccccccCCc
Confidence 578999998 444 56678999999999999 69999999999999999999999999999999999999999999999
Q ss_pred cCccCCceeeeCCHHHHHHHHHHcCCcEEEeCCCCCCCCC
Q 032608 98 YANVGDAGLSFDSKEAAREFAERHGWEYVVRKPHRPLLKV 137 (137)
Q Consensus 98 ~sqv~~~~L~F~SkE~AIayaek~Gw~Y~V~~P~~~~~~~ 137 (137)
++|| |+.|.|+|+|||++|||||||+|.|++|+++++||
T Consensus 122 lsNv-gm~L~F~tkEdA~sFaEkngW~ydveep~~pk~K~ 160 (178)
T KOG3389|consen 122 LSNV-GMALAFDTKEDAKSFAEKNGWDYDVEEPNTPKLKV 160 (178)
T ss_pred cccc-ceeeeeccHHHHHHHHHHcCCcccccCCCCCcccc
Confidence 9999 58999999999999999999999999999999875
No 2
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=100.00 E-value=1.1e-44 Score=264.81 Aligned_cols=83 Identities=47% Similarity=0.963 Sum_probs=60.8
Q ss_pred ceEEEecCCCCCCCCCCCCCCCcEEEccCCCCccCCCcCccCCCCccCc-cCCceeeeCCHHHHHHHHHHcCCcEEEeCC
Q 032608 52 RRVVIYTPARTATQQGSGKLGRWKINFMSTQKWENPLMGWTSTGDPYAN-VGDAGLSFDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 52 R~vrIY~Pak~amQSG~~~~~~W~LeFe~~~rw~nPLMGWtsS~D~~sq-v~~~~L~F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
|+||||+|+|+|||||.+++++|+|||+..++|+|||||||||+||++| | +|+|+|+||||+|||+|||+|+|++|
T Consensus 1 r~arIy~pak~amQSG~~~t~~W~lefe~~~~~~~PLMGWtss~D~~~q~v---~l~F~skE~Ai~yaer~G~~Y~V~~p 77 (101)
T PF04800_consen 1 RKARIYQPAKNAMQSGTANTKKWVLEFETRARWENPLMGWTSSGDPLSQSV---RLKFDSKEDAIAYAERNGWDYEVEEP 77 (101)
T ss_dssp -EEEEE--SS--STTTT-SS--EEEEEEESSS---TTT-SSSS--SEEE-C---EEEESSHHHHHHHHHHCT-EEEEE-S
T ss_pred CeEEEeCCCCCCCCCCCCCCCCEEEeecCcCCcCCCccCCCCCCChhhCee---EeeeCCHHHHHHHHHHcCCeEEEeCC
Confidence 6899999999999999999999999999889999999999999999998 8 99999999999999999999999999
Q ss_pred CCCCCCC
Q 032608 131 HRPLLKV 137 (137)
Q Consensus 131 ~~~~~~~ 137 (137)
+.+++++
T Consensus 78 ~~r~~~~ 84 (101)
T PF04800_consen 78 KKRKRRP 84 (101)
T ss_dssp TT-----
T ss_pred CCCcCCc
Confidence 9988754
No 3
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=86.41 E-value=0.53 Score=30.66 Aligned_cols=25 Identities=32% Similarity=0.452 Sum_probs=18.0
Q ss_pred eeeeCCHHHHHHHHHH----c-CCcEEEeC
Q 032608 105 GLSFDSKEAAREFAER----H-GWEYVVRK 129 (137)
Q Consensus 105 ~L~F~SkE~AIayaek----~-Gw~Y~V~~ 129 (137)
...|+|+++||++|++ + +-+..|..
T Consensus 22 ~~~~~Tk~eAi~~Ar~~a~~~~~~el~Ih~ 51 (62)
T PF09954_consen 22 SKTFDTKAEAIEAARELAKNQGGGELIIHG 51 (62)
T ss_pred ccccCcHHHHHHHHHHHHHhCCCcEEEEEC
Confidence 5689999999998764 3 55555544
No 4
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=80.60 E-value=1.1 Score=30.28 Aligned_cols=16 Identities=31% Similarity=0.717 Sum_probs=11.0
Q ss_pred HHHHHHHHHcCCcEEE
Q 032608 112 EAAREFAERHGWEYVV 127 (137)
Q Consensus 112 E~AIayaek~Gw~Y~V 127 (137)
++-++|||++||-...
T Consensus 30 ~eV~~YC~~~GWIip~ 45 (57)
T PF08727_consen 30 PEVREYCEEQGWIIPA 45 (57)
T ss_dssp HHHHHHHHHHT--TT-
T ss_pred HHHHHHHHHCCccccC
Confidence 5689999999996554
No 5
>PHA02552 4 head completion protein; Provisional
Probab=80.32 E-value=1.6 Score=34.26 Aligned_cols=70 Identities=19% Similarity=0.291 Sum_probs=42.9
Q ss_pred ceEEEecCCCCC-CCCCCCCCCCcEEEccCCCCccCCCcCccCCCCccCccCCceeee-----------CCHHHHHHHHH
Q 032608 52 RRVVIYTPARTA-TQQGSGKLGRWKINFMSTQKWENPLMGWTSTGDPYANVGDAGLSF-----------DSKEAAREFAE 119 (137)
Q Consensus 52 R~vrIY~Pak~a-mQSG~~~~~~W~LeFe~~~rw~nPLMGWtsS~D~~sqv~~~~L~F-----------~SkE~AIayae 119 (137)
-++|.|-|+=-+ +.+| ....+|.-+..+..+|.+- ..-|+.+ ...| +--++|.+||+
T Consensus 60 Gk~r~Y~PDFLV~~~dG----~~~lvEVKp~~~~~~p~~~--~~~~~~~-----~~~~~~~~~~w~~~~~K~~Aa~~~a~ 128 (151)
T PHA02552 60 GKRRRYFMDFYVKVDNG----QKFLIEVKPKKETQPPKKP--AKMTTAA-----KKRFINEVYTWSVNTDKWKAARALCE 128 (151)
T ss_pred CCeeeEcCcEEEEEeCC----CEEEEEEccHHHccCcccc--cccchhh-----hhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 567788887433 2233 4778888887776666442 1111110 1122 12378999999
Q ss_pred HcCCcEEEeCCCC
Q 032608 120 RHGWEYVVRKPHR 132 (137)
Q Consensus 120 k~Gw~Y~V~~P~~ 132 (137)
++||.|.|.....
T Consensus 129 ~~Gw~F~iiTE~~ 141 (151)
T PHA02552 129 KKGWKFKIITEDE 141 (151)
T ss_pred HcCCEEEEEEHHH
Confidence 9999999976543
No 6
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=78.36 E-value=2.9 Score=31.75 Aligned_cols=50 Identities=28% Similarity=0.595 Sum_probs=27.4
Q ss_pred CCcEEEccCCCCccCCCc-CccCC--------CCccCccCCceeeeCCHHHHHHHHHHcC
Q 032608 72 GRWKINFMSTQKWENPLM-GWTST--------GDPYANVGDAGLSFDSKEAAREFAERHG 122 (137)
Q Consensus 72 ~~W~LeFe~~~rw~nPLM-GWtsS--------~D~~sqv~~~~L~F~SkE~AIayaek~G 122 (137)
..|+-||.. ..|.+|-- -|... +|-.+-.+...+-|.++|+|.+|+++||
T Consensus 77 ~~~V~D~~~-~~~~~p~~~~~Ida~~A~yV~gs~~~~pMg~~~~aF~~~~~A~~F~~~~G 135 (149)
T PF05573_consen 77 AIYVTDYST-TDWDQPGDGEWIDAKKAYYVVGSDVRGPMGPDLIAFASKEDAEAFAKEHG 135 (149)
T ss_dssp EEEEEES-T-S-TT-S---EEEEGGGSEEEEESSSS-TTS--EEEES-HHHHHHHHHHTE
T ss_pred EEEEEeccc-ccccCCCCCceEEcceEEEEECCCcCCCCCCcccccCCHHHHHHHHHHcC
Confidence 568888877 45555542 33332 1211112223678999999999999998
No 7
>PRK05370 argininosuccinate synthase; Validated
Probab=75.58 E-value=2 Score=39.09 Aligned_cols=23 Identities=22% Similarity=0.479 Sum_probs=20.1
Q ss_pred eeeCCHHHHHHHHHHcCCcEEEe
Q 032608 106 LSFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 106 L~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
-.|.|+++.|+||++||++..+.
T Consensus 164 ~~f~sR~e~i~Ya~~hGIpv~~~ 186 (447)
T PRK05370 164 DELGGRAEMSEFLIAHGFDYKMS 186 (447)
T ss_pred cccCCHHHHHHHHHHcCCCCCcc
Confidence 36899999999999999997653
No 8
>PF08722 Tn7_Tnp_TnsA_N: TnsA endonuclease N terminal; InterPro: IPR014833 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The N-terminal domain of TnsA is catalytic. ; PDB: 1F1Z_B 1T0F_B.
Probab=70.07 E-value=4.7 Score=27.52 Aligned_cols=19 Identities=26% Similarity=0.427 Sum_probs=13.6
Q ss_pred HHHHHHHHHHcCCcEEEeC
Q 032608 111 KEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 111 kE~AIayaek~Gw~Y~V~~ 129 (137)
.+.|-.||+++||+|.|..
T Consensus 69 ~~~~~~y~~~~g~~f~ivT 87 (88)
T PF08722_consen 69 LEIEREYWEEQGIPFRIVT 87 (88)
T ss_dssp HHHHHHHHHHCT--EEEE-
T ss_pred HHHHHHHHHHcCCeEEEEc
Confidence 3568899999999999863
No 9
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=68.23 E-value=8 Score=27.51 Aligned_cols=25 Identities=28% Similarity=0.441 Sum_probs=19.9
Q ss_pred eeCCHHHHHHHHHHcCCcEEEeCCC
Q 032608 107 SFDSKEAAREFAERHGWEYVVRKPH 131 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~~P~ 131 (137)
.-=..++-+.||+++|+.|+|..+.
T Consensus 53 e~id~~~i~~fC~~~gy~~~iv~~g 77 (86)
T PF11360_consen 53 EEIDPEEIEEFCRSAGYEYEIVPPG 77 (86)
T ss_pred EEECHHHHHHHHHHCCceEEEECCC
Confidence 3445666778899999999999887
No 10
>PF03462 PCRF: PCRF domain; InterPro: IPR005139 This domain is found in peptide chain release factors. Peptide chain release factors are important for protein synthesis since they direct the termination of translation in response to the peptide chain termination codons UAG and UAA. These are structurally distinct but both contain the PCRF domain [].; GO: 0016149 translation release factor activity, codon specific, 0006415 translational termination, 0005737 cytoplasm; PDB: 3D5A_X 3D5C_X 3MR8_V 3MS0_V 3F1G_X 3F1E_X 1ZBT_A 2IHR_1 2X9R_Y 2X9T_Y ....
Probab=62.84 E-value=5.5 Score=29.13 Aligned_cols=15 Identities=40% Similarity=0.866 Sum_probs=12.3
Q ss_pred HHHHHHcCCcEEEeC
Q 032608 115 REFAERHGWEYVVRK 129 (137)
Q Consensus 115 Iayaek~Gw~Y~V~~ 129 (137)
..||+++||+|+|..
T Consensus 73 ~~~a~~~gw~~~~l~ 87 (115)
T PF03462_consen 73 QRYAERRGWKVEVLD 87 (115)
T ss_dssp HHHHHHTT-EEEEEE
T ss_pred HHHHHHcCCEEEEEe
Confidence 489999999999975
No 11
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=59.22 E-value=8.5 Score=27.38 Aligned_cols=19 Identities=32% Similarity=0.482 Sum_probs=16.3
Q ss_pred CccCCceeeeCCHHHHHHHHHH
Q 032608 99 ANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 99 sqv~~~~L~F~SkE~AIayaek 120 (137)
.++ .|-|.+.+||..||.-
T Consensus 23 ~~~---Vl~FE~edDA~RYa~l 41 (86)
T PF11360_consen 23 RNV---VLMFEDEDDAERYAGL 41 (86)
T ss_pred CCE---EEEEccHHHHHHHHHH
Confidence 555 8999999999999964
No 12
>PF08803 ydhR: Putative mono-oxygenase ydhR; InterPro: IPR014910 YdhR is a homodimeric protein that comprises of a central four-stranded beta sheet and four surrounding alpha helices []. It shows structural homology to the ActVA-Orf6 and YgiN proteins which indicates it could be a mono-oxygenase. ; PDB: 1WD6_B 2HIQ_B 2ASY_B.
