Query 032052
Match_columns 148
No_of_seqs 109 out of 1299
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 08:57:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032052.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032052hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00265 MADS_MEF2_like MEF2 (m 100.0 1.2E-29 2.6E-34 160.7 2.1 59 1-59 17-75 (77)
2 KOG0014 MADS box transcription 100.0 4.1E-29 8.9E-34 183.8 5.0 61 1-61 18-80 (195)
3 cd00266 MADS_SRF_like SRF-like 99.9 2.1E-26 4.6E-31 147.9 4.7 60 1-60 17-77 (83)
4 PF00319 SRF-TF: SRF-type tran 99.9 6.3E-26 1.4E-30 131.9 0.6 42 1-42 10-51 (51)
5 smart00432 MADS MADS domain. 99.9 6.4E-25 1.4E-29 131.7 3.3 43 1-43 17-59 (59)
6 cd00120 MADS MADS: MCM1, Agamo 99.9 1.5E-24 3.3E-29 130.1 2.2 43 1-43 17-59 (59)
7 KOG0015 Regulator of arginine 99.5 1.6E-15 3.6E-20 115.5 2.3 62 1-62 79-149 (338)
8 COG5068 ARG80 Regulator of arg 98.9 4.3E-10 9.2E-15 89.6 2.0 49 1-49 98-146 (412)
9 PF01486 K-box: K-box region; 98.4 9.4E-07 2E-11 58.5 6.1 61 78-141 16-77 (100)
10 PF10491 Nrf1_DNA-bind: NLS-bi 86.0 1.5 3.3E-05 32.6 4.2 47 9-55 35-88 (214)
11 PF10584 Proteasome_A_N: Prote 84.5 0.29 6.3E-06 23.5 -0.0 13 27-39 4-16 (23)
12 PRK04098 sec-independent trans 72.6 1 2.2E-05 32.2 -0.4 91 25-133 14-104 (158)
13 PLN03230 acetyl-coenzyme A car 70.1 43 0.00094 27.9 8.4 78 37-134 39-126 (431)
14 KOG4311 Histidinol dehydrogena 68.5 9.8 0.00021 29.7 4.2 51 10-60 201-263 (359)
15 PF07106 TBPIP: Tat binding pr 65.5 35 0.00075 24.3 6.4 62 78-139 76-138 (169)
16 PF09151 DUF1936: Domain of un 63.6 3.3 7.1E-05 21.3 0.6 26 18-43 3-30 (36)
17 TIGR01916 F420_cofE F420-0:gam 62.7 11 0.00023 28.9 3.5 29 16-44 133-161 (243)
18 PF09941 DUF2173: Uncharacteri 56.6 12 0.00025 25.1 2.4 38 14-52 2-42 (108)
19 PF14282 FlxA: FlxA-like prote 56.2 56 0.0012 21.5 5.8 52 77-139 22-73 (106)
20 PF07106 TBPIP: Tat binding pr 52.6 81 0.0018 22.3 9.0 53 78-134 113-166 (169)
21 PF09278 MerR-DNA-bind: MerR, 49.6 51 0.0011 19.1 4.4 23 117-139 36-58 (65)
22 cd01365 KISc_KIF1A_KIF1B Kines 48.7 18 0.00039 29.0 2.9 35 10-44 71-111 (356)
23 PRK13293 F420-0--gamma-glutamy 46.8 28 0.00061 26.7 3.5 29 16-44 134-162 (245)
24 KOG3838 Mannose lectin ERGIC-5 46.2 68 0.0015 26.6 5.6 63 78-140 276-349 (497)
25 PF11460 DUF3007: Protein of u 46.0 33 0.00072 22.8 3.2 16 108-123 88-103 (104)
26 PRK04654 sec-independent trans 45.9 62 0.0013 24.3 5.0 34 17-54 8-41 (214)
27 PF08181 DegQ: DegQ (SacQ) fam 45.6 51 0.0011 18.0 4.1 17 112-128 6-22 (46)
28 KOG4797 Transcriptional regula 44.8 42 0.00091 22.5 3.6 44 80-123 66-110 (123)
29 PF14513 DAG_kinase_N: Diacylg 44.2 54 0.0012 22.9 4.3 40 105-145 4-43 (138)
30 PF11944 DUF3461: Protein of u 43.9 44 0.00095 22.9 3.6 25 112-136 101-125 (125)
31 PF14009 DUF4228: Domain of un 42.9 26 0.00057 24.5 2.7 34 22-55 12-46 (181)
32 COG4575 ElaB Uncharacterized c 42.8 99 0.0022 20.5 6.2 30 108-137 32-61 (104)
33 PLN03229 acetyl-coenzyme A car 42.4 2.5E+02 0.0053 25.4 8.8 88 26-133 50-146 (762)
34 COG3883 Uncharacterized protei 41.6 51 0.0011 25.7 4.2 25 112-136 79-103 (265)
35 KOG4316 Uncharacterized conser 41.6 14 0.0003 26.1 1.0 43 16-58 43-96 (172)
36 cd00106 KISc Kinesin motor dom 41.2 27 0.00058 27.4 2.7 24 20-43 74-100 (328)
37 COG4831 Roadblock/LC7 domain [ 40.9 31 0.00067 22.6 2.4 30 13-43 3-32 (109)
38 KOG0183 20S proteasome, regula 39.5 17 0.00037 27.4 1.3 16 24-39 4-19 (249)
39 COG3883 Uncharacterized protei 39.0 82 0.0018 24.5 4.9 35 113-147 87-121 (265)
40 PF07960 CBP4: CBP4; InterPro 39.0 21 0.00045 24.6 1.5 28 24-53 14-41 (128)
41 TIGR02420 dksA RNA polymerase- 38.8 86 0.0019 20.7 4.5 27 110-136 1-27 (110)
42 PF03670 UPF0184: Uncharacteri 38.7 68 0.0015 20.4 3.7 19 78-96 30-48 (83)
43 COG5000 NtrY Signal transducti 38.7 30 0.00065 30.3 2.7 21 19-39 374-394 (712)
44 COG2380 Uncharacterized protei 38.3 1.5E+02 0.0033 23.3 6.2 76 19-97 76-158 (327)
45 KOG0184 20S proteasome, regula 37.6 16 0.00034 27.8 0.8 21 19-39 3-23 (254)
46 cd02980 TRX_Fd_family Thioredo 37.6 33 0.00072 20.5 2.2 29 22-51 47-76 (77)
47 cd01371 KISc_KIF3 Kinesin moto 37.1 37 0.0008 26.9 3.0 25 19-43 76-103 (333)
48 PF07820 TraC: TraC-like prote 37.1 70 0.0015 20.7 3.6 20 78-97 6-25 (92)
49 COG4398 Uncharacterized protei 36.5 52 0.0011 26.2 3.5 39 20-58 317-357 (389)
50 PF01996 F420_ligase: F420-0:G 36.2 14 0.00029 28.0 0.3 29 16-44 141-169 (228)
51 PF13540 RCC1_2: Regulator of 35.1 8.5 0.00018 19.2 -0.7 23 20-43 4-26 (30)
52 PF15372 DUF4600: Domain of un 34.9 1.4E+02 0.0031 20.6 5.1 27 108-134 49-75 (129)
53 KOG4603 TBP-1 interacting prot 34.8 1.5E+02 0.0033 21.6 5.4 60 78-137 83-143 (201)
54 PF04417 DUF501: Protein of un 33.9 49 0.0011 23.0 2.8 34 22-55 7-46 (139)
55 cd01374 KISc_CENP_E Kinesin mo 33.8 45 0.00097 26.2 2.9 24 20-43 69-95 (321)
56 cd01366 KISc_C_terminal Kinesi 33.7 39 0.00086 26.6 2.6 24 19-42 72-98 (329)
57 cd01368 KISc_KIF23_like Kinesi 33.5 41 0.00089 26.9 2.7 26 19-44 83-111 (345)
58 PF04873 EIN3: Ethylene insens 33.2 14 0.00031 29.9 0.0 37 10-46 55-92 (354)
59 KOG4252 GTP-binding protein [S 33.1 24 0.00053 26.1 1.2 28 22-55 91-118 (246)
60 COG3411 Ferredoxin [Energy pro 32.9 58 0.0013 19.7 2.6 31 27-57 18-49 (64)
61 smart00129 KISc Kinesin motor, 32.2 49 0.0011 26.1 2.9 24 20-43 75-101 (335)
62 PF14193 DUF4315: Domain of un 32.2 92 0.002 19.7 3.6 17 108-124 46-62 (83)
63 PF03584 Herpes_ICP4_N: Herpes 32.1 59 0.0013 23.5 3.0 33 27-59 15-49 (173)
64 PF00383 dCMP_cyt_deam_1: Cyti 32.1 46 0.00099 21.1 2.3 29 10-38 6-38 (102)
65 PF15290 Syntaphilin: Golgi-lo 31.6 78 0.0017 24.9 3.7 19 114-132 125-143 (305)
66 TIGR03726 strep_RK_lipo putati 31.4 22 0.00048 18.6 0.5 16 12-27 3-18 (34)
67 cd01369 KISc_KHC_KIF5 Kinesin 31.2 43 0.00093 26.4 2.4 25 20-44 72-99 (325)
68 cd01370 KISc_KIP3_like Kinesin 31.1 47 0.001 26.4 2.7 25 19-43 82-109 (338)
69 smart00787 Spc7 Spc7 kinetocho 30.6 2.3E+02 0.005 22.5 6.4 31 108-138 199-229 (312)
70 PF06574 FAD_syn: FAD syntheta 30.4 68 0.0015 22.6 3.1 27 9-35 22-48 (157)
71 PF07862 Nif11: Nitrogen fixat 30.4 1E+02 0.0022 16.9 3.3 32 110-142 1-32 (49)
72 KOG3048 Molecular chaperone Pr 30.4 1.5E+02 0.0032 21.0 4.6 31 108-138 11-41 (153)
73 cd08888 SRPBCC_PITPNA-B_like L 30.1 74 0.0016 24.7 3.4 23 108-130 235-257 (258)
74 PF00225 Kinesin: Kinesin moto 29.9 21 0.00046 28.1 0.5 24 19-42 69-95 (335)
75 COG4917 EutP Ethanolamine util 29.8 52 0.0011 23.0 2.3 23 18-40 59-81 (148)
76 KOG0182 20S proteasome, regula 29.7 34 0.00073 25.9 1.5 18 22-39 7-24 (246)
77 PF02639 DUF188: Uncharacteriz 29.6 1.4E+02 0.0031 20.4 4.5 20 108-127 110-129 (130)
78 PRK09555 feoA ferrous iron tra 29.6 56 0.0012 20.0 2.3 32 9-40 20-51 (74)
79 PF09457 RBD-FIP: FIP domain ; 29.5 55 0.0012 18.5 2.0 25 114-138 22-46 (48)
80 PRK13294 F420-0--gamma-glutamy 29.3 67 0.0015 26.9 3.3 26 16-41 134-159 (448)
81 PF07676 PD40: WD40-like Beta 29.3 32 0.0007 17.6 1.0 18 25-42 10-27 (39)
82 PHA00024 IX minor coat protein 29.0 33 0.0007 17.9 0.9 10 10-19 23-32 (33)
83 cd01376 KISc_KID_like Kinesin 28.9 65 0.0014 25.3 3.1 25 19-43 75-102 (319)
84 smart00415 HSF heat shock fact 28.3 68 0.0015 20.9 2.6 36 20-55 12-50 (105)
85 cd03063 TRX_Fd_FDH_beta TRX-li 28.2 65 0.0014 20.8 2.5 35 21-55 44-80 (92)
86 PF06698 DUF1192: Protein of u 28.1 1.4E+02 0.0029 17.7 4.3 28 108-135 19-46 (59)
87 PRK13677 hypothetical protein; 28.0 1.2E+02 0.0025 20.8 3.7 25 112-136 101-125 (125)
88 PF10623 PilI: Plasmid conjuga 27.5 79 0.0017 19.9 2.6 30 25-54 8-40 (83)
89 PF03233 Cauli_AT: Aphid trans 27.4 2.4E+02 0.0052 20.3 6.0 29 108-136 133-161 (163)
90 cd01367 KISc_KIF2_like Kinesin 27.3 57 0.0012 25.7 2.5 36 19-54 79-125 (322)
91 PF06523 DUF1106: Protein of u 27.3 23 0.0005 22.0 0.2 45 14-58 22-80 (91)
92 cd01363 Motor_domain Myosin an 27.2 45 0.00097 24.0 1.8 24 20-43 19-45 (186)
93 PF05700 BCAS2: Breast carcino 27.0 2.7E+02 0.0058 20.8 7.9 93 40-137 60-163 (221)
94 PF05852 DUF848: Gammaherpesvi 26.5 58 0.0013 23.0 2.1 30 108-137 84-113 (146)
95 PRK01470 tatA twin arginine tr 26.3 8.6 0.00019 22.1 -1.7 31 26-58 14-44 (51)
96 PF08557 Lipid_DES: Sphingolip 26.0 42 0.00091 18.2 1.1 21 5-25 16-36 (39)
97 PF13252 DUF4043: Protein of u 26.0 31 0.00067 27.8 0.8 20 16-35 272-291 (341)
98 PF12646 DUF3783: Domain of un 25.5 95 0.0021 18.0 2.7 19 40-58 9-27 (58)
99 PF00352 TBP: Transcription fa 25.4 57 0.0012 20.4 1.8 28 24-52 48-78 (86)
100 TIGR01001 metA homoserine O-su 25.1 29 0.00062 27.5 0.4 45 11-55 200-249 (300)
101 PF11976 Rad60-SLD: Ubiquitin- 24.3 67 0.0015 18.9 1.9 34 27-60 2-38 (72)
102 PF02887 PK_C: Pyruvate kinase 24.2 88 0.0019 20.5 2.7 23 13-36 6-28 (117)
103 PF06005 DUF904: Protein of un 24.2 1.4E+02 0.003 18.3 3.3 20 110-129 1-20 (72)
104 PF06657 Cep57_MT_bd: Centroso 24.1 1.9E+02 0.0041 18.0 6.4 60 78-137 14-74 (79)
105 PF13991 BssS: BssS protein fa 23.9 1.4E+02 0.003 18.5 3.2 23 109-131 41-63 (73)
106 PF09355 Phage_Gp19: Phage pro 23.6 1.9E+02 0.004 19.5 4.1 29 105-134 1-29 (116)
107 cd04790 HTH_Cfa-like_unk Helix 23.5 2.4E+02 0.0053 20.1 5.0 20 121-140 78-97 (172)
108 TIGR03138 QueF 7-cyano-7-deaza 23.5 77 0.0017 24.8 2.5 21 15-35 109-129 (275)
109 TIGR03007 pepcterm_ChnLen poly 23.5 1.5E+02 0.0032 24.7 4.4 45 45-97 140-184 (498)
110 KOG0432 Valyl-tRNA synthetase 23.2 24 0.00052 32.1 -0.4 110 8-123 61-179 (995)
111 PF05812 Herpes_BLRF2: Herpesv 23.1 2.5E+02 0.0055 19.1 5.4 55 73-129 4-60 (118)
112 cd04751 Commd3 COMM_Domain con 22.8 1.4E+02 0.0031 19.1 3.3 23 109-131 70-92 (95)
113 PLN03194 putative disease resi 22.7 56 0.0012 24.1 1.5 14 21-34 78-91 (187)
114 COG0495 LeuS Leucyl-tRNA synth 22.6 85 0.0018 28.5 2.9 31 27-58 38-72 (814)
115 cd01668 TGS_RelA_SpoT TGS_RelA 22.6 1E+02 0.0022 17.1 2.4 25 28-52 1-26 (60)
116 PF04019 DUF359: Protein of un 22.5 41 0.00089 22.9 0.8 17 28-44 79-95 (121)
117 KOG1123 RNA polymerase II tran 22.5 84 0.0018 27.2 2.7 30 28-57 546-589 (776)
118 PHA03162 hypothetical protein; 22.2 2.8E+02 0.0061 19.3 6.2 56 72-129 13-70 (135)
119 KOG0804 Cytoplasmic Zn-finger 22.1 3.2E+02 0.0069 23.2 5.9 24 113-136 417-440 (493)
120 cd03064 TRX_Fd_NuoE TRX-like [ 22.1 64 0.0014 19.6 1.5 28 22-52 52-80 (80)
121 COG5179 TAF1 Transcription ini 22.1 63 0.0014 28.5 1.9 48 9-57 446-494 (968)
122 PF09584 Phageshock_PspD: Phag 21.9 25 0.00054 21.3 -0.4 24 7-35 3-27 (66)
123 PF11629 Mst1_SARAH: C termina 21.7 1.5E+02 0.0033 16.8 2.8 20 108-127 6-25 (49)
124 smart00782 PhnA_Zn_Ribbon PhnA 21.7 26 0.00057 19.7 -0.3 22 11-32 2-23 (47)
125 PF08796 DUF1797: Protein of u 21.7 54 0.0012 20.0 1.1 19 22-40 24-42 (67)
126 PF04568 IATP: Mitochondrial A 21.6 2.4E+02 0.0052 18.5 4.2 23 113-135 72-94 (100)
127 PF10654 DUF2481: Protein of u 21.6 1.2E+02 0.0026 20.6 2.8 42 78-120 31-78 (126)
128 PF01099 Uteroglobin: Uteroglo 21.6 1.2E+02 0.0026 18.0 2.7 19 108-126 44-62 (67)
129 KOG4603 TBP-1 interacting prot 21.6 3.3E+02 0.0072 19.9 6.1 53 78-134 120-173 (201)
130 PHA03155 hypothetical protein; 21.6 2.7E+02 0.0058 18.8 6.1 51 73-128 9-60 (115)
131 COG0139 HisI Phosphoribosyl-AM 21.2 12 0.00027 25.0 -1.9 29 10-38 69-97 (111)
132 PRK02195 V-type ATP synthase s 21.1 2.2E+02 0.0048 21.0 4.5 48 36-97 107-156 (201)
133 PF09638 Ph1570: Ph1570 protei 20.8 63 0.0014 22.5 1.4 25 30-54 126-150 (152)
134 PRK13848 conjugal transfer pro 20.8 2.5E+02 0.0055 18.3 4.3 20 78-97 7-26 (98)
135 PRK13971 hydroxyproline-2-epim 20.7 82 0.0018 25.4 2.2 24 23-46 73-96 (333)
136 PF07438 DUF1514: Protein of u 20.3 2.1E+02 0.0046 17.3 3.4 22 108-129 43-64 (66)
No 1
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.95 E-value=1.2e-29 Score=160.67 Aligned_cols=59 Identities=39% Similarity=0.756 Sum_probs=56.2
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCcchHHHHHHhhhcCCCC
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSPSFDAVIDKFLSVNGGA 59 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~psv~~Vi~ry~~~~~~~ 59 (148)
++||+|||.||||||+|||+||||+||+|||||+|++|.|++|++++||+||+..++..
T Consensus 17 ~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~~~ 75 (77)
T cd00265 17 QVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSS 75 (77)
T ss_pred HHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhccccc
Confidence 58999999999999999999999999999999999999999999999999999887653
No 2
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=99.95 E-value=4.1e-29 Score=183.80 Aligned_cols=61 Identities=51% Similarity=0.820 Sum_probs=57.3
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCcc--hHHHHHHhhhcCCCCCC
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSPS--FDAVIDKFLSVNGGASS 61 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~ps--v~~Vi~ry~~~~~~~~~ 61 (148)
||||+|||.||||||+||||||||+||+|||||+|++|.|++|+ |+.|++||...+.+...
T Consensus 18 qvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 80 (195)
T KOG0014|consen 18 QVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK 80 (195)
T ss_pred hhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence 79999999999999999999999999999999999999999987 99999999998776543
No 3
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.93 E-value=2.1e-26 Score=147.86 Aligned_cols=60 Identities=47% Similarity=0.751 Sum_probs=55.8
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCcc-hHHHHHHhhhcCCCCC
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSPS-FDAVIDKFLSVNGGAS 60 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~ps-v~~Vi~ry~~~~~~~~ 60 (148)
||||+|||.||||||+||||||||+||+|||||+|+++.|++|+ ++.++++|...+....
T Consensus 17 ~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 77 (83)
T cd00266 17 AVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALER 77 (83)
T ss_pred hhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhh
Confidence 68999999999999999999999999999999999999998877 9999999998876644
No 4
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.91 E-value=6.3e-26 Score=131.92 Aligned_cols=42 Identities=52% Similarity=0.871 Sum_probs=39.2
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCC
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGS 42 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~ 42 (148)
++||+|||.||||||+|||+||||+||+|||||+|++|.|+|
T Consensus 10 ~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s 51 (51)
T PF00319_consen 10 KVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS 51 (51)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred HhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence 479999999999999999999999999999999999999975
No 5
>smart00432 MADS MADS domain.
Probab=99.90 E-value=6.4e-25 Score=131.68 Aligned_cols=43 Identities=53% Similarity=0.889 Sum_probs=41.8
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCc
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSP 43 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~p 43 (148)
++||+|||.||||||+|||+||||+||+|||||+|++|.|++|
T Consensus 17 ~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 17 QVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred hhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 5899999999999999999999999999999999999999987
No 6
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.89 E-value=1.5e-24 Score=130.14 Aligned_cols=43 Identities=53% Similarity=0.807 Sum_probs=41.5
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCc
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSP 43 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~p 43 (148)
++||+|||.||||||+|||+||||+||+|||||+|+++.|++|
T Consensus 17 ~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 17 QVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred hhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 5899999999999999999999999999999999999999876
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.55 E-value=1.6e-15 Score=115.51 Aligned_cols=62 Identities=37% Similarity=0.619 Sum_probs=55.2
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCcch---------HHHHHHhhhcCCCCCCC
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSPSF---------DAVIDKFLSVNGGASSS 62 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~psv---------~~Vi~ry~~~~~~~~~~ 62 (148)
+|||||||.||||||+|||||+|.+|-++|.|.+|.+|.|.+|.. +.+|...++.+..+..+
T Consensus 79 ~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq~cLn~pd~~~~~ 149 (338)
T KOG0015|consen 79 YVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQACLNAPDTPPND 149 (338)
T ss_pred eeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHHHHhcCCCCCCcc
Confidence 589999999999999999999999999999999999999998752 67888898888766443
No 8
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=98.92 E-value=4.3e-10 Score=89.57 Aligned_cols=49 Identities=39% Similarity=0.606 Sum_probs=44.8
Q ss_pred CceeccccchHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCcchHHHH
Q 032052 1 MVTFSKRRQGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSPSFDAVI 49 (148)
Q Consensus 1 qvtf~KRr~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~psv~~Vi 49 (148)
.|||+||+.||+|||.||++|.|.+|.++|.|..|..+.|..|..+.|+
T Consensus 98 ~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~ 146 (412)
T COG5068 98 SVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVV 146 (412)
T ss_pred cchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCcccccc
Confidence 5899999999999999999999999999999999999999988744443
No 9
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=98.41 E-value=9.4e-07 Score=58.48 Aligned_cols=61 Identities=16% Similarity=0.137 Sum_probs=52.5
Q ss_pred CchHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 032052 78 PTPFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLKHIEEDEF 141 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~~~~~ 141 (148)
.+..++.+++.+++.++... .|.|++. ++||++||..|+..|+..+..||.|+.++..++-
T Consensus 16 ~~~~e~~~L~~~~~~L~~~~R~~~GedL---~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i 77 (100)
T PF01486_consen 16 ELQQEIAKLRKENESLQKELRHLMGEDL---ESLSLKELQQLEQQLESALKRVRSRKDQLLMEQI 77 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccccc---cccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 78888999999999888766 5555455 9999999999999999999999999999877653
No 10
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=86.00 E-value=1.5 Score=32.63 Aligned_cols=47 Identities=28% Similarity=0.451 Sum_probs=36.6
Q ss_pred chHHHhH----HHHHHhhCcceeEEEeCCC---CCCcccCCcchHHHHHHhhhc
Q 032052 9 QGLFKKA----QEYANITGSQIAVLVFSPA---GNPYVHGSPSFDAVIDKFLSV 55 (148)
Q Consensus 9 ~GL~KKa----~ELs~LCg~~vavivfsp~---gk~~~~~~psv~~Vi~ry~~~ 55 (148)
.-|+.|. .|++|=+|-++.|++.+|+ +....||....+.|+..|...
T Consensus 35 ~rllrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfGa~pL~~vv~~~~~~ 88 (214)
T PF10491_consen 35 TRLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGAAPLENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeecchhHHHHHHHHHHH
Confidence 3466664 7999999999999999994 244578987788888888765
No 11
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=84.52 E-value=0.29 Score=23.49 Aligned_cols=13 Identities=31% Similarity=0.708 Sum_probs=10.1
Q ss_pred eEEEeCCCCCCcc
Q 032052 27 AVLVFSPAGNPYV 39 (148)
Q Consensus 27 avivfsp~gk~~~ 39 (148)
.+.+|||.|+++.
T Consensus 4 ~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 4 SITTFSPDGRLFQ 16 (23)
T ss_dssp STTSBBTTSSBHH
T ss_pred CceeECCCCeEEe
Confidence 3458999999873
No 12
>PRK04098 sec-independent translocase; Provisional
Probab=72.55 E-value=1 Score=32.23 Aligned_cols=91 Identities=13% Similarity=0.105 Sum_probs=44.7
Q ss_pred ceeEEEeCCCCCCcccCCcchHHHHHHhhhcCCCCCCCCcccCCCccccccCCCchHHHHHHHHHhHHHHHHhhhccccc
Q 032052 25 QIAVLVFSPAGNPYVHGSPSFDAVIDKFLSVNGGASSSGQVGAHHNEADVCRTPTPFHLVLQNHHNEADVCRGFLMALED 104 (148)
Q Consensus 25 ~vavivfsp~gk~~~~~~psv~~Vi~ry~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~l~~~~~~~~l~~~~~ 104 (148)
=||+|||+| +++...+- .+-..+..|++....-... .+ . ...+..++++..+.+..++..... + .
T Consensus 14 vVaLlvfGP-~KLP~~~r-~lGk~ir~~K~~~~~~k~~--l~---~--Ei~~~elk~e~~k~k~~l~~~~~~--l----~ 78 (158)
T PRK04098 14 VVAIIFLGP-DKLPQAMV-DIAKFFKAVKKTINDAKST--LD---K--EINIEEIKEEALKYKKEFESAVES--L----K 78 (158)
T ss_pred HHHHhhcCc-hHHHHHHH-HHHHHHHHHHHHHHHHHHH--HH---H--HHhhHHHHHHHHHHHHHHHHHHHH--H----H
Confidence 478999999 56654432 2555566665543321100 00 0 111124455444444444332221 0 0
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 032052 105 KIKRCRSAEDLSAVKAELEEVRVKVLQRL 133 (148)
Q Consensus 105 ~~~~~ls~eeL~~L~~~Le~~l~~v~~r~ 133 (148)
..+++++|.++...+....+.++.-.
T Consensus 79 ---~~~~~eel~~~~~~~~~~~~~~~~~~ 104 (158)
T PRK04098 79 ---KKLKFEELDDLKITAENEIKSIQDLL 104 (158)
T ss_pred ---hccChHHHHHHhhhhhhcchhHHHHH
Confidence 44778888888766655544444443
No 13
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=70.08 E-value=43 Score=27.86 Aligned_cols=78 Identities=12% Similarity=0.120 Sum_probs=42.7
Q ss_pred CcccCCcc------hH----HHHHHhhhcCCCCCCCCcccCCCccccccCCCchHHHHHHHHHhHHHHHHhhhccccccc
Q 032052 37 PYVHGSPS------FD----AVIDKFLSVNGGASSSGQVGAHHNEADVCRTPTPFHLVLQNHHNEADVCRGFLMALEDKI 106 (148)
Q Consensus 37 ~~~~~~ps------v~----~Vi~ry~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~l~~~~~~~~l~~~~~~~ 106 (148)
.+.|+||. +. ..+.+|.-....+.+. ++ +....+.+|+.++++++.-..-.+
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~l-----~fe~pi~ele~ki~el~~~~~~~~----- 100 (431)
T PLN03230 39 EHEYPWPEKLPQGELTTGALKILNRFKPLKNKPKPV--------TL-----PFEKPIVDLENRIDEVRELANKTG----- 100 (431)
T ss_pred CCCCCCcccCCCCcccccHHHHHHhcCCCCCCCCCC--------cc-----chhhHHHHHHHHHHHHHhhhhccc-----
Confidence 36777764 33 4677776554443221 11 334557777777776654310000
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 032052 107 KRCRSAEDLSAVKAELEEVRVKVLQRLK 134 (148)
Q Consensus 107 ~~~ls~eeL~~L~~~Le~~l~~v~~r~~ 134 (148)
-+++ +++..|+..++.+.+.+...+.
T Consensus 101 -~~~~-~ei~~l~~~~~~~~~~i~~~Lt 126 (431)
T PLN03230 101 -VDFS-AQIAELEERYDQVRRELYSRLT 126 (431)
T ss_pred -ccHH-HHHHHHHHHHHHHHHHHHhcCC
Confidence 2232 5677888887777777665543
No 14
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=68.55 E-value=9.8 Score=29.74 Aligned_cols=51 Identities=14% Similarity=0.210 Sum_probs=33.3
Q ss_pred hHHHhHHHHHHhhCcceeEEEeCCCCCC-------cccCCc-----chHHHHHHhhhcCCCCC
Q 032052 10 GLFKKAQEYANITGSQIAVLVFSPAGNP-------YVHGSP-----SFDAVIDKFLSVNGGAS 60 (148)
Q Consensus 10 GL~KKa~ELs~LCg~~vavivfsp~gk~-------~~~~~p-----sv~~Vi~ry~~~~~~~~ 60 (148)
|=|-+.-.+++-||-+.-+.+.-|+|+. ..||.. +.+.+|..-+...|.++
T Consensus 201 gn~q~ll~i~vDCD~D~l~f~v~q~g~gfCHl~t~~Cfg~~~~gL~~LEs~l~~Rk~~aPeeS 263 (359)
T KOG4311|consen 201 GNFQNLLDIYVDCDRDSLIFLVTQDGPGFCHLGTETCFGTSVFGLYSLESILSKRKETAPEES 263 (359)
T ss_pred cCceeeEEEeeccCccceEEEEecCCCcccccCcceeeeeechhhhhHHHHHHHhhhcCCchh
Confidence 3455566789999999998888888863 345543 25666655555444433
No 15
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=65.47 E-value=35 Score=24.26 Aligned_cols=62 Identities=15% Similarity=0.021 Sum_probs=36.6
Q ss_pred CchHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 032052 78 PTPFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLKHIEED 139 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~~~ 139 (148)
.+..++..|+.++..++... .+...-.-+...++.+||..-...|..-...+..|+..|..+
T Consensus 76 ~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~ 138 (169)
T PF07106_consen 76 ELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSG 138 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 45555555555555554433 222100001156777888888888888788888887777664
No 16
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=63.58 E-value=3.3 Score=21.28 Aligned_cols=26 Identities=19% Similarity=0.298 Sum_probs=17.3
Q ss_pred HHHhhCcceeEEEeCCCCCCccc--CCc
Q 032052 18 YANITGSQIAVLVFSPAGNPYVH--GSP 43 (148)
Q Consensus 18 Ls~LCg~~vavivfsp~gk~~~~--~~p 43 (148)
|+--||+-|-+-||...|..-.| +.|
T Consensus 3 lcpkcgvgvl~pvy~~kgeikvfrcsnp 30 (36)
T PF09151_consen 3 LCPKCGVGVLEPVYNQKGEIKVFRCSNP 30 (36)
T ss_dssp B-TTTSSSBEEEEE-TTS-EEEEEES-T
T ss_pred cCCccCceEEEEeecCCCcEEEEEcCCC
Confidence 56679999999999998854444 555
No 17
>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=62.70 E-value=11 Score=28.94 Aligned_cols=29 Identities=21% Similarity=0.543 Sum_probs=25.0
Q ss_pred HHHHHhhCcceeEEEeCCCCCCcccCCcc
Q 032052 16 QEYANITGSQIAVLVFSPAGNPYVHGSPS 44 (148)
Q Consensus 16 ~ELs~LCg~~vavivfsp~gk~~~~~~ps 44 (148)
.+|.-.+|++|+|||+.+.|.++--|.+.
T Consensus 133 ~~l~~~~g~~v~VIItDt~gr~~R~G~~g 161 (243)
T TIGR01916 133 RGLRELTGVDVGVIITDTNGRPFREGQVG 161 (243)
T ss_pred HHHHHHHCCCEEEEEECCCCCccccCCCC
Confidence 45677899999999999999999888764
No 18
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=56.58 E-value=12 Score=25.11 Aligned_cols=38 Identities=21% Similarity=0.276 Sum_probs=25.8
Q ss_pred hHHHHHHhhCcceeEEEeCCCCCCccc-CC--cchHHHHHHh
Q 032052 14 KAQEYANITGSQIAVLVFSPAGNPYVH-GS--PSFDAVIDKF 52 (148)
Q Consensus 14 Ka~ELs~LCg~~vavivfsp~gk~~~~-~~--psv~~Vi~ry 52 (148)
+-.+|-.|-||-+| ..||+.|++.+| |. |..-+.+.++
T Consensus 2 ~l~~Lm~lpGv~AA-g~Fs~~G~l~e~~G~l~~~~a~m~A~m 42 (108)
T PF09941_consen 2 KLDKLMKLPGVVAA-GEFSDDGKLVEYKGELDEEMAEMLAKM 42 (108)
T ss_pred cHHHhhcCCCeEEE-EEECCCCeEEeeecCCCHHHHHHHHHH
Confidence 34678888888555 899999999987 42 3333444444
No 19
>PF14282 FlxA: FlxA-like protein
Probab=56.23 E-value=56 Score=21.54 Aligned_cols=52 Identities=6% Similarity=-0.043 Sum_probs=31.5
Q ss_pred CCchHHHHHHHHHhHHHHHHhhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 032052 77 TPTPFHLVLQNHHNEADVCRGFLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLKHIEED 139 (148)
Q Consensus 77 ~~L~~~~~~l~~~l~~~~~~~~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~~~ 139 (148)
..|+.++..|+.++.++..- .+++.++-..-...|..=+..|...+-++..+
T Consensus 22 ~~L~~Qi~~Lq~ql~~l~~~-----------~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q 73 (106)
T PF14282_consen 22 EQLQKQIKQLQEQLQELSQD-----------SDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQ 73 (106)
T ss_pred HHHHHHHHHHHHHHHHHHcc-----------cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36666666666666443221 45677776666666666666666666665543
No 20
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=52.57 E-value=81 Score=22.33 Aligned_cols=53 Identities=13% Similarity=-0.022 Sum_probs=38.3
Q ss_pred CchHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 032052 78 PTPFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLK 134 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~ 134 (148)
.|..++..+..+++.++.+. .+.. + | ...+.+|...+........+..+.|+.
T Consensus 113 el~~~i~~l~~e~~~l~~kL~~l~~-~--~-~~vs~ee~~~~~~~~~~~~k~w~kRKr 166 (169)
T PF07106_consen 113 ELREEIEELEEEIEELEEKLEKLRS-G--S-KPVSPEEKEKLEKEYKKWRKEWKKRKR 166 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh-C--C-CCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566666666666665555 3332 2 2 679999999999999999999888874
No 21
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=49.58 E-value=51 Score=19.09 Aligned_cols=23 Identities=17% Similarity=0.196 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhh
Q 032052 117 AVKAELEEVRVKVLQRLKHIEED 139 (148)
Q Consensus 117 ~L~~~Le~~l~~v~~r~~~l~~~ 139 (148)
.....++..++.|+.++..|..-
T Consensus 36 ~~~~~l~~~~~~i~~~i~~L~~~ 58 (65)
T PF09278_consen 36 DRRALLEEKLEEIEEQIAELQAL 58 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33466778888888888877653
No 22
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=48.69 E-value=18 Score=28.95 Aligned_cols=35 Identities=17% Similarity=0.469 Sum_probs=24.2
Q ss_pred hHHHhHH-HH--HHhhCcceeEEEeCCC--CCCcc-cCCcc
Q 032052 10 GLFKKAQ-EY--ANITGSQIAVLVFSPA--GNPYV-HGSPS 44 (148)
Q Consensus 10 GL~KKa~-EL--s~LCg~~vavivfsp~--gk~~~-~~~ps 44 (148)
-+|+.+. .+ +++-|..++|++|+++ ||.|. ||.+.
T Consensus 71 ~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~G~~~ 111 (356)
T cd01365 71 DVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMMGYKE 111 (356)
T ss_pred HHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEecCCCC
Confidence 3555542 22 3678999999999995 58885 57653
No 23
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=46.83 E-value=28 Score=26.73 Aligned_cols=29 Identities=21% Similarity=0.584 Sum_probs=24.1
Q ss_pred HHHHHhhCcceeEEEeCCCCCCcccCCcc
Q 032052 16 QEYANITGSQIAVLVFSPAGNPYVHGSPS 44 (148)
Q Consensus 16 ~ELs~LCg~~vavivfsp~gk~~~~~~ps 44 (148)
.+|.-.+|++|+|||....|.|+-.|...
T Consensus 134 ~~l~~~~g~~v~VIItDt~gr~~R~G~t~ 162 (245)
T PRK13293 134 EGLEELTGKKVGVIITDTNGRPFRKGQRG 162 (245)
T ss_pred HHHHHHHCCCEEEEEEcCCCcccccCCcc
Confidence 35677899999999999999988777543
No 24
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.18 E-value=68 Score=26.61 Aligned_cols=63 Identities=8% Similarity=-0.040 Sum_probs=39.9
Q ss_pred CchHHHHHHHHHhHHHHHHh------hhcccccccc--CCCCHHHHHHHHHH---HHHHHHHHHHHHHhhhhhh
Q 032052 78 PTPFHLVLQNHHNEADVCRG------FLMALEDKIK--RCRSAEDLSAVKAE---LEEVRVKVLQRLKHIEEDE 140 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~------~l~~~~~~~~--~~ls~eeL~~L~~~---Le~~l~~v~~r~~~l~~~~ 140 (148)
+++++....+.+++..+..- .-++++-|.+ ++++..||.++-.- |..-+..+..+.++++..+
T Consensus 276 kyqeEfe~~q~elek~k~efkk~hpd~~~e~ee~~~~yEs~~~Relrqi~egQn~i~~~l~ql~rql~~il~~Q 349 (497)
T KOG3838|consen 276 KYQEEFEWAQLELEKRKDEFKKSHPDAQGEGEELFDLYESLGHRELRQILEGQNAIHKQLAQLERQLDKILGPQ 349 (497)
T ss_pred HHHHHHHHHHHHHhhhHhhhccCCchhhcchhhhhhhhhccchHHHHHHHhhhhHHHHHHHHHHHHHHHHhCcc
Confidence 45555666666555544321 1222333443 78999999988766 8888888888888876643
No 25
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=46.03 E-value=33 Score=22.77 Aligned_cols=16 Identities=44% Similarity=0.549 Sum_probs=14.7
Q ss_pred CCCCHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELE 123 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le 123 (148)
+.|+++|+..|...|+
T Consensus 88 e~l~~eE~~~L~~eie 103 (104)
T PF11460_consen 88 EELSPEELEALQAEIE 103 (104)
T ss_pred HhCCHHHHHHHHHHhc
Confidence 9999999999998876
No 26
>PRK04654 sec-independent translocase; Provisional
Probab=45.93 E-value=62 Score=24.35 Aligned_cols=34 Identities=15% Similarity=0.095 Sum_probs=17.7
Q ss_pred HHHHhhCcceeEEEeCCCCCCcccCCcchHHHHHHhhh
Q 032052 17 EYANITGSQIAVLVFSPAGNPYVHGSPSFDAVIDKFLS 54 (148)
Q Consensus 17 ELs~LCg~~vavivfsp~gk~~~~~~psv~~Vi~ry~~ 54 (148)
||-++. =|++|||+| .|+...+. .+-..+.+|++
T Consensus 8 ELLlI~--VVALlV~GP-erLPe~aR-tlGk~irk~R~ 41 (214)
T PRK04654 8 ELTLIA--VVALVVLGP-ERLPKAAR-FAGLWVRRARM 41 (214)
T ss_pred HHHHHH--HHHHHhcCc-hHHHHHHH-HHHHHHHHHHH
Confidence 444443 368899998 45443321 23444444443
No 27
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=45.61 E-value=51 Score=17.98 Aligned_cols=17 Identities=24% Similarity=0.184 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032052 112 AEDLSAVKAELEEVRVK 128 (148)
Q Consensus 112 ~eeL~~L~~~Le~~l~~ 128 (148)
++||.+|.+.|+.-++.
T Consensus 6 ieelkqll~rle~eire 22 (46)
T PF08181_consen 6 IEELKQLLWRLENEIRE 22 (46)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56777777777654443
No 28
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=44.79 E-value=42 Score=22.49 Aligned_cols=44 Identities=18% Similarity=0.098 Sum_probs=23.4
Q ss_pred hHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHH
Q 032052 80 PFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELE 123 (148)
Q Consensus 80 ~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le 123 (148)
+++++-|+.++.++..|+ .+..++..+....|.++|.+|-..+.
T Consensus 66 REEVe~Lk~qI~eL~er~~~Le~EN~lLk~~~spe~L~ql~~~~~ 110 (123)
T KOG4797|consen 66 REEVEVLKEQIRELEERNSALERENSLLKTLASPEQLAQLPAQLS 110 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHhcc
Confidence 344555555555555544 33322212215678888888876553
No 29
>PF14513 DAG_kinase_N: Diacylglycerol kinase N-terminus; PDB: 1TUZ_A.
Probab=44.17 E-value=54 Score=22.90 Aligned_cols=40 Identities=18% Similarity=0.141 Sum_probs=27.5
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 032052 105 KIKRCRSAEDLSAVKAELEEVRVKVLQRLKHIEEDEFVTSL 145 (148)
Q Consensus 105 ~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~~~~~~~~~ 145 (148)
-| ..||++|..+|.+.++=.-++|..=+.+...+..+.++
T Consensus 4 ~~-~~lsp~eF~qLq~y~eys~kklkdvl~eF~~~g~~~~~ 43 (138)
T PF14513_consen 4 EW-VSLSPEEFAQLQKYSEYSTKKLKDVLKEFHGDGSLAKY 43 (138)
T ss_dssp ---S-S-HHHHHHHHHHHHH----HHHHHHHH-HTSGGGGG
T ss_pred ce-eccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccc
Confidence 35 89999999999999999999999988888887777665
No 30
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=43.94 E-value=44 Score=22.89 Aligned_cols=25 Identities=12% Similarity=0.270 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 032052 112 AEDLSAVKAELEEVRVKVLQRLKHI 136 (148)
Q Consensus 112 ~eeL~~L~~~Le~~l~~v~~r~~~l 136 (148)
++||.-|+..+...+..|++.++.|
T Consensus 101 L~dL~HLE~Vv~~KIaEIe~dlekL 125 (125)
T PF11944_consen 101 LDDLRHLEKVVNSKIAEIERDLEKL 125 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6799999999999999999988765
No 31
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=42.90 E-value=26 Score=24.47 Aligned_cols=34 Identities=21% Similarity=0.176 Sum_probs=25.2
Q ss_pred hCcceeEEEeCCCCCCcccCCc-chHHHHHHhhhc
Q 032052 22 TGSQIAVLVFSPAGNPYVHGSP-SFDAVIDKFLSV 55 (148)
Q Consensus 22 Cg~~vavivfsp~gk~~~~~~p-sv~~Vi~ry~~~ 55 (148)
|+...++-|..|+|+...|..| .+.+|+..|=..
T Consensus 12 ~~~~~~vkvv~~~G~v~~~~~pv~a~evm~~~P~h 46 (181)
T PF14009_consen 12 SSSAATVKVVHPDGKVEEFKRPVTAAEVMLENPGH 46 (181)
T ss_pred cCCCceEEEEcCCCcEEEeCCCcCHHHHHHHCCCC
Confidence 3445555555589999999888 589999888444
No 32
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=42.79 E-value=99 Score=20.53 Aligned_cols=30 Identities=10% Similarity=0.170 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLKHIE 137 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~ 137 (148)
.+.+-+++.+|...++..+++++.|+....
T Consensus 32 g~~a~~e~~~lR~r~~~~Lk~~r~rl~~~~ 61 (104)
T COG4575 32 GSLAGDEAEELRSKAESALKEARDRLGDTG 61 (104)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 788899999999999999999999987763
No 33
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=42.42 E-value=2.5e+02 Score=25.38 Aligned_cols=88 Identities=9% Similarity=0.016 Sum_probs=46.0
Q ss_pred eeEEEeCCCCCCcccCCcc-----hH----HHHHHhhhcCCCCCCCCcccCCCccccccCCCchHHHHHHHHHhHHHHHH
Q 032052 26 IAVLVFSPAGNPYVHGSPS-----FD----AVIDKFLSVNGGASSSGQVGAHHNEADVCRTPTPFHLVLQNHHNEADVCR 96 (148)
Q Consensus 26 vavivfsp~gk~~~~~~ps-----v~----~Vi~ry~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~l~~~~~~ 96 (148)
+.|+.----||-+.|+||. +. ..+.+|......+.+. + ......+..|+.++++++..
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~-----ldfEkpi~ele~ki~el~~~ 116 (762)
T PLN03229 50 LAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKPKPV--------T-----LDFEKPLVDLEKKIVDVRKM 116 (762)
T ss_pred eEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCCCCC--------C-----cchhhHHHHHHHHHHHHHhh
Confidence 4455444567778888764 33 3444443332222111 1 13345577777777666543
Q ss_pred hhhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 032052 97 GFLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRL 133 (148)
Q Consensus 97 ~~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~ 133 (148)
..-.+ -++ -+++..|+..++.+...+..++
T Consensus 117 ~~~~~------~~~-~~ei~~Le~k~~~~~~~iy~~L 146 (762)
T PLN03229 117 ANETG------LDF-SDQIISLESKYQQALKDLYTHL 146 (762)
T ss_pred hhccc------ccH-HHHHHHHHHHHHHHHHHHHccC
Confidence 10000 122 2567778888877777665554
No 34
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.65 E-value=51 Score=25.67 Aligned_cols=25 Identities=12% Similarity=0.440 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 032052 112 AEDLSAVKAELEEVRVKVLQRLKHI 136 (148)
Q Consensus 112 ~eeL~~L~~~Le~~l~~v~~r~~~l 136 (148)
-.++..|...|+.+..+|+.|.+-|
T Consensus 79 ~~eik~l~~eI~~~~~~I~~r~~~l 103 (265)
T COG3883 79 KAEIKKLQKEIAELKENIVERQELL 103 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777776665443
No 35
>KOG4316 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.59 E-value=14 Score=26.11 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=26.0
Q ss_pred HHHHHhhCcceeEEEeC----CCC--CCcccCC-----cchHHHHHHhhhcCCC
Q 032052 16 QEYANITGSQIAVLVFS----PAG--NPYVHGS-----PSFDAVIDKFLSVNGG 58 (148)
Q Consensus 16 ~ELs~LCg~~vavivfs----p~g--k~~~~~~-----psv~~Vi~ry~~~~~~ 58 (148)
.++++||+++..+.--. |+. ...-|+. ..+++|||||++..-.
T Consensus 43 ~a~~~lcq~p~vla~r~a~~~Ps~~r~~t~Fs~~kGkrktvkaVldRFkRL~~G 96 (172)
T KOG4316|consen 43 SARNLLCQHPSVLANRMAPVLPSVVRSLTYFSARKGKRKTVKAVLDRFKRLHCG 96 (172)
T ss_pred hHHHhHhcCcHHHHhccCCCCcchhhhhhhhhhhhcccccHHHHHHHHHhcccC
Confidence 67899998876544111 221 1222322 2499999999987643
No 36
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=41.20 E-value=27 Score=27.40 Aligned_cols=24 Identities=25% Similarity=0.621 Sum_probs=19.0
Q ss_pred HhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 20 NITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 20 ~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
++-|..+||++|++. ||.|. ||++
T Consensus 74 ~~~G~~~~i~~yG~tgSGKT~tl~G~~ 100 (328)
T cd00106 74 VLEGYNGTIFAYGQTGSGKTYTMFGSP 100 (328)
T ss_pred HhCCCceeEEEecCCCCCCeEEecCCC
Confidence 466999999999995 58885 5754
No 37
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=40.86 E-value=31 Score=22.65 Aligned_cols=30 Identities=30% Similarity=0.293 Sum_probs=23.2
Q ss_pred HhHHHHHHhhCcceeEEEeCCCCCCcccCCc
Q 032052 13 KKAQEYANITGSQIAVLVFSPAGNPYVHGSP 43 (148)
Q Consensus 13 KKa~ELs~LCg~~vavivfsp~gk~~~~~~p 43 (148)
-|..||--+-||-+| =.|||+||+-.|-.|
T Consensus 3 ekLdeLlqi~Gv~AA-Gefs~DGkLv~Ykgd 32 (109)
T COG4831 3 EKLDELLQIKGVMAA-GEFSPDGKLVEYKGD 32 (109)
T ss_pred hhHHHHhCccceeEe-ceeCCCCceEEeeCC
Confidence 357788888888655 679999999998543
No 38
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=39.47 E-value=17 Score=27.40 Aligned_cols=16 Identities=38% Similarity=0.594 Sum_probs=13.1
Q ss_pred cceeEEEeCCCCCCcc
Q 032052 24 SQIAVLVFSPAGNPYV 39 (148)
Q Consensus 24 ~~vavivfsp~gk~~~ 39 (148)
-+-|+-||||+|.++.
T Consensus 4 ydraltvFSPDGhL~Q 19 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQ 19 (249)
T ss_pred cccceEEECCCCCEEe
Confidence 4568899999998874
No 39
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.05 E-value=82 Score=24.54 Aligned_cols=35 Identities=14% Similarity=0.302 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhc
Q 032052 113 EDLSAVKAELEEVRVKVLQRLKHIEEDEFVTSLLN 147 (148)
Q Consensus 113 eeL~~L~~~Le~~l~~v~~r~~~l~~~~~~~~~~~ 147 (148)
.++..++..|......+..|...+..+.-..+|++
T Consensus 87 ~eI~~~~~~I~~r~~~l~~raRAmq~nG~~t~Yid 121 (265)
T COG3883 87 KEIAELKENIVERQELLKKRARAMQVNGTATSYID 121 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHHH
Confidence 47778888888888889999988888887777664
No 40
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=38.97 E-value=21 Score=24.64 Aligned_cols=28 Identities=7% Similarity=0.174 Sum_probs=21.9
Q ss_pred cceeEEEeCCCCCCcccCCcchHHHHHHhh
Q 032052 24 SQIAVLVFSPAGNPYVHGSPSFDAVIDKFL 53 (148)
Q Consensus 24 ~~vavivfsp~gk~~~~~~psv~~Vi~ry~ 53 (148)
+-++||+.+| -++-|.+|+-+.++.||.
T Consensus 14 ~G~~ii~~G~--~l~~y~tPTeEeL~~r~s 41 (128)
T PF07960_consen 14 AGAVIIGGGP--ALVKYTTPTEEELFKRYS 41 (128)
T ss_pred hcceeEeech--HHheecCCCHHHHHHhcC
Confidence 3456677766 677789999999999993
No 41
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=38.81 E-value=86 Score=20.65 Aligned_cols=27 Identities=15% Similarity=0.164 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhh
Q 032052 110 RSAEDLSAVKAELEEVRVKVLQRLKHI 136 (148)
Q Consensus 110 ls~eeL~~L~~~Le~~l~~v~~r~~~l 136 (148)
|+.+++..|...|...+..+..++...
T Consensus 1 M~~~~l~~~k~~L~~~~~~L~~~i~~~ 27 (110)
T TIGR02420 1 MSEAQLEHFRKILLRWKQELLEEADKT 27 (110)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667766666666666555443
No 42
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=38.70 E-value=68 Score=20.41 Aligned_cols=19 Identities=16% Similarity=-0.169 Sum_probs=8.5
Q ss_pred CchHHHHHHHHHhHHHHHH
Q 032052 78 PTPFHLVLQNHHNEADVCR 96 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~ 96 (148)
.++..+..|..-++.++.|
T Consensus 30 ~ins~LD~Lns~LD~LE~r 48 (83)
T PF03670_consen 30 AINSMLDQLNSCLDHLEQR 48 (83)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4444444444444444443
No 43
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=38.66 E-value=30 Score=30.33 Aligned_cols=21 Identities=24% Similarity=0.286 Sum_probs=18.7
Q ss_pred HHhhCcceeEEEeCCCCCCcc
Q 032052 19 ANITGSQIAVLVFSPAGNPYV 39 (148)
Q Consensus 19 s~LCg~~vavivfsp~gk~~~ 39 (148)
++|.|+.++||.|.+.|..+.
T Consensus 374 ~VLsgvtaGVi~~d~~g~i~t 394 (712)
T COG5000 374 AVLSGLTAGVIGFDNRGCITT 394 (712)
T ss_pred HHHhcCceeEEEEcCCCeeEe
Confidence 599999999999999987665
No 44
>COG2380 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.33 E-value=1.5e+02 Score=23.25 Aligned_cols=76 Identities=12% Similarity=0.097 Sum_probs=39.4
Q ss_pred HHhhCcceeEEEeCCCCCCcccCCcchHHHHHHhhhcCCCCCCCC--cc-cCCCc----cccccCCCchHHHHHHHHHhH
Q 032052 19 ANITGSQIAVLVFSPAGNPYVHGSPSFDAVIDKFLSVNGGASSSG--QV-GAHHN----EADVCRTPTPFHLVLQNHHNE 91 (148)
Q Consensus 19 s~LCg~~vavivfsp~gk~~~~~~psv~~Vi~ry~~~~~~~~~~~--~~-~~~~~----~~~~~~~~L~~~~~~l~~~l~ 91 (148)
.-+| |+.+|.+|.|+..+--.|.-..|.+||+..+.+-...+ .+ ..+.. ....+...++.-+.++..+++
T Consensus 76 ~~~~---vGAvil~~~G~~~al~~~~k~~v~~Rvl~~s~~~~~e~~~l~~~~~tG~l~fkv~r~~k~~~~~V~~lM~~lE 152 (327)
T COG2380 76 AALC---VGAVILCPEGGRKALFLDDKPPVAERVLAFSQDAPEEGARLSRNEETGGLDFKVGREGKDAMAAVDKLMLQLE 152 (327)
T ss_pred HHhh---cceEEEccCCCeeeccccccchhhhhheeecccCccccceeeccccccceEEEecccccchHHHHHHHHHHHH
Confidence 4455 78899999886665433333457888876654322111 00 00000 111122255666677776666
Q ss_pred HHHHHh
Q 032052 92 ADVCRG 97 (148)
Q Consensus 92 ~~~~~~ 97 (148)
-...|+
T Consensus 153 ~~~~rq 158 (327)
T COG2380 153 IEESRQ 158 (327)
T ss_pred HHHHHH
Confidence 555543
No 45
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=37.63 E-value=16 Score=27.77 Aligned_cols=21 Identities=29% Similarity=0.461 Sum_probs=16.7
Q ss_pred HHhhCcceeEEEeCCCCCCcc
Q 032052 19 ANITGSQIAVLVFSPAGNPYV 39 (148)
Q Consensus 19 s~LCg~~vavivfsp~gk~~~ 39 (148)
||=.|-+.|.-+|||+|+.|.
T Consensus 3 sIGtGyDls~s~fSpdGrvfQ 23 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQ 23 (254)
T ss_pred cccccccccceeeCCCCceeh
Confidence 344677888999999998874
No 46
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=37.60 E-value=33 Score=20.50 Aligned_cols=29 Identities=24% Similarity=0.526 Sum_probs=18.2
Q ss_pred hCcceeEEEeCCCCCCcccCCcc-hHHHHHH
Q 032052 22 TGSQIAVLVFSPAGNPYVHGSPS-FDAVIDK 51 (148)
Q Consensus 22 Cg~~vavivfsp~gk~~~~~~ps-v~~Vi~r 51 (148)
|+..-.++|. |.+..|...+|. +..++++
T Consensus 47 C~~~P~v~i~-~~~~~y~~v~~~~~~~il~~ 76 (77)
T cd02980 47 CGLAPVVVVY-PDGVWYGRVTPEDVEEIVEE 76 (77)
T ss_pred ccCCCEEEEe-CCCeEEccCCHHHHHHHHHh
Confidence 4444444444 677777777774 7777765
No 47
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=37.14 E-value=37 Score=26.90 Aligned_cols=25 Identities=12% Similarity=0.426 Sum_probs=19.9
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
+++-|..+||++|+++ ||.|. ||.+
T Consensus 76 ~~~~G~n~~i~ayG~tgSGKTyTm~G~~ 103 (333)
T cd01371 76 SVLEGYNGTIFAYGQTGTGKTFTMEGVR 103 (333)
T ss_pred HHhCCCceeEEecCCCCCCCcEeecCCC
Confidence 5778999999999985 58886 5643
No 48
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=37.05 E-value=70 Score=20.75 Aligned_cols=20 Identities=0% Similarity=-0.145 Sum_probs=16.1
Q ss_pred CchHHHHHHHHHhHHHHHHh
Q 032052 78 PTPFHLVLQNHHNEADVCRG 97 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~ 97 (148)
+++.++.+|+.++...+.+.
T Consensus 6 ~I~~eIekLqe~lk~~e~ke 25 (92)
T PF07820_consen 6 KIREEIEKLQEQLKQAETKE 25 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 77888999998888776654
No 49
>COG4398 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.50 E-value=52 Score=26.20 Aligned_cols=39 Identities=23% Similarity=0.439 Sum_probs=32.3
Q ss_pred HhhCcceeEEEeCCCCCCc-ccCCcchH-HHHHHhhhcCCC
Q 032052 20 NITGSQIAVLVFSPAGNPY-VHGSPSFD-AVIDKFLSVNGG 58 (148)
Q Consensus 20 ~LCg~~vavivfsp~gk~~-~~~~psv~-~Vi~ry~~~~~~ 58 (148)
-+.|.-|+.++||-.|+.+ -||.|..+ +.|++|....+-
T Consensus 317 e~~~~avGaLmFsC~GRG~~m~G~p~~Ds~~~~~~~~gipl 357 (389)
T COG4398 317 ELPGRAVGALLFTCNGRGRRMFGVPDHDASTIEELLGGIPL 357 (389)
T ss_pred hCCCccceeEEEEecCccccccCCCCccHHHHHHHhCCCcc
Confidence 5678999999999999888 58999865 889999876543
No 50
>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=36.19 E-value=14 Score=28.01 Aligned_cols=29 Identities=24% Similarity=0.535 Sum_probs=22.2
Q ss_pred HHHHHhhCcceeEEEeCCCCCCcccCCcc
Q 032052 16 QEYANITGSQIAVLVFSPAGNPYVHGSPS 44 (148)
Q Consensus 16 ~ELs~LCg~~vavivfsp~gk~~~~~~ps 44 (148)
.+|--.+|.+|+|||..++|+++..|.+.
T Consensus 141 ~~l~~~~g~~v~ViI~Dt~gr~~r~G~~~ 169 (228)
T PF01996_consen 141 EELKERTGKDVGVIITDTNGRPWRLGQTG 169 (228)
T ss_dssp HHHHHHHS---EEEEEEEEEETTEECEEE
T ss_pred HHHHHHHCCceEEEEECCCCcEEecCCcc
Confidence 56777899999999999999999888754
No 51
>PF13540 RCC1_2: Regulator of chromosome condensation (RCC1) repeat; PDB: 3QI0_D 1JTD_B 3QHY_B.
Probab=35.13 E-value=8.5 Score=19.21 Aligned_cols=23 Identities=22% Similarity=0.268 Sum_probs=15.9
Q ss_pred HhhCcceeEEEeCCCCCCcccCCc
Q 032052 20 NITGSQIAVLVFSPAGNPYVHGSP 43 (148)
Q Consensus 20 ~LCg~~vavivfsp~gk~~~~~~p 43 (148)
|-||..-.+++.+. |++|.||+.
T Consensus 4 ia~G~~ht~al~~~-g~v~~wG~n 26 (30)
T PF13540_consen 4 IACGGYHTCALTSD-GEVYCWGDN 26 (30)
T ss_dssp EEEESSEEEEEE-T-TEEEEEE--
T ss_pred EEecCCEEEEEEcC-CCEEEEcCC
Confidence 45777788777775 999999864
No 52
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=34.92 E-value=1.4e+02 Score=20.58 Aligned_cols=27 Identities=26% Similarity=0.304 Sum_probs=22.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLK 134 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~ 134 (148)
+.|+.+.|..|...|+.-...+...+.
T Consensus 49 e~Ms~~~l~~llkqLEkeK~~Le~qlk 75 (129)
T PF15372_consen 49 EQMSVESLNQLLKQLEKEKRSLENQLK 75 (129)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 889999999999999988777765543
No 53
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=34.77 E-value=1.5e+02 Score=21.63 Aligned_cols=60 Identities=15% Similarity=0.116 Sum_probs=32.9
Q ss_pred CchHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 032052 78 PTPFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLKHIE 137 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~ 137 (148)
.|...+..+..++.++.... .+..+---+...|+++++++=.+.|..-...-+.|+..+-
T Consensus 83 ~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k 143 (201)
T KOG4603|consen 83 VLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIK 143 (201)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555544333 2221000111567888888777777777777777766543
No 54
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=33.88 E-value=49 Score=23.05 Aligned_cols=34 Identities=15% Similarity=0.245 Sum_probs=25.4
Q ss_pred hCcceeEEEeC--CCCCCcc---c-CCcchHHHHHHhhhc
Q 032052 22 TGSQIAVLVFS--PAGNPYV---H-GSPSFDAVIDKFLSV 55 (148)
Q Consensus 22 Cg~~vavivfs--p~gk~~~---~-~~psv~~Vi~ry~~~ 55 (148)
||.+..|.++. ++|+||+ | .+|.....|+|.-..
T Consensus 7 ~G~P~Vi~~~P~l~~g~PFPTlfwLtcP~L~~~isrLE~~ 46 (139)
T PF04417_consen 7 CGFPQVIRTAPRLVDGKPFPTLFWLTCPYLVKAISRLEAE 46 (139)
T ss_pred CCCCeEEEeccCCCCCccCCccHhhcCHHHHHHHHHHHhc
Confidence 57888777765 6788885 3 458899999998664
No 55
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=33.77 E-value=45 Score=26.24 Aligned_cols=24 Identities=13% Similarity=0.473 Sum_probs=19.0
Q ss_pred HhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 20 NITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 20 ~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
++-|..++|+.|+++ ||.|. +|.+
T Consensus 69 ~l~G~n~~i~ayG~tgSGKT~T~~G~~ 95 (321)
T cd01374 69 ALEGYNGTIFAYGQTSSGKTFTMSGDE 95 (321)
T ss_pred HHCCCceeEEeecCCCCCCceeccCCC
Confidence 467999999999985 58886 4653
No 56
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=33.69 E-value=39 Score=26.59 Aligned_cols=24 Identities=17% Similarity=0.645 Sum_probs=19.0
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCC
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGS 42 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~ 42 (148)
+++-|..+|++.|+++ ||.|. ||.
T Consensus 72 ~~~~G~~~~i~ayG~tgSGKT~tl~G~ 98 (329)
T cd01366 72 SALDGYNVCIFAYGQTGSGKTYTMEGP 98 (329)
T ss_pred HHhCCCceEEEEeCCCCCCCcEEecCC
Confidence 4567999999999995 68886 465
No 57
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=33.52 E-value=41 Score=26.85 Aligned_cols=26 Identities=23% Similarity=0.583 Sum_probs=20.5
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCCcc
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGSPS 44 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~ps 44 (148)
.++-|..++|++|+++ ||.|. ||.|.
T Consensus 83 ~~l~G~n~ti~aYGqtGSGKTyTm~G~~~ 111 (345)
T cd01368 83 DLLKGKNSLLFTYGVTNSGKTYTMQGSPG 111 (345)
T ss_pred HHhCCCceEEEEeCCCCCCCeEEecCCCC
Confidence 4677999999999995 58886 57654
No 58
>PF04873 EIN3: Ethylene insensitive 3; InterPro: IPR006957 Ethylene insensitive 3 (EIN3) proteins are a family of plant DNA-binding proteins that regulate transcription in response to the gaseous plant hormone ethylene, and are essential for ethylene-mediated responses. In the presence of ethylene, dark-grown dicotyledonous seedlings undergo dramatic morphological changes collectively known as the 'triple response'. In Arabidopsis, these changes consist of a radial swelling of the hypocotyl, an exaggeration in the curvature of the apical hook, and the inhibition of cell elongation in the hypocotyl and root.; GO: 0005634 nucleus; PDB: 1WIJ_A.
Probab=33.16 E-value=14 Score=29.90 Aligned_cols=37 Identities=24% Similarity=0.307 Sum_probs=0.0
Q ss_pred hHHHhHHHHHHhhCcceeE-EEeCCCCCCcccCCcchH
Q 032052 10 GLFKKAQEYANITGSQIAV-LVFSPAGNPYVHGSPSFD 46 (148)
Q Consensus 10 GL~KKa~ELs~LCg~~vav-ivfsp~gk~~~~~~psv~ 46 (148)
||+|=..=..-+|+|.-.+ =+.+..|||.+|.+|+.+
T Consensus 55 ~ilkym~~~m~~~n~~gfvy~~~~~~~k~~~~~s~slr 92 (354)
T PF04873_consen 55 GILKYMFPEMELCNAPGFVYTIISSSGKPVEGVSPSLR 92 (354)
T ss_dssp --------------------------------------
T ss_pred HHHHhhccccccccCceeeecCCCCCCCccCCcCCccc
Confidence 4444445557899999998 677778999999999976
No 59
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=33.09 E-value=24 Score=26.14 Aligned_cols=28 Identities=43% Similarity=0.730 Sum_probs=19.9
Q ss_pred hCcceeEEEeCCCCCCcccCCcchHHHHHHhhhc
Q 032052 22 TGSQIAVLVFSPAGNPYVHGSPSFDAVIDKFLSV 55 (148)
Q Consensus 22 Cg~~vavivfsp~gk~~~~~~psv~~Vi~ry~~~ 55 (148)
-||++||+|||.++. | |.+.+.+=|...
T Consensus 91 rgaqa~vLVFSTTDr-~-----SFea~~~w~~kv 118 (246)
T KOG4252|consen 91 RGAQASVLVFSTTDR-Y-----SFEATLEWYNKV 118 (246)
T ss_pred ccccceEEEEecccH-H-----HHHHHHHHHHHH
Confidence 499999999998654 2 346666666554
No 60
>COG3411 Ferredoxin [Energy production and conversion]
Probab=32.85 E-value=58 Score=19.66 Aligned_cols=31 Identities=26% Similarity=0.344 Sum_probs=24.0
Q ss_pred eEEEeCCCCCCcccCCc-chHHHHHHhhhcCC
Q 032052 27 AVLVFSPAGNPYVHGSP-SFDAVIDKFLSVNG 57 (148)
Q Consensus 27 avivfsp~gk~~~~~~p-sv~~Vi~ry~~~~~ 57 (148)
.+++..|.|-.|-..+| .++.|++..+....
T Consensus 18 Pvl~vYpegvWY~~V~p~~a~rIv~~hl~~Gr 49 (64)
T COG3411 18 PVLVVYPEGVWYTRVDPEDARRIVQSHLLGGR 49 (64)
T ss_pred CEEEEecCCeeEeccCHHHHHHHHHHHHhCCC
Confidence 46778888988888887 58899988877433
No 61
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=32.24 E-value=49 Score=26.07 Aligned_cols=24 Identities=21% Similarity=0.661 Sum_probs=18.7
Q ss_pred HhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 20 NITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 20 ~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
++-|..+++++|++. ||-|. ||++
T Consensus 75 ~~~G~~~~i~~yG~tgSGKT~tl~G~~ 101 (335)
T smart00129 75 VLEGYNATIFAYGQTGSGKTYTMSGTP 101 (335)
T ss_pred HhcCCceeEEEeCCCCCCCceEecCCC
Confidence 567999999999995 57775 5653
No 62
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=32.15 E-value=92 Score=19.75 Aligned_cols=17 Identities=18% Similarity=0.218 Sum_probs=13.8
Q ss_pred CCCCHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEE 124 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~ 124 (148)
-.|++++|..|......
T Consensus 46 ~~mtp~eL~~~L~~~~~ 62 (83)
T PF14193_consen 46 MKMTPEELAAFLRAMKS 62 (83)
T ss_pred cCCCHHHHHHHHHHHHh
Confidence 68999999999877644
No 63
>PF03584 Herpes_ICP4_N: Herpesvirus ICP4-like protein N-terminal region; InterPro: IPR005206 The immediate-early protein ICP4 (infected-cell polypeptide 4) is required for efficient transcription of early and late viral genes and is thus essential for productive infection. ICP4 is a large phosphoprotein that binds DNA in a sequence specific manner as a homodimer. ICP4 represses transcription from LAT, ICP4 and ORF-P that have high-affinity a ICP4 binding site that spans the transcription initiation site. ICP4 proteins have two highly conserved regions, this family contains the N-terminal region that contains sites for DNA binding and homodimerisation [].; GO: 0045893 positive regulation of transcription, DNA-dependent, 0042025 host cell nucleus
Probab=32.12 E-value=59 Score=23.49 Aligned_cols=33 Identities=15% Similarity=0.337 Sum_probs=26.5
Q ss_pred eEEEeCCCC--CCcccCCcchHHHHHHhhhcCCCC
Q 032052 27 AVLVFSPAG--NPYVHGSPSFDAVIDKFLSVNGGA 59 (148)
Q Consensus 27 avivfsp~g--k~~~~~~psv~~Vi~ry~~~~~~~ 59 (148)
+-|-|++.| ++-.|..|.|++.+.||...+.+-
T Consensus 15 grv~~Gg~Gd~R~gLwd~peV~~A~~rf~as~~p~ 49 (173)
T PF03584_consen 15 GRVRYGGSGDSRPGLWDDPEVREAAARFEASPGPV 49 (173)
T ss_pred CceeeCCCCCCCccccCCHHHHHHHHHHHhccCCc
Confidence 446788766 677799999999999998877663
No 64
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=32.06 E-value=46 Score=21.07 Aligned_cols=29 Identities=17% Similarity=0.321 Sum_probs=22.4
Q ss_pred hHHHhHHHHHHhh----CcceeEEEeCCCCCCc
Q 032052 10 GLFKKAQEYANIT----GSQIAVLVFSPAGNPY 38 (148)
Q Consensus 10 GL~KKa~ELs~LC----g~~vavivfsp~gk~~ 38 (148)
-+++.|.+++-.. +..|+.+|++|+|+..
T Consensus 6 ~~m~~a~~~a~~s~~~~~~~vgaviv~~~~~~i 38 (102)
T PF00383_consen 6 EFMRIAIELAKRSRPCGNFPVGAVIVDPDGKII 38 (102)
T ss_dssp HHHHHHHHHHHTHBTTTSSSEEEEEEETTTEEE
T ss_pred HHHHHHHHHHHhccccCCCCEEEEEEeccCccE
Confidence 3577888877777 8999999999876533
No 65
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=31.57 E-value=78 Score=24.93 Aligned_cols=19 Identities=16% Similarity=0.440 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032052 114 DLSAVKAELEEVRVKVLQR 132 (148)
Q Consensus 114 eL~~L~~~Le~~l~~v~~r 132 (148)
|.++|.+.+|.....+..+
T Consensus 125 EIkQLkQvieTmrssL~ek 143 (305)
T PF15290_consen 125 EIKQLKQVIETMRSSLAEK 143 (305)
T ss_pred HHHHHHHHHHHHHhhhchh
Confidence 5677777777777666544
No 66
>TIGR03726 strep_RK_lipo putative cross-wall-targeting lipoprotein signal. The YSIRK signal domain targets proteins to the cross-wall, or septum, of dividing Gram-positive bacterial. Lipoprotein signal motifs direct a characteristic N-terminal cleavage and lipid modification for membrane anchoring. This Streptococcal-only signal peptide variant appears to be a hybrid between the two, likely directing protein targeting of nascent surface lipoproteins to the cross-wall. Nearly all members of this family have the characteristic LPXTG cell wall anchor signal at the C-terminus.
Probab=31.37 E-value=22 Score=18.62 Aligned_cols=16 Identities=25% Similarity=0.781 Sum_probs=12.5
Q ss_pred HHhHHHHHHhhCccee
Q 032052 12 FKKAQEYANITGSQIA 27 (148)
Q Consensus 12 ~KKa~ELs~LCg~~va 27 (148)
|+|-.-.-+||||-.+
T Consensus 3 FRKsK~~~tLCGa~Lg 18 (34)
T TIGR03726 3 FRKSKKYRTLCGAALG 18 (34)
T ss_pred chhhHHHHHHHHHHHH
Confidence 5777778899998765
No 67
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=31.22 E-value=43 Score=26.35 Aligned_cols=25 Identities=20% Similarity=0.592 Sum_probs=19.3
Q ss_pred HhhCcceeEEEeCCC--CCCcc-cCCcc
Q 032052 20 NITGSQIAVLVFSPA--GNPYV-HGSPS 44 (148)
Q Consensus 20 ~LCg~~vavivfsp~--gk~~~-~~~ps 44 (148)
++-|..++|++|+++ ||.|. ||.+.
T Consensus 72 ~~~G~n~~i~ayG~tgSGKT~Tm~G~~~ 99 (325)
T cd01369 72 VLNGYNGTIFAYGQTGSGKTYTMEGPPG 99 (325)
T ss_pred HHcCccceEEEeCCCCCCceEEecCCCC
Confidence 577999999999985 58886 46543
No 68
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=31.09 E-value=47 Score=26.41 Aligned_cols=25 Identities=16% Similarity=0.394 Sum_probs=19.7
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
+++-|..+||+.|+++ ||.|. ||.+
T Consensus 82 ~~~~G~n~~i~ayGqtGSGKTyTm~G~~ 109 (338)
T cd01370 82 GVLNGYNATVFAYGATGAGKTHTMLGTD 109 (338)
T ss_pred HHHCCCCceEEeeCCCCCCCeEEEcCCC
Confidence 4567999999999995 58886 4654
No 69
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=30.61 E-value=2.3e+02 Score=22.52 Aligned_cols=31 Identities=19% Similarity=0.375 Sum_probs=24.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLKHIEE 138 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~~ 138 (148)
+.++.++|..+...|......+..+...+..
T Consensus 199 ~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e 229 (312)
T smart00787 199 EDCDPTELDRAKEKLKKLLQEIMIKVKKLEE 229 (312)
T ss_pred HhCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888999999998888888887776665543
No 70
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=30.41 E-value=68 Score=22.61 Aligned_cols=27 Identities=44% Similarity=0.517 Sum_probs=22.6
Q ss_pred chHHHhHHHHHHhhCcceeEEEeCCCC
Q 032052 9 QGLFKKAQEYANITGSQIAVLVFSPAG 35 (148)
Q Consensus 9 ~GL~KKa~ELs~LCg~~vavivfsp~g 35 (148)
+-|+++|.+++--=|...+|+.|+|..
T Consensus 22 q~Li~~~~~~a~~~~~~~~v~tF~~~P 48 (157)
T PF06574_consen 22 QKLIKKAVEIAKEKGLKSVVLTFDPHP 48 (157)
T ss_dssp HHHHHHHHHHHHHCT-EEEEEEESS-C
T ss_pred HHHHHHHhhhhhhcccceEEEEcccCH
Confidence 458999999999999999999999854
No 71
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=30.38 E-value=1e+02 Score=16.93 Aligned_cols=32 Identities=25% Similarity=0.249 Sum_probs=17.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 032052 110 RSAEDLSAVKAELEEVRVKVLQRLKHIEEDEFV 142 (148)
Q Consensus 110 ls~eeL~~L~~~Le~~l~~v~~r~~~l~~~~~~ 142 (148)
||.+++..|...+. .=..++.++......+.+
T Consensus 1 MS~~~l~~Fl~~~~-~d~~l~~~l~~~~~~~e~ 32 (49)
T PF07862_consen 1 MSIESLKAFLEKVK-SDPELREQLKACQNPEEV 32 (49)
T ss_pred CCHHHHHHHHHHHh-cCHHHHHHHHhcCCHHHH
Confidence 56677777776663 334455555554444433
No 72
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=30.35 E-value=1.5e+02 Score=21.03 Aligned_cols=31 Identities=19% Similarity=0.199 Sum_probs=22.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLKHIEE 138 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~~ 138 (148)
..||+++|.+|.+.+|.=+..+..-++.|..
T Consensus 11 tkLsleQL~~lk~q~dqEl~~lq~Sl~~L~~ 41 (153)
T KOG3048|consen 11 TKLSLEQLGALKKQFDQELNFLQDSLNALKG 41 (153)
T ss_pred hhCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6778888888888777777766666665544
No 73
>cd08888 SRPBCC_PITPNA-B_like Lipid-binding SRPBCC domain of mammalian PITPNA, -B, and related proteins (Class I PITPs). This subgroup includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of mammalian Class 1 phosphatidylinositol transfer proteins (PITPs), PITPNA/PITPalpha and PITPNB/PITPbeta, Drosophila vibrator, and related proteins. These are single domain proteins belonging to the PITP family of lipid transfer proteins, and to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns metabolism, and membrane trafficking. In addition, PITPNB transfers sphingomyelin in vitro, with a low affinity. PITPNA is found chiefly in the nucleus and cy
Probab=30.08 E-value=74 Score=24.68 Aligned_cols=23 Identities=9% Similarity=0.110 Sum_probs=20.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVL 130 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~ 130 (148)
-+|+++|+++++......++++|
T Consensus 235 ~gltmedIR~~E~~t~~~l~~~~ 257 (258)
T cd08888 235 HGLTMDDIRRMEDETKKELDEMR 257 (258)
T ss_pred cCCCHHHHHHHHHHHHHHHHHhh
Confidence 79999999999999998888775
No 74
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=29.93 E-value=21 Score=28.09 Aligned_cols=24 Identities=21% Similarity=0.584 Sum_probs=18.1
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCC
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGS 42 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~ 42 (148)
+++-|..+||++|+++ ||.|. ||.
T Consensus 69 ~~l~G~n~~i~ayG~tgSGKT~Tm~G~ 95 (335)
T PF00225_consen 69 SVLDGYNATIFAYGQTGSGKTYTMFGS 95 (335)
T ss_dssp HHHTT-EEEEEEEESTTSSHHHHHTBS
T ss_pred HhhcCCceEEEeecccccccccccccc
Confidence 4678999999999985 57774 565
No 75
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=29.82 E-value=52 Score=23.02 Aligned_cols=23 Identities=4% Similarity=0.144 Sum_probs=18.3
Q ss_pred HHHhhCcceeEEEeCCCCCCccc
Q 032052 18 YANITGSQIAVLVFSPAGNPYVH 40 (148)
Q Consensus 18 Ls~LCg~~vavivfsp~gk~~~~ 40 (148)
+.++|||+|-++|-+.+.+...|
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f 81 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRF 81 (148)
T ss_pred HHHhhccceeeeeecccCccccC
Confidence 57889999999999987664444
No 76
>KOG0182 consensus 20S proteasome, regulatory subunit alpha type PSMA6/SCL1 [Posttranslational modification, protein turnover, chaperones]
Probab=29.72 E-value=34 Score=25.85 Aligned_cols=18 Identities=33% Similarity=0.643 Sum_probs=14.8
Q ss_pred hCcceeEEEeCCCCCCcc
Q 032052 22 TGSQIAVLVFSPAGNPYV 39 (148)
Q Consensus 22 Cg~~vavivfsp~gk~~~ 39 (148)
.|-+--+.||||.|++|.
T Consensus 7 agfDrhitIFspeGrLyQ 24 (246)
T KOG0182|consen 7 AGFDRHITIFSPEGRLYQ 24 (246)
T ss_pred CCccceEEEECCCceEEe
Confidence 456778899999999984
No 77
>PF02639 DUF188: Uncharacterized BCR, YaiI/YqxD family COG1671; InterPro: IPR003791 This entry describes proteins of unknown function.
Probab=29.62 E-value=1.4e+02 Score=20.43 Aligned_cols=20 Identities=10% Similarity=0.097 Sum_probs=16.7
Q ss_pred CCCCHHHHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEEVRV 127 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~ 127 (148)
...+.+|-+.|...|+..+.
T Consensus 110 k~~~~~d~~~F~~~L~~~l~ 129 (130)
T PF02639_consen 110 KKFTKKDRQRFANALDRLLQ 129 (130)
T ss_pred CCCCHHHHHHHHHHHHHHHc
Confidence 67888999999999988764
No 78
>PRK09555 feoA ferrous iron transport protein A; Reviewed
Probab=29.61 E-value=56 Score=20.05 Aligned_cols=32 Identities=22% Similarity=0.339 Sum_probs=28.7
Q ss_pred chHHHhHHHHHHhhCcceeEEEeCCCCCCccc
Q 032052 9 QGLFKKAQEYANITGSQIAVLVFSPAGNPYVH 40 (148)
Q Consensus 9 ~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~ 40 (148)
.++.++-.++-++.|++|-++-.+|.|.|..+
T Consensus 20 ~~~~~rL~~mGl~pG~~V~v~~~aP~gdPi~i 51 (74)
T PRK09555 20 PAYRQKLLSLGMLPGSSFNVVRVAPLGDPIHI 51 (74)
T ss_pred hHHHHHHHHcCCCCCCEEEEEEECCCCCCEEE
Confidence 55889999999999999999999998888766
No 79
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=29.55 E-value=55 Score=18.53 Aligned_cols=25 Identities=16% Similarity=0.341 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 032052 114 DLSAVKAELEEVRVKVLQRLKHIEE 138 (148)
Q Consensus 114 eL~~L~~~Le~~l~~v~~r~~~l~~ 138 (148)
.+++|++.|+.++-+|-++-..++.
T Consensus 22 ~v~eLe~YiD~LL~rVmE~~P~ILe 46 (48)
T PF09457_consen 22 RVRELEDYIDNLLVRVMEQTPSILE 46 (48)
T ss_dssp HHHHHHHHHHHHHHHHHCC-GGGGB
T ss_pred HHHHHHHHHHHHHHHHHHhCcchhc
Confidence 4567888899998888777666554
No 80
>PRK13294 F420-0--gamma-glutamyl ligase; Provisional
Probab=29.27 E-value=67 Score=26.88 Aligned_cols=26 Identities=23% Similarity=0.399 Sum_probs=20.8
Q ss_pred HHHHHhhCcceeEEEeCCCCCCcccC
Q 032052 16 QEYANITGSQIAVLVFSPAGNPYVHG 41 (148)
Q Consensus 16 ~ELs~LCg~~vavivfsp~gk~~~~~ 41 (148)
.+|.-.+|++|+|||....|.|+--|
T Consensus 134 ~~l~~~~g~~v~vii~Dt~gr~~r~g 159 (448)
T PRK13294 134 AGLRERLGVDVAVVVTDTMGRAWRNG 159 (448)
T ss_pred HHHHHHHCCCEEEEEecCCCCccccC
Confidence 46778899999999999887765444
No 81
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=29.26 E-value=32 Score=17.64 Aligned_cols=18 Identities=22% Similarity=0.206 Sum_probs=12.7
Q ss_pred ceeEEEeCCCCCCcccCC
Q 032052 25 QIAVLVFSPAGNPYVHGS 42 (148)
Q Consensus 25 ~vavivfsp~gk~~~~~~ 42 (148)
.-.-..|||+|+-..|.+
T Consensus 10 ~~~~p~~SpDGk~i~f~s 27 (39)
T PF07676_consen 10 DDGSPAWSPDGKYIYFTS 27 (39)
T ss_dssp SEEEEEE-TTSSEEEEEE
T ss_pred cccCEEEecCCCEEEEEe
Confidence 345578999999887764
No 82
>PHA00024 IX minor coat protein
Probab=28.99 E-value=33 Score=17.87 Aligned_cols=10 Identities=40% Similarity=0.361 Sum_probs=8.1
Q ss_pred hHHHhHHHHH
Q 032052 10 GLFKKAQEYA 19 (148)
Q Consensus 10 GL~KKa~ELs 19 (148)
+.|||+.|-+
T Consensus 23 l~FKk~~E~~ 32 (33)
T PHA00024 23 LVFKKLSERI 32 (33)
T ss_pred HHHHHHHHhc
Confidence 5799999865
No 83
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=28.89 E-value=65 Score=25.33 Aligned_cols=25 Identities=20% Similarity=0.506 Sum_probs=19.4
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
+++-|..+|+++|+++ ||-|. ||.+
T Consensus 75 ~~~~G~n~~i~ayG~tgSGKTyTm~G~~ 102 (319)
T cd01376 75 HLLSGQNATVFAYGSTGAGKTHTMLGDP 102 (319)
T ss_pred HHhCCCceEEEEECCCCCCCcEEEeCCc
Confidence 4566999999999995 58886 4654
No 84
>smart00415 HSF heat shock factor.
Probab=28.29 E-value=68 Score=20.92 Aligned_cols=36 Identities=14% Similarity=0.439 Sum_probs=26.2
Q ss_pred HhhCccee-EEEeCCCCCCcccCCcc--hHHHHHHhhhc
Q 032052 20 NITGSQIA-VLVFSPAGNPYVHGSPS--FDAVIDKFLSV 55 (148)
Q Consensus 20 ~LCg~~va-vivfsp~gk~~~~~~ps--v~~Vi~ry~~~ 55 (148)
+|.+.+.. +|-.+|+|+.+....|. .+.|+-+|=+.
T Consensus 12 ~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~~vLp~~Fk~ 50 (105)
T smart00415 12 LVEDPSTDKIISWSPSGKSFVIWDPEEFAKNLLPRYFKH 50 (105)
T ss_pred HHhCCCCCCEEEECCCCCEEEEcCHHHHHHHHHHHhcCC
Confidence 45566665 88999999988776665 56788887443
No 85
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=28.24 E-value=65 Score=20.78 Aligned_cols=35 Identities=20% Similarity=0.159 Sum_probs=25.8
Q ss_pred hhCcceeEEEeCCCC-CCcccCCcc-hHHHHHHhhhc
Q 032052 21 ITGSQIAVLVFSPAG-NPYVHGSPS-FDAVIDKFLSV 55 (148)
Q Consensus 21 LCg~~vavivfsp~g-k~~~~~~ps-v~~Vi~ry~~~ 55 (148)
+|..+--|.|+.|.| -.|....|. +.+|++++...
T Consensus 44 ~C~~ePlV~V~~p~g~v~Y~~V~~edv~~Iv~~~~~~ 80 (92)
T cd03063 44 MYWLEPLVEVETPGGRVAYGPVTPADVASLLDAGALE 80 (92)
T ss_pred ecCCCCEEEEEeCCCcEEEEeCCHHHHHHHHHHHhhc
Confidence 577788888887877 445556674 88999988764
No 86
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=28.11 E-value=1.4e+02 Score=17.71 Aligned_cols=28 Identities=21% Similarity=0.141 Sum_probs=19.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLKH 135 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~~ 135 (148)
+.||++||.+-...|+.=+.+++..+..
T Consensus 19 s~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 19 SLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7889999988777666666665554433
No 87
>PRK13677 hypothetical protein; Provisional
Probab=28.01 E-value=1.2e+02 Score=20.78 Aligned_cols=25 Identities=12% Similarity=0.250 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 032052 112 AEDLSAVKAELEEVRVKVLQRLKHI 136 (148)
Q Consensus 112 ~eeL~~L~~~Le~~l~~v~~r~~~l 136 (148)
++||.-|+..+...+..|.+.++.|
T Consensus 101 L~dLrHLE~Vv~~KIaEIe~dLekL 125 (125)
T PRK13677 101 LDDLRHLESVVANKISEIEADLEKL 125 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6789999999999999998887754
No 88
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=27.47 E-value=79 Score=19.93 Aligned_cols=30 Identities=20% Similarity=0.282 Sum_probs=21.6
Q ss_pred ceeEEEeCCCC--CCcccCCc-chHHHHHHhhh
Q 032052 25 QIAVLVFSPAG--NPYVHGSP-SFDAVIDKFLS 54 (148)
Q Consensus 25 ~vavivfsp~g--k~~~~~~p-sv~~Vi~ry~~ 54 (148)
.+-|+|++..+ |++.+..+ ..+.++.+|..
T Consensus 8 rl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~T 40 (83)
T PF10623_consen 8 RLQVLVVSNHCERKLFDTKPDNDPDKIARRFCT 40 (83)
T ss_pred eEEEEEEeCCcceeEeecCCCCCHHHHHhhccC
Confidence 46689999988 55555433 48899999954
No 89
>PF03233 Cauli_AT: Aphid transmission protein; InterPro: IPR004917 This protein is found in various caulimoviruses. It codes for an 18 kDa protein (PII), which is dispensable for infection but which is required for aphid transmission of the virus []. This protein interacts with the PIII protein []. ; GO: 0019089 transmission of virus
Probab=27.41 E-value=2.4e+02 Score=20.32 Aligned_cols=29 Identities=10% Similarity=0.227 Sum_probs=22.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLKHI 136 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~~l 136 (148)
+-.+..++.++...+++.++.|++.+..+
T Consensus 133 ~Iv~~~~i~e~IKd~de~L~~I~d~iK~I 161 (163)
T PF03233_consen 133 NIVTEKLIEELIKDFDERLKEIRDKIKKI 161 (163)
T ss_pred hccccHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45667788888888888888888877654
No 90
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=27.30 E-value=57 Score=25.72 Aligned_cols=36 Identities=11% Similarity=0.297 Sum_probs=24.8
Q ss_pred HHhhCcceeEEEeCCC--CCCcc-cCCcc--------hHHHHHHhhh
Q 032052 19 ANITGSQIAVLVFSPA--GNPYV-HGSPS--------FDAVIDKFLS 54 (148)
Q Consensus 19 s~LCg~~vavivfsp~--gk~~~-~~~ps--------v~~Vi~ry~~ 54 (148)
+++-|..++|+.|+++ ||.|. +|.+. ++.+++....
T Consensus 79 ~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Glipr~~~~lf~~~~~ 125 (322)
T cd01367 79 HVFEGGVATCFAYGQTGSGKTYTMLGDENQEGLYALAARDIFRLLAQ 125 (322)
T ss_pred HHhCCCceEEEeccCCCCCCceEecCcCCcCccHHHHHHHHHHHHhc
Confidence 3567999999999985 58886 45532 4556555433
No 91
>PF06523 DUF1106: Protein of unknown function (DUF1106); InterPro: IPR009490 This family consists of several hypothetical bacterial proteins found in Escherichia coli and Citrobacter rodentium. The function of this family is unknown.
Probab=27.30 E-value=23 Score=21.96 Aligned_cols=45 Identities=11% Similarity=0.197 Sum_probs=28.0
Q ss_pred hHHHHHHhhCcceeEEE--------------eCCCCCCcccCCcchHHHHHHhhhcCCC
Q 032052 14 KAQEYANITGSQIAVLV--------------FSPAGNPYVHGSPSFDAVIDKFLSVNGG 58 (148)
Q Consensus 14 Ka~ELs~LCg~~vaviv--------------fsp~gk~~~~~~psv~~Vi~ry~~~~~~ 58 (148)
--+-+||+||---++|+ .+|+++-+.|-.-.-+-|.|+....-|+
T Consensus 22 ~e~sfsiicgrlrgiv~t~kcs~g~iylsi~v~pnn~~hi~ly~kk~yi~dklkeifpd 80 (91)
T PF06523_consen 22 GEHSFSIICGRLRGIVLTIKCSNGIIYLSIKVNPNNSNHIFLYHKKNYIFDKLKEIFPD 80 (91)
T ss_pred cCeeEEEEeeceeeEEEEEEecCcEEEEEEEeCCCCcceEEEEecchhHHHHHHHhCCC
Confidence 34568899987777665 3555565555544456677776655444
No 92
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=27.20 E-value=45 Score=23.96 Aligned_cols=24 Identities=17% Similarity=0.613 Sum_probs=18.4
Q ss_pred HhhCcceeEEEeCCC--CCCcc-cCCc
Q 032052 20 NITGSQIAVLVFSPA--GNPYV-HGSP 43 (148)
Q Consensus 20 ~LCg~~vavivfsp~--gk~~~-~~~p 43 (148)
++-|-++||++|+++ ||-|. +|.+
T Consensus 19 ~~~G~n~~i~~yG~tGsGKT~Tm~G~~ 45 (186)
T cd01363 19 ALDGYNVCIFAYGQTGSGKTYTMEGKR 45 (186)
T ss_pred HhCCcceeEEEECCCCCcceEecCCCC
Confidence 467999999999996 57775 4543
No 93
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=27.01 E-value=2.7e+02 Score=20.76 Aligned_cols=93 Identities=16% Similarity=0.072 Sum_probs=52.3
Q ss_pred cCCcchHHHHHHhhhcCCCCCCCC-----cccCCCccccccCCCchHHHHHHHHHhHHHHHHh---hhc---cccccccC
Q 032052 40 HGSPSFDAVIDKFLSVNGGASSSG-----QVGAHHNEADVCRTPTPFHLVLQNHHNEADVCRG---FLM---ALEDKIKR 108 (148)
Q Consensus 40 ~~~psv~~Vi~ry~~~~~~~~~~~-----~~~~~~~~~~~~~~~L~~~~~~l~~~l~~~~~~~---~l~---~~~~~~~~ 108 (148)
|.+|-+..=++|+.+..+...-+. .........+.. .++.-+.+....++....|. .|. +...|.
T Consensus 60 ~~t~~l~~E~~R~~~~~~~~~lD~sRY~l~~p~~~~~~d~~--~w~~al~na~a~lehq~~R~~NLeLl~~~g~naW~-- 135 (221)
T PF05700_consen 60 FETPLLQAELERVASGEPMQGLDMSRYELPPPPSGKSNDVE--AWKEALDNAYAQLEHQRLRLENLELLSKYGENAWL-- 135 (221)
T ss_pred ccchhHHHHHHHHHcCCCCCccCHHhcCCCCCCCCCcccHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH--
Confidence 555767888888877744332211 000000011222 56666777777777766554 232 233453
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 032052 109 CRSAEDLSAVKAELEEVRVKVLQRLKHIE 137 (148)
Q Consensus 109 ~ls~eeL~~L~~~Le~~l~~v~~r~~~l~ 137 (148)
...+.|..+...++.-+..++..++.+.
T Consensus 136 -~~n~~Le~~~~~le~~l~~~k~~ie~vN 163 (221)
T PF05700_consen 136 -IHNEQLEAMLKRLEKELAKLKKEIEEVN 163 (221)
T ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3347777777778877777777776554
No 94
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=26.48 E-value=58 Score=23.00 Aligned_cols=30 Identities=20% Similarity=0.384 Sum_probs=27.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 032052 108 RCRSAEDLSAVKAELEEVRVKVLQRLKHIE 137 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~ 137 (148)
+.-.++++..|.+.++++...|...++.+.
T Consensus 84 d~~kv~~~E~L~d~v~eLkeel~~el~~l~ 113 (146)
T PF05852_consen 84 DRKKVEDLEKLTDRVEELKEELEFELERLQ 113 (146)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 777899999999999999999999999886
No 95
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=26.32 E-value=8.6 Score=22.13 Aligned_cols=31 Identities=16% Similarity=0.132 Sum_probs=21.2
Q ss_pred eeEEEeCCCCCCcccCCcchHHHHHHhhhