Query 034431
Match_columns 95
No_of_seqs 103 out of 533
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 02:47:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034431.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034431hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3430 Dynein light chain typ 100.0 2.3E-37 4.9E-42 197.0 10.6 78 1-88 13-90 (90)
2 PLN03058 dynein light chain ty 100.0 7.7E-37 1.7E-41 206.9 11.7 85 1-93 43-127 (128)
3 PTZ00059 dynein light chain; P 100.0 1E-36 2.2E-41 195.5 10.8 77 1-88 14-90 (90)
4 PF01221 Dynein_light: Dynein 100.0 3.5E-35 7.7E-40 187.3 10.3 77 1-88 13-89 (89)
5 PF04155 Ground-like: Ground-l 97.2 0.0064 1.4E-07 37.3 8.7 53 33-86 23-76 (76)
6 PF05075 DUF684: Protein of un 82.0 21 0.00047 27.5 9.4 55 34-88 188-252 (345)
7 PF12652 CotJB: CotJB protein; 76.5 3.2 6.9E-05 25.9 2.7 18 35-52 39-56 (78)
8 PF15650 Tox-REase-9: Restrict 75.2 2.4 5.3E-05 27.2 1.9 16 42-57 71-86 (89)
9 PF10703 MoaF: Molybdenum cofa 67.2 12 0.00027 28.3 4.5 38 52-92 182-220 (265)
10 COG1570 XseA Exonuclease VII, 66.8 12 0.00027 30.3 4.7 54 34-91 8-65 (440)
11 PF08776 VASP_tetra: VASP tetr 66.0 20 0.00044 19.7 4.4 33 3-48 6-38 (40)
12 cd01674 Homoaconitase_Swivel H 59.4 8.5 0.00018 26.3 2.2 35 33-68 23-62 (129)
13 PLN00072 3-isopropylmalate iso 59.2 7.3 0.00016 29.3 2.0 34 33-66 100-144 (246)
14 PRK13007 succinyl-diaminopimel 57.6 71 0.0015 23.7 7.1 40 1-48 1-40 (352)
15 PF13742 tRNA_anti_2: OB-fold 56.5 45 0.00097 21.0 5.1 53 34-90 4-62 (99)
16 PRK00286 xseA exodeoxyribonucl 56.5 36 0.00079 26.8 5.6 53 34-90 8-64 (438)
17 PF10069 DICT: Sensory domain 56.0 14 0.0003 24.6 2.8 21 48-68 106-127 (129)
18 TIGR02084 leud 3-isopropylmala 52.5 13 0.00028 25.9 2.2 34 33-66 25-62 (156)
19 PF12362 DUF3646: DNA polymera 48.7 24 0.00052 23.4 3.0 29 34-62 48-76 (117)
20 TIGR00237 xseA exodeoxyribonuc 47.9 54 0.0012 26.2 5.4 51 35-91 3-59 (432)
21 cd03472 Rieske_RO_Alpha_BPDO_l 47.8 35 0.00075 22.5 3.7 39 45-88 1-40 (128)
22 PF06457 Ectatomin: Ectatomin; 46.8 9.9 0.00021 19.9 0.7 14 34-47 21-34 (34)
23 PF12550 GCR1_C: Transcription 46.1 7.8 0.00017 23.8 0.3 12 43-54 29-40 (81)
24 TIGR02087 LEUD_arch 3-isopropy 45.3 15 0.00033 25.5 1.6 32 34-66 26-62 (154)
25 cd03538 Rieske_RO_Alpha_AntDO 44.4 74 0.0016 21.4 5.0 45 39-88 9-54 (146)
26 KOG3990 Uncharacterized conser 41.2 21 0.00047 27.3 2.0 44 7-55 54-103 (305)
27 PRK00439 leuD 3-isopropylmalat 41.0 23 0.00049 24.8 2.0 34 33-66 26-63 (163)
28 PF03701 UPF0181: Uncharacteri 39.3 65 0.0014 18.6 3.4 36 2-44 9-44 (51)
29 PF11858 DUF3378: Domain of un 37.0 50 0.0011 20.5 3.0 21 69-89 29-49 (81)
30 PF06925 MGDG_synth: Monogalac 36.4 44 0.00095 22.6 2.9 25 36-60 3-27 (169)
31 PF01726 LexA_DNA_bind: LexA D 36.4 92 0.002 18.3 4.1 31 3-41 5-35 (65)
32 PF08958 DUF1871: Domain of un 36.3 50 0.0011 20.5 2.8 19 33-51 36-54 (79)
33 PF14900 DUF4493: Domain of un 36.1 92 0.002 22.3 4.7 37 43-79 119-160 (235)
34 PRK04031 DNA primase; Provisio 35.4 1.5E+02 0.0032 24.0 6.0 50 4-59 112-178 (408)
35 cd01579 AcnA_Bact_Swivel Bacte 35.2 28 0.00062 23.2 1.7 33 34-66 25-63 (121)
36 TIGR00139 h_aconitase homoacon 34.6 22 0.00047 30.6 1.3 35 33-67 560-598 (712)
37 COG3140 Uncharacterized protei 34.5 1E+02 0.0022 18.2 4.1 36 2-44 9-44 (60)
38 PRK14023 homoaconitate hydrata 34.3 29 0.00063 24.4 1.7 33 34-67 28-65 (166)
39 TIGR01916 F420_cofE F420-0:gam 33.1 60 0.0013 24.4 3.3 33 32-64 122-154 (243)
40 KOG2130 Phosphatidylserine-spe 32.4 38 0.00083 26.9 2.2 19 50-68 277-295 (407)
41 PF06150 ChaB: ChaB; InterPro 32.0 1.1E+02 0.0023 17.7 4.4 45 2-54 10-54 (57)
42 PF05577 Peptidase_S28: Serine 31.6 73 0.0016 24.8 3.7 30 35-65 94-126 (434)
43 PRK00466 acetyl-lysine deacety 31.3 1.1E+02 0.0023 22.9 4.5 44 3-55 6-49 (346)
44 PRK13293 F420-0--gamma-glutamy 31.3 66 0.0014 24.2 3.3 31 32-62 123-153 (245)
45 PF08908 DUF1852: Domain of un 30.2 25 0.00053 27.2 0.8 24 44-67 98-121 (322)
46 PRK00103 rRNA large subunit me 30.1 78 0.0017 21.9 3.3 29 34-63 82-110 (157)
47 PF06884 DUF1264: Protein of u 30.0 50 0.0011 23.6 2.3 21 35-55 96-116 (171)
48 PRK05114 hypothetical protein; 29.9 1.1E+02 0.0023 18.2 3.3 37 2-45 9-45 (59)
49 PRK06489 hypothetical protein; 29.3 35 0.00076 25.7 1.6 34 34-67 135-169 (360)
50 PF13798 PCYCGC: Protein of un 29.2 28 0.00062 24.5 1.0 31 9-51 117-147 (158)
51 PF12006 DUF3500: Protein of u 28.9 2.7E+02 0.0058 21.4 7.9 21 1-21 221-241 (313)
52 PF06840 DUF1241: Protein of u 28.9 44 0.00096 23.4 1.9 14 34-47 122-135 (154)
53 PF04622 ERG2_Sigma1R: ERG2 an 28.9 1.2E+02 0.0026 22.3 4.2 35 7-51 34-68 (216)
54 cd03545 Rieske_RO_Alpha_OHBDO_ 28.7 1.9E+02 0.0041 19.5 5.1 44 39-87 11-56 (150)
55 PF01996 F420_ligase: F420-0:G 27.7 61 0.0013 23.7 2.5 31 32-62 130-160 (228)
56 cd06836 PLPDE_III_ODC_DapDC_li 27.4 1E+02 0.0022 23.8 3.8 31 33-63 229-261 (379)
57 PF08006 DUF1700: Protein of u 27.4 1.5E+02 0.0032 20.4 4.4 45 1-46 17-65 (181)
58 PF10925 DUF2680: Protein of u 27.2 76 0.0017 18.5 2.4 16 34-49 34-49 (59)
59 smart00674 CENPB Putative DNA- 26.7 1.3E+02 0.0027 16.9 3.4 45 3-53 5-52 (66)
60 PF01545 Cation_efflux: Cation 26.7 84 0.0018 22.6 3.1 24 34-57 253-276 (284)
61 COG1362 LAP4 Aspartyl aminopep 26.3 3.1E+02 0.0067 22.5 6.4 66 1-80 1-73 (437)
62 cd02852 Isoamylase_N_term Isoa 25.4 71 0.0015 20.3 2.3 21 47-67 45-66 (119)
63 PF05049 IIGP: Interferon-indu 25.1 1.4E+02 0.0031 23.7 4.3 40 7-58 2-42 (376)
64 cd01577 IPMI_Swivel Aconatase- 25.1 36 0.00079 21.7 0.8 16 52-67 18-33 (91)
65 PF08015 Pheromone: Fungal mat 25.0 41 0.0009 19.8 1.1 14 44-57 54-69 (69)
66 KOG4194 Membrane glycoprotein 24.9 37 0.0008 29.4 1.1 21 50-70 586-606 (873)
67 PF01743 PolyA_pol: Poly A pol 24.8 1.8E+02 0.0039 18.9 4.2 37 38-76 28-64 (126)
68 KOG3165 Predicted nucleic-acid 24.2 61 0.0013 23.4 1.9 26 36-61 47-72 (195)
69 PF08594 UPF0300: Uncharacteri 23.9 3E+02 0.0065 20.4 5.5 20 51-70 94-113 (215)
70 PF06057 VirJ: Bacterial virul 23.9 91 0.002 22.6 2.8 33 33-65 46-81 (192)
71 PF03869 Arc: Arc-like DNA bin 23.8 1.4E+02 0.0029 16.7 3.0 35 1-48 11-45 (50)
72 PF10047 DUF2281: Protein of u 23.7 1.2E+02 0.0026 17.8 2.9 21 1-21 12-32 (66)
73 cd03548 Rieske_RO_Alpha_OMO_CA 23.7 1.8E+02 0.0038 19.1 4.1 36 48-89 10-46 (136)
74 TIGR00246 tRNA_RlmH_YbeA rRNA 23.7 1.1E+02 0.0024 21.1 3.1 29 34-64 80-108 (153)
75 cd00197 VHS_ENTH_ANTH VHS, ENT 23.5 60 0.0013 20.5 1.7 21 33-56 34-54 (115)
76 PF07742 BTG: BTG family; Int 23.5 1.1E+02 0.0023 20.3 2.9 21 34-54 27-47 (118)
77 cd02680 MIT_calpain7_2 MIT: do 23.5 1.6E+02 0.0034 18.0 3.5 17 6-22 22-38 (75)
78 PRK06915 acetylornithine deace 23.4 1.7E+02 0.0037 22.5 4.4 37 5-50 15-51 (422)
79 cd02860 Pullulanase_N_term Pul 23.4 81 0.0017 19.4 2.2 15 44-58 40-54 (100)
80 cd01578 AcnA_Mitochon_Swivel M 23.3 49 0.0011 23.1 1.3 20 49-68 67-86 (149)
81 PF15571 Imm25: Immunity prote 23.1 54 0.0012 22.2 1.4 23 34-56 17-39 (124)
82 PF13368 Toprim_C_rpt: Topoiso 22.7 70 0.0015 18.5 1.7 17 55-71 7-24 (61)
83 cd05503 Bromo_BAZ2A_B_like Bro 22.7 2E+02 0.0044 17.8 4.1 39 3-49 59-97 (97)
84 PRK13888 conjugal transfer pro 22.6 40 0.00086 24.8 0.7 26 31-56 84-109 (206)
85 TIGR00171 leuD 3-isopropylmala 22.3 43 0.00094 24.1 0.9 12 55-66 72-84 (188)
86 PRK06765 homoserine O-acetyltr 21.9 46 0.001 26.0 1.0 34 33-66 142-175 (389)
87 cd05392 RasGAP_Neurofibromin_l 21.6 74 0.0016 24.1 2.1 25 34-58 150-174 (323)
88 PF02806 Alpha-amylase_C: Alph 21.6 1.5E+02 0.0033 17.7 3.2 38 50-87 46-93 (95)
89 PF02283 CobU: Cobinamide kina 21.5 1.3E+02 0.0027 20.8 3.1 29 34-63 36-65 (167)
90 PF14372 DUF4413: Domain of un 21.2 1.3E+02 0.0028 19.0 2.8 19 32-50 31-49 (101)
91 TIGR02735 purC_vibrio phosphor 20.9 1.5E+02 0.0031 23.7 3.6 44 1-50 320-363 (365)
92 COG1698 Uncharacterized protei 20.6 2.5E+02 0.0054 18.1 4.2 41 4-48 9-49 (93)
93 PF13565 HTH_32: Homeodomain-l 20.5 1.9E+02 0.004 16.6 3.4 17 33-49 50-66 (77)
94 TIGR01738 bioH putative pimelo 20.5 54 0.0012 21.7 1.0 29 33-66 51-79 (245)
95 PRK01641 leuD isopropylmalate 20.4 50 0.0011 24.0 0.9 34 34-67 35-83 (200)
96 PF06983 3-dmu-9_3-mt: 3-demet 20.4 52 0.0011 21.3 0.9 11 46-56 106-116 (116)
97 COG0066 LeuD 3-isopropylmalate 20.1 51 0.0011 24.0 0.9 12 55-66 66-77 (191)
98 cd05391 RasGAP_p120GAP p120GAP 20.0 66 0.0014 24.8 1.5 22 33-54 149-170 (315)
No 1
>KOG3430 consensus Dynein light chain type 1 [Cytoskeleton]
Probab=100.00 E-value=2.3e-37 Score=197.02 Aligned_cols=78 Identities=45% Similarity=0.939 Sum_probs=75.1
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEEeCCE
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFSIDSL 80 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~~ 80 (95)
||++||++|++++++|+++|++ +.++||..||++||++||++||||||++|||+|||++++||||++|.+
T Consensus 13 M~~~mq~~a~~~a~~al~~f~~----------~~k~iA~~iKkefDkkyG~~WhcivG~~FGs~vThe~g~Fiyf~~g~l 82 (90)
T KOG3430|consen 13 MPEEMQQEAIELARQALEKFNV----------IEKDIAAFIKKEFDKKYGPTWHCIVGRNFGSYVTHETGHFIYFYLGVL 82 (90)
T ss_pred CChHHHHHHHHHHHHHHHHcCC----------ChHHHHHHHHHHHhhhcCCccEEEEcCCcceEEEeecCcEEEEEeceE
Confidence 9999999999999999999984 379999999999999999999999999999999999999999999999
Q ss_pred EEEEEeeC
Q 034431 81 SVLLFKTE 88 (95)
Q Consensus 81 ~iLl~ks~ 88 (95)
+|||||+.
T Consensus 83 ~illfK~~ 90 (90)
T KOG3430|consen 83 AILLFKCA 90 (90)
T ss_pred EEEEEecC
Confidence 99999974
No 2
>PLN03058 dynein light chain type 1 family protein; Provisional
Probab=100.00 E-value=7.7e-37 Score=206.94 Aligned_cols=85 Identities=55% Similarity=0.976 Sum_probs=79.5
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEEeCCE
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFSIDSL 80 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~~ 80 (95)
||++||++|+++|.+|+++|+. ..++++||.+||++||++|||+||||||++|||+|||++++||||++|++
T Consensus 43 M~~emQ~~ave~a~~Al~k~~~--------~~~ekdIA~~IKk~fDkkYG~tWHCIVGk~FGs~VTHe~~~fIyF~ig~~ 114 (128)
T PLN03058 43 MPLVLQNRAFSCARDILDAMPG--------KLDSKRLALALKKEFDSAYGPAWHCIVGTSFGSYVTHSTGGFLYFSIDKV 114 (128)
T ss_pred CCHHHHHHHHHHHHHHHHHccc--------cCCHHHHHHHHHHHHhhhhCCceEEEECCcEEEEEEEcCCcEEEEEECCE
Confidence 9999999999999999999752 12479999999999999999999999999999999999999999999999
Q ss_pred EEEEEeeCCcccc
Q 034431 81 SVLLFKTEVQLVK 93 (95)
Q Consensus 81 ~iLl~ks~~~~~~ 93 (95)
+|||||++.+|+.
T Consensus 115 aiLLfKt~~~~~~ 127 (128)
T PLN03058 115 YILLFKTAVEPLD 127 (128)
T ss_pred EEEEEeccCccCC
Confidence 9999999999874
No 3
>PTZ00059 dynein light chain; Provisional
Probab=100.00 E-value=1e-36 Score=195.48 Aligned_cols=77 Identities=40% Similarity=0.865 Sum_probs=74.4
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEEeCCE
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFSIDSL 80 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~~ 80 (95)
||++||++|++++.+|+++|+. +++||++||++||++|||+||||||++|||++||++++||||+++++
T Consensus 14 M~~emq~~a~~~~~~Al~~~~~-----------~kdiA~~IK~~fD~~yg~~WhciVG~~Fgs~vthe~~~~i~F~~~~~ 82 (90)
T PTZ00059 14 MSEDMQQDAIDCANQALEKFNI-----------EKDIAAYIKKEFDKKYNPTWHCIVGRNFGSYVTHETKHFIYFYLGQV 82 (90)
T ss_pred CCHHHHHHHHHHHHHHHHHcCc-----------hHHHHHHHHHHHHhhcCCCCEEEEecCeeEEEEEeCCcEEEEEECCE
Confidence 8999999999999999999864 68999999999999999999999999999999999999999999999
Q ss_pred EEEEEeeC
Q 034431 81 SVLLFKTE 88 (95)
Q Consensus 81 ~iLl~ks~ 88 (95)
+|||||++
T Consensus 83 ~vLlfK~~ 90 (90)
T PTZ00059 83 AILLFKSG 90 (90)
T ss_pred EEEEEecC
Confidence 99999985
No 4
>PF01221 Dynein_light: Dynein light chain type 1 ; InterPro: IPR001372 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits (see IPR004273 from INTERPRO), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family [, ]. Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer alpha-beta core structure consisting of beta-alpha(2)-beta-X-beta(2) [, ].; GO: 0007017 microtubule-based process, 0005875 microtubule associated complex; PDB: 1F95_A 1F96_A 1F3C_A 3P8M_B 2XQQ_C 1RE6_A 1CMI_A 1PWK_A 1PWJ_A 4DS1_C ....
Probab=100.00 E-value=3.5e-35 Score=187.26 Aligned_cols=77 Identities=47% Similarity=0.964 Sum_probs=72.0
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEEeCCE
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFSIDSL 80 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~~ 80 (95)
||++||++|+++|.+|++++++ ++++|++||+.||++|||+||||||++|||++||+++++++|+++++
T Consensus 13 M~~~~~~~~~~~~~~a~~~~~~-----------~~eiA~~iK~~lD~~yG~~Wh~IVG~~Fg~~~th~~~~~~~f~~~~~ 81 (89)
T PF01221_consen 13 MPEEMQEEAIELAKEALKKYQD-----------EKEIAEFIKQELDKKYGPTWHCIVGKSFGSSVTHEPGTFLYFKIGNI 81 (89)
T ss_dssp S-HHHHHHHHHHHHHHHHHCSS-----------HHHHHHHHHHHHHHHHSS-EEEEEESEEEEEEEEETTEEEEEEETTE
T ss_pred CCHHHHHHHHHHHHHHHHHCCc-----------HHHHHHHHHHHHhcccCCceEEEECCcEEEEEEEcCCcEEEEEECCE
Confidence 8999999999999999999764 78999999999999999999999999999999999999999999999
Q ss_pred EEEEEeeC
Q 034431 81 SVLLFKTE 88 (95)
Q Consensus 81 ~iLl~ks~ 88 (95)
.|||||++
T Consensus 82 ~~li~kt~ 89 (89)
T PF01221_consen 82 AFLIFKTQ 89 (89)
T ss_dssp EEEEEEE-
T ss_pred EEEEEecC
Confidence 99999985
No 5
>PF04155 Ground-like: Ground-like domain; InterPro: IPR007284 This group of proteins contain one or more copies of the ground-like domain, which are specific to Caenorhabditis elegans and Caenorhabditis briggsae. It has been proposed that the ground-like domain containing proteins may bind and modulate the activity of Patched-like membrane molecules, reminiscent of the modulating activities of neuropeptides [].
Probab=97.22 E-value=0.0064 Score=37.30 Aligned_cols=53 Identities=15% Similarity=0.280 Sum_probs=45.1
Q ss_pred CHHHHHHHHHHHhhhcCCCceEEEEc-cceeeeEEEcCCcEEEEEeCCEEEEEEe
Q 034431 33 NPTHLARALKKEFDDAYGPAWHCVVG-KSFGSFVTHSPAGFLYFSIDSLSVLLFK 86 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~WhcIVG-~~Fgs~vth~~~~~i~f~~~~~~iLl~k 86 (95)
+...+++.|.+.+.++||..+-||++ ++|....... ..|--...++...++|+
T Consensus 23 ~~~~s~~~Iq~~~e~~f~~~f~vIcs~~~Fsy~~~~~-~~~C~~~~~g~~c~af~ 76 (76)
T PF04155_consen 23 NLSISKRAIQKAAEKRFGGSFEVICSEGDFSYSTHTD-DLYCKVEKNGVTCLAFA 76 (76)
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEeCCCceeEEecc-cceeeeeeCCEEEEEEC
Confidence 47899999999999999999999996 6676665555 77777889999999985
No 6
>PF05075 DUF684: Protein of unknown function (DUF684); InterPro: IPR007767 This family contains uncharacterised proteins from Caenorhabditis elegans.
Probab=82.02 E-value=21 Score=27.55 Aligned_cols=55 Identities=9% Similarity=0.204 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHhhhcCC-CceEEEEcc------ceeee--EEEcCCcEEEE-EeCCEEEEEEeeC
Q 034431 34 PTHLARALKKEFDDAYG-PAWHCVVGK------SFGSF--VTHSPAGFLYF-SIDSLSVLLFKTE 88 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg-~~WhcIVG~------~Fgs~--vth~~~~~i~f-~~~~~~iLl~ks~ 88 (95)
-.+.|..||+.||+-.- -.+-+||-. +...+ ..+....+|.. .-|+..|+||||.
T Consensus 188 n~eKAd~Ik~~Le~ilTnDsFYIiVfd~~~~~~~~~~y~~~~~~~dq~I~s~~rGgcNv~VYRS~ 252 (345)
T PF05075_consen 188 NEEKADEIKKKLEKILTNDSFYIIVFDDCSGYDNHYYYGFYDNNEDQYIESFNRGGCNVFVYRSK 252 (345)
T ss_pred hHHHHHHHHHHHHhhCCCCcEEEEEecccccCCccceeeeccCcccCEEEEEeCCCeEEEEEeeC
Confidence 57899999999999653 467888811 11112 13445566654 5788999999993
No 7
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=76.50 E-value=3.2 Score=25.85 Aligned_cols=18 Identities=39% Similarity=0.831 Sum_probs=14.0
Q ss_pred HHHHHHHHHHhhhcCCCc
Q 034431 35 THLARALKKEFDDAYGPA 52 (95)
Q Consensus 35 ~~iA~~IK~~lD~~yg~~ 52 (95)
...-+.+++.+.++|||-
T Consensus 39 ~~~~~~l~~~Ye~~yGPL 56 (78)
T PF12652_consen 39 SKQRKQLKKEYEKRYGPL 56 (78)
T ss_pred HHHHHHHHHHHHHHhCCC
Confidence 344566889999999985
No 8
>PF15650 Tox-REase-9: Restriction endonuclease fold toxin 9
Probab=75.15 E-value=2.4 Score=27.17 Aligned_cols=16 Identities=31% Similarity=0.835 Sum_probs=14.5
Q ss_pred HHHhhhcCCCceEEEE
Q 034431 42 KKEFDDAYGPAWHCVV 57 (95)
Q Consensus 42 K~~lD~~yg~~WhcIV 57 (95)
|++|...||.+|.|||
T Consensus 71 ~~el~~~~G~~W~~~l 86 (89)
T PF15650_consen 71 KQELEKIYGGGWKTRL 86 (89)
T ss_pred HHHhcCccCCCeeEEe
Confidence 4789999999999998
No 9
>PF10703 MoaF: Molybdenum cofactor biosynthesis protein F; InterPro: IPR024724 Molybdenum cofactor biosynthesis protein F (MoaF) is essential for the production of the monoamine-inducible 30kDa protein in Klebsiella []. It is necessary for reconstituting organoautotrophic growth in Ralstonia eutropha []. MoaF is conserved in proteobacteria and some lower eukaryotes. The operon regulating the Moa genes is responsible for molybdenum cofactor biosynthesis.
Probab=67.16 E-value=12 Score=28.35 Aligned_cols=38 Identities=24% Similarity=0.570 Sum_probs=28.0
Q ss_pred ceEEEEccceeeeEEEcCCcEEEEEeC-CEEEEEEeeCCccc
Q 034431 52 AWHCVVGKSFGSFVTHSPAGFLYFSID-SLSVLLFKTEVQLV 92 (95)
Q Consensus 52 ~WhcIVG~~Fgs~vth~~~~~i~f~~~-~~~iLl~ks~~~~~ 92 (95)
+|||+.|-.=| -.+....-++++. ++.+++|+-..-|+
T Consensus 182 ~W~CL~G~e~G---laD~D~c~~~Ki~d~lYlf~WrEkiiPv 220 (265)
T PF10703_consen 182 AWQCLSGVEKG---LADTDRCHYYKIADNLYLFTWREKIIPV 220 (265)
T ss_pred EEEEeeccccC---CCCccceEEEEecCCEEEEEEEecccce
Confidence 79999996655 3356788888884 48888888765443
No 10
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=66.77 E-value=12 Score=30.29 Aligned_cols=54 Identities=26% Similarity=0.530 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEEeCC----EEEEEEeeCCcc
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFSIDS----LSVLLFKTEVQL 91 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~----~~iLl~ks~~~~ 91 (95)
-.++..+||..||..+|..| |-|+ =|.+|+-+.-..||.+.+ +...+|+.....
T Consensus 8 VSeln~~ik~llE~~~~~V~--v~GE--ISn~t~~~sgH~YFtLKD~~A~i~c~mf~~~~~~ 65 (440)
T COG1570 8 VSELNDYIKRLLERDLGQVW--VRGE--ISNFTRPASGHLYFTLKDERAQIRCVMFKGNNRR 65 (440)
T ss_pred HHHHHHHHHHHHHhcCCeEE--EEEE--ecCCccCCCccEEEEEccCCceEEEEEEcCcccc
Confidence 46899999999999999877 2242 245564444499999855 678899887553
No 11
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=66.01 E-value=20 Score=19.68 Aligned_cols=33 Identities=15% Similarity=0.274 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhc
Q 034431 3 AHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDA 48 (95)
Q Consensus 3 ~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~ 48 (95)
+.|+++|++.++.-+++.. .+|-..|+++|.+.
T Consensus 6 e~~KqEIL~EvrkEl~K~K-------------~EIIeA~~~eL~r~ 38 (40)
T PF08776_consen 6 ERLKQEILEEVRKELQKVK-------------EEIIEAIRQELSRR 38 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHhcc
Confidence 4588999999999999854 46888899888764
No 12
>cd01674 Homoaconitase_Swivel Homoaconitase swivel domain. This family includes homoaconitase and other uncharacterized proteins of the Aconitase family. Homoaconitase is part of an unusual lysine biosynthesis pathway found only in filamentous fungi, in which lysine is synthesized via the alpha-aminoadipate pathway. In this pathway, homoaconitase catalyzes the conversion of cis-homoaconitic acid into homoisocitric acid. The reaction mechanism is believed to be similar to that of other aconitases. This is the swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=59.39 E-value=8.5 Score=26.29 Aligned_cols=35 Identities=20% Similarity=0.458 Sum_probs=25.1
Q ss_pred CHHHHHHHHHHHhhhcC----CCceEEEE-ccceeeeEEEc
Q 034431 33 NPTHLARALKKEFDDAY----GPAWHCVV-GKSFGSFVTHS 68 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~y----g~~WhcIV-G~~Fgs~vth~ 68 (95)
+.+++|+++-+.+|..| .+. .+|| |++||+==|.|
T Consensus 23 ~~e~la~~~~e~~dp~f~~~v~~g-dilVaG~nFG~GSSRE 62 (129)
T cd01674 23 TPEKMAEVCMENYDSEFSTKTKQG-DILVSGFNFGTGSSRE 62 (129)
T ss_pred CHHHHHHhhcccCCchhhhcCCCC-CEEEeCCccCCCCcHH
Confidence 46789999988888655 233 6777 89999754443
No 13
>PLN00072 3-isopropylmalate isomerase/dehydratase small subunit; Provisional
Probab=59.20 E-value=7.3 Score=29.28 Aligned_cols=34 Identities=15% Similarity=0.322 Sum_probs=22.9
Q ss_pred CHHHHHHHHHHHhhh----cC---C---CceEEEE-ccceeeeEE
Q 034431 33 NPTHLARALKKEFDD----AY---G---PAWHCVV-GKSFGSFVT 66 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~----~y---g---~~WhcIV-G~~Fgs~vt 66 (95)
+..++++++-..+|. ++ | +.+.+|| |+||||==+
T Consensus 100 ~~~~l~~~~F~~l~~~~~~r~v~~Gd~~~~~~IIVaG~NFGcGSS 144 (246)
T PLN00072 100 EYEKLGSYALIGLPAFYKTRFVEPGEMKTKYSIIIGGENFGCGSS 144 (246)
T ss_pred CHHHHHHhhhccCCcchhhcccCCCCCCCCceEEEecCcccCCCc
Confidence 357788888766652 22 2 3588999 899997433
No 14
>PRK13007 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=57.59 E-value=71 Score=23.71 Aligned_cols=40 Identities=20% Similarity=0.195 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhc
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDA 48 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~ 48 (95)
|+.+...++++..+++++.-. . ..++.++|++|++.|++.
T Consensus 1 ~~~~~~~~~~~~l~~li~ips-------~-s~~e~~~~~~l~~~l~~~ 40 (352)
T PRK13007 1 MTLDLAADLAELTAALVDIPS-------V-SGDEKALADAVEAALRAL 40 (352)
T ss_pred CccchHHHHHHHHHHHhcCCC-------C-CchHHHHHHHHHHHHHhC
Confidence 677888899999999887522 1 234789999999999986
No 15
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=56.54 E-value=45 Score=21.02 Aligned_cols=53 Identities=21% Similarity=0.579 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhhhc--CCCceEEEEccceeeeEEEcCCcEEEEEeCC----EEEEEEeeCCc
Q 034431 34 PTHLARALKKEFDDA--YGPAWHCVVGKSFGSFVTHSPAGFLYFSIDS----LSVLLFKTEVQ 90 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~--yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~----~~iLl~ks~~~ 90 (95)
..++.++||+.|+.. ++..| |.|+ -...=.| .+.++||.+.+ ....+|++...
T Consensus 4 Vs~l~~~ik~~le~~~~~~~vw--V~GE-Is~~~~~-~~gh~YftLkD~~a~i~~~~~~~~~~ 62 (99)
T PF13742_consen 4 VSELNNYIKDLLERDPPLPNVW--VEGE-ISNLKRH-SSGHVYFTLKDEEASISCVIFRSRAR 62 (99)
T ss_pred HHHHHHHHHHHHhcCCCcCCEE--EEEE-EeecEEC-CCceEEEEEEcCCcEEEEEEEHHHHh
Confidence 467999999999998 56776 3343 2222234 67778999733 67888887643
No 16
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=56.50 E-value=36 Score=26.81 Aligned_cols=53 Identities=26% Similarity=0.540 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEEeCC----EEEEEEeeCCc
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFSIDS----LSVLLFKTEVQ 90 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~~~~----~~iLl~ks~~~ 90 (95)
..++..+||..|+..++..| |.|+ =|.+++-..-++||.+.+ ....+|++...
T Consensus 8 vsel~~~ik~~le~~~~~v~--v~gE--is~~~~~~sGH~Yf~Lkd~~a~i~~~~~~~~~~ 64 (438)
T PRK00286 8 VSELNRYVKSLLERDLGQVW--VRGE--ISNFTRHSSGHWYFTLKDEIAQIRCVMFKGSAR 64 (438)
T ss_pred HHHHHHHHHHHHHhhCCcEE--EEEE--eCCCeeCCCCeEEEEEEcCCcEEEEEEEcChhh
Confidence 57899999999999977777 4464 233343355679999843 78999997644
No 17
>PF10069 DICT: Sensory domain found in DIguanylate Cyclases & Two-component systems; InterPro: IPR019278 This entry, found in various cyanobacterial sensor proteins that catalyse the reaction [ATP + protein L-histidine = ADP + protein N- phospho-L-histidine], has no known function.
Probab=56.04 E-value=14 Score=24.60 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=16.2
Q ss_pred cCCCceEEEE-ccceeeeEEEc
Q 034431 48 AYGPAWHCVV-GKSFGSFVTHS 68 (95)
Q Consensus 48 ~yg~~WhcIV-G~~Fgs~vth~ 68 (95)
.....|+||| |.+|.+.+...
T Consensus 106 ~L~~EWfvvv~~~~~~~~LvA~ 127 (129)
T PF10069_consen 106 PLRREWFVVVDGPHFAAALVAR 127 (129)
T ss_pred CceeEEEEEEECCCCeEEEEEe
Confidence 4568899999 88888876544
No 18
>TIGR02084 leud 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The members of the seed for this model are those sequences which are gene clustered with other genes involved in leucine biosynthesis and include some archaea.
Probab=52.53 E-value=13 Score=25.94 Aligned_cols=34 Identities=24% Similarity=0.363 Sum_probs=22.3
Q ss_pred CHHHHHHHHHHHhhh----cCCCceEEEEccceeeeEE
Q 034431 33 NPTHLARALKKEFDD----AYGPAWHCVVGKSFGSFVT 66 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~----~yg~~WhcIVG~~Fgs~vt 66 (95)
+.+++++++-+.+|. ++.+..-+|.|+||||==|
T Consensus 25 ~~~~l~~~~f~~~~p~f~~~~~~g~iiVaG~NFG~GSS 62 (156)
T TIGR02084 25 DPKELAKHCMEDLDKDFVKKVKEGDIIVAGENFGCGSS 62 (156)
T ss_pred CHHHHHhhhhccCChhHHhhcCCCCEEEccCcccCCCc
Confidence 367788887777764 4455544444999997433
No 19
>PF12362 DUF3646: DNA polymerase III gamma and tau subunits C terminal; InterPro: IPR022107 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00004 from PFAM. The proteins in this family are frequently annotated as the gamma and tau subunits of DNA polymerase III, however there is little accompanying literature to back this up.
Probab=48.71 E-value=24 Score=23.43 Aligned_cols=29 Identities=24% Similarity=0.533 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEEcccee
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVVGKSFG 62 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIVG~~Fg 62 (95)
..++|..|.+.|..--|..|.|.+.+.=|
T Consensus 48 p~dl~~~L~~~L~~wTG~rW~V~~s~~~g 76 (117)
T PF12362_consen 48 PKDLAQRLSRKLQEWTGQRWIVSLSNEPG 76 (117)
T ss_pred CHHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence 57999999999999999999999965533
No 20
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=47.92 E-value=54 Score=26.15 Aligned_cols=51 Identities=18% Similarity=0.522 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhhhcCCCceEEEEcc--ceeeeEEEcCCcEEEEEeCC----EEEEEEeeCCcc
Q 034431 35 THLARALKKEFDDAYGPAWHCVVGK--SFGSFVTHSPAGFLYFSIDS----LSVLLFKTEVQL 91 (95)
Q Consensus 35 ~~iA~~IK~~lD~~yg~~WhcIVG~--~Fgs~vth~~~~~i~f~~~~----~~iLl~ks~~~~ 91 (95)
.++..+||..||..++..| |.|+ +|- .| ..-++||.+.+ ....+|++..+.
T Consensus 3 sel~~~ik~~le~~~~~v~--V~GEisn~~---~~-~sGH~YFtLkD~~a~i~~vmf~~~~~~ 59 (432)
T TIGR00237 3 SELNAQIKALLEATFLQVW--IQGEISNFT---QP-VSGHWYFTLKDENAQVRCVMFRGNNNR 59 (432)
T ss_pred HHHHHHHHHHHHhhCCcEE--EEEEecCCe---eC-CCceEEEEEEcCCcEEEEEEEcChhhC
Confidence 4788999999999888666 3353 333 34 44578999843 688999987543
No 21
>cd03472 Rieske_RO_Alpha_BPDO_like Rieske non-heme iron oxygenase (RO) family, Biphenyl dioxygenase (BPDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of BPDO and similar proteins including cumene dioxygenase (CumDO), nitrobenzene dioxygenase (NBDO), alkylbenzene dioxygenase (AkbDO) and dibenzofuran 4,4a-dioxygenase (DFDO). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. BPDO degrades biphenyls and polychlorinated biphenyls (PCB's) while CumDO degrades cumene (isopropylbenzene), an aromatic hydrocarbon that is i
Probab=47.79 E-value=35 Score=22.53 Aligned_cols=39 Identities=8% Similarity=0.282 Sum_probs=26.7
Q ss_pred hhhcCCCceEEEEc-cceeeeEEEcCCcEEEEEeCCEEEEEEeeC
Q 034431 45 FDDAYGPAWHCVVG-KSFGSFVTHSPAGFLYFSIDSLSVLLFKTE 88 (95)
Q Consensus 45 lD~~yg~~WhcIVG-~~Fgs~vth~~~~~i~f~~~~~~iLl~ks~ 88 (95)
|++-+...|+.|.- ..+. +++.+..+.+++..|+|++..
T Consensus 1 ~~~i~~~~W~~v~~~~el~-----~~g~~~~~~~~~~~i~l~r~~ 40 (128)
T cd03472 1 LERVFARSWLLLGHETHIP-----KAGDYLTTYMGEDPVIVVRQK 40 (128)
T ss_pred CcchhhCCCeEeEEHHHCC-----CCCCEEEEEECCceEEEEECC
Confidence 45667888998762 3332 346666677888888888853
No 22
>PF06457 Ectatomin: Ectatomin; InterPro: IPR009458 Ectatomin is a toxin from the venom of the ant Ectatomma tuberculatum. Ectatomin can efficiently insert into the plasma membrane, where it can form channels. Ectatomin was shown to inhibit L-type calcium currents in isolated rat cardiac myocytes []. In these cells, ectatomin induces a gradual, irreversible increase in ion leakage across the membrane, which can lead to cell death. Ectatomin is comprised of two subunits, A and B, which are homologous. The structure of ectatomin reveals that each subunit consists of two alpha helices with a connecting hinge region, which form a hairpin structure that is stabilised by disulphide bridges. A disulphide bridge between the hinge regions of the two subunits links the heterodimer together, forming a closed bundle of four helices with a left-handed twist [].; GO: 0005216 ion channel activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1ECI_A.
Probab=46.75 E-value=9.9 Score=19.92 Aligned_cols=14 Identities=21% Similarity=0.423 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHhhh
Q 034431 34 PTHLARALKKEFDD 47 (95)
Q Consensus 34 ~~~iA~~IK~~lD~ 47 (95)
..+||.+||++.|+
T Consensus 21 ~g~iat~ik~~c~k 34 (34)
T PF06457_consen 21 SGSIATMIKRKCDK 34 (34)
T ss_dssp SCCHHHHHHHHCH-
T ss_pred cccHHHHHHHHhCC
Confidence 46899999998875
No 23
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=46.13 E-value=7.8 Score=23.75 Aligned_cols=12 Identities=25% Similarity=1.024 Sum_probs=10.4
Q ss_pred HHhhhcCCCceE
Q 034431 43 KEFDDAYGPAWH 54 (95)
Q Consensus 43 ~~lD~~yg~~Wh 54 (95)
+.|+++||..|-
T Consensus 29 ~~le~~yG~~WR 40 (81)
T PF12550_consen 29 RSLEKKYGSKWR 40 (81)
T ss_pred HHHHHHhChhhc
Confidence 568999999996
No 24
>TIGR02087 LEUD_arch 3-isopropylmalate dehydratase, small subunit. This subfamily is most closely related to the 3-isopropylmalate dehydratase, small subunits which form TIGR00171. This subfamily includes the members of TIGR02084 which are gene clustered with other genes of leucine biosynthesis. The rest of the subfamily includes mainly archaeal species which exhibit two hits to this model. In these cases it is possible that one or the other of the hits does not have a 3-isopropylmalate dehydratase activity but rather one of the other related aconitase-like activities.
Probab=45.25 E-value=15 Score=25.53 Aligned_cols=32 Identities=31% Similarity=0.573 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHhhhcC----CCceEEEE-ccceeeeEE
Q 034431 34 PTHLARALKKEFDDAY----GPAWHCVV-GKSFGSFVT 66 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~y----g~~WhcIV-G~~Fgs~vt 66 (95)
.+.+++++-..+|..| .+. .+|| |+||||==|
T Consensus 26 ~~~l~~~~f~~~~p~f~~~~~~g-~iiVaG~NFG~GSS 62 (154)
T TIGR02087 26 PDELASHAMEGIDPEFAKKVRPG-DVIVAGKNFGCGSS 62 (154)
T ss_pred HHHHHhhccCcCCchhhhcCCCC-cEEEcCCcccCCcc
Confidence 5677777776666433 444 5666 899997433
No 25
>cd03538 Rieske_RO_Alpha_AntDO Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. AntDO converts anthranilate to catechol, a naturally occurring compound formed through tryptophan degradation and an important intermediate in the metabolism of many N-heterocyclic compounds such as indole, o-nitrobenzoate, carbazole, and quinaldine.
Probab=44.40 E-value=74 Score=21.43 Aligned_cols=45 Identities=18% Similarity=0.406 Sum_probs=32.7
Q ss_pred HHHHHHhhhcCCCceEEEEc-cceeeeEEEcCCcEEEEEeCCEEEEEEeeC
Q 034431 39 RALKKEFDDAYGPAWHCVVG-KSFGSFVTHSPAGFLYFSIDSLSVLLFKTE 88 (95)
Q Consensus 39 ~~IK~~lD~~yg~~WhcIVG-~~Fgs~vth~~~~~i~f~~~~~~iLl~ks~ 88 (95)
+....+++.-+...|+.|.- ... -+++.++-+.+++..|+|++..
T Consensus 9 ~~~~~e~~~i~~~~W~~v~~~~el-----p~~G~~~~~~i~g~~i~v~r~~ 54 (146)
T cd03538 9 EIFALEMERLFGNAWIYVGHESQV-----PNPGDYITTRIGDQPVVMVRHT 54 (146)
T ss_pred HHHHHHHHHHhhcCCEEEEEHHHC-----CCCCCEEEEEECCeeEEEEECC
Confidence 44557778888999998762 333 1357788888899999999864
No 26
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.16 E-value=21 Score=27.28 Aligned_cols=44 Identities=14% Similarity=0.220 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhh------cCCCceEE
Q 034431 7 QHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDD------AYGPAWHC 55 (95)
Q Consensus 7 ~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~------~yg~~Whc 55 (95)
+.+...+..++.+|.+ +..+.+.+-||.+|...-++ +|||.-.|
T Consensus 54 ~t~CkkCah~~~kfG~-----P~pC~~CkiiaAF~g~kc~rctn~e~kyGpp~~C 103 (305)
T KOG3990|consen 54 NTICKKCAHNVRKFGT-----PKPCQYCKIIAAFIGRKCQRCTNSEKKYGPPLLC 103 (305)
T ss_pred hhHHHHHHHHHHhcCC-----CCcchhhhhhhhhccchhhhccchhhccCCchhH
Confidence 4567778889999985 33467789999999999998 99998765
No 27
>PRK00439 leuD 3-isopropylmalate dehydratase small subunit; Reviewed
Probab=40.96 E-value=23 Score=24.78 Aligned_cols=34 Identities=26% Similarity=0.513 Sum_probs=22.6
Q ss_pred CHHHHHHHHHHHhhhcCC---CceEEEE-ccceeeeEE
Q 034431 33 NPTHLARALKKEFDDAYG---PAWHCVV-GKSFGSFVT 66 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg---~~WhcIV-G~~Fgs~vt 66 (95)
+...+++++-+.+|..|- +..++|| |+|||+==|
T Consensus 26 ~~~~l~~~~f~~~~p~f~~~~~~g~IiVaG~NfG~GSS 63 (163)
T PRK00439 26 DPQELAKHCMEDLDPEFAKKVKPGDIIVAGKNFGCGSS 63 (163)
T ss_pred CHHHHHHHHhccCCcchHhhcCCceEEEeCCcccCCcc
Confidence 356788887777764431 2347888 899997433
No 28
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=39.26 E-value=65 Score=18.57 Aligned_cols=36 Identities=17% Similarity=0.176 Sum_probs=25.4
Q ss_pred CHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHH
Q 034431 2 PAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKE 44 (95)
Q Consensus 2 ~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~ 44 (95)
+-+-|+.+++.+++++.+- +.+ .+-...+|+.|++.
T Consensus 9 tHeeQQ~AvE~Iq~LMaqG-----mSs--gEAI~~VA~~iRe~ 44 (51)
T PF03701_consen 9 THEEQQQAVERIQELMAQG-----MSS--GEAIAIVAQEIREE 44 (51)
T ss_pred CHHHHHHHHHHHHHHHHhc-----ccH--HHHHHHHHHHHHHH
Confidence 4578999999999999882 221 22356778888754
No 29
>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3.1.26 from EC cleaves RNA from DNA-RNA hybrids. It catalyses endonucleolytic cleavage to 5'-phospho-monoesters. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other []. The only RNase H homologue in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This entry represents the uncharacterised N-terminal domain of bacterial RNase HIII.; PDB: 3ASM_A 2D0C_A 2D0B_A 2D0A_A.
Probab=37.03 E-value=50 Score=20.45 Aligned_cols=21 Identities=10% Similarity=0.275 Sum_probs=17.2
Q ss_pred CCcEEEEEeCCEEEEEEeeCC
Q 034431 69 PAGFLYFSIDSLSVLLFKTEV 89 (95)
Q Consensus 69 ~~~~i~f~~~~~~iLl~ks~~ 89 (95)
++..+.++.++..|.+|+|+.
T Consensus 29 p~~~f~aK~~~~tIt~Y~SGK 49 (81)
T PF11858_consen 29 PYAVFQAKYNGVTITAYKSGK 49 (81)
T ss_dssp TTEEEEEEETTEEEEEETTSE
T ss_pred CCEEEEEeCCCeEEEEEeCCe
Confidence 556666778999999999985
No 30
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=36.41 E-value=44 Score=22.59 Aligned_cols=25 Identities=28% Similarity=0.288 Sum_probs=21.3
Q ss_pred HHHHHHHHHhhhcCCCceEEEEccc
Q 034431 36 HLARALKKEFDDAYGPAWHCVVGKS 60 (95)
Q Consensus 36 ~iA~~IK~~lD~~yg~~WhcIVG~~ 60 (95)
..|+.|++.|..+||+...|.|-.-
T Consensus 3 ~aA~Al~eal~~~~~~~~~v~v~D~ 27 (169)
T PF06925_consen 3 SAARALAEALERRRGPDAEVEVVDF 27 (169)
T ss_pred HHHHHHHHHHHhhcCCCCEEEEEeh
Confidence 5899999999999999999987433
No 31
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=36.39 E-value=92 Score=18.28 Aligned_cols=31 Identities=26% Similarity=0.415 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHH
Q 034431 3 AHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARAL 41 (95)
Q Consensus 3 ~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~I 41 (95)
.+.|.+|++.+.+-+++.. .++ ...+||+.+
T Consensus 5 T~rQ~~vL~~I~~~~~~~G----~~P----t~rEIa~~~ 35 (65)
T PF01726_consen 5 TERQKEVLEFIREYIEENG----YPP----TVREIAEAL 35 (65)
T ss_dssp -HHHHHHHHHHHHHHHHHS----S-------HHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHcC----CCC----CHHHHHHHh
Confidence 4679999999998888754 233 378888875
No 32
>PF08958 DUF1871: Domain of unknown function (DUF1871); InterPro: IPR015053 This set of hypothetical proteins is produced by prokaryotes pertaining to the Bacillus genus. ; PDB: 1U84_A.
Probab=36.25 E-value=50 Score=20.50 Aligned_cols=19 Identities=26% Similarity=0.667 Sum_probs=16.2
Q ss_pred CHHHHHHHHHHHhhhcCCC
Q 034431 33 NPTHLARALKKEFDDAYGP 51 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~ 51 (95)
+.+.+|+.|+.-|...||.
T Consensus 36 ~~~~LA~~Iq~If~~SF~e 54 (79)
T PF08958_consen 36 DPEELAKKIQSIFEFSFGE 54 (79)
T ss_dssp -HHHHHHHHHHHHHHHHSS
T ss_pred CHHHHHHHHHHHHHHHHcc
Confidence 4789999999999988884
No 33
>PF14900 DUF4493: Domain of unknown function (DUF4493)
Probab=36.09 E-value=92 Score=22.33 Aligned_cols=37 Identities=24% Similarity=0.430 Sum_probs=27.0
Q ss_pred HHhhhcCCCceEEEEccceeeeEEE--cCC---cEEEEEeCC
Q 034431 43 KEFDDAYGPAWHCVVGKSFGSFVTH--SPA---GFLYFSIDS 79 (95)
Q Consensus 43 ~~lD~~yg~~WhcIVG~~Fgs~vth--~~~---~~i~f~~~~ 79 (95)
..|.+.|+..|++-|...-+..+++ ... .-.||..+.
T Consensus 119 ~~f~~~f~~~y~vtV~~~~~~~~~~~~~~~~~~~~~Yf~~~~ 160 (235)
T PF14900_consen 119 DEFKKYFGSDYSVTVSTGAGGSVTFNKDETTSDRSAYFKAGE 160 (235)
T ss_pred HHHHhhhccceEEEEEccCCccEEEeeccCCCCcceEEECCC
Confidence 4577778888999994332666666 555 889999988
No 34
>PRK04031 DNA primase; Provisional
Probab=35.44 E-value=1.5e+02 Score=24.04 Aligned_cols=50 Identities=16% Similarity=0.454 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhh----cCCC------------ceEEEE-cc
Q 034431 4 HMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDD----AYGP------------AWHCVV-GK 59 (95)
Q Consensus 4 emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~----~yg~------------~WhcIV-G~ 59 (95)
+.+..|++-|++.+.+.-.|+ .++-++|.+.+++.+-. .||| .|-+|| |+
T Consensus 112 ~Kr~~IveRAkeil~~~~~e~------~~~s~ei~~ev~e~vr~~ei~eyg~ekL~Agp~i~k~~~iIVVEG~ 178 (408)
T PRK04031 112 EKRKKIVERAKEILKKWFDEK------VPDSKEIIEEVREAVRVEEITEYGPEKLPAGPNVDDSDAIIVVEGR 178 (408)
T ss_pred HHHHHHHHHHHHHHHHHhhcc------CccHHHHHHHHHHHhhhccceeecccccccCcccccCCeEEEEeCH
Confidence 568899999999998855432 23568899999988874 6776 688888 64
No 35
>cd01579 AcnA_Bact_Swivel Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course of the reaction. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism. This distinct subfamily is found only in bacteria and archea. Its exact characteristics are not known.
Probab=35.18 E-value=28 Score=23.18 Aligned_cols=33 Identities=12% Similarity=0.184 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHhhhcC------CCceEEEEccceeeeEE
Q 034431 34 PTHLARALKKEFDDAY------GPAWHCVVGKSFGSFVT 66 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~y------g~~WhcIVG~~Fgs~vt 66 (95)
..++++++-..+|..| |..+=+|.|++|||==|
T Consensus 25 ~~~l~~~~f~~~~p~f~~~~~~~~~~iiVaG~nFG~GSS 63 (121)
T cd01579 25 IPAISEFVFHRVDPTFAERAKAAGPGFIVGGENYGQGSS 63 (121)
T ss_pred HHHHHHhhccCCCchHHhhcccCCCeEEEcCCcCCCCcc
Confidence 4567777777666433 44443444999997433
No 36
>TIGR00139 h_aconitase homoaconitase. Homoaconitase, aconitase, and 3-isopropylmalate dehydratase have similar overall structures, but 3-isopropylmalate dehydratase is split into large (leuC) and small (leuD) chains in eubacteria. Several pairs of archaeal proteins resemble leuC and leuD over their lengths but are even closer to the respective domains of homoaconitase, and their identity is uncertain.
Probab=34.56 E-value=22 Score=30.59 Aligned_cols=35 Identities=17% Similarity=0.316 Sum_probs=24.9
Q ss_pred CHHHHHHHHHHHhhhcCCCce---EEEE-ccceeeeEEE
Q 034431 33 NPTHLARALKKEFDDAYGPAW---HCVV-GKSFGSFVTH 67 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~W---hcIV-G~~Fgs~vth 67 (95)
+.+++++++-+.+|..|...+ .+|| |+|||+==|.
T Consensus 560 ~~~~l~~~~~~~~dp~f~~~~~~g~iiVaG~NfG~GSSR 598 (712)
T TIGR00139 560 PKEKMAQVCMENYDAEFRTKAHEGDILVSGFNFGCGSSR 598 (712)
T ss_pred CHHHHHHhhccCCCcchhhcCCCCCEEEeCCccCCCCcH
Confidence 356899998888886664333 4788 8999975443
No 37
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.52 E-value=1e+02 Score=18.21 Aligned_cols=36 Identities=17% Similarity=0.226 Sum_probs=24.4
Q ss_pred CHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHH
Q 034431 2 PAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKE 44 (95)
Q Consensus 2 ~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~ 44 (95)
+-+-|+++++.+++++.. +|.+ .+-..-+|+.|++.
T Consensus 9 tHeqQQ~AVE~Iq~lMae-----GmSs--GEAIa~VA~elRe~ 44 (60)
T COG3140 9 THEQQQKAVERIQELMAE-----GMSS--GEAIALVAQELREN 44 (60)
T ss_pred cHHHHHHHHHHHHHHHHc-----cccc--hhHHHHHHHHHHHH
Confidence 457899999999999987 2322 23355667777653
No 38
>PRK14023 homoaconitate hydratase small subunit; Provisional
Probab=34.29 E-value=29 Score=24.38 Aligned_cols=33 Identities=15% Similarity=0.206 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhh----hcCCCceEEEE-ccceeeeEEE
Q 034431 34 PTHLARALKKEFD----DAYGPAWHCVV-GKSFGSFVTH 67 (95)
Q Consensus 34 ~~~iA~~IK~~lD----~~yg~~WhcIV-G~~Fgs~vth 67 (95)
..++++++-..+| +++.+.. +|| |+||||==|.
T Consensus 28 ~~~l~~~~f~~~~p~f~~~~~~g~-IIVaG~NFG~GSSR 65 (166)
T PRK14023 28 EDRFHNYAFAHLRPEFASTVRPGD-ILVAGRNFGLGSSR 65 (166)
T ss_pred HHHHHhhhccCCChhhHhhcCCCC-EEEccCcccCCccH
Confidence 4667777666555 3444554 555 9999975433
No 39
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=33.09 E-value=60 Score=24.36 Aligned_cols=33 Identities=12% Similarity=0.250 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHHHhhhcCCCceEEEEccceeee
Q 034431 32 PNPTHLARALKKEFDDAYGPAWHCVVGKSFGSF 64 (95)
Q Consensus 32 ~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~ 64 (95)
.|....|+.|++.|.+++|..=-|||..+||--
T Consensus 122 ~DPd~sA~~ir~~l~~~~g~~v~VIItDt~gr~ 154 (243)
T TIGR01916 122 EDPDASAEKIRRGLRELTGVDVGVIITDTNGRP 154 (243)
T ss_pred CChHHHHHHHHHHHHHHHCCCEEEEEECCCCCc
Confidence 367899999999999999999999998888743
No 40
>KOG2130 consensus Phosphatidylserine-specific receptor PtdSerR, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=32.42 E-value=38 Score=26.90 Aligned_cols=19 Identities=21% Similarity=0.314 Sum_probs=15.0
Q ss_pred CCceEEEEccceeeeEEEc
Q 034431 50 GPAWHCVVGKSFGSFVTHS 68 (95)
Q Consensus 50 g~~WhcIVG~~Fgs~vth~ 68 (95)
++.||||+.-.....||+.
T Consensus 277 ~GWWHvVlNle~TIAiTqN 295 (407)
T KOG2130|consen 277 SGWWHVVLNLEPTIAITQN 295 (407)
T ss_pred CCeEEEEeccCceeeeeec
Confidence 5789999987777777764
No 41
>PF06150 ChaB: ChaB; InterPro: IPR009317 This family of proteins contain a conserved 60 residue region. This protein is known as ChaB in Escherichia coli and is found next to ChaA, which is a cation transporter protein. ChaB may be regulate ChaA function in some way.; PDB: 1SG7_A.
Probab=32.01 E-value=1.1e+02 Score=17.73 Aligned_cols=45 Identities=20% Similarity=0.296 Sum_probs=21.7
Q ss_pred CHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceE
Q 034431 2 PAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWH 54 (95)
Q Consensus 2 ~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~Wh 54 (95)
|+.-|.-=++....|++.|.+|. .-.+-.=..+|+...+ -++.|.
T Consensus 10 P~~Aq~if~~afn~a~~~~~de~-------~A~~vAw~AVk~~Y~k-~~g~W~ 54 (57)
T PF06150_consen 10 PEHAQRIFRKAFNSAWEEYGDEE-------RAHRVAWAAVKRKYEK-VNGRWV 54 (57)
T ss_dssp -SHHHHHHHHHHHHHHHH--SHH-------HHHHHHHHHHHHHEEE-SSS-EE
T ss_pred CHHHHHHHHHHHHHHHHhcCCHh-------HHHHHHHHHHHHHhee-cCCEee
Confidence 33344444455556666664310 0012223458888888 677785
No 42
>PF05577 Peptidase_S28: Serine carboxypeptidase S28; InterPro: IPR008758 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S28 (clan SC). The predicted active site residues for members of this family and family S10 occur in the same order in the sequence: S, D, H. These serine proteases include several eukaryotic enzymes such as lysosomal Pro-X carboxypeptidase, dipeptidyl-peptidase II, and thymus-specific serine peptidase [, , , ].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3N2Z_B 3JYH_A 3N0T_C.
Probab=31.57 E-value=73 Score=24.78 Aligned_cols=30 Identities=33% Similarity=0.637 Sum_probs=14.2
Q ss_pred HHHHHHH---HHHhhhcCCCceEEEEccceeeeE
Q 034431 35 THLARAL---KKEFDDAYGPAWHCVVGKSFGSFV 65 (95)
Q Consensus 35 ~~iA~~I---K~~lD~~yg~~WhcIVG~~Fgs~v 65 (95)
.|+|.+| |..++..=...| +++|+||+..+
T Consensus 94 aD~a~F~~~~~~~~~~~~~~pw-I~~GgSY~G~L 126 (434)
T PF05577_consen 94 ADLAYFIRYVKKKYNTAPNSPW-IVFGGSYGGAL 126 (434)
T ss_dssp HHHHHHHHHHHHHTTTGCC--E-EEEEETHHHHH
T ss_pred HHHHHHHHHHHHhhcCCCCCCE-EEECCcchhHH
Confidence 3444444 433332223345 45599998543
No 43
>PRK00466 acetyl-lysine deacetylase; Validated
Probab=31.34 E-value=1.1e+02 Score=22.93 Aligned_cols=44 Identities=16% Similarity=0.180 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceEE
Q 034431 3 AHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWHC 55 (95)
Q Consensus 3 ~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~Whc 55 (95)
+.|+.++++..+++++- ++ ...++.++|.+|++.|++ .|-.++.
T Consensus 6 ~~~~~~~~~~l~~lv~i-~s-------~s~~e~~~~~~l~~~l~~-~g~~~~~ 49 (346)
T PRK00466 6 ELVKQKAKELLLDLLSI-YT-------PSGNETNATKFFEKISNE-LNLKLEI 49 (346)
T ss_pred HHHHHHHHHHHHHHhcC-CC-------CCCCHHHHHHHHHHHHHH-cCCeEEE
Confidence 45677788888777754 22 124578999999999984 4654443
No 44
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=31.31 E-value=66 Score=24.16 Aligned_cols=31 Identities=16% Similarity=0.365 Sum_probs=28.3
Q ss_pred CCHHHHHHHHHHHhhhcCCCceEEEEcccee
Q 034431 32 PNPTHLARALKKEFDDAYGPAWHCVVGKSFG 62 (95)
Q Consensus 32 ~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fg 62 (95)
+|...-|+.|++.|.+++|..=-|||..+||
T Consensus 123 ~DPd~SA~~ir~~l~~~~g~~v~VIItDt~g 153 (245)
T PRK13293 123 ENPDESAERIREGLEELTGKKVGVIITDTNG 153 (245)
T ss_pred CCHHHHHHHHHHHHHHHHCCCEEEEEEcCCC
Confidence 3678899999999999999999999988888
No 45
>PF08908 DUF1852: Domain of unknown function (DUF1852); InterPro: IPR015004 This group of proteins are functionally uncharacterised.
Probab=30.17 E-value=25 Score=27.15 Aligned_cols=24 Identities=25% Similarity=0.407 Sum_probs=20.6
Q ss_pred HhhhcCCCceEEEEccceeeeEEE
Q 034431 44 EFDDAYGPAWHCVVGKSFGSFVTH 67 (95)
Q Consensus 44 ~lD~~yg~~WhcIVG~~Fgs~vth 67 (95)
.+|++-|..-.=|||++|+|||.-
T Consensus 98 IvD~kt~~rieGivGNnFSSYVRD 121 (322)
T PF08908_consen 98 IVDHKTNERIEGIVGNNFSSYVRD 121 (322)
T ss_pred EEecCCCceecceecccccccccc
Confidence 468888888888999999999864
No 46
>PRK00103 rRNA large subunit methyltransferase; Provisional
Probab=30.06 E-value=78 Score=21.91 Aligned_cols=29 Identities=24% Similarity=0.288 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEEccceee
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVVGKSFGS 63 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs 63 (95)
=.+.|+.|.+..+.. .+...-|||+.+|-
T Consensus 82 S~~fA~~l~~~~~~g-~~~i~F~IGGa~G~ 110 (157)
T PRK00103 82 SEEFAQELERWRDDG-RSDVAFVIGGADGL 110 (157)
T ss_pred HHHHHHHHHHHHhcC-CccEEEEEcCcccc
Confidence 367899998875543 23678888999985
No 47
>PF06884 DUF1264: Protein of unknown function (DUF1264); InterPro: IPR010686 This family contains a number of bacterial and eukaryotic proteins of unknown function that are approximately 200 residues long. Some family members are annotated as putative lipoproteins.
Probab=30.04 E-value=50 Score=23.60 Aligned_cols=21 Identities=24% Similarity=0.564 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhhhcCCCceEE
Q 034431 35 THLARALKKEFDDAYGPAWHC 55 (95)
Q Consensus 35 ~~iA~~IK~~lD~~yg~~Whc 55 (95)
..+.+.+-+.+-+.||.+||-
T Consensus 96 ~~ae~~~m~~l~~tYGKt~Ht 116 (171)
T PF06884_consen 96 EAAEKAEMEKLVKTYGKTWHT 116 (171)
T ss_pred HHHHHHHHHHHHhhhCCeEEe
Confidence 446667778888999999985
No 48
>PRK05114 hypothetical protein; Provisional
Probab=29.95 E-value=1.1e+02 Score=18.21 Aligned_cols=37 Identities=16% Similarity=0.139 Sum_probs=25.3
Q ss_pred CHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHh
Q 034431 2 PAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEF 45 (95)
Q Consensus 2 ~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~l 45 (95)
+-+-|+.+++.+++++.+- +.+ .+-..-+|+.|++.-
T Consensus 9 tHeeQQ~AVErIq~LMaqG-----mSs--gEAI~~VA~eiRe~~ 45 (59)
T PRK05114 9 THEQQQKAVERIQELMAQG-----MSS--GEAIALVAEELRANH 45 (59)
T ss_pred CHHHHHHHHHHHHHHHHcc-----ccH--HHHHHHHHHHHHHHH
Confidence 4567999999999999882 322 223566777777643
No 49
>PRK06489 hypothetical protein; Provisional
Probab=29.28 E-value=35 Score=25.72 Aligned_cols=34 Identities=15% Similarity=0.275 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHhhhcCC-CceEEEEccceeeeEEE
Q 034431 34 PTHLARALKKEFDDAYG-PAWHCVVGKSFGSFVTH 67 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg-~~WhcIVG~~Fgs~vth 67 (95)
..++|+.+...+.+..| ...++|||-|+|..+.-
T Consensus 135 ~~~~a~~~~~~l~~~lgi~~~~~lvG~SmGG~vAl 169 (360)
T PRK06489 135 YDDMVEAQYRLVTEGLGVKHLRLILGTSMGGMHAW 169 (360)
T ss_pred HHHHHHHHHHHHHHhcCCCceeEEEEECHHHHHHH
Confidence 56778777776644445 56778899999976643
No 50
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=29.23 E-value=28 Score=24.53 Aligned_cols=31 Identities=16% Similarity=0.307 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCC
Q 034431 9 ALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGP 51 (95)
Q Consensus 9 ~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~ 51 (95)
.+++|.+++..+... + -...|++..|++|..
T Consensus 117 Cl~ia~~a~~~~~~G--------k----s~~eIR~~ID~kYk~ 147 (158)
T PF13798_consen 117 CLDIAVQAVQMYQEG--------K----SPKEIRQYIDEKYKE 147 (158)
T ss_pred HHHHHHHHHHHHHcC--------C----CHHHHHHHHHHHHHh
Confidence 578889999988752 1 246677777888853
No 51
>PF12006 DUF3500: Protein of unknown function (DUF3500); InterPro: IPR021889 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 335 to 438 amino acids in length. This protein has a conserved GHH sequence motif. This protein has two completely conserved G residues that may be functionally important.
Probab=28.90 E-value=2.7e+02 Score=21.38 Aligned_cols=21 Identities=14% Similarity=0.195 Sum_probs=16.0
Q ss_pred CCHHHHHHHHHHHHHHHHhhc
Q 034431 1 MPAHMQQHALRFTRSLVDDYY 21 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~ 21 (95)
|+.+.|..+..++..-+..++
T Consensus 221 Lt~~Qq~ll~~li~~y~~~~~ 241 (313)
T PF12006_consen 221 LTADQQELLLALIKEYLGRLP 241 (313)
T ss_pred CCHHHHHHHHHHHHHHHHhCC
Confidence 677788888888887777764
No 52
>PF06840 DUF1241: Protein of unknown function (DUF1241); InterPro: IPR009652 This family consists of several programmed cell death 10 protein (PDCD10 or TFAR15) sequences. The function of this family is unknown.; PDB: 3L8I_A 3RQG_B 3RQE_B 3L8J_A 3RQF_B 3AJM_B.
Probab=28.89 E-value=44 Score=23.41 Aligned_cols=14 Identities=36% Similarity=0.432 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHhhh
Q 034431 34 PTHLARALKKEFDD 47 (95)
Q Consensus 34 ~~~iA~~IK~~lD~ 47 (95)
.++||..||+-||.
T Consensus 122 IK~IAsaIK~lLdA 135 (154)
T PF06840_consen 122 IKEIASAIKKLLDA 135 (154)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 68999999999995
No 53
>PF04622 ERG2_Sigma1R: ERG2 and Sigma1 receptor like protein; InterPro: IPR006716 This family consists of the fungal C-8 sterol isomerase and mammalian sigma1 receptor. C-8 sterol isomerase (delta-8--delta-7 sterol isomerase), catalyses a reaction in ergosterol biosynthesis, which results in unsaturation at C-7 in the B ring of sterols []. Sigma 1 receptor is a low molecular mass mammalian protein located in the endoplasmic reticulum [], which interacts with endogenous steroid hormones, such as progesterone and testosterone []. It also binds the sigma ligands, which are a set of chemically unrelated drugs including haloperidol, pentazocine, and ditolylguanidine []. Sigma1 effectors are not well understood, but sigma1 agonists have been observed to affect NMDA receptor function, the alpha-adrenergic system and opioid analgesia.; GO: 0000247 C-8 sterol isomerase activity, 0006696 ergosterol biosynthetic process, 0005783 endoplasmic reticulum
Probab=28.89 E-value=1.2e+02 Score=22.30 Aligned_cols=35 Identities=9% Similarity=0.150 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCC
Q 034431 7 QHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGP 51 (95)
Q Consensus 7 ~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~ 51 (95)
+.+-++|++++.++.+ +.+++-+.|-++|-+.|++
T Consensus 34 ~~l~~ia~~~ia~~~~----------~~~~~~~~l~~~L~~~y~~ 68 (216)
T PF04622_consen 34 KVLHEIAKKAIARHPN----------DTEEILSDLVDELRKKYPD 68 (216)
T ss_pred HHHHHHHHHHHhhcCC----------CHHHHHHHHHHHHHhHCCC
Confidence 3566788888887643 4688889999999999987
No 54
>cd03545 Rieske_RO_Alpha_OHBDO_like Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H), terephthalate 1,2-dioxygenase system (TERDOS) and similar proteins. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OHBDO converts 2-chlorobenzoate (2-CBA) to catechol as well as 2,4-dCBA and 2,5-dCBA to 4-chlorocatechol, as part of the chlorobenzoate degradation pathway. Although ortho-substituted chlorobe
Probab=28.67 E-value=1.9e+02 Score=19.53 Aligned_cols=44 Identities=11% Similarity=0.215 Sum_probs=31.9
Q ss_pred HHHHHHhhhcCC-CceEEEEc-cceeeeEEEcCCcEEEEEeCCEEEEEEee
Q 034431 39 RALKKEFDDAYG-PAWHCVVG-KSFGSFVTHSPAGFLYFSIDSLSVLLFKT 87 (95)
Q Consensus 39 ~~IK~~lD~~yg-~~WhcIVG-~~Fgs~vth~~~~~i~f~~~~~~iLl~ks 87 (95)
+....++++-|. ..|+.|.- .... +++.++-+.+++..++|++.
T Consensus 11 ~~~~~E~~~if~~~~W~~v~~~~el~-----~~g~~~~~~i~g~~iiv~r~ 56 (150)
T cd03545 11 AYFDREQERIFRGKTWSYVGLEAEIP-----NAGDFKSTFVGDTPVVVTRA 56 (150)
T ss_pred HHHHHHHHhhhCCCceEEEEEHHHCC-----CCCCEEEEEECCceEEEEEC
Confidence 566788888895 99999983 3331 34667777888888888875
No 55
>PF01996 F420_ligase: F420-0:Gamma-glutamyl ligase; InterPro: IPR002847 This entry contains F420-0:gamma-glutamyl ligase and related proteins. F420-0:gamma-glutamyl ligase catalyzes the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form polyglutamated F420 derivatives [, , , ].; PDB: 2G9I_A 2PHN_A.
Probab=27.71 E-value=61 Score=23.72 Aligned_cols=31 Identities=19% Similarity=0.412 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHHHhhhcCCCceEEEEcccee
Q 034431 32 PNPTHLARALKKEFDDAYGPAWHCVVGKSFG 62 (95)
Q Consensus 32 ~~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fg 62 (95)
.|....|+.|++.|.+++|..=.|||..++|
T Consensus 130 ~dPd~sA~~i~~~l~~~~g~~v~ViI~Dt~g 160 (228)
T PF01996_consen 130 EDPDASARRIREELKERTGKDVGVIITDTNG 160 (228)
T ss_dssp S-HHHHHHHHHHHHHHHHS---EEEEEEEEE
T ss_pred CCHHHHHHHHHHHHHHHHCCceEEEEECCCC
Confidence 3688999999999999999999999976666
No 56
>cd06836 PLPDE_III_ODC_DapDC_like_1 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Uncharacterized Proteins with similarity to Ornithine and Diaminopimelate Decarboxylases. This subfamily contains uncharacterized proteins with similarity to ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. ODC participates in the formation of putrescine by catalyzing the decarboxylation of ornithine, the first step in polyamine biosynthesis. DapDC participates in the last step of lysine biosynthesis, the conversion of meso-2,6-diaminoheptanedioate to L-lysine. Proteins in this subfamily may function as PLP-dependent decarbo
Probab=27.40 E-value=1e+02 Score=23.80 Aligned_cols=31 Identities=23% Similarity=0.324 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHHhhhcCCCceEEEE--ccceee
Q 034431 33 NPTHLARALKKEFDDAYGPAWHCVV--GKSFGS 63 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~WhcIV--G~~Fgs 63 (95)
+..++|+.|++.+++.++..+++++ |+.+-+
T Consensus 229 ~~~~~~~~i~~~l~~~~~~~~~l~~EPGR~lva 261 (379)
T cd06836 229 TFADYAAALKAAVPELFDGRYQLVTEFGRSLLA 261 (379)
T ss_pred CHHHHHHHHHHHHHHHhccCcEEEEecChheec
Confidence 6789999999999988877899999 877554
No 57
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=27.38 E-value=1.5e+02 Score=20.35 Aligned_cols=45 Identities=20% Similarity=0.400 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCC----CCCCCHHHHHHHHHHHhh
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPK----TSRPNPTHLARALKKEFD 46 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~----~~~~~~~~iA~~IK~~lD 46 (95)
||++.++++++-..+-++.-..+ +.+- ..-.+.+++|+.|+....
T Consensus 17 lp~~e~~e~l~~Y~e~f~d~~~~-G~sEeeii~~LG~P~~iA~~i~~~~~ 65 (181)
T PF08006_consen 17 LPEEEREEILEYYEEYFDDAGEE-GKSEEEIIAELGSPKEIAREILAEYS 65 (181)
T ss_pred CCHHHHHHHHHHHHHHHHHhhhC-CCCHHHHHHHcCCHHHHHHHHHHhhh
Confidence 68889999998888888763211 0000 001146788888876543
No 58
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=27.23 E-value=76 Score=18.53 Aligned_cols=16 Identities=31% Similarity=0.362 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhhhcC
Q 034431 34 PTHLARALKKEFDDAY 49 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~y 49 (95)
-++=|+.||+.+|+++
T Consensus 34 TqeqAd~ik~~id~~~ 49 (59)
T PF10925_consen 34 TQEQADAIKKHIDQRQ 49 (59)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 3688999999999875
No 59
>smart00674 CENPB Putative DNA-binding domain in centromere protein B, mouse jerky and transposases.
Probab=26.72 E-value=1.3e+02 Score=16.90 Aligned_cols=45 Identities=9% Similarity=0.084 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhh---hcCCCce
Q 034431 3 AHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFD---DAYGPAW 53 (95)
Q Consensus 3 ~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD---~~yg~~W 53 (95)
+++...+.+.+.+.... +++.+ ....++.|..|-+.+. .+.+..|
T Consensus 5 ~~~E~~L~~wi~~~~~~-----g~~it-~~~i~~~A~~i~~~~~~~~f~~s~~W 52 (66)
T smart00674 5 ALLEKALYEWILRQEAL-----GIPIS-GEQIREKALEILQRLGLENFKASNGW 52 (66)
T ss_pred HHHHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHHHcCCCCCCCCHHH
Confidence 45666777777774433 23443 2346678888888773 3444444
No 60
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=26.72 E-value=84 Score=22.65 Aligned_cols=24 Identities=4% Similarity=0.317 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEE
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVV 57 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIV 57 (95)
..++++.|++.+-+++++.++|.|
T Consensus 253 ~~~i~~~i~~~l~~~~~~i~~v~I 276 (284)
T PF01545_consen 253 AHEIRERIEKRLREKFPGIYDVTI 276 (284)
T ss_dssp HHHHHHHHHHHHHHHSTTCEEEEE
T ss_pred HHHHHHHHHHHHHHhCCCcEEEEE
Confidence 346899999999999999999877
No 61
>COG1362 LAP4 Aspartyl aminopeptidase [Amino acid transport and metabolism]
Probab=26.33 E-value=3.1e+02 Score=22.45 Aligned_cols=66 Identities=20% Similarity=0.288 Sum_probs=42.0
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCC-------CceEEEEccceeeeEEEcCCcEE
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYG-------PAWHCVVGKSFGSFVTHSPAGFL 73 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg-------~~WhcIVG~~Fgs~vth~~~~~i 73 (95)
|..++...+-+...+.+.+.+ ....++..|++.|++. | ..|+-=.|+.| +++-.....+
T Consensus 1 ~~~~~~~~~~~~f~~FI~~sp-----------Tpyh~v~~i~~~L~~~-Gf~~l~e~~~w~~~~ggky--f~~r~gssli 66 (437)
T COG1362 1 RMKEKKELAEDEFIDFISASP-----------TPYHVVANIAERLLKA-GFRELEEKDAWKDKPGGKY--FVTRNGSSLI 66 (437)
T ss_pred CcchhhhhhHHHHHHHHHcCC-----------ChHHHHHHHHHHHHHc-CchhhhhhhcccccCCCeE--EEEcCCceEE
Confidence 445555555554556666543 3678999999999983 4 46887775432 3444444777
Q ss_pred EEEeCCE
Q 034431 74 YFSIDSL 80 (95)
Q Consensus 74 ~f~~~~~ 80 (95)
-|.+|+.
T Consensus 67 Af~ig~~ 73 (437)
T COG1362 67 AFIIGKK 73 (437)
T ss_pred EEEecCC
Confidence 7777654
No 62
>cd02852 Isoamylase_N_term Isoamylase N-terminus domain. Isoamylase (aka glycogen 6-glucanohydrolase) is one of the starch-debranching enzymes that catalyzes the hydrolysis of alpha-1,6-glucosidic linkages specific in alpha-glucans such as amylopectin or glycogen. Isoamylase contains a bound calcium ion, but this is not in the same position as the conserved calcium ion that has been reported in other alpha-amylase family enzymes. The N-terminus of isoamylase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=25.41 E-value=71 Score=20.32 Aligned_cols=21 Identities=29% Similarity=0.550 Sum_probs=13.4
Q ss_pred hcCCCceEEEE-ccceeeeEEE
Q 034431 47 DAYGPAWHCVV-GKSFGSFVTH 67 (95)
Q Consensus 47 ~~yg~~WhcIV-G~~Fgs~vth 67 (95)
.+-|+.||+.| |..-|.+..+
T Consensus 45 ~~~~gvW~~~v~~~~~g~~Y~y 66 (119)
T cd02852 45 NRTGDVWHVFVEGLKPGQLYGY 66 (119)
T ss_pred cccCCEEEEEECCCCCCCEEEE
Confidence 34589999999 5444443333
No 63
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=25.10 E-value=1.4e+02 Score=23.70 Aligned_cols=40 Identities=15% Similarity=0.278 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCCCceEEEE-c
Q 034431 7 QHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYGPAWHCVV-G 58 (95)
Q Consensus 7 ~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg~~WhcIV-G 58 (95)
++.++.+..|+++- +..+++..|++.|+.--...=|+-| |
T Consensus 2 ~e~~~~i~~~l~~g------------~~~~~~s~i~~~l~~~~~~~l~IaV~G 42 (376)
T PF05049_consen 2 QETIREIEKALEEG------------NLQEVVSKIREALKDIDNAPLNIAVTG 42 (376)
T ss_dssp HHHHHHHHHHHHHT-------------HHHHHHHHHHHHHHHHH--EEEEEEE
T ss_pred HHHHHHHHHHHHhC------------CHHHHHHHHHHHHHHhhcCceEEEEEC
Confidence 35677788888872 4889999999999887667778888 5
No 64
>cd01577 IPMI_Swivel Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-isopropylmalate. IPMI is involved in fungal and bacterial leucine biosynthesis and is also found in eukaryotes. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=25.07 E-value=36 Score=21.68 Aligned_cols=16 Identities=31% Similarity=0.331 Sum_probs=10.1
Q ss_pred ceEEEEccceeeeEEE
Q 034431 52 AWHCVVGKSFGSFVTH 67 (95)
Q Consensus 52 ~WhcIVG~~Fgs~vth 67 (95)
.+=+|.|++||+==|.
T Consensus 18 ~~ilVaG~nfG~GSSR 33 (91)
T cd01577 18 GDIIVAGKNFGCGSSR 33 (91)
T ss_pred CCEEEecCcccCCCcH
Confidence 4445559999975443
No 65
>PF08015 Pheromone: Fungal mating-type pheromone; InterPro: IPR012597 This family corresponds to mating-type pheromone proteins. The homobasidiomycetes, or mushroom fungi, have arguably the most complex mating system of all known organisms. Many species possess a mating system known as bifactorial incompatibility, where two unlinked loci control the mating-type of an individual incompatibility loci (the A and B mating-type loci). Each A mating-type sublocus encodes a pair of divergently transcribed homeodomain transcription factors while the genes responsible for B mating-type activity encode lipopeptide pheromones and G-protein -coupled pheromone receptors [].; GO: 0000772 mating pheromone activity, 0016020 membrane
Probab=25.01 E-value=41 Score=19.83 Aligned_cols=14 Identities=29% Similarity=0.650 Sum_probs=8.8
Q ss_pred HhhhcCCC--ceEEEE
Q 034431 44 EFDDAYGP--AWHCVV 57 (95)
Q Consensus 44 ~lD~~yg~--~WhcIV 57 (95)
..|++.|+ +|-|||
T Consensus 54 d~Er~~~g~~~~fCVI 69 (69)
T PF08015_consen 54 DFERRGGGGAGAFCVI 69 (69)
T ss_pred CccccCCCCceEEEeC
Confidence 34555555 688886
No 66
>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]
Probab=24.90 E-value=37 Score=29.42 Aligned_cols=21 Identities=29% Similarity=0.561 Sum_probs=18.0
Q ss_pred CCceEEEEccceeeeEEEcCC
Q 034431 50 GPAWHCVVGKSFGSFVTHSPA 70 (95)
Q Consensus 50 g~~WhcIVG~~Fgs~vth~~~ 70 (95)
.+..||||.+.|||.+++-.+
T Consensus 586 ~grYQCVvtN~FGStysqk~K 606 (873)
T KOG4194|consen 586 EGRYQCVVTNHFGSTYSQKAK 606 (873)
T ss_pred CceEEEEEecccCcchhheeE
Confidence 588999999999999887644
No 67
>PF01743 PolyA_pol: Poly A polymerase head domain; InterPro: IPR002646 This group includes nucleic acid independent RNA polymerases, such as polynucleotide adenylyltransferase (2.7.7.19 from EC), which adds the poly (A) tail to mRNA. This group also includes the tRNA nucleotidyltransferase that adds the CCA to the 3' of the tRNA 2.7.7.25 from EC.; GO: 0003723 RNA binding, 0016779 nucleotidyltransferase activity, 0006396 RNA processing; PDB: 1VFG_A 3H38_A 3H3A_B 3H39_B 3H37_A 1MIY_A 1MIV_B 1MIW_B 1OU5_B 3AQN_A ....
Probab=24.76 E-value=1.8e+02 Score=18.87 Aligned_cols=37 Identities=19% Similarity=0.308 Sum_probs=26.6
Q ss_pred HHHHHHHhhhcCCCceEEEEccceeeeEEEcCCcEEEEE
Q 034431 38 ARALKKEFDDAYGPAWHCVVGKSFGSFVTHSPAGFLYFS 76 (95)
Q Consensus 38 A~~IK~~lD~~yg~~WhcIVG~~Fgs~vth~~~~~i~f~ 76 (95)
+..+.+.|.++++..+++ |+.|+..--+..+..+.+.
T Consensus 28 ~~~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~di~ 64 (126)
T PF01743_consen 28 PEEFAKLLAKKLGGVFVV--GKRFGTVRVVFGGGSIDIA 64 (126)
T ss_dssp HHHHHHHHCTTCCEEEEE--ETTTTEEEEEETTCEEEEE
T ss_pred HHHHHHHHHhhccccccc--ccccceeeecCCCcccccc
Confidence 455667778888887777 9999987776666555543
No 68
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=24.21 E-value=61 Score=23.36 Aligned_cols=26 Identities=27% Similarity=0.663 Sum_probs=20.2
Q ss_pred HHHHHHHHHhhhcCCCceEEEEccce
Q 034431 36 HLARALKKEFDDAYGPAWHCVVGKSF 61 (95)
Q Consensus 36 ~iA~~IK~~lD~~yg~~WhcIVG~~F 61 (95)
.+++.+--..+...||..||||.-||
T Consensus 47 q~~s~lffqyn~~L~PPy~vivDTNF 72 (195)
T KOG3165|consen 47 QVPSALFFQYNTTLGPPYHVIVDTNF 72 (195)
T ss_pred CcchhHHHhcccccCCCeEEEEecch
Confidence 34555666677888999999998776
No 69
>PF08594 UPF0300: Uncharacterised protein family (UPF0300); InterPro: IPR013903 This entry of proteins appear to be specific to Schizosaccharomyces pombe (Fission yeast).
Probab=23.89 E-value=3e+02 Score=20.38 Aligned_cols=20 Identities=15% Similarity=0.373 Sum_probs=16.4
Q ss_pred CceEEEEccceeeeEEEcCC
Q 034431 51 PAWHCVVGKSFGSFVTHSPA 70 (95)
Q Consensus 51 ~~WhcIVG~~Fgs~vth~~~ 70 (95)
..|-||+.++|-|++--+..
T Consensus 94 ~~W~~I~~k~F~c~I~l~~~ 113 (215)
T PF08594_consen 94 NSWIAICSKNFMCNIHLDQP 113 (215)
T ss_pred ccEEEEecCcceEEEEecCC
Confidence 58999999999999865543
No 70
>PF06057 VirJ: Bacterial virulence protein (VirJ); InterPro: IPR010333 This entry contains several bacterial VirJ virulence proteins. VirJ is thought to be involved in the type IV secretion system. It is thought that the substrate proteins localised to the periplasm may associate with the pilus in a manner that is mediated by VirJ, and suggest a two-step process for type IV secretion in Agrobacterium [].
Probab=23.87 E-value=91 Score=22.57 Aligned_cols=33 Identities=27% Similarity=0.443 Sum_probs=19.1
Q ss_pred CHHHHHHHHHHHhh---hcCCCceEEEEccceeeeE
Q 034431 33 NPTHLARALKKEFD---DAYGPAWHCVVGKSFGSFV 65 (95)
Q Consensus 33 ~~~~iA~~IK~~lD---~~yg~~WhcIVG~~Fgs~v 65 (95)
..+++|..|-+.++ +++|..==+.||.|||+.|
T Consensus 46 tP~~~a~Dl~~~i~~y~~~w~~~~vvLiGYSFGADv 81 (192)
T PF06057_consen 46 TPEQTAADLARIIRHYRARWGRKRVVLIGYSFGADV 81 (192)
T ss_pred CHHHHHHHHHHHHHHHHHHhCCceEEEEeecCCchh
Confidence 34555555544443 2444433367799999864
No 71
>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site. Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....
Probab=23.80 E-value=1.4e+02 Score=16.66 Aligned_cols=35 Identities=6% Similarity=0.196 Sum_probs=21.3
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhc
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDA 48 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~ 48 (95)
||+++...+-+.|..--... ..+|...|.+.|.+.
T Consensus 11 lP~~l~~~lk~~A~~~gRS~-------------NsEIv~~L~~~l~~e 45 (50)
T PF03869_consen 11 LPEELKEKLKERAEENGRSM-------------NSEIVQRLEEALKKE 45 (50)
T ss_dssp CEHHHHHHHHHHHHHTTS-H-------------HHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHHhCCCh-------------HHHHHHHHHHHHhcc
Confidence 57777777666555422221 356888888888754
No 72
>PF10047 DUF2281: Protein of unknown function (DUF2281); InterPro: IPR018739 This domain is found in putative uncharacterised proteins, though some proteins contaning this domain are described as a transcritional regulator of the Xre family.
Probab=23.73 E-value=1.2e+02 Score=17.81 Aligned_cols=21 Identities=33% Similarity=0.643 Sum_probs=18.4
Q ss_pred CCHHHHHHHHHHHHHHHHhhc
Q 034431 1 MPAHMQQHALRFTRSLVDDYY 21 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~ 21 (95)
+|++.|.+|++.+.-++.++.
T Consensus 12 LP~~~~~Evldfi~fL~~k~~ 32 (66)
T PF10047_consen 12 LPEELQQEVLDFIEFLLQKYQ 32 (66)
T ss_pred CCHHHHHHHHHHHHHHHHhcc
Confidence 688999999999999988874
No 73
>cd03548 Rieske_RO_Alpha_OMO_CARDO Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OMO catalyzes the NADH-dependent oxidation of the N-heterocyclic aromatic compound 2-oxoquinoline to 8-hydroxy-2-oxoquinoline, the second step in the bacterial degradation of quinoline. OMO consists of a reductase component (OMR) and an oxygenase component (OMO) that together function to shuttle electrons from the
Probab=23.72 E-value=1.8e+02 Score=19.14 Aligned_cols=36 Identities=8% Similarity=0.134 Sum_probs=26.0
Q ss_pred cCCCceEEEE-ccceeeeEEEcCCcEEEEEeCCEEEEEEeeCC
Q 034431 48 AYGPAWHCVV-GKSFGSFVTHSPAGFLYFSIDSLSVLLFKTEV 89 (95)
Q Consensus 48 ~yg~~WhcIV-G~~Fgs~vth~~~~~i~f~~~~~~iLl~ks~~ 89 (95)
.|...|+.|. ..... ++.+.-+.+++..++|++...
T Consensus 10 ~~~~~W~~v~~~~el~------~g~~~~~~~~g~~i~l~r~~g 46 (136)
T cd03548 10 GFRNHWYPALFSHELE------EGEPKGIQLCGEPILLRRVDG 46 (136)
T ss_pred CcccCcEEEEEHHHCC------CCCeEEEEECCcEEEEEecCC
Confidence 5678899887 34332 467778888888888888543
No 74
>TIGR00246 tRNA_RlmH_YbeA rRNA large subunit m3Psi methyltransferase RlmH. This protein, in the SPOUT methyltransferase family, previously designated YbeA in E. coli, was shown to be responsible for a further modification, a methylation, to a pseudouridine base in ribosomal large subunit RNA.
Probab=23.67 E-value=1.1e+02 Score=21.06 Aligned_cols=29 Identities=24% Similarity=0.199 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEEccceeee
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVVGKSFGSF 64 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~ 64 (95)
=.+.|+.|.+..+.- +.=.-|||+.+|-.
T Consensus 80 S~~fA~~l~~~~~~g--~~i~FvIGGa~G~~ 108 (153)
T TIGR00246 80 TPQLADTLEKWKTDG--RDVTLLIGGPEGLS 108 (153)
T ss_pred HHHHHHHHHHHhccC--CeEEEEEcCCCcCC
Confidence 468899998886554 45666679998853
No 75
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=23.51 E-value=60 Score=20.52 Aligned_cols=21 Identities=29% Similarity=0.449 Sum_probs=17.0
Q ss_pred CHHHHHHHHHHHhhhcCCCceEEE
Q 034431 33 NPTHLARALKKEFDDAYGPAWHCV 56 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~WhcI 56 (95)
..+++++.|++.|+.+ .|+++
T Consensus 34 ~~~~~~~~l~kRl~~~---~~~~~ 54 (115)
T cd00197 34 GPKEAVDAIKKRINNK---NPHVV 54 (115)
T ss_pred cHHHHHHHHHHHhcCC---cHHHH
Confidence 3689999999999875 77764
No 76
>PF07742 BTG: BTG family; InterPro: IPR002087 Anti-proliferative proteins have been shown to include mammalian and avian protein BTG1 (which appears to be involved in negative regulation of cell proliferation) and rat/mouse NGF-inducible protein PC3/TIS21 (BTG2) [, , ]. These proteins have from 158 to 363 amino acid residues, that are highly similar and include 3 conserved cysteine residues. BTG2 seems to have a signal sequence; while the other proteins may lack such a domain. The sequence of the N-terminal half of these proteins is well conserved.; PDB: 3DJU_B 3E9V_A 2Z15_D 2D5R_B 3DJN_B.
Probab=23.48 E-value=1.1e+02 Score=20.28 Aligned_cols=21 Identities=19% Similarity=0.382 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHhhhcCCCceE
Q 034431 34 PTHLARALKKEFDDAYGPAWH 54 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~Wh 54 (95)
....++.|.+.|-.+|.+.|+
T Consensus 27 ~~~F~~~L~~~L~~ry~~HW~ 47 (118)
T PF07742_consen 27 VDRFAEELENLLCERYKGHWY 47 (118)
T ss_dssp HHHHHHHHHHHHHHHHTTS--
T ss_pred HHHHHHHHHHHHHHHHhCCCC
Confidence 456788899999999999997
No 77
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=23.46 E-value=1.6e+02 Score=18.01 Aligned_cols=17 Identities=12% Similarity=0.163 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHhhcc
Q 034431 6 QQHALRFTRSLVDDYYS 22 (95)
Q Consensus 6 q~~~i~~~~~a~~~~~~ 22 (95)
-.+++++...|++.|..
T Consensus 22 y~eA~~lY~~ale~~~~ 38 (75)
T cd02680 22 AEEAIELYTEAVELCIN 38 (75)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 35677777778877765
No 78
>PRK06915 acetylornithine deacetylase; Validated
Probab=23.42 E-value=1.7e+02 Score=22.47 Aligned_cols=37 Identities=8% Similarity=0.289 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCC
Q 034431 5 MQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYG 50 (95)
Q Consensus 5 mq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg 50 (95)
++.+++++.+++++- ++. ..++.++|++|++.|.+. |
T Consensus 15 ~~~~~~~~l~~lv~i-------ps~-s~~e~~~~~~l~~~l~~~-G 51 (422)
T PRK06915 15 HEEEAVKLLKRLIQE-------KSV-SGDESGAQAIVIEKLREL-G 51 (422)
T ss_pred hHHHHHHHHHHHHhC-------CCC-CcchHHHHHHHHHHHHhc-C
Confidence 344555666655543 111 235789999999999854 5
No 79
>cd02860 Pullulanase_N_term Pullulanase domain N-terminus. Pullulanase (AKA dextrinase; alpha-dextrin endo-1,6-alpha glucosidase) is an enzyme with action similar to that of isoamylase; it cleaves 1,6-alpha-glucosidic linkages in pullulan, amylopectin, and glycogen, and in alpha-and beta-amylase limit-dextrins of amylopectin and glycogen. The N-terminus of pullulanase may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end and may be involved in homodimeric/tetrameric/dodecameric interactions. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=23.38 E-value=81 Score=19.41 Aligned_cols=15 Identities=7% Similarity=0.359 Sum_probs=12.4
Q ss_pred HhhhcCCCceEEEEc
Q 034431 44 EFDDAYGPAWHCVVG 58 (95)
Q Consensus 44 ~lD~~yg~~WhcIVG 58 (95)
.|+++-|+.||+.|-
T Consensus 40 ~m~~~~~gvw~~~v~ 54 (100)
T cd02860 40 QMKRGENGVWSVTLD 54 (100)
T ss_pred eeecCCCCEEEEEeC
Confidence 467778999999994
No 80
>cd01578 AcnA_Mitochon_Swivel Mitochondrial aconitase A swivel domain. Aconitase (also known as aconitate hydratase and citrate hydro-lyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme mechanism. In eukaryotes two isozymes of aconitase are known to exist: one found in the mitochondrial matrix and the other found in the cytoplasm. This is the mitochondrial form. The mitochondrial product is coded by a nuclear gene. Most members of this subfamily are mitochondrial but there are some bacterial members.
Probab=23.27 E-value=49 Score=23.07 Aligned_cols=20 Identities=15% Similarity=0.395 Sum_probs=13.5
Q ss_pred CCCceEEEEccceeeeEEEc
Q 034431 49 YGPAWHCVVGKSFGSFVTHS 68 (95)
Q Consensus 49 yg~~WhcIVG~~Fgs~vth~ 68 (95)
-|-.|-+|.|++||+==|.|
T Consensus 67 ~g~~~iIVaG~nyG~GSSRE 86 (149)
T cd01578 67 HGIKWVVIGDENYGEGSSRE 86 (149)
T ss_pred cCCCeEEEccCccCCCCchH
Confidence 35568777799999654433
No 81
>PF15571 Imm25: Immunity protein 25
Probab=23.13 E-value=54 Score=22.24 Aligned_cols=23 Identities=17% Similarity=0.284 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhhhcCCCceEEE
Q 034431 34 PTHLARALKKEFDDAYGPAWHCV 56 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcI 56 (95)
..++++.||+.+|..||..|+-|
T Consensus 17 fr~~r~~Ik~~~~~~~g~~~~~I 39 (124)
T PF15571_consen 17 FREIRNEIKELNDNLYGIEIESI 39 (124)
T ss_pred HHHHHHHHHHHHccccccchhhh
Confidence 46788999999999999888654
No 82
>PF13368 Toprim_C_rpt: Topoisomerase C-terminal repeat
Probab=22.73 E-value=70 Score=18.45 Aligned_cols=17 Identities=29% Similarity=0.577 Sum_probs=12.6
Q ss_pred EEEc-cceeeeEEEcCCc
Q 034431 55 CVVG-KSFGSFVTHSPAG 71 (95)
Q Consensus 55 cIVG-~~Fgs~vth~~~~ 71 (95)
.||+ +.||-||+|...+
T Consensus 7 ~iv~~GRfGPYv~~g~~~ 24 (61)
T PF13368_consen 7 PIVKNGRFGPYVKHGKKN 24 (61)
T ss_pred EEEeECCCCceEEECCcc
Confidence 4564 8899999987544
No 83
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=22.71 E-value=2e+02 Score=17.80 Aligned_cols=39 Identities=5% Similarity=0.196 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcC
Q 034431 3 AHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAY 49 (95)
Q Consensus 3 ~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~y 49 (95)
++...++-.+...| ..|+.+ ....-..|..|++.|++++
T Consensus 59 ~ef~~D~~li~~Na-~~yN~~-------~s~i~~~a~~l~~~f~~~~ 97 (97)
T cd05503 59 EEFAEDVRLVFDNC-ETFNED-------DSEVGRAGHNMRKFFEKRW 97 (97)
T ss_pred HHHHHHHHHHHHHH-HHHCCC-------CCHHHHHHHHHHHHHHHhC
Confidence 34556666666665 455542 1124578999999999874
No 84
>PRK13888 conjugal transfer protein TrbN; Provisional
Probab=22.63 E-value=40 Score=24.78 Aligned_cols=26 Identities=15% Similarity=0.143 Sum_probs=20.6
Q ss_pred CCCHHHHHHHHHHHhhhcCCCceEEE
Q 034431 31 RPNPTHLARALKKEFDDAYGPAWHCV 56 (95)
Q Consensus 31 ~~~~~~iA~~IK~~lD~~yg~~WhcI 56 (95)
|-|..--|-.|+..|++++|-.|.+|
T Consensus 84 C~NV~vGAWILr~~i~~~~G~~W~AV 109 (206)
T PRK13888 84 CYSFDLAAWRLRMHIRNDKGDLWTKA 109 (206)
T ss_pred ceeHHHHHHHHHHHHHHhhCchHHHH
Confidence 33455556788899998999999987
No 85
>TIGR00171 leuD 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The candidate archaeal leuD proteins are not included in the seed alignment for this model and score below the trusted cutoff.
Probab=22.30 E-value=43 Score=24.06 Aligned_cols=12 Identities=17% Similarity=0.351 Sum_probs=8.8
Q ss_pred EEE-ccceeeeEE
Q 034431 55 CVV-GKSFGSFVT 66 (95)
Q Consensus 55 cIV-G~~Fgs~vt 66 (95)
++| |+||||==|
T Consensus 72 IlVaG~NFGcGSS 84 (188)
T TIGR00171 72 ILLARENFGCGSS 84 (188)
T ss_pred EEEcCCcccCCCc
Confidence 666 999997543
No 86
>PRK06765 homoserine O-acetyltransferase; Provisional
Probab=21.87 E-value=46 Score=26.04 Aligned_cols=34 Identities=21% Similarity=0.239 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHHhhhcCCCceEEEEccceeeeEE
Q 034431 33 NPTHLARALKKEFDDAYGPAWHCVVGKSFGSFVT 66 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vt 66 (95)
...++|+.+..-+|+.--...++|||.|.|..++
T Consensus 142 t~~d~~~~~~~ll~~lgi~~~~~vvG~SmGG~ia 175 (389)
T PRK06765 142 TILDFVRVQKELIKSLGIARLHAVMGPSMGGMQA 175 (389)
T ss_pred cHHHHHHHHHHHHHHcCCCCceEEEEECHHHHHH
Confidence 4789999999999875446678899999997654
No 87
>cd05392 RasGAP_Neurofibromin_like Neurofibromin-like proteins include the Saccharomyces cerevisiae RasGAP proteins Ira1 and Ira2, the closest homolog of neurofibromin, which is responsible for the human autosomal dominant disease neurofibromatosis type I (NF1). The RasGAP Ira1/2 proteins are negative regulators of the Ras-cAMP signaling pathway and conserved from yeast to human. In yeast Ras proteins are activated by GEFs, and inhibited by two GAPs, Ira1 and Ira2. Ras proteins activate the cAMP/protein kinase A (PKA) pathway, which controls metabolism, stress resistance, growth, and meiosis. Recent studies showed that the kelch proteins Gpb1 and Gpb2 inhibit Ras activity via association with Ira1 and Ira2. Gpb1/2 bind to a conserved C-terminal domain of Ira1/2, and loss of Gpb1/2 results in a destabilization of Ira1 and Ira2, leading to elevated levels of Ras2-GTP and uninhibited cAMP-PKA signaling. Since the Gpb1/2 binding domain on Ira1/2 is conserved in the human neurofibromin prote
Probab=21.61 E-value=74 Score=24.10 Aligned_cols=25 Identities=8% Similarity=0.169 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEEc
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVVG 58 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIVG 58 (95)
.+.||+.|++.+.++|...+.-+||
T Consensus 150 lr~i~~~l~~~v~~kfp~~~~~~Vg 174 (323)
T cd05392 150 LREICHHIYEVVSEKFPDSALSAVG 174 (323)
T ss_pred HHHHHHHHHHHHHHHCCCchHHHHH
Confidence 7899999999999999876554454
No 88
>PF02806 Alpha-amylase_C: Alpha amylase, C-terminal all-beta domain; InterPro: IPR006048 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. Alpha-amylase is classified as family 13 of the glycosyl hydrolases and is present in archaea, bacteria, plants and animals. Alpha-amylase is an essential enzyme in alpha-glucan metabolism, acting to catalyse the hydrolysis of alpha-1,4-glucosidic bonds of glycogen, starch and related polysaccharides. Although all alpha-amylases possess the same catalytic function, they can vary with respect to sequence. In general, they are composed of three domains: a TIM barrel containing the active site residues and chloride ion-binding site (domain A), a long loop region inserted between the third beta strand and the alpha-helix of domain A that contains calcium-binding site(s) (domain B), and a C-terminal beta-sheet domain that appears to show some variability in sequence and length between amylases (domain C) []. Amylases have at least one conserved calcium-binding site, as calcium is essential for the stability of the enzyme. The chloride-binding functions to activate the enzyme, which acts by a two-step mechanism involving a catalytic nucleophile base (usually an Asp) and a catalytic proton donor (usually a Glu) that are responsible for the formation of the beta-linked glycosyl-enzyme intermediate. This entry represents the all-beta domain that is found in several alpha-amylases, usually at the C terminus, and which forms a Greek key beta-barrel fold in these enzymes []. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0003824 catalytic activity, 0043169 cation binding, 0005975 carbohydrate metabolic process; PDB: 1TCM_A 1CXL_A 1PJ9_A 1OT2_A 2DIJ_A 1CGV_A 1CXK_A 1PEZ_A 1CGX_A 2CXG_A ....
Probab=21.58 E-value=1.5e+02 Score=17.70 Aligned_cols=38 Identities=21% Similarity=0.363 Sum_probs=25.4
Q ss_pred CCceEEEEc---cceeee-------EEEcCCcEEEEEeCCEEEEEEee
Q 034431 50 GPAWHCVVG---KSFGSF-------VTHSPAGFLYFSIDSLSVLLFKT 87 (95)
Q Consensus 50 g~~WhcIVG---~~Fgs~-------vth~~~~~i~f~~~~~~iLl~ks 87 (95)
++.|++|+. ..||.. ++...+.-+.+.+..+..+|||-
T Consensus 46 ~g~y~~vlnsd~~~~~g~~~~~~~~v~~~~~g~~~~~lp~~s~~vl~~ 93 (95)
T PF02806_consen 46 AGRYKEVLNSDDEEYGGSGKGNSGEVTVDSNGRITVTLPPYSALVLKL 93 (95)
T ss_dssp SEEEEETTTTTCEEEEESSCSETSEEEEETTSEEEEEESTTEEEEEEE
T ss_pred cceeeEEeCCCccEECCcccccCceEEEeeCCEEEEEECCCEEEEEEE
Confidence 678888883 346642 33323334789999999999874
No 89
>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity. The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.
Probab=21.53 E-value=1.3e+02 Score=20.84 Aligned_cols=29 Identities=3% Similarity=0.223 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhhhcCCCceEEEE-ccceee
Q 034431 34 PTHLARALKKEFDDAYGPAWHCVV-GKSFGS 63 (95)
Q Consensus 34 ~~~iA~~IK~~lD~~yg~~WhcIV-G~~Fgs 63 (95)
..++++.|+++-.++ |..|+.|= ..+...
T Consensus 36 D~em~~RI~~H~~~R-~~~w~tiE~~~~l~~ 65 (167)
T PF02283_consen 36 DEEMRERIARHRQRR-PKGWITIEEPRDLAE 65 (167)
T ss_dssp HHHHHHHHHHHHHHS-STCEEEEE-SS-GGG
T ss_pred CHHHHHHHHHHHHhC-CCCcEEEecchhHHH
Confidence 468999999999999 99999987 454443
No 90
>PF14372 DUF4413: Domain of unknown function (DUF4413)
Probab=21.23 E-value=1.3e+02 Score=18.96 Aligned_cols=19 Identities=26% Similarity=0.662 Sum_probs=15.6
Q ss_pred CCHHHHHHHHHHHhhhcCC
Q 034431 32 PNPTHLARALKKEFDDAYG 50 (95)
Q Consensus 32 ~~~~~iA~~IK~~lD~~yg 50 (95)
+....+|+.+++.||+-+.
T Consensus 31 ~~l~~ma~~M~~KfdKYw~ 49 (101)
T PF14372_consen 31 PDLKNMAKKMKEKFDKYWK 49 (101)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4578899999999998765
No 91
>TIGR02735 purC_vibrio phosphoribosylaminoimidazole-succinocarboxamide synthase, Vibrio type. Members of this protein family appear to represent a novel form of phosphoribosylaminoimidazole-succinocarboxamide synthase (SAICAR synthetase), significantly different in sequence and gap pattern from a form (see TIGR00081) shared by a broad range of bacteria and eukaryotes. Members of this family are found within the gammaproteobacteria in the genera Vibrio, Shewanella, and Colwellia, and also (reported as a fragment) in the primitive eukarote Guillardia theta.
Probab=20.91 E-value=1.5e+02 Score=23.68 Aligned_cols=44 Identities=14% Similarity=0.182 Sum_probs=33.4
Q ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhcCC
Q 034431 1 MPAHMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDAYG 50 (95)
Q Consensus 1 M~~emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~yg 50 (95)
||+++-.++.+...+++++.+..+ +.. .....+.|.+.|...||
T Consensus 320 LP~evv~~~s~~Y~~~~e~iTG~~-~~~-----~~~~~~~i~~~~~~~~~ 363 (365)
T TIGR02735 320 LPQEMLMDVSETYLGIAEKITGSS-ITL-----SENPKAEIKAILSVEYG 363 (365)
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCC-ccC-----CCCHHHHHHHHHHHhhC
Confidence 688999999999999999987532 111 24566778888888887
No 92
>COG1698 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.64 E-value=2.5e+02 Score=18.11 Aligned_cols=41 Identities=15% Similarity=0.327 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCCCCCCCHHHHHHHHHHHhhhc
Q 034431 4 HMQQHALRFTRSLVDDYYSESSAPKTSRPNPTHLARALKKEFDDA 48 (95)
Q Consensus 4 emq~~~i~~~~~a~~~~~~~~~~~~~~~~~~~~iA~~IK~~lD~~ 48 (95)
.|-++-++.+...++.--++.++|. |.+..|+..|+.|...
T Consensus 9 ~d~~e~i~q~~~lL~~Ii~DttVPR----NIRraA~~a~e~L~~e 49 (93)
T COG1698 9 NDSEEKINQVMQLLDEIIQDTTVPR----NIRRAAEEAKEALNNE 49 (93)
T ss_pred hhhHHHHHHHHHHHHHHHccccccH----HHHHHHHHHHHHHhCC
Confidence 3444555556666666444433443 5888999999888763
No 93
>PF13565 HTH_32: Homeodomain-like domain
Probab=20.50 E-value=1.9e+02 Score=16.56 Aligned_cols=17 Identities=29% Similarity=0.491 Sum_probs=13.0
Q ss_pred CHHHHHHHHHHHhhhcC
Q 034431 33 NPTHLARALKKEFDDAY 49 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~y 49 (95)
...+||..|.+.+...+
T Consensus 50 t~~~i~~~L~~~~g~~~ 66 (77)
T PF13565_consen 50 TPREIAEYLEEEFGISV 66 (77)
T ss_pred CHHHHHHHHHHHhCCCC
Confidence 36889999988876554
No 94
>TIGR01738 bioH putative pimeloyl-BioC--CoA transferase BioH. This CoA-binding enzyme is required for the production of pimeloyl-coenzyme A, the substrate of the BioF protein early in the biosynthesis of biotin. Its exact function is unknown, but is proposed in ref 2. This enzyme belongs to the alpha/beta hydrolase fold family (pfam model pfam00561). Members of this family are restricted to the Proteobacteria.
Probab=20.45 E-value=54 Score=21.66 Aligned_cols=29 Identities=24% Similarity=0.311 Sum_probs=21.5
Q ss_pred CHHHHHHHHHHHhhhcCCCceEEEEccceeeeEE
Q 034431 33 NPTHLARALKKEFDDAYGPAWHCVVGKSFGSFVT 66 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~WhcIVG~~Fgs~vt 66 (95)
+..++++.|...++++ -++||-|+|+.+.
T Consensus 51 ~~~~~~~~~~~~~~~~-----~~lvG~S~Gg~~a 79 (245)
T TIGR01738 51 SLADAAEAIAAQAPDP-----AIWLGWSLGGLVA 79 (245)
T ss_pred CHHHHHHHHHHhCCCC-----eEEEEEcHHHHHH
Confidence 5778888888877632 3577999998764
No 95
>PRK01641 leuD isopropylmalate isomerase small subunit; Provisional
Probab=20.42 E-value=50 Score=23.95 Aligned_cols=34 Identities=18% Similarity=0.464 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhh--------hcC---CCce---EEEE-ccceeeeEEE
Q 034431 34 PTHLARALKKEFD--------DAY---GPAW---HCVV-GKSFGSFVTH 67 (95)
Q Consensus 34 ~~~iA~~IK~~lD--------~~y---g~~W---hcIV-G~~Fgs~vth 67 (95)
...+++++-..++ ..| .+.| .++| |++|||==|.
T Consensus 35 ~~~l~~~~f~~~r~~~~~~~~p~F~ln~~~~~~~~IlVaG~NFGcGSSR 83 (200)
T PRK01641 35 RTGFGKGLFDDWRYLDDGQPNPDFVLNQPRYQGASILLAGDNFGCGSSR 83 (200)
T ss_pred HHHHHHhhhccccccccCCCCCCccccccccCCCeEEEcCCcccCCCcH
Confidence 4567777766554 222 2222 3555 9999975443
No 96
>PF06983 3-dmu-9_3-mt: 3-demethylubiquinone-9 3-methyltransferase; PDB: 1U7I_A 1TSJ_A 1U69_D 3L20_B 3OMS_A.
Probab=20.41 E-value=52 Score=21.29 Aligned_cols=11 Identities=36% Similarity=0.999 Sum_probs=6.4
Q ss_pred hhcCCCceEEE
Q 034431 46 DDAYGPAWHCV 56 (95)
Q Consensus 46 D~~yg~~WhcI 56 (95)
-.|||=.|++|
T Consensus 106 ~DkFGv~Wqiv 116 (116)
T PF06983_consen 106 TDKFGVSWQIV 116 (116)
T ss_dssp E-TTS-EEEEE
T ss_pred EeCCCCEEEeC
Confidence 34777888876
No 97
>COG0066 LeuD 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]
Probab=20.14 E-value=51 Score=23.95 Aligned_cols=12 Identities=33% Similarity=0.548 Sum_probs=8.4
Q ss_pred EEEccceeeeEE
Q 034431 55 CVVGKSFGSFVT 66 (95)
Q Consensus 55 cIVG~~Fgs~vt 66 (95)
.|.|+||||=-|
T Consensus 66 lVag~NFGcGSS 77 (191)
T COG0066 66 LVAGENFGCGSS 77 (191)
T ss_pred EEecCCCCCCcc
Confidence 444999997544
No 98
>cd05391 RasGAP_p120GAP p120GAP is a negative regulator of Ras that stimulates hydrolysis of bound GTP to GDP. Once the Ras regulator p120GAP, a member of the GAP protein family, is recruited to the membrane, it is transiently immobilized to interact with Ras-GTP. The down regulation of Ras by p120GAP is a critical step in the regulation of many cellular processes, which is disrupted in approximately 30% of human cancers. p120GAP contains SH2, SH3, PH, calcium- and lipid-binding domains, suggesting its involvement in a complex network of cellular interactions in vivo.
Probab=20.05 E-value=66 Score=24.79 Aligned_cols=22 Identities=9% Similarity=0.057 Sum_probs=19.2
Q ss_pred CHHHHHHHHHHHhhhcCCCceE
Q 034431 33 NPTHLARALKKEFDDAYGPAWH 54 (95)
Q Consensus 33 ~~~~iA~~IK~~lD~~yg~~Wh 54 (95)
..+.|++.|++.+.++|...+.
T Consensus 149 ~lr~i~~~l~~~v~~kfp~~~~ 170 (315)
T cd05391 149 TLRYIYGCLQKSVQAKWPTNTT 170 (315)
T ss_pred HHHHHHHHHHHHHHHHCCCchh
Confidence 3789999999999999987765
Done!