Probab=56.98 E-value=7.4 Score=28.62 Aligned_cols=29 Identities=24% Similarity=0.492 Sum_probs=22.9
Q ss_pred ccCCCCccCccCCceeeeCCHHHHHHHHHHc
Q 032608 91 WTSTGDPYANVGDAGLSFDSKEAAREFAERH 121 (137)
Q Consensus 91 WtsS~D~~sqv~~~~L~F~SkE~AIayaek~ 121 (137)
||.+.++.. .+| ..-|+|+++|.+|+++|
T Consensus 38 Wten~~t~e-aGG-iYLFe~e~~A~aY~~~h 66 (97)
T PF08803_consen 38 WTENEETGE-AGG-IYLFEDEASAEAYLEMH 66 (97)
T ss_dssp EEEETTTTE-EEE-EEEESSHHHHHHHHHHH
T ss_pred EEecCCCCc-cce-EEEECCHHHHHHHHHHH
Confidence 888777753 333 57799999999999987
No 13
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=56.11 E-value=11 Score=24.51 Aligned_cols=14 Identities=36% Similarity=0.432 Sum_probs=12.8
Q ss_pred eeeeCCHHHHHHHH
Q 032608 105 GLSFDSKEAAREFA 118 (137)
Q Consensus 105 ~L~F~SkE~AIaya 118 (137)
.+.|+|.++|.+|-
T Consensus 43 iieFPs~~aa~~~~ 56 (65)
T PF07045_consen 43 IIEFPSMEAAKAWY 56 (65)
T ss_dssp EEEESSHHHHHHHH
T ss_pred EEECCCHHHHHHHH
Confidence 89999999999874
No 14
>PF06194 Phage_Orf51: Phage Conserved Open Reading Frame 51; InterPro: IPR009338 This entry is represented by the Staphylococcus phage PVL (bacteriophage phi-PVL), Orf51. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=54.91 E-value=10 Score=27.11 Aligned_cols=23 Identities=17% Similarity=0.354 Sum_probs=21.4
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEE
Q 032608 105 GLSFDSKEAAREFAERHGWEYVV 127 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V 127 (137)
...|+|+++=..|-+.+|+.||=
T Consensus 51 KktFn~~~Ef~~Yi~~~~L~~ee 73 (80)
T PF06194_consen 51 KKTFNNKEEFENYIKQHELYFEE 73 (80)
T ss_pred hhhcCcHHHHHHHHHHcCCceeh
Confidence 88999999999999999999874
No 15
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=54.88 E-value=10 Score=33.51 Aligned_cols=21 Identities=38% Similarity=0.833 Sum_probs=19.3
Q ss_pred eeeeCCHHHHHHHHHHcCCcE
Q 032608 105 GLSFDSKEAAREFAERHGWEY 125 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y 125 (137)
-+-|.+.+||.+||+-+||+-
T Consensus 216 DiifgNe~EA~af~~~~~~~t 236 (343)
T KOG2854|consen 216 DIIFGNEDEAAAFARAHGWET 236 (343)
T ss_pred eEEEcCHHHHHHHHHhhCCcc
Confidence 678999999999999999974
No 16
>PRK04527 argininosuccinate synthase; Provisional
Probab=54.55 E-value=8.6 Score=34.36 Aligned_cols=22 Identities=9% Similarity=0.317 Sum_probs=18.7
Q ss_pred eeCCHHHHHHHHHHcCCcEEEe
Q 032608 107 SFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
+++++++.|+||++||++..+.
T Consensus 150 k~~~R~~~i~ya~~~gipv~~~ 171 (400)
T PRK04527 150 HTQTRAYEQKYLEERGFGVRAK 171 (400)
T ss_pred ccccHHHHHHHHHHcCCCCCCC
Confidence 4579999999999999987653
No 17
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=54.45 E-value=7.1 Score=28.85 Aligned_cols=20 Identities=25% Similarity=0.611 Sum_probs=15.2
Q ss_pred eeeCCHHHHHHHHHHcCCcEE
Q 032608 106 LSFDSKEAAREFAERHGWEYV 126 (137)
Q Consensus 106 L~F~SkE~AIayaek~Gw~Y~ 126 (137)
|.|+ .+++++||+++||.++
T Consensus 107 Lg~~-~~el~~~~~~~gW~~d 126 (143)
T PF10075_consen 107 LGLS-EEELEKFIKSRGWTVD 126 (143)
T ss_dssp TTS--HHHHHHHHHHHT-EE-
T ss_pred hCCC-HHHHHHHHHHcCCEEC
Confidence 5566 8999999999999986
No 18
>PF13031 DUF3892: Protein of unknown function (DUF3892)
Probab=54.13 E-value=12 Score=25.77 Aligned_cols=23 Identities=26% Similarity=0.338 Sum_probs=19.8
Q ss_pred eeeCCHHHHHHHHHHcCCcEEEe
Q 032608 106 LSFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 106 L~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
+-.-|+++||+++|+..|.|.|.
T Consensus 28 ~~~~s~~~~i~~ie~g~~~~yv~ 50 (85)
T PF13031_consen 28 PWKYSREEAIAWIENGKWSFYVE 50 (85)
T ss_pred cccccHHHHHHHHHcCCceEEeC
Confidence 34558999999999998999988
No 19
>KOG4748 consensus Subunit of Golgi mannosyltransferase complex [Carbohydrate transport and metabolism; Cell wall/membrane/envelope biogenesis]
Probab=51.21 E-value=11 Score=33.64 Aligned_cols=23 Identities=26% Similarity=0.537 Sum_probs=19.3
Q ss_pred CHHHHHHHHHHcCCcEEEeCCCC
Q 032608 110 SKEAAREFAERHGWEYVVRKPHR 132 (137)
Q Consensus 110 SkE~AIayaek~Gw~Y~V~~P~~ 132 (137)
+-+.=|+||++||+++++..-..
T Consensus 127 ~ikNridYA~rHgy~~~~~~~~~ 149 (364)
T KOG4748|consen 127 SIKNRIDYARRHGYEFEYKNATL 149 (364)
T ss_pred HHHhHHHHHHHhCCeEEEEeccc
Confidence 77788999999999999876543
No 20
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=50.78 E-value=17 Score=29.33 Aligned_cols=25 Identities=40% Similarity=0.539 Sum_probs=21.2
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.-.|.+.++|++|.++++..+.|..
T Consensus 20 ~~~f~~~~~A~~~l~~~~~p~~ViK 44 (194)
T PF01071_consen 20 YKVFTDYEEALEYLEEQGYPYVVIK 44 (194)
T ss_dssp EEEESSHHHHHHHHHHHSSSEEEEE
T ss_pred eeEECCHHHHHHHHHhcCCCceEEc
Confidence 3579999999999999999994443
No 21
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=49.79 E-value=20 Score=23.20 Aligned_cols=29 Identities=41% Similarity=0.757 Sum_probs=23.4
Q ss_pred eeeeCCHHHH----HHHHHHcCCcEEEeCCCCC
Q 032608 105 GLSFDSKEAA----REFAERHGWEYVVRKPHRP 133 (137)
Q Consensus 105 ~L~F~SkE~A----Iayaek~Gw~Y~V~~P~~~ 133 (137)
.+.|+|+++. ..||-+++.+|.|..-...
T Consensus 7 G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~~ 39 (67)
T PF03108_consen 7 GQTFPSKEEFKEAVREYAIKNGFEFKVKKSDKK 39 (67)
T ss_pred CCEECCHHHHHHHHHHHHHhcCcEEEEeccCCE
Confidence 6899999876 4699999999999765543
No 22
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=49.25 E-value=11 Score=31.54 Aligned_cols=14 Identities=43% Similarity=0.582 Sum_probs=12.9
Q ss_pred eeCCHHHHHHHHHH
Q 032608 107 SFDSKEAAREFAER 120 (137)
Q Consensus 107 ~F~SkE~AIayaek 120 (137)
+|+|.|+|.+||+-
T Consensus 39 sf~s~EeA~a~~~g 52 (225)
T COG3341 39 SFKSYEEAEAYCEG 52 (225)
T ss_pred ccccHHHHHHHhcc
Confidence 59999999999994
No 23
>PF12518 DUF3721: Protein of unknown function; InterPro: IPR022196 This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length. There is a conserved WMPC sequence motif. There are two completely conserved residues (A and C) that may be functionally important.
Probab=48.89 E-value=16 Score=22.22 Aligned_cols=16 Identities=25% Similarity=0.368 Sum_probs=14.1
Q ss_pred eCCHHHHHHHHHHcCC
Q 032608 108 FDSKEAAREFAERHGW 123 (137)
Q Consensus 108 F~SkE~AIayaek~Gw 123 (137)
|+|+++|.+=|.+.|-
T Consensus 1 y~tk~eAe~~A~~~GC 16 (34)
T PF12518_consen 1 YPTKAEAEKRAKELGC 16 (34)
T ss_pred CCcHHHHHHHHHHcCC
Confidence 8999999999998774
No 24
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=47.26 E-value=9.7 Score=23.52 Aligned_cols=21 Identities=14% Similarity=0.374 Sum_probs=18.0
Q ss_pred eCCHHHHHHHHHHcCCcEEEe
Q 032608 108 FDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~V~ 128 (137)
..+.|+-|++|+.+|+.+...
T Consensus 26 ~~~~~e~~~lA~~~Gy~ft~~ 46 (49)
T PF07862_consen 26 CQNPEEVVALAREAGYDFTEE 46 (49)
T ss_pred cCCHHHHHHHHHHcCCCCCHH
Confidence 459999999999999998643
No 25
>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []. This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.
Probab=46.38 E-value=21 Score=21.80 Aligned_cols=13 Identities=46% Similarity=0.636 Sum_probs=11.7
Q ss_pred eeeeCCHHHHHHH
Q 032608 105 GLSFDSKEAAREF 117 (137)
Q Consensus 105 ~L~F~SkE~AIay 117 (137)
..+|+|+|+|.+|
T Consensus 32 ~k~F~t~~eA~~~ 44 (44)
T PF01693_consen 32 YKSFKTREEAEEF 44 (44)
T ss_dssp EEEESSHHHHHHH
T ss_pred ECCcCCHHHHhhC
Confidence 6789999999987
No 26
>PRK11118 putative monooxygenase; Provisional
Probab=45.39 E-value=28 Score=25.90 Aligned_cols=29 Identities=24% Similarity=0.497 Sum_probs=22.6
Q ss_pred ccCCCCccCccCCceeeeCCHHHHHHHHHHc
Q 032608 91 WTSTGDPYANVGDAGLSFDSKEAAREFAERH 121 (137)
Q Consensus 91 WtsS~D~~sqv~~~~L~F~SkE~AIayaek~ 121 (137)
||.+.++.. .+ -..-|+++++|-+|.++|
T Consensus 41 WTen~~t~e-aG-GiYlF~~e~~a~aYl~mH 69 (100)
T PRK11118 41 WTENEKTQE-AG-GIYLFEDEASAEAYLEMH 69 (100)
T ss_pred eecCCCCcc-cc-eEEEECCHHHHHHHHHHH
Confidence 777777753 23 367899999999999876
No 27
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=44.45 E-value=18 Score=29.90 Aligned_cols=17 Identities=35% Similarity=0.464 Sum_probs=15.7
Q ss_pred CCHHHHHHHHHHcCCcE
Q 032608 109 DSKEAAREFAERHGWEY 125 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y 125 (137)
-++++|++||++||+++
T Consensus 191 ~~~~~~~~fA~~~~l~~ 207 (219)
T PRK05773 191 LSKEKAKKIAKNLGFPL 207 (219)
T ss_pred cCHHHHHHHHHHcCCcE
Confidence 37999999999999998
No 28
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=44.33 E-value=18 Score=29.90 Aligned_cols=18 Identities=28% Similarity=0.447 Sum_probs=15.8
Q ss_pred CCHHHHHHHHHHcCCcEE
Q 032608 109 DSKEAAREFAERHGWEYV 126 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~ 126 (137)
..++++++||++||+++.
T Consensus 172 ar~~~~~~fa~~h~l~~i 189 (203)
T COG0108 172 ARLPELEEFAKEHGLPVI 189 (203)
T ss_pred cChHHHHHHHHHcCCcEE
Confidence 467999999999999875
No 29
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=43.17 E-value=24 Score=25.75 Aligned_cols=28 Identities=21% Similarity=0.361 Sum_probs=22.5
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeCCCC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRKPHR 132 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~P~~ 132 (137)
.+...+.++-++||+++++++.|.-|..
T Consensus 45 ~~~~~d~~~l~~~a~~~~idlvvvGPE~ 72 (100)
T PF02844_consen 45 PIDITDPEELADFAKENKIDLVVVGPEA 72 (100)
T ss_dssp -S-TT-HHHHHHHHHHTTESEEEESSHH
T ss_pred CCCCCCHHHHHHHHHHcCCCEEEECChH
Confidence 4467889999999999999999998854
No 30
>PLN00139 hypothetical protein; Provisional
Probab=42.53 E-value=22 Score=30.42 Aligned_cols=26 Identities=15% Similarity=0.054 Sum_probs=21.4
Q ss_pred eeeCCHHHHHHHHHHcCCcEEEeCCC
Q 032608 106 LSFDSKEAAREFAERHGWEYVVRKPH 131 (137)
Q Consensus 106 L~F~SkE~AIayaek~Gw~Y~V~~P~ 131 (137)
..-++++++.+||.++|++|+-.+..
T Consensus 195 F~t~d~~eve~~~~~~g~~~eW~~dg 220 (320)
T PLN00139 195 FGTSDKAEAERRAKALGMDMEWLPNG 220 (320)
T ss_pred hCCCCHHHHHHHHHHcCCeEEEcCCC
Confidence 34578999999999999999976543
No 31
>PRK12354 carbamate kinase; Reviewed
Probab=41.50 E-value=21 Score=30.87 Aligned_cols=22 Identities=18% Similarity=0.368 Sum_probs=19.7
Q ss_pred eeCCHHHHHHHHHHcCCcEEEe
Q 032608 107 SFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
.|-|+|+|.+.++++||.+...
T Consensus 125 ~~y~~~~a~~~~~e~g~~~~~d 146 (307)
T PRK12354 125 PVYDEAEAERLAAEKGWTIKPD 146 (307)
T ss_pred cccCHHHHHHHHHhcCCEEeec
Confidence 5999999999999999977665
No 32
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=39.84 E-value=32 Score=21.57 Aligned_cols=22 Identities=18% Similarity=0.169 Sum_probs=17.5
Q ss_pred CCHHHHHHHHHHcCCcEEEeCC
Q 032608 109 DSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~P 130 (137)
-|.++|.+..+++||.+.+...
T Consensus 9 ~~~~~a~~~l~~~g~~~~~~~~ 30 (63)
T PF03793_consen 9 MTYDEAKSILEAAGLTVNVVEE 30 (63)
T ss_dssp SBHHHHHHHHHHTT-EEEEEEE
T ss_pred CcHHHHHHHHHHCCCEEEEEEE
Confidence 4789999999999998777653
No 33
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=39.33 E-value=23 Score=27.61 Aligned_cols=20 Identities=35% Similarity=0.444 Sum_probs=17.8
Q ss_pred HHHHHHHHHHcCCcEEEeCC
Q 032608 111 KEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 111 kE~AIayaek~Gw~Y~V~~P 130 (137)
++.|+++|+.||+.|...++
T Consensus 127 r~~a~eWleen~I~~~~~~~ 146 (163)
T PF03682_consen 127 RERAIEWLEENGIEPVFEED 146 (163)
T ss_pred HHHHHHHHHHcCCCcccccc
Confidence 67899999999999988775
No 34
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=38.77 E-value=23 Score=32.00 Aligned_cols=21 Identities=29% Similarity=0.466 Sum_probs=18.9
Q ss_pred eeCCHHHHHHHHHHcCCcEEEe
Q 032608 107 SFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
.|. +|+.|+||+++|+++.+.
T Consensus 151 ~~~-R~~~i~Ya~~~gipv~~~ 171 (403)
T COG0137 151 NLT-REEEIEYAEEHGIPVKAT 171 (403)
T ss_pred ccC-hHHHHHHHHHcCCCcccc
Confidence 456 999999999999999887
No 35
>PF05637 Glyco_transf_34: galactosyl transferase GMA12/MNN10 family; InterPro: IPR008630 This family contains a number of glycosyltransferase enzymes that contain a DXD motif. This family includes a number of Caenorhabditis elegans homologues where the DXD is replaced by DXH. Some members of this family are included in glycosyltransferase family 34.; GO: 0016758 transferase activity, transferring hexosyl groups, 0016021 integral to membrane; PDB: 2P72_B 2P73_A 2P6W_A.
Probab=38.56 E-value=20 Score=29.22 Aligned_cols=17 Identities=29% Similarity=0.706 Sum_probs=12.1
Q ss_pred HHHHHHHHHcCCcEEEe
Q 032608 112 EAAREFAERHGWEYVVR 128 (137)
Q Consensus 112 E~AIayaek~Gw~Y~V~ 128 (137)
+-=+.||++||++|.+.
T Consensus 31 ~Nr~~Ya~~HgY~~~~~ 47 (239)
T PF05637_consen 31 QNRVDYARRHGYDLYYR 47 (239)
T ss_dssp --HHHHHHHHT-EEEEE
T ss_pred HHHHHHHHhcCCEEEEE
Confidence 33468999999999984
No 36
>PF05406 WGR: WGR domain; InterPro: IPR008893 This domain is named after the most conserved central motif of the domain. It is found in a variety of polyA polymerases as well as the Escherichia coli molybdate metabolism regulator P33345 from SWISSPROT and other proteins of unknown function.The domain is found in isolation in proteins such as Q9JN21 from SWISSPROT and is between 70 and 80 residues in length. ; PDB: 2EOC_A 2RA8_A 4DQY_C 2CR9_A.
Probab=37.11 E-value=29 Score=23.39 Aligned_cols=45 Identities=20% Similarity=0.229 Sum_probs=25.4
Q ss_pred CCCcEEEccCCCCcc-CCCcCccCCCCccCccCCceeeeCCHHHHHHHHHH
Q 032608 71 LGRWKINFMSTQKWE-NPLMGWTSTGDPYANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 71 ~~~W~LeFe~~~rw~-nPLMGWtsS~D~~sqv~~~~L~F~SkE~AIayaek 120 (137)
.+.|.|+..+...|. --==|-.++. ...+ .-.|+|.|+|+++.++
T Consensus 19 ~kfY~iql~~~~~~~v~~~wGRiG~~-gq~~----~~~f~s~~eA~~~f~~ 64 (81)
T PF05406_consen 19 NKFYRIQLLPDLEWVVFRRWGRIGSK-GQTR----IKPFDSEEEAIKEFEK 64 (81)
T ss_dssp EEEEEEEEEEETTEEEEEEEEETTSS-EEEE----EEEESSHHHHHHHHHH
T ss_pred EEEEEEEEEeCCCeEEEEEECCCCCc-CcEE----EEeCCCHHHHHHHHHH
Confidence 456777776432110 0111334444 3333 4589999999998765
No 37
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=37.07 E-value=33 Score=24.57 Aligned_cols=29 Identities=24% Similarity=0.359 Sum_probs=20.7
Q ss_pred CCCcCccCCCCccCccCCceeeeCCHHHHHHHHHH
Q 032608 86 NPLMGWTSTGDPYANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 86 nPLMGWtsS~D~~sqv~~~~L~F~SkE~AIayaek 120 (137)
+-+.-|.+. ...+ .|.|.|.+||-.|+++
T Consensus 78 ~~Fh~f~~~---~~~~---GLnF~se~eA~~F~~~ 106 (111)
T PF00568_consen 78 PFFHQFEDD---DCVY---GLNFASEEEADQFYKK 106 (111)
T ss_dssp SSEEEEEET---TCEE---EEEESSHHHHHHHHHH
T ss_pred CcEEEEEeC---CeEE---EEecCCHHHHHHHHHH
Confidence 344555543 2255 8999999999999985
No 38
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=36.90 E-value=32 Score=25.42 Aligned_cols=21 Identities=43% Similarity=0.428 Sum_probs=16.9
Q ss_pred CCccCccCCceeeeCCHHHHHHHH
Q 032608 95 GDPYANVGDAGLSFDSKEAAREFA 118 (137)
Q Consensus 95 ~D~~sqv~~~~L~F~SkE~AIaya 118 (137)
.||-.+| .+.|+|+|.|.++=
T Consensus 50 w~ptr~v---viEFps~~~ar~~y 70 (96)
T COG5470 50 WRPTRNV---VIEFPSLEAARDCY 70 (96)
T ss_pred CCcccEE---EEEcCCHHHHHHHh
Confidence 4666677 89999999998763
No 39
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=36.00 E-value=31 Score=24.78 Aligned_cols=17 Identities=41% Similarity=0.780 Sum_probs=15.4
Q ss_pred eeeeCCHHHHHHHHHHc
Q 032608 105 GLSFDSKEAAREFAERH 121 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~ 121 (137)
-|.|.|.+||-+|.++.
T Consensus 86 GLnF~se~EA~~F~~~v 102 (106)
T smart00461 86 GLNFASEEEAKKFRKKV 102 (106)
T ss_pred EeecCCHHHHHHHHHHH
Confidence 79999999999998863
No 40
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=35.74 E-value=41 Score=20.91 Aligned_cols=18 Identities=28% Similarity=0.241 Sum_probs=16.6
Q ss_pred eeeeCCHHHHHHHHHHcC
Q 032608 105 GLSFDSKEAAREFAERHG 122 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~G 122 (137)
-+.|.|.|+|...++.++
T Consensus 43 ~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 43 FVEFSSEEDAKRALELLN 60 (70)
T ss_dssp EEEESSHHHHHHHHHHHT
T ss_pred EEEeCCHHHHHHHHHHCC
Confidence 789999999999999887
No 41
>PRK13864 type IV secretion system lytic transglycosylase VirB1; Provisional
Probab=35.74 E-value=51 Score=27.86 Aligned_cols=23 Identities=13% Similarity=0.130 Sum_probs=18.4
Q ss_pred eeeeCCHHHHHHHHHH---cCCcEEE
Q 032608 105 GLSFDSKEAAREFAER---HGWEYVV 127 (137)
Q Consensus 105 ~L~F~SkE~AIayaek---~Gw~Y~V 127 (137)
.|.|.++++||+.+++ .|..|.|
T Consensus 69 ~l~~qs~~EAi~~a~~l~~~g~s~Dv 94 (245)
T PRK13864 69 TLHWQNHAQATQSVRHRLEARHSLDV 94 (245)
T ss_pred ccCCCCHHHHHHHHHHHHhcCCceee
Confidence 5789999999998864 6777766
No 42
>PRK00823 phhB pterin-4-alpha-carbinolamine dehydratase; Validated
Probab=35.64 E-value=38 Score=23.92 Aligned_cols=34 Identities=32% Similarity=0.520 Sum_probs=24.4
Q ss_pred CCCcCccCCCCccCccCCceeeeCCHHHHHHHHHHc
Q 032608 86 NPLMGWTSTGDPYANVGDAGLSFDSKEAAREFAERH 121 (137)
Q Consensus 86 nPLMGWtsS~D~~sqv~~~~L~F~SkE~AIayaek~ 121 (137)
..|-||.-..|+.. + .-..+|++-.+|++|+.+-
T Consensus 16 ~~l~gW~~~~~~~~-l-~r~f~f~~f~~a~~f~~~V 49 (97)
T PRK00823 16 PQLPGWTLVGDRDA-I-ERTFKFKNFNEAFAFMNRV 49 (97)
T ss_pred hcCCCCeEeCCcCe-E-EEEEEeCCHHHHHHHHHHH
Confidence 45679998877531 1 1278899999999987653
No 43
>TIGR00746 arcC carbamate kinase. The seed alignment for this model includes experimentally confirmed examples from a set of phylogenetically distinct species. In a neighbor-joining tree constructed from an alignment of candidate carbamate kinases and several acetylglutamate kinases, the latter group forms a clear outgroup which roots the tree of carbamate kinase-like proteins. This analysis suggests that in E. coli, the ArcC paralog YqeA may be a second isozyme, while the paralog YahI branches as an outlier and is less likely to be an authentic carbamate kinase. The homolog from Mycoplasma pneumoniae likewise branches outside the set containing known carbamate kinases and also scores below the trusted cutoff.
Probab=35.26 E-value=35 Score=29.28 Aligned_cols=24 Identities=25% Similarity=0.458 Sum_probs=20.2
Q ss_pred eeCCHHHHHHHHHHcCCcEEEeCC
Q 032608 107 SFDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
.|-|+|+|.+.++++||.|.-+.+
T Consensus 131 ~~y~~~~a~~~~~~~~~~~~~d~~ 154 (310)
T TIGR00746 131 PFYTEEEAKRLAAEKGWIVKEDAG 154 (310)
T ss_pred CCcCHHHHHHHHHHcCCeEeecCC
Confidence 689999999999999997665444
No 44
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=34.96 E-value=29 Score=25.88 Aligned_cols=45 Identities=29% Similarity=0.363 Sum_probs=27.3
Q ss_pred CCCcEEEccCCC--Cc---cCCCcCccCCCCccCccCCceeeeCCHHHHHHHHHHc
Q 032608 71 LGRWKINFMSTQ--KW---ENPLMGWTSTGDPYANVGDAGLSFDSKEAAREFAERH 121 (137)
Q Consensus 71 ~~~W~LeFe~~~--rw---~nPLMGWtsS~D~~sqv~~~~L~F~SkE~AIayaek~ 121 (137)
.++.+||.+-.. .+ .-.+.=|.+. ..+. -|.|.|+|||-+|.+..
T Consensus 54 ~~~~v~e~~l~~~l~y~k~~p~Fh~w~~~---~~v~---GLnF~Se~eA~~F~~~v 103 (111)
T cd01207 54 DHQVVINCAIVKGLKYNQATPTFHQWRDA---RQVY---GLNFGSKEDATMFASAM 103 (111)
T ss_pred CCcEEEEEEecCCceeeecCCcceeeecC---CeEE---eeccCCHHHHHHHHHHH
Confidence 356677766421 11 1223334433 3455 89999999999998753
No 45
>smart00156 PP2Ac Protein phosphatase 2A homologues, catalytic domain. Large family of serine/threonine phosphatases, that includes PP1, PP2A and PP2B (calcineurin) family members.
Probab=34.32 E-value=67 Score=26.67 Aligned_cols=40 Identities=23% Similarity=0.568 Sum_probs=27.8
Q ss_pred CccCC---CcCccCCCCccCccCCceeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 83 KWENP---LMGWTSTGDPYANVGDAGLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 83 rw~nP---LMGWtsS~D~~sqv~~~~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
-|.|| .-||..| + . +....|. .+++.+|++++|+++.|.-
T Consensus 176 lWsDP~~~~~~~~~~--~-R---g~g~~fg-~~~~~~Fl~~n~l~~iiR~ 218 (271)
T smart00156 176 LWSDPDQPVDGFQPS--I-R---GASYYFG-PDAVDEFLKKNNLKLIIRA 218 (271)
T ss_pred eecCCCcccCCCccC--C-C---CCccccC-HHHHHHHHHHCCCeEEEec
Confidence 57777 3566544 2 1 2256775 6888899999999998864
No 46
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=34.01 E-value=31 Score=28.16 Aligned_cols=17 Identities=24% Similarity=0.190 Sum_probs=14.5
Q ss_pred HHHHHHcCCcEEEeCCC
Q 032608 115 REFAERHGWEYVVRKPH 131 (137)
Q Consensus 115 Iayaek~Gw~Y~V~~P~ 131 (137)
..||+++||+++|.+-.
T Consensus 27 ~~~a~~~g~~~~ii~~~ 43 (200)
T PRK08179 27 LKEAARQGVRVTVLETE 43 (200)
T ss_pred HHHHHHcCCeEEEEeCC
Confidence 57999999999997643
No 47
>cd00913 PCD_DCoH_subfamily_a PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein).
Probab=33.86 E-value=54 Score=22.08 Aligned_cols=29 Identities=24% Similarity=0.472 Sum_probs=20.9
Q ss_pred CccCCCCccCccCCceeeeCCHHHHHHHHHH
Q 032608 90 GWTSTGDPYANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 90 GWtsS~D~~sqv~~~~L~F~SkE~AIayaek 120 (137)
||.-..|+.. + ....+|++-.+|++|+.+
T Consensus 1 gW~~~~~~~~-l-~r~f~f~~f~~a~~f~~~ 29 (76)
T cd00913 1 GWELADDGLK-L-ERTFRFKNFVEALEFVNA 29 (76)
T ss_pred CCcCcCCCCe-E-EEEEEcCCHHHHHHHHHH
Confidence 7887776521 1 126789999999999765
No 48
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=33.76 E-value=42 Score=24.31 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=22.8
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeCC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
.+..++.+++.+|++++|+.|.+...
T Consensus 69 ~Is~d~~~~~~~~~~~~~~~~~~l~D 94 (154)
T PRK09437 69 GISTDKPEKLSRFAEKELLNFTLLSD 94 (154)
T ss_pred EEcCCCHHHHHHHHHHhCCCCeEEEC
Confidence 67889999999999999999987653
No 49
>PF02786 CPSase_L_D2: Carbamoyl-phosphate synthase L chain, ATP binding domain; InterPro: IPR005479 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the ATP-binding domain found in the large subunit of carbamoyl phosphate synthase, as well as in related proteins.; GO: 0003824 catalytic activity, 0005524 ATP binding, 0008152 metabolic process; PDB: 3U9S_A 3U9T_A 2C00_B 2VQD_A 1W96_B 1W93_A 1M6V_C 1CS0_C 1C30_E 1C3O_G ....
Probab=33.34 E-value=44 Score=26.76 Aligned_cols=21 Identities=38% Similarity=0.570 Sum_probs=17.8
Q ss_pred CCHHHHHHHHHHcCCcEEEeC
Q 032608 109 DSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.|.|+|++||++.|++.-|..
T Consensus 25 ~~~eea~~~a~~iGyPVliKa 45 (211)
T PF02786_consen 25 SSVEEALEFAEEIGYPVLIKA 45 (211)
T ss_dssp SSHHHHHHHHHHH-SSEEEEE
T ss_pred CCHHHHHHHHHhcCCceEEee
Confidence 689999999999999988754
No 50
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=33.00 E-value=40 Score=22.13 Aligned_cols=24 Identities=25% Similarity=0.196 Sum_probs=18.5
Q ss_pred eeeeC----CHHHHHHHHHHcCCcEEEe
Q 032608 105 GLSFD----SKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 105 ~L~F~----SkE~AIayaek~Gw~Y~V~ 128 (137)
.+.+. ..++|++|.+++|+.+||.
T Consensus 49 ~l~l~g~~~~~~~a~~~L~~~~v~vEvl 76 (76)
T PF09383_consen 49 ILELPGDDEEIEKAIAYLREQGVEVEVL 76 (76)
T ss_dssp EEEEES-HHHHHHHHHHHHHTTEEEEEE
T ss_pred EEEEECCHHHHHHHHHHHHHCCCeEEEC
Confidence 56662 2478999999999998873
No 51
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=32.70 E-value=60 Score=25.30 Aligned_cols=33 Identities=24% Similarity=0.303 Sum_probs=26.1
Q ss_pred cCccCCCCccCccCCceeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 89 MGWTSTGDPYANVGDAGLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 89 MGWtsS~D~~sqv~~~~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
...-.+|||+ -|.+--.-+.+++++|++++|..
T Consensus 74 V~~L~~GDP~--------~~~~~~~l~~~~~~~g~~veviP 106 (229)
T TIGR01465 74 VVRLHTGDPS--------IYGAIAEQMQLLEALGIPYEVVP 106 (229)
T ss_pred EEEEeCcCcc--------ccccHHHHHHHHHHCCCCEEEEC
Confidence 4556789996 47777788889999999999863
No 52
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=32.53 E-value=51 Score=19.88 Aligned_cols=18 Identities=33% Similarity=0.425 Sum_probs=15.6
Q ss_pred eeeeCCHHHHHHHHH-HcC
Q 032608 105 GLSFDSKEAAREFAE-RHG 122 (137)
Q Consensus 105 ~L~F~SkE~AIayae-k~G 122 (137)
-+.|.+.|+|....+ -+|
T Consensus 43 ~V~F~~~~~a~~a~~~l~g 61 (70)
T PF00076_consen 43 FVEFESEEDAEKALEELNG 61 (70)
T ss_dssp EEEESSHHHHHHHHHHHTT
T ss_pred EEEEcCHHHHHHHHHHcCC
Confidence 789999999999888 565
No 53
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=32.42 E-value=46 Score=23.68 Aligned_cols=16 Identities=44% Similarity=0.812 Sum_probs=14.9
Q ss_pred eeeeCCHHHHHHHHHH
Q 032608 105 GLSFDSKEAAREFAER 120 (137)
Q Consensus 105 ~L~F~SkE~AIayaek 120 (137)
.|.|.|.|||-+|.++
T Consensus 84 GL~F~se~eA~~F~~~ 99 (104)
T cd00837 84 GLNFASEEEAAQFRKK 99 (104)
T ss_pred EEeeCCHHHHHHHHHH
Confidence 8999999999999876
No 54
>PLN00200 argininosuccinate synthase; Provisional
Probab=32.18 E-value=31 Score=30.81 Aligned_cols=20 Identities=20% Similarity=0.351 Sum_probs=17.1
Q ss_pred eeCCHHHHHHHHHHcCCcEE
Q 032608 107 SFDSKEAAREFAERHGWEYV 126 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~ 126 (137)
.|.||++.++||+++|++..
T Consensus 152 ~~~~r~e~~~~A~~~Gipv~ 171 (404)
T PLN00200 152 DIKGREDLIEYAKKHNIPVP 171 (404)
T ss_pred CCCCHHHHHHHHHHcCCCCC
Confidence 35599999999999999754
No 55
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=31.73 E-value=62 Score=27.28 Aligned_cols=28 Identities=32% Similarity=0.459 Sum_probs=23.4
Q ss_pred CCCccCccCCceeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 94 TGDPYANVGDAGLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 94 S~D~~sqv~~~~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
+|||+ -|.=--+=++++.++|++|+|..
T Consensus 89 gGDP~--------iFGRggEE~~~l~~~gI~~eVVP 116 (244)
T COG0007 89 GGDPY--------IFGRGGEEIEALAEAGIEFEVVP 116 (244)
T ss_pred CCCCC--------eecCcHHHHHHHHHcCCceEEeC
Confidence 38887 57777788899999999999974
No 56
>COG4314 NosL Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]
Probab=31.17 E-value=35 Score=27.59 Aligned_cols=21 Identities=33% Similarity=0.468 Sum_probs=17.7
Q ss_pred eeeeCCHHHHHHHHHHcCCcE
Q 032608 105 GLSFDSKEAAREFAERHGWEY 125 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y 125 (137)
.+-|.++|+|.+|+.++|=..
T Consensus 130 A~pF~~e~aA~~faa~~GGrv 150 (176)
T COG4314 130 ASPFSDEEAAERFAADNGGRV 150 (176)
T ss_pred cccccCHHHHHHHHHhcCCeE
Confidence 345999999999999999543
No 57
>cd00914 PCD_DCoH_subfamily_b PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein). Two DCoH proteins have been identifed in humans: DCoH1 and DCoH2. Mutations in human DCoH1 cause hyperphenylalaninemia. Loss of enzymic activity of DCoH in humans is associated with the depigmentation disorder vitiligo. DCoH1 has been reported to be overexpessed in colon
Probab=30.89 E-value=52 Score=22.20 Aligned_cols=29 Identities=28% Similarity=0.468 Sum_probs=21.0
Q ss_pred CccCCCCccCccCCceeeeCCHHHHHHHHHH
Q 032608 90 GWTSTGDPYANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 90 GWtsS~D~~sqv~~~~L~F~SkE~AIayaek 120 (137)
||.-..|+.. + ....+|++-.+|++|..+
T Consensus 1 gW~~~~~~~~-l-~r~f~f~~f~~a~~f~~~ 29 (76)
T cd00914 1 GWTLVDGRDA-I-HKSFKFKDFNEAFGFMTR 29 (76)
T ss_pred CCeEeCCCCe-E-EEEEEeCCHHHHHHHHHH
Confidence 6877776531 1 127899999999999765
No 58
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=30.48 E-value=42 Score=27.76 Aligned_cols=18 Identities=22% Similarity=0.451 Sum_probs=16.4
Q ss_pred eCCHHHHHHHHHHcCCcE
Q 032608 108 FDSKEAAREFAERHGWEY 125 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y 125 (137)
...++++++||++||+++
T Consensus 182 ma~~~~~~~fA~~~~l~~ 199 (214)
T PRK01792 182 MARTPEIVEFAKKFGYAV 199 (214)
T ss_pred ccCHHHHHHHHHHcCCcE
Confidence 567899999999999988
No 59
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal.
Probab=30.48 E-value=46 Score=27.11 Aligned_cols=18 Identities=22% Similarity=0.423 Sum_probs=16.2
Q ss_pred eCCHHHHHHHHHHcCCcE
Q 032608 108 FDSKEAAREFAERHGWEY 125 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y 125 (137)
..+++++.+||++||+++
T Consensus 172 m~~~~~~~~fA~~~~l~~ 189 (199)
T TIGR00506 172 MARKPELMEYAKKHNLKL 189 (199)
T ss_pred ccCHHHHHHHHHHcCCcE
Confidence 567899999999999987
No 60
>PF10009 DUF2252: Uncharacterized protein conserved in bacteria (DUF2252); InterPro: IPR018721 This domain has no known function.
Probab=29.45 E-value=29 Score=30.50 Aligned_cols=42 Identities=21% Similarity=0.401 Sum_probs=27.4
Q ss_pred CCccCCCcCccCCCCc---cCccCCceeeeC----CHHHHHHHHHHcCC
Q 032608 82 QKWENPLMGWTSTGDP---YANVGDAGLSFD----SKEAAREFAERHGW 123 (137)
Q Consensus 82 ~rw~nPLMGWtsS~D~---~sqv~~~~L~F~----SkE~AIayaek~Gw 123 (137)
+.-.||++||++-++- ..|...+..+|+ +.++...||+-.|+
T Consensus 287 q~~sD~~LG~~~~~g~~f~VRql~p~k~~~d~~~l~~~~~~~~a~~~g~ 335 (385)
T PF10009_consen 287 QAASDPFLGWVTIDGRDFYVRQLRPMKGSVDLEDLDPEELQDYARLCGR 335 (385)
T ss_pred hhcCCcccCceeeCCceEEEEECCCcCCCcChhhCCHHHHHHHHHHHHH
Confidence 3557999999997661 122222233333 67889999988775
No 61
>TIGR03072 release_prfH putative peptide chain release factor H. Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon.
Probab=29.29 E-value=41 Score=27.43 Aligned_cols=17 Identities=18% Similarity=0.055 Sum_probs=14.6
Q ss_pred HHHHHHcCCcEEEeCCC
Q 032608 115 REFAERHGWEYVVRKPH 131 (137)
Q Consensus 115 Iayaek~Gw~Y~V~~P~ 131 (137)
..||+++||+++|.+-.
T Consensus 26 ~~~a~~~g~~~eii~~~ 42 (200)
T TIGR03072 26 TREAAARGVRVEVLEQE 42 (200)
T ss_pred HHHHHHcCCeEEEEeCC
Confidence 57999999999997744
No 62
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=29.19 E-value=45 Score=20.36 Aligned_cols=13 Identities=23% Similarity=0.427 Sum_probs=11.9
Q ss_pred eCCHHHHHHHHHH
Q 032608 108 FDSKEAAREFAER 120 (137)
Q Consensus 108 F~SkE~AIayaek 120 (137)
|.|+.||.+++.+
T Consensus 24 F~TkkeA~~~~~~ 36 (46)
T PF14657_consen 24 FKTKKEAEKALAK 36 (46)
T ss_pred CCcHHHHHHHHHH
Confidence 9999999999875
No 63
>PF14791 DNA_pol_B_thumb: DNA polymerase beta thumb ; PDB: 1HUZ_A 3K75_D 1HUO_A 2BPC_A 1RPL_A 1NOM_A 1ZQX_A 1ZQU_A 1ZQZ_A 1ZQV_A ....
Probab=29.03 E-value=5.9 Score=26.55 Aligned_cols=11 Identities=18% Similarity=0.220 Sum_probs=6.3
Q ss_pred CcCccCCCCcc
Q 032608 88 LMGWTSTGDPY 98 (137)
Q Consensus 88 LMGWtsS~D~~ 98 (137)
|.+||||.+-.
T Consensus 2 ll~~TGs~~fn 12 (64)
T PF14791_consen 2 LLYFTGSKEFN 12 (64)
T ss_dssp HHHHHS-HHHH
T ss_pred cccccCCHHHH
Confidence 45677776654
No 64
>KOG1706 consensus Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=29.00 E-value=33 Score=30.78 Aligned_cols=23 Identities=26% Similarity=0.460 Sum_probs=20.2
Q ss_pred eeCCHHHHHHHHHHcCCcEEEeC
Q 032608 107 SFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
+|.-++|+++||++||++.-|..
T Consensus 154 rf~Gr~Dl~eYakq~giPvpvT~ 176 (412)
T KOG1706|consen 154 RFKGRKDLLEYAKQHGIPVPVTP 176 (412)
T ss_pred hhcCchHHHHHHHhcCCCccccC
Confidence 68999999999999999987643
No 65
>PF12123 Amidase02_C: N-acetylmuramoyl-l-alanine amidase; InterPro: IPR021976 This domain is found in bacteria and viruses. This domain is about 50 amino acids in length. This domain is classified with the enzyme classification code 3.5.1.28 from EC. This domain is the C-terminal of the enzyme which hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides. ; PDB: 2L48_B.
Probab=28.77 E-value=68 Score=20.45 Aligned_cols=18 Identities=22% Similarity=0.553 Sum_probs=13.8
Q ss_pred CHHHHHHHHHHcCCcEEE
Q 032608 110 SKEAAREFAERHGWEYVV 127 (137)
Q Consensus 110 SkE~AIayaek~Gw~Y~V 127 (137)
.++.+-+|-+++||-|+|
T Consensus 28 ~L~k~~~wld~rgWwYe~ 45 (45)
T PF12123_consen 28 ELDKFTAWLDERGWWYEV 45 (45)
T ss_dssp HHHHHHHHHHHTT--EEE
T ss_pred HHHHHHHHHHhcCcEEeC
Confidence 367889999999999987
No 66
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.68 E-value=41 Score=27.24 Aligned_cols=42 Identities=26% Similarity=0.401 Sum_probs=26.0
Q ss_pred cCCCcCccCCCCccCccCCceeee-----------CCHHHHHHHHHHcCCcEE
Q 032608 85 ENPLMGWTSTGDPYANVGDAGLSF-----------DSKEAAREFAERHGWEYV 126 (137)
Q Consensus 85 ~nPLMGWtsS~D~~sqv~~~~L~F-----------~SkE~AIayaek~Gw~Y~ 126 (137)
.|.|..|-..+-.+.|-+...+-. -+-|+|.+|||+||+-|.
T Consensus 99 ynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fl 151 (215)
T KOG0097|consen 99 YNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFL 151 (215)
T ss_pred hhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEE
Confidence 377777766554443321111111 256899999999999875
No 67
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=28.66 E-value=44 Score=29.86 Aligned_cols=18 Identities=22% Similarity=0.597 Sum_probs=15.1
Q ss_pred HHHHHHcCCcEEEeCCCC
Q 032608 115 REFAERHGWEYVVRKPHR 132 (137)
Q Consensus 115 Iayaek~Gw~Y~V~~P~~ 132 (137)
..||+.+||.++|..-..
T Consensus 139 ~rYAe~kgWk~ei~s~se 156 (363)
T COG0216 139 SRYAESKGWKVEILSASE 156 (363)
T ss_pred HHHHHhCCCEEEEeecCc
Confidence 379999999999987554
No 68
>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.
Probab=28.57 E-value=53 Score=27.92 Aligned_cols=25 Identities=28% Similarity=0.501 Sum_probs=20.8
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.+.+++-..=|+||.++||+|.+..
T Consensus 28 g~~t~~~k~yIDfAa~~G~eYvlvD 52 (273)
T PF10566_consen 28 GATTETQKRYIDFAAEMGIEYVLVD 52 (273)
T ss_dssp SSSHHHHHHHHHHHHHTT-SEEEEB
T ss_pred CCCHHHHHHHHHHHHHcCCCEEEec
Confidence 4578888899999999999999874
No 69
>PF01329 Pterin_4a: Pterin 4 alpha carbinolamine dehydratase; InterPro: IPR001533 DCoH is the dimerisation cofactor of hepatocyte nuclear factor 1 (HNF-1) that functions as both a transcriptional coactivator and a pterin dehydratase []. X-ray crystallographic studies have shown that the ligand binds at four sites per tetrameric enzyme, with little apparent conformational change in the protein.; GO: 0008124 4-alpha-hydroxytetrahydrobiopterin dehydratase activity, 0006729 tetrahydrobiopterin biosynthetic process; PDB: 2V6T_B 2V6U_A 2V6S_B 2EBB_A 1USM_A 1F93_B 1DCP_C 1DCH_E 3HXA_E 1DCO_C ....
Probab=28.40 E-value=53 Score=23.04 Aligned_cols=31 Identities=29% Similarity=0.518 Sum_probs=22.4
Q ss_pred CCCcCccCCC-CccCccCCceeeeCCHHHHHHHHHH
Q 032608 86 NPLMGWTSTG-DPYANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 86 nPLMGWtsS~-D~~sqv~~~~L~F~SkE~AIayaek 120 (137)
..|-||.-.+ .-+.. ...|++-..|++|..+
T Consensus 15 ~~l~~W~~~~~~~l~r----~f~f~~f~~a~~f~~~ 46 (95)
T PF01329_consen 15 AELPGWKLDGGGRLER----TFKFKDFAEAVEFVNR 46 (95)
T ss_dssp HTSTTSEEETSSEEEE----EEE-SSHHHHHHHHHH
T ss_pred hcCcCCEECCCCcEEE----EEEeCCHHHHHHHHHH
Confidence 3678999888 33332 7899999999999754
No 70
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=28.34 E-value=61 Score=20.78 Aligned_cols=21 Identities=38% Similarity=0.602 Sum_probs=17.1
Q ss_pred CHHHHHHHHHHcCCcEEEeCC
Q 032608 110 SKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 110 SkE~AIayaek~Gw~Y~V~~P 130 (137)
+.++=.+||+++|+.+++.+.
T Consensus 37 s~~~i~~~~~~~G~~~~~~~~ 57 (67)
T cd03421 37 AKENVSRFAESRGYEVSVEEK 57 (67)
T ss_pred HHHHHHHHHHHcCCEEEEEec
Confidence 346888999999999987654
No 71
>cd06576 PASTA_Pbp2x-like_1 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are connected to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=28.04 E-value=94 Score=18.08 Aligned_cols=22 Identities=27% Similarity=0.206 Sum_probs=18.8
Q ss_pred CCHHHHHHHHHHcCCcEEEeCC
Q 032608 109 DSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~P 130 (137)
.+.++|.+.+++.|+.+++..+
T Consensus 8 ~~~~~a~~~l~~~g~~~~~~~~ 29 (55)
T cd06576 8 KSVEEAKKELKEAGLQPVVIGN 29 (55)
T ss_pred CCHHHHHHHHHHCCCEEEEeCC
Confidence 4789999999999999987654
No 72
>PF03795 YCII: YCII-related domain; InterPro: IPR005545 The majority of proteins in this group contain a single copy of this domain, though it is also found as a repeat (e.g. in Q9AJZ7 from SWISSPROT). A strongly conserved histidine and a aspartate suggest that the domain has an enzymatic function. This entry also covers what was previously known as the DGPF domain (COG3795). Although its function is unknown it is found fused to a sigma-70 factor family domain in Q9A8M4 from SWISSPROT, suggesting that this domain may plays a role in transcription initiation. This domain is named after the most conserved motif in the alignment.; PDB: 1S7I_A 1MWQ_A.
Probab=27.92 E-value=41 Score=22.57 Aligned_cols=17 Identities=29% Similarity=0.335 Sum_probs=14.7
Q ss_pred ceeeeCCHHHHHHHHHH
Q 032608 104 AGLSFDSKEAAREFAER 120 (137)
Q Consensus 104 ~~L~F~SkE~AIayaek 120 (137)
..+..+|+|+|+++|++
T Consensus 61 ~i~~a~s~e~A~~~~~~ 77 (95)
T PF03795_consen 61 IIVEAESREEAEEIAKE 77 (95)
T ss_dssp EEEEESSHHHHHHHHCT
T ss_pred EEEEeCCHHHHHHHHHh
Confidence 36789999999999975
No 73
>PTZ00056 glutathione peroxidase; Provisional
Probab=27.90 E-value=56 Score=25.66 Aligned_cols=21 Identities=19% Similarity=0.436 Sum_probs=18.8
Q ss_pred eCCHHHHHHHHHHcCCcEEEe
Q 032608 108 FDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~V~ 128 (137)
+++.|++.+|++++|+.|.|.
T Consensus 88 ~d~~e~~~~f~~~~~~~fpvl 108 (199)
T PTZ00056 88 FPNTKDIRKFNDKNKIKYNFF 108 (199)
T ss_pred CCCHHHHHHHHHHcCCCceee
Confidence 478899999999999999984
No 74
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=27.70 E-value=88 Score=20.63 Aligned_cols=24 Identities=33% Similarity=0.483 Sum_probs=19.2
Q ss_pred eeee--CCHHHHHHHHHHcCCcEEEe
Q 032608 105 GLSF--DSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 105 ~L~F--~SkE~AIayaek~Gw~Y~V~ 128 (137)
.++| ..+|.++.+.+++|+.|+=.
T Consensus 44 al~~~~~d~~~i~~~l~~~~i~~~~i 69 (73)
T PF11823_consen 44 ALRFEPEDLEKIKEILEENGIEYEGI 69 (73)
T ss_pred EEEEChhhHHHHHHHHHHCCCCeeEE
Confidence 4555 67899999999999998643
No 75
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=27.58 E-value=28 Score=22.76 Aligned_cols=22 Identities=18% Similarity=0.339 Sum_probs=18.8
Q ss_pred eeCCHHHHHHHHHHcCCcEEEe
Q 032608 107 SFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
...+.|+-|++|+.+|+++...
T Consensus 23 ~~~~~e~~~~lA~~~Gf~ft~~ 44 (64)
T TIGR03798 23 AAEDPEDRVAIAKEAGFEFTGE 44 (64)
T ss_pred HcCCHHHHHHHHHHcCCCCCHH
Confidence 4678999999999999998654
No 76
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=27.38 E-value=39 Score=23.54 Aligned_cols=29 Identities=17% Similarity=0.269 Sum_probs=23.8
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeCCCCC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRKPHRP 133 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~P~~~ 133 (137)
.+.+.+.|.+-+||+..+|+|.|-...++
T Consensus 18 ~I~~g~~~~~~~f~~~~~~p~~ly~D~~~ 46 (115)
T PF13911_consen 18 VIGCGSPEGIEKFCELTGFPFPLYVDPER 46 (115)
T ss_pred EEEcCCHHHHHHHHhccCCCCcEEEeCcH
Confidence 56789998899999999999997654443
No 77
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=27.03 E-value=52 Score=27.28 Aligned_cols=19 Identities=11% Similarity=0.176 Sum_probs=16.8
Q ss_pred eCCHHHHHHHHHHcCCcEE
Q 032608 108 FDSKEAAREFAERHGWEYV 126 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~ 126 (137)
...++++++||++||+.+.
T Consensus 183 ma~~~~l~~fA~~h~l~~i 201 (218)
T PRK00910 183 MAKTPEIIAFGKLHNMPVL 201 (218)
T ss_pred cCCHHHHHHHHHHcCCcEE
Confidence 5689999999999999873
No 78
>PF00926 DHBP_synthase: 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase (4.1.99.12 from EC) (DHBP synthase) (RibB) catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO). No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process; PDB: 1K4O_A 1K4L_A 1K4P_A 1K49_A 1K4I_A 1TKU_A 1TKS_B 2RIS_A 2RIU_A 3MIO_A ....
Probab=26.94 E-value=57 Score=26.40 Aligned_cols=19 Identities=32% Similarity=0.644 Sum_probs=15.2
Q ss_pred eCCHHHHHHHHHHcCCcEE
Q 032608 108 FDSKEAAREFAERHGWEYV 126 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~ 126 (137)
-.+++++.+||++||+.+.
T Consensus 167 ~~~~~~~~~fA~~~~l~~v 185 (194)
T PF00926_consen 167 MARRDELEEFAKKHGLPIV 185 (194)
T ss_dssp BHCHHHHHHHHHHTT-EEE
T ss_pred cCCHHHHHHHHHHcCCcEE
Confidence 3578999999999999864
No 79
>PRK12454 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed
Probab=26.74 E-value=55 Score=28.39 Aligned_cols=22 Identities=27% Similarity=0.545 Sum_probs=18.9
Q ss_pred eeCCHHHHHHHHHHcCCcEEEe
Q 032608 107 SFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
.|-|+|+|.+.++++||.|.-.
T Consensus 134 ~~y~~~~a~~~~~~~g~~~~~d 155 (313)
T PRK12454 134 PFYDEEEAKKLAKEKGWIVKED 155 (313)
T ss_pred CCcCHHHHHHHHHHcCCEEEEc
Confidence 5999999999999999966543
No 80
>PRK00014 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=26.10 E-value=55 Score=27.42 Aligned_cols=18 Identities=11% Similarity=0.195 Sum_probs=16.4
Q ss_pred eCCHHHHHHHHHHcCCcE
Q 032608 108 FDSKEAAREFAERHGWEY 125 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y 125 (137)
...++++++||++||+.+
T Consensus 187 ma~~~~l~~fA~~~~l~i 204 (230)
T PRK00014 187 MMRGASLERYAAKEGLVA 204 (230)
T ss_pred ccCHHHHHHHHHHcCCcE
Confidence 567899999999999988
No 81
>PF02177 APP_N: Amyloid A4 N-terminal heparin-binding; InterPro: IPR015849 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. This entry represents a heparin-binding domain found at the N-terminal of the extracellular domain, which is itself found at the N-terminal of amyloidogenic glycoproteins such as amyloid-beta precursor protein (APP, or A4). The core of the heparin-binding domain has an unusual disulphide-rich fold, consisting of a beta-x-alpha-beta-loop-beta topology []. More information about these protein can be found at Protein of the Month: Amyloid-beta Precursor Protein [].; GO: 0005488 binding, 0016021 integral to membrane; PDB: 3KTM_E 1MWP_A 2FKL_A 1OWT_A.
Probab=25.88 E-value=56 Score=24.27 Aligned_cols=23 Identities=13% Similarity=0.138 Sum_probs=15.7
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEE
Q 032608 105 GLSFDSKEAAREFAERHGWEYVV 127 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V 127 (137)
.--|.++++.++||++.--++.|
T Consensus 31 ~~C~~~k~eIL~YCrkvYP~l~I 53 (102)
T PF02177_consen 31 ASCLKDKEEILKYCRKVYPELQI 53 (102)
T ss_dssp -B---SHHHHHHHHHHHSTTS-E
T ss_pred ccccCChHHHHHHHHHhCCCCce
Confidence 45899999999999998777655
No 82
>PF12745 HGTP_anticodon2: Anticodon binding domain of tRNAs; InterPro: IPR024435 This is an anticodon binding domain, found largely on Gcn2 proteins which bind tRNA to down regulate translation in certain stress situations [].; GO: 0000049 tRNA binding
Probab=25.81 E-value=75 Score=26.81 Aligned_cols=23 Identities=17% Similarity=0.372 Sum_probs=20.6
Q ss_pred CCHHHHHHHHHHcCCcEEEeCCC
Q 032608 109 DSKEAAREFAERHGWEYVVRKPH 131 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~P~ 131 (137)
.|.||.+.+|..+|+.|.|.--+
T Consensus 44 ~S~Eel~~~~~~~gi~wiViikq 66 (273)
T PF12745_consen 44 PSQEELQSYCREDGISWIVIIKQ 66 (273)
T ss_pred CCHHHHHHHHHHCCCCEEEEEec
Confidence 59999999999999999987655
No 83
>cd01206 Homer Homer type EVH1 domain. Homer type EVH1 domain. Homer is a synaptic scaffolding protein, involved in neuronal signaling. It contains an EVH1 domain, which binds to both neurotransmitter receptors, such as the metabotropic glutamate receptor (mGluR) and to other scaffolding proteins via PPXXF motifs, in order to target them to the synaptic junction. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=25.74 E-value=74 Score=24.05 Aligned_cols=23 Identities=43% Similarity=0.671 Sum_probs=17.7
Q ss_pred CccC-ccCCceeeeCCHHHHHHHHHH
Q 032608 96 DPYA-NVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 96 D~~s-qv~~~~L~F~SkE~AIayaek 120 (137)
|+.+ +| -.|.|.|+|||=.|+++
T Consensus 79 D~R~~tV--yGLnF~Sk~ea~~F~~~ 102 (111)
T cd01206 79 DSRANTV--YGLGFSSEQQLTKFAEK 102 (111)
T ss_pred cccccee--eecccCCHHHHHHHHHH
Confidence 5552 34 36899999999999986
No 84
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=25.40 E-value=77 Score=22.09 Aligned_cols=26 Identities=35% Similarity=0.484 Sum_probs=22.3
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeCC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
.+..++.+++.+|++++|+.|.+...
T Consensus 62 ~is~d~~~~~~~~~~~~~~~~~~l~D 87 (140)
T cd03017 62 GVSPDSVESHAKFAEKYGLPFPLLSD 87 (140)
T ss_pred EEcCCCHHHHHHHHHHhCCCceEEEC
Confidence 56678999999999999999987654
No 85
>PF09691 PulS_OutS: Bacterial chaperone lipoprotein (PulS_OutS); InterPro: IPR019114 This family comprises lipoproteins from gamma proteobacterial species: pullulanase secretion protein PulS protein of Klebsiella pneumoniae (P20440 from SWISSPROT), the lipoprotein OutS protein of Erwinia chrysanthemi (Q01567 from SWISSPROT) and the functionally uncharacterised type II secretion protein EtpO (Q7BSV3 from SWISSPROT) from Escherichia coli O157:H7. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family. In addition to the PulS/OutS proteins this entry also includes other functionally uncharacterised proteins, such as YacC from Escherischia coli (P0AA95 from SWISSPROT).; PDB: 3SOL_A 3UYM_A 3UTK_A 4A56_A.
Probab=24.96 E-value=47 Score=24.75 Aligned_cols=14 Identities=43% Similarity=0.840 Sum_probs=10.4
Q ss_pred HHHHHHHHHcCCcE
Q 032608 112 EAAREFAERHGWEY 125 (137)
Q Consensus 112 E~AIayaek~Gw~Y 125 (137)
-.||.||+++||+.
T Consensus 53 ~~a~~~A~~~gWd~ 66 (109)
T PF09691_consen 53 RAAVIFAQQRGWDT 66 (109)
T ss_dssp HHHHHHHHHTT--C
T ss_pred HHHHHHHHHcCCCc
Confidence 36999999999985
No 86
>cd04438 DEP_dishevelled DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in dishevelled-like proteins. Dishevelled-like proteins play a key role in the transduction of the Wnt signal from the cell surface to the nucleus, which in turn is an important regulatory pathway for cellular development and growth. They contain an N-terminal DIX domain, a central PDZ domain, and a C-terminal DEP domain.
Probab=24.72 E-value=85 Score=21.96 Aligned_cols=24 Identities=17% Similarity=0.315 Sum_probs=19.4
Q ss_pred eCCHHHHHHHHH---HcCCcEEEeCCC
Q 032608 108 FDSKEAAREFAE---RHGWEYVVRKPH 131 (137)
Q Consensus 108 F~SkE~AIayae---k~Gw~Y~V~~P~ 131 (137)
..|+++|+.||. ++|+-+-|..-+
T Consensus 46 ~~~R~eAv~~g~~Ll~~G~i~HV~~~h 72 (84)
T cd04438 46 LTDRREARKYASSLLKLGYIRHTVNKI 72 (84)
T ss_pred CCCHHHHHHHHHHHHHCCcEEecCCCc
Confidence 579999999998 678888776544
No 87
>PF08759 DUF1792: Domain of unknown function (DUF1792); InterPro: IPR014869 This domain is found at the C terminus of proteins such as Q97P75 from SWISSPROT that also contain the glycosyl transferase domain at the N terminus. Sometimes it is found independently.
Probab=24.59 E-value=40 Score=28.21 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=20.5
Q ss_pred ccccCCCccccc--ceE-EEecCCCCCCC
Q 032608 40 GMVSGIPEEHLR--RRV-VIYTPARTATQ 65 (137)
Q Consensus 40 ~~vSG~P~e~~~--R~v-rIY~Pak~amQ 65 (137)
+.-+|+-.|+.. +.| |||-|+|+|=+
T Consensus 125 ~sR~GvgnDLFdnaksI~rIicPsknAf~ 153 (225)
T PF08759_consen 125 KSRSGVGNDLFDNAKSIKRIICPSKNAFS 153 (225)
T ss_pred CeecCCCchhhhCccceEEEECCchhhHH
Confidence 456889999884 566 89999999843
No 88
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.27 E-value=58 Score=27.19 Aligned_cols=103 Identities=20% Similarity=0.238 Sum_probs=59.3
Q ss_pred cccccccccccccccccccccccCCCccccc-ce--EEEecCC-----CCCCCCCCCCCCCcEEEccCCCCc-cCCCcCc
Q 032608 21 PFSRAFSADALVEVKPGEIGMVSGIPEEHLR-RR--VVIYTPA-----RTATQQGSGKLGRWKINFMSTQKW-ENPLMGW 91 (137)
Q Consensus 21 ~~~r~fs~d~~~~~~~~e~~~vSG~P~e~~~-R~--vrIY~Pa-----k~amQSG~~~~~~W~LeFe~~~rw-~nPLMGW 91 (137)
++.+.|......+.....+|+--|+..-+.. |. +.|+-.+ ++.+-|--.....=.|-|+-..+- -|.|--|
T Consensus 21 clllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~w 100 (216)
T KOG0098|consen 21 CLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSW 100 (216)
T ss_pred HHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHH
Confidence 3578888877777777778888888876664 43 4677532 122222222233345566654332 2566666
Q ss_pred cCCCCccCccCCceee--------------eCCHHHHHHHHHHcCCcEE
Q 032608 92 TSTGDPYANVGDAGLS--------------FDSKEAAREFAERHGWEYV 126 (137)
Q Consensus 92 tsS~D~~sqv~~~~L~--------------F~SkE~AIayaek~Gw~Y~ 126 (137)
-.-.-..++- +|. ==++||-.+||++||+-|-
T Consensus 101 L~D~rq~~~~---NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifm 146 (216)
T KOG0098|consen 101 LEDARQHSNE---NMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFM 146 (216)
T ss_pred HHHHHHhcCC---CcEEEEEcchhhhhccccccHHHHHHHHHHcCceee
Confidence 4321111100 111 2378999999999999885
No 89
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=24.06 E-value=69 Score=21.65 Aligned_cols=17 Identities=35% Similarity=0.477 Sum_probs=13.4
Q ss_pred HHHHHHHHHHcCCcEEE
Q 032608 111 KEAAREFAERHGWEYVV 127 (137)
Q Consensus 111 kE~AIayaek~Gw~Y~V 127 (137)
.++|++||+++|+....
T Consensus 44 ~~~~l~~a~~~~~kv~p 60 (78)
T PF14542_consen 44 VEAALDYARENGLKVVP 60 (78)
T ss_dssp HHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHHCCCEEEE
Confidence 47899999999998653
No 90
>PF00764 Arginosuc_synth: Arginosuccinate synthase; InterPro: IPR001518 Argininosuccinate synthase (6.3.4.5 from EC) (AS) is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate [, ]. In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterised by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity.; GO: 0004055 argininosuccinate synthase activity, 0005524 ATP binding, 0006526 arginine biosynthetic process; PDB: 1K97_A 1KP2_A 1K92_A 1KP3_A 2NZ2_A 1VL2_A 1J1Z_D 1KOR_C 1J20_D 1KH2_C ....
Probab=23.90 E-value=42 Score=29.98 Aligned_cols=18 Identities=33% Similarity=0.547 Sum_probs=12.9
Q ss_pred HHHHHHHHHHcCCcEEEe
Q 032608 111 KEAAREFAERHGWEYVVR 128 (137)
Q Consensus 111 kE~AIayaek~Gw~Y~V~ 128 (137)
+|+.|+||++||++..+.
T Consensus 147 R~~~i~ya~~~gIpv~~~ 164 (388)
T PF00764_consen 147 REEEIEYAKKHGIPVPVT 164 (388)
T ss_dssp HHHHHHHHHHTT----SS
T ss_pred HHHHHHHHHHcCCCCCCC
Confidence 999999999999987654
No 91
>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.62 E-value=60 Score=26.78 Aligned_cols=21 Identities=24% Similarity=0.377 Sum_probs=17.8
Q ss_pred eeCCHHHHHHHHHHcCCcEEE
Q 032608 107 SFDSKEAAREFAERHGWEYVV 127 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V 127 (137)
+--+.+.|++.|+|.|++|.=
T Consensus 140 R~Vs~~qa~~La~kyglPYfE 160 (219)
T KOG0081|consen 140 RVVSEDQAAALADKYGLPYFE 160 (219)
T ss_pred hhhhHHHHHHHHHHhCCCeee
Confidence 445789999999999999963
No 92
>KOG2741 consensus Dimeric dihydrodiol dehydrogenase [Carbohydrate transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=23.33 E-value=57 Score=29.05 Aligned_cols=20 Identities=40% Similarity=0.499 Sum_probs=17.0
Q ss_pred eeeeCCHHHHHHHHHHcCCc
Q 032608 105 GLSFDSKEAAREFAERHGWE 124 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~ 124 (137)
.+.=.|.|-|++||++|+|.
T Consensus 37 ava~~s~~~A~~fAq~~~~~ 56 (351)
T KOG2741|consen 37 AVADPSLERAKEFAQRHNIP 56 (351)
T ss_pred EEecccHHHHHHHHHhcCCC
Confidence 45556999999999999994
No 93
>cd04235 AAK_CK AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an essential precursor of arginine and pyrimidine bases, in the presence of ATP, bicarbonate, and ammonia. CK is a homodimer of 33 kDa subunits and is a member of the Amino Acid Kinase Superfamily (AAK).
Probab=23.29 E-value=90 Score=26.93 Aligned_cols=23 Identities=35% Similarity=0.651 Sum_probs=19.2
Q ss_pred eeCCHHHHHHHHHHcCCcEEEeC
Q 032608 107 SFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.|-|+|+|.+..+++||.|.-+.
T Consensus 130 ~~y~~~~a~~~~~~~g~~~~~d~ 152 (308)
T cd04235 130 PFYSEEEAEELAAEKGWTFKEDA 152 (308)
T ss_pred CCcCHHHHHHHHHHcCCEEEEeC
Confidence 59999999999999999654443
No 94
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=23.02 E-value=67 Score=22.53 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=18.7
Q ss_pred CCHHHHHHHHHHcCCcEEEeCC
Q 032608 109 DSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~P 130 (137)
++.|+..+|++++|+.|.+...
T Consensus 71 ~~~~~~~~~~~~~~~~~p~~~D 92 (126)
T cd03012 71 RDLANVKSAVLRYGITYPVAND 92 (126)
T ss_pred cCHHHHHHHHHHcCCCCCEEEC
Confidence 5789999999999999987653
No 95
>KOG0369 consensus Pyruvate carboxylase [Energy production and conversion]
Probab=22.82 E-value=77 Score=31.52 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=19.2
Q ss_pred eCCHHHHHHHHHHcCCcEEEeC
Q 032608 108 FDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
..|.|+|++||+++|++..+..
T Consensus 170 itt~~EA~eF~k~yG~PvI~KA 191 (1176)
T KOG0369|consen 170 ITTVEEALEFVKEYGLPVIIKA 191 (1176)
T ss_pred cccHHHHHHHHHhcCCcEEEee
Confidence 4689999999999999988754
No 96
>COG2154 Pterin-4a-carbinolamine dehydratase [Coenzyme metabolism]
Probab=22.62 E-value=90 Score=23.04 Aligned_cols=32 Identities=25% Similarity=0.454 Sum_probs=25.5
Q ss_pred cCCCcCccCCCC--ccCccCCceeeeCCHHHHHHHHHH
Q 032608 85 ENPLMGWTSTGD--PYANVGDAGLSFDSKEAAREFAER 120 (137)
Q Consensus 85 ~nPLMGWtsS~D--~~sqv~~~~L~F~SkE~AIayaek 120 (137)
...|-||.-..| -+.. ..+|++-.+|++|..+
T Consensus 15 l~~l~gW~l~~~~~~l~r----~f~FknF~~a~~F~~~ 48 (101)
T COG2154 15 LRALPGWELADDGAKLTR----TFKFKNFKQAIAFVNR 48 (101)
T ss_pred hcCCCCCEEecCcceEEE----EEEcCCHHHHHHHHHH
Confidence 368899999988 3332 7899999999999654
No 97
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=22.47 E-value=47 Score=31.56 Aligned_cols=25 Identities=28% Similarity=0.432 Sum_probs=22.3
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.|.|+++++++.||+-+|++..+++
T Consensus 356 il~f~~~~e~~efckyy~lei~~ed 380 (646)
T COG5079 356 ILDFEEKGEGEEFCKYYGLEIRIED 380 (646)
T ss_pred hccccccchhHHHhhhcceeeeccc
Confidence 5899999999999999999887655
No 98
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=22.39 E-value=47 Score=24.61 Aligned_cols=12 Identities=25% Similarity=0.598 Sum_probs=10.2
Q ss_pred HHHHHHcCCcEE
Q 032608 115 REFAERHGWEYV 126 (137)
Q Consensus 115 Iayaek~Gw~Y~ 126 (137)
-+||+++|+++.
T Consensus 48 ~aYc~r~Gl~~~ 59 (99)
T KOG1769|consen 48 KAYCERQGLSMN 59 (99)
T ss_pred HHHHHHcCCccc
Confidence 589999999864
No 99
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=22.34 E-value=1.2e+02 Score=19.06 Aligned_cols=24 Identities=21% Similarity=0.116 Sum_probs=19.7
Q ss_pred CCHHHHHHHHHHcCCcEEEeCCCC
Q 032608 109 DSKEAAREFAERHGWEYVVRKPHR 132 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~P~~ 132 (137)
.+.++.++.|+++|+++.....+.
T Consensus 15 ~~~~~~~~~a~~~g~~~v~iTDh~ 38 (67)
T smart00481 15 LSPEELVKRAKELGLKAIAITDHG 38 (67)
T ss_pred CCHHHHHHHHHHcCCCEEEEeeCC
Confidence 368999999999999988765553
No 100
>PRK06746 peptide chain release factor 2; Provisional
Probab=22.07 E-value=65 Score=28.24 Aligned_cols=16 Identities=19% Similarity=0.353 Sum_probs=13.7
Q ss_pred HHHHHHcCCcEEEeCC
Q 032608 115 REFAERHGWEYVVRKP 130 (137)
Q Consensus 115 Iayaek~Gw~Y~V~~P 130 (137)
..||+++||+++|.+-
T Consensus 113 ~r~a~~~g~~~evi~~ 128 (326)
T PRK06746 113 TRWAEKRGFKVETVDY 128 (326)
T ss_pred HHHHHHcCCEEEEEec
Confidence 4699999999999763
No 101
>cd07202 cPLA2_Grp-IVC Group IVC cytoplasmic phospholipase A2; catalytic domain; Ca-independent. Group IVC cPLA2, a small 61 kDa protein, is a single domain alpha/beta hydrolase. It lacks a C2 domain; therefore, it has no Ca-dependence. Group IVC cPLA2 is also referred to as cPLA2-gamma. The cPLA2-gamma enzyme is predominantly found in cardiac and skeletal muscles, and to a lesser extent in the brain. Human cPLA2-gamma is approximately 30% identical to cPLA2-alpha. The catalytic domain of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bond of phospholipids to release arachidonic acid. At the active site, cPLA2 contains a serine nucleophile through which the catalytic mechanism is initiated. The active site is partially covered by a solvent-accessible flexible lid. cPLA2 displays interfacial activation as it exists in both "closed lid" and "open lid" forms. Movement of the cPLA2 lid possibly exposes a greater hydrophobic surface and the active site. cPLA2 be
Probab=21.97 E-value=44 Score=30.43 Aligned_cols=23 Identities=13% Similarity=0.381 Sum_probs=18.1
Q ss_pred eCCHHHHHHHHHHcCCcEEEeCC
Q 032608 108 FDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
|.+...|-+||++|||+|-=.+|
T Consensus 321 f~~l~~~~~~c~~~~ipfp~i~~ 343 (430)
T cd07202 321 FETIKDTAEYCRKHNIPFPQVDE 343 (430)
T ss_pred hHHHHHHHHHHHHcCCCCCCcCc
Confidence 45678999999999999854443
No 102
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=21.81 E-value=72 Score=27.19 Aligned_cols=18 Identities=17% Similarity=0.202 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHcCCcEEE
Q 032608 110 SKEAAREFAERHGWEYVV 127 (137)
Q Consensus 110 SkE~AIayaek~Gw~Y~V 127 (137)
+-=+||-||+++|..-++
T Consensus 177 ntieAvlyCk~~gvgaY~ 194 (248)
T PF07476_consen 177 NTIEAVLYCKEHGVGAYL 194 (248)
T ss_dssp HHHHHHHHHHHTT-EEEE
T ss_pred hHHHHHHHHHhcCCceee
Confidence 346899999999998765
No 103
>PRK00923 sirohydrochlorin cobaltochelatase; Reviewed
Probab=21.65 E-value=1.2e+02 Score=21.64 Aligned_cols=25 Identities=12% Similarity=0.053 Sum_probs=21.0
Q ss_pred eeeCCHHHHHHHHHHcCCcEEEeCC
Q 032608 106 LSFDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 106 L~F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
+..++.+++++-|.++|..-.+.-|
T Consensus 43 ~~~P~l~~~l~~l~~~g~~~v~vvP 67 (126)
T PRK00923 43 FNEPTIPEALKKLIGTGADKIIVVP 67 (126)
T ss_pred cCCCCHHHHHHHHHHcCCCEEEEEc
Confidence 3468999999999999998777655
No 104
>TIGR02540 gpx7 putative glutathione peroxidase Gpx7. This model represents one of several families of known and probable glutathione peroxidases. This family is restricted to animals and designated GPX7.
Probab=21.64 E-value=68 Score=23.43 Aligned_cols=21 Identities=29% Similarity=0.352 Sum_probs=17.9
Q ss_pred eCCHHHHHHHHHH-cCCcEEEe
Q 032608 108 FDSKEAAREFAER-HGWEYVVR 128 (137)
Q Consensus 108 F~SkE~AIayaek-~Gw~Y~V~ 128 (137)
.++.|+..+|+++ +|+.|.+.
T Consensus 71 ~d~~~~~~~f~~~~~~~~fp~~ 92 (153)
T TIGR02540 71 PDSSKEIESFARRNYGVTFPMF 92 (153)
T ss_pred CCCHHHHHHHHHHhcCCCCCcc
Confidence 3778999999986 89999874
No 105
>TIGR01004 PulS_OutS lipoprotein, PulS/OutS family. This family comprises lipoproteins from four gamma proteobacterial species: PulS protein of Klebsiella pneumoniae, the OutS protein of Erwinia chrysanthemi and Pectobacterium chrysanthemi, and the functionally uncharacterized E. coli protein EtpO. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family.
Probab=21.46 E-value=62 Score=25.00 Aligned_cols=13 Identities=31% Similarity=0.647 Sum_probs=11.4
Q ss_pred HHHHHHHHcCCcE
Q 032608 113 AAREFAERHGWEY 125 (137)
Q Consensus 113 ~AIayaek~Gw~Y 125 (137)
.||.||+.+||+-
T Consensus 70 aai~~A~~~gWd~ 82 (128)
T TIGR01004 70 TANNVAIGKGWDS 82 (128)
T ss_pred HHHHHHHHcCCch
Confidence 7999999999963
No 106
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=21.42 E-value=1.3e+02 Score=25.55 Aligned_cols=27 Identities=7% Similarity=-0.041 Sum_probs=23.5
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeCCC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRKPH 131 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~P~ 131 (137)
.+-..++++|.++|+++|++|.+...+
T Consensus 124 ~~visn~~~~~~~A~~~gIp~~~~~~~ 150 (289)
T PRK13010 124 VGIISNHPDLQPLAVQHDIPFHHLPVT 150 (289)
T ss_pred EEEEECChhHHHHHHHcCCCEEEeCCC
Confidence 788899999999999999999985533
No 107
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=21.41 E-value=1e+02 Score=20.82 Aligned_cols=19 Identities=16% Similarity=0.163 Sum_probs=16.0
Q ss_pred HHHHHHHHcCCcEEEeCCC
Q 032608 113 AAREFAERHGWEYVVRKPH 131 (137)
Q Consensus 113 ~AIayaek~Gw~Y~V~~P~ 131 (137)
-|..||+++|+..++-.|.
T Consensus 48 iA~~wA~~~gv~~~~~~ad 66 (71)
T PF10686_consen 48 IAARWARERGVPVIRFPAD 66 (71)
T ss_pred HHHHHHHHCCCeeEEeCcC
Confidence 4778999999999887765
No 108
>PRK13820 argininosuccinate synthase; Provisional
Probab=21.37 E-value=70 Score=28.51 Aligned_cols=19 Identities=26% Similarity=0.333 Sum_probs=17.2
Q ss_pred CHHHHHHHHHHcCCcEEEe
Q 032608 110 SKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 110 SkE~AIayaek~Gw~Y~V~ 128 (137)
||++-++||+++|++|...
T Consensus 148 tK~ei~~ya~~~gip~~~~ 166 (394)
T PRK13820 148 TREWEIEYAKEKGIPVPVG 166 (394)
T ss_pred CHHHHHHHHHHcCCCCCcC
Confidence 9999999999999999653
No 109
>PF04895 DUF651: Archaeal protein of unknown function (DUF651); InterPro: IPR006979 This conserved region is found in the C-terminal region of a number of conserved archaeal proteins of unknown function.
Probab=21.21 E-value=66 Score=24.01 Aligned_cols=17 Identities=24% Similarity=0.354 Sum_probs=14.9
Q ss_pred eeeeCCHHHHHHHHHHc
Q 032608 105 GLSFDSKEAAREFAERH 121 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~ 121 (137)
-..|+|.++|+.|+...
T Consensus 67 p~~f~~l~eAl~~~~~~ 83 (110)
T PF04895_consen 67 PEKFETLEEALEYVSSR 83 (110)
T ss_pred CcccCCHHHHHHHHHHH
Confidence 57999999999999864
No 110
>PRK00509 argininosuccinate synthase; Provisional
Probab=21.16 E-value=67 Score=28.69 Aligned_cols=21 Identities=33% Similarity=0.487 Sum_probs=17.8
Q ss_pred eeCCHHHHHHHHHHcCCcEEE
Q 032608 107 SFDSKEAAREFAERHGWEYVV 127 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V 127 (137)
.|.||++-++||+++|++...
T Consensus 148 ~~~tK~eir~~A~~~Gipv~~ 168 (399)
T PRK00509 148 DLKSREELIAYAEEHGIPIPV 168 (399)
T ss_pred CCCCHHHHHHHHHHcCCCCCC
Confidence 355999999999999998653
No 111
>cd07419 MPP_Bsu1_C Arabidopsis thaliana Bsu1 phosphatase and related proteins, C-terminal metallophosphatase domain. Bsu1 encodes a nuclear serine-threonine protein phosphatase found in plants and protozoans. Bsu1 has a C-terminal phosphatase domain and an N-terminal Kelch-repeat domain. Bsu1 is preferentially expressed in elongating plant cells. It modulates the phosphorylation state of Bes1, a transcriptional regulator phosphorylated by the glycogen synthase kinase Bin2, as part of a steroid hormone signal transduction pathway. The PPP (phosphoprotein phosphatase) family, to which Bsu1 belongs, is one of two known protein phosphatase families specific for serine and threonine. The PPP family also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain is defined by three conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family is ancient with members found in all eukaryotes, and in most
Probab=21.14 E-value=1.8e+02 Score=24.69 Aligned_cols=23 Identities=13% Similarity=0.242 Sum_probs=19.0
Q ss_pred eeCCHHHHHHHHHHcCCcEEEeC
Q 032608 107 SFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.+=..+++-+||+++|+++.|.-
T Consensus 238 ~~fg~~~~~~Fl~~n~l~~iiRg 260 (311)
T cd07419 238 VKFGPDRVHRFLEENDLQMIIRA 260 (311)
T ss_pred eeECHHHHHHHHHHCCCeEEEEe
Confidence 34467888999999999998864
No 112
>cd07417 MPP_PP5_C PP5, C-terminal metallophosphatase domain. Serine/threonine protein phosphatase-5 (PP5) is a member of the PPP gene family of protein phosphatases that is highly conserved among eukaryotes and widely expressed in mammalian tissues. PP5 has a C-terminal phosphatase domain and an extended N-terminal TPR (tetratricopeptide repeat) domain containing three TPR motifs. The PPP (phosphoprotein phosphatase) family, to which PP5 belongs, is one of two known protein phosphatase families specific for serine and threonine. The PPP family also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP6, PP7, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain is defined by three conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family is ancient with members found in all eukaryotes, and in most bacterial and archeal genomes. Dephosphorylation of phosphoserines and phosphothreonines on target proteins plays a central role in the regulation of many cel
Probab=20.97 E-value=2e+02 Score=24.70 Aligned_cols=24 Identities=29% Similarity=0.718 Sum_probs=19.8
Q ss_pred eeeeCCHHHHHHHHHHcCCcEEEeC
Q 032608 105 GLSFDSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~V~~ 129 (137)
...| ..++..+||++||+++.|.-
T Consensus 228 g~~f-g~~~~~~Fl~~n~l~~iiR~ 251 (316)
T cd07417 228 GCQF-GPDVTKRFLEENNLEYIIRS 251 (316)
T ss_pred ceEe-CHHHHHHHHHHcCCcEEEEC
Confidence 5567 67777899999999998864
No 113
>PRK12686 carbamate kinase; Reviewed
Probab=20.95 E-value=71 Score=27.64 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=18.4
Q ss_pred eeCCHHHHHHHHHHcCCcEEEe
Q 032608 107 SFDSKEAAREFAERHGWEYVVR 128 (137)
Q Consensus 107 ~F~SkE~AIayaek~Gw~Y~V~ 128 (137)
.|-|+|+|-..|+++||.|.-+
T Consensus 132 ~~~~~~~a~~~~~~~g~~~~~d 153 (312)
T PRK12686 132 PFYTEEEAKQQAEQPGSTFKED 153 (312)
T ss_pred CccCHHHHHHHHHHcCCccccc
Confidence 5999999999999999955443
No 114
>cd03593 CLECT_NK_receptors_like C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs). CLECT_NK_receptors_like: C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs), including proteins similar to oxidized low density lipoprotein (OxLDL) receptor (LOX-1), CD94, CD69, NKG2-A and -D, osteoclast inhibitory lectin (OCIL), dendritic cell-associated C-type lectin-1 (dectin-1), human myeloid inhibitory C-type lectin-like receptor (MICL), mast cell-associated functional antigen (MAFA), killer cell lectin-like receptors: subfamily F, member 1 (KLRF1) and subfamily B, member 1 (KLRB1), and lys49 receptors. CTLD refers to a domain homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins. NKRs are variously associated with activation or inhibition of natural killer (NK) cells. Activating NKRs stimulate cytolysis by NK cells of virally infected or transformed cells; inhibitory NKRs block cytolysis up
Probab=20.72 E-value=70 Score=21.60 Aligned_cols=19 Identities=5% Similarity=0.055 Sum_probs=14.7
Q ss_pred CCHHHHHHHHHHcCCcEEE
Q 032608 109 DSKEAAREFAERHGWEYVV 127 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V 127 (137)
.|=++|..+|+++|=...+
T Consensus 20 ~~w~~A~~~C~~~g~~La~ 38 (116)
T cd03593 20 KTWNESKEACSSKNSSLLK 38 (116)
T ss_pred CCHHHHHHHHHhCCCcEEE
Confidence 4678999999999865443
No 115
>PF01910 DUF77: Domain of unknown function DUF77; InterPro: IPR002767 This entry contains several hypothetical proteins of unknown function found in archaebacteria, eukaryotes and eubacteria. The structures of YBL001c from Saccharomyces cerevisiae and its homologue MTH1187 from the archaea Methanobacterium thermoautotrophicum have been determined []. These proteins have a ferredoxin-like alpha/beta sandwich structure with anti-parallel beta-sheets. Generally, they have two domains that form a single beta-sheet dimer, where two dimers pack sheet-to-sheet into a tetramer, some proteins having an extra C-terminal helix. ; PDB: 1LXJ_A 1YQH_A 2EKY_G 2EPI_A 1VK8_D 2IBO_C 1LXN_B.
Probab=20.49 E-value=87 Score=22.14 Aligned_cols=19 Identities=26% Similarity=0.307 Sum_probs=16.4
Q ss_pred HHHHHHHHHHcCCcEEEeC
Q 032608 111 KEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 111 kE~AIayaek~Gw~Y~V~~ 129 (137)
-.+||++-++.|++|+|-.
T Consensus 19 V~~~i~~i~~sgl~y~v~p 37 (92)
T PF01910_consen 19 VAEAIEVIKESGLKYEVGP 37 (92)
T ss_dssp HHHHHHHHHTSSSEEEEET
T ss_pred HHHHHHHHHHcCCceEEcC
Confidence 3689999999999999853
No 116
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=20.31 E-value=99 Score=18.55 Aligned_cols=17 Identities=18% Similarity=0.583 Sum_probs=14.1
Q ss_pred CHHHHHHHHHHcCCcEE
Q 032608 110 SKEAAREFAERHGWEYV 126 (137)
Q Consensus 110 SkE~AIayaek~Gw~Y~ 126 (137)
+.+.|+.|-++++|+.+
T Consensus 14 ~~~~A~~~L~~~~wdle 30 (43)
T PF14555_consen 14 DEDVAIQYLEANNWDLE 30 (43)
T ss_dssp SHHHHHHHHHHTTT-HH
T ss_pred CHHHHHHHHHHcCCCHH
Confidence 67999999999999853
No 117
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=20.27 E-value=53 Score=28.25 Aligned_cols=68 Identities=29% Similarity=0.412 Sum_probs=46.8
Q ss_pred ccccCCCcccccceEEEecCCCCCCCCCCCCCCCcEEEccCCCCccCCCcCccCCCC----ccCccCCceeeeCCHHHHH
Q 032608 40 GMVSGIPEEHLRRRVVIYTPARTATQQGSGKLGRWKINFMSTQKWENPLMGWTSTGD----PYANVGDAGLSFDSKEAAR 115 (137)
Q Consensus 40 ~~vSG~P~e~~~R~vrIY~Pak~amQSG~~~~~~W~LeFe~~~rw~nPLMGWtsS~D----~~sqv~~~~L~F~SkE~AI 115 (137)
-.|||+|+|.-+|- ||- =|-.-.-+|-.|.-.||-+| |.. -..|.|..+|+
T Consensus 37 LFVSGLP~DvKpRE--iyn------------------LFR~f~GYEgslLK~Tsk~~~~~~pva-----FatF~s~q~A~ 91 (284)
T KOG1457|consen 37 LFVSGLPNDVKPRE--IYN------------------LFRRFHGYEGSLLKYTSKGDQVCKPVA-----FATFTSHQFAL 91 (284)
T ss_pred eeeccCCcccCHHH--HHH------------------HhccCCCccceeeeeccCCCccccceE-----EEEecchHHHH
Confidence 47999999977663 332 12223456777888888888 443 56899999998
Q ss_pred HHHH-HcCCcEEEeCCCC
Q 032608 116 EFAE-RHGWEYVVRKPHR 132 (137)
Q Consensus 116 ayae-k~Gw~Y~V~~P~~ 132 (137)
+--. =||+.|+-+.+..
T Consensus 92 aamnaLNGvrFDpE~~st 109 (284)
T KOG1457|consen 92 AAMNALNGVRFDPETGST 109 (284)
T ss_pred HHHHHhcCeeeccccCce
Confidence 7543 4788887666543
No 118
>PF00331 Glyco_hydro_10: Glycosyl hydrolase family 10; InterPro: IPR001000 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 10 GH10 from CAZY comprises enzymes with a number of known activities; xylanase (3.2.1.8 from EC); endo-1,3-beta-xylanase (3.2.1.32 from EC); cellobiohydrolase (3.2.1.91 from EC). These enzymes were formerly known as cellulase family F. The microbial degradation of cellulose and xylans requires several types of enzymes such as endoglucanases (3.2.1.4 from EC), cellobiohydrolases (3.2.1.91 from EC) (exoglucanases), or xylanases (3.2.1.8 from EC) [, ]. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family F [] or as the glycosyl hydrolases family 10 []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1UQZ_A 1UQY_A 1UR2_A 1UR1_A 2CNC_A 1OD8_A 1E0W_A 1E0V_A 1V0M_A 1E0X_B ....
Probab=20.26 E-value=66 Score=27.15 Aligned_cols=22 Identities=23% Similarity=0.442 Sum_probs=18.2
Q ss_pred eeeeCCHHHHHHHHHHcCCcEE
Q 032608 105 GLSFDSKEAAREFAERHGWEYV 126 (137)
Q Consensus 105 ~L~F~SkE~AIayaek~Gw~Y~ 126 (137)
+..|+..++.++||+++|+...
T Consensus 55 ~~~~~~~D~~~~~a~~~g~~vr 76 (320)
T PF00331_consen 55 RFNFESADAILDWARENGIKVR 76 (320)
T ss_dssp BEE-HHHHHHHHHHHHTT-EEE
T ss_pred ccCccchhHHHHHHHhcCccee
Confidence 5799999999999999999875
No 119
>cd00488 PCD_DCoH PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein). Two DCoH proteins have been identifed in humans: DCoH1 and DCoH2. Mutations in human DCoH1 cause hyperphenylalaninemia. Loss of enzymic activity of DCoH in humans is associated with the depigmentation disorder vitiligo. DCoH1 has been reported to be overexpessed in colon cancer carc
Probab=20.19 E-value=1.3e+02 Score=20.06 Aligned_cols=16 Identities=25% Similarity=0.409 Sum_probs=14.2
Q ss_pred eeeeCCHHHHHHHHHH
Q 032608 105 GLSFDSKEAAREFAER 120 (137)
Q Consensus 105 ~L~F~SkE~AIayaek 120 (137)
..+|++-.+|++|+.+
T Consensus 13 ~f~f~~f~~a~~f~~~ 28 (75)
T cd00488 13 TFKFKDFKEAIAFVNR 28 (75)
T ss_pred EEEcCCHHHHHHHHHH
Confidence 7889999999999765
No 120
>PLN02626 malate synthase
Probab=20.13 E-value=44 Score=31.39 Aligned_cols=47 Identities=28% Similarity=0.491 Sum_probs=37.0
Q ss_pred cccCCCcccccceEEEecCCC-----CCCCCCCCCCCCcEEEccCC--CCccCCCcC
Q 032608 41 MVSGIPEEHLRRRVVIYTPAR-----TATQQGSGKLGRWKINFMST--QKWENPLMG 90 (137)
Q Consensus 41 ~vSG~P~e~~~R~vrIY~Pak-----~amQSG~~~~~~W~LeFe~~--~rw~nPLMG 90 (137)
-|..+|.++..|+|-|--|.. ||+.||- +.|..|||.. +.|.|-+-|
T Consensus 80 ~va~~p~~L~dRrvEItgP~drkm~inalNSga---~~~maDfEDs~sPtW~n~i~G 133 (551)
T PLN02626 80 RCAPVPPAVADRRVEITGPVERKMVINALNSGA---KVFMADFEDSLSPTWENLMRG 133 (551)
T ss_pred eeCCCChhhccceeeecCCCcHHHHHHHHcCCC---CEEEecCCccCCCcchhHHHH
Confidence 578899999999999987763 6777763 5799999975 688776655
No 121
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=20.11 E-value=1.4e+02 Score=19.19 Aligned_cols=23 Identities=9% Similarity=-0.038 Sum_probs=18.9
Q ss_pred eCCHHHHHHHHHHcCCcEEEeCC
Q 032608 108 FDSKEAAREFAERHGWEYVVRKP 130 (137)
Q Consensus 108 F~SkE~AIayaek~Gw~Y~V~~P 130 (137)
=.+...-+.||++.|+.|.|.--
T Consensus 37 ~~~~~~~~~~a~~~g~~~~iiig 59 (91)
T cd00860 37 NEKLGKKIREAQLQKIPYILVVG 59 (91)
T ss_pred CCCHHHHHHHHHHcCCCEEEEEC
Confidence 35778899999999999887654
No 122
>cd06575 PASTA_Pbp2x-like_2 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are attached to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=20.08 E-value=1.5e+02 Score=16.87 Aligned_cols=21 Identities=24% Similarity=0.083 Sum_probs=17.8
Q ss_pred CCHHHHHHHHHHcCCcEEEeC
Q 032608 109 DSKEAAREFAERHGWEYVVRK 129 (137)
Q Consensus 109 ~SkE~AIayaek~Gw~Y~V~~ 129 (137)
.+.++|.+..++.|+.+.+..
T Consensus 8 ~~~~~a~~~l~~~g~~~~~~~ 28 (54)
T cd06575 8 WSKRDALKLLELLGLKVKFSG 28 (54)
T ss_pred CCHHHHHHHHHHCCCeEEEee
Confidence 578999999999999987653
Done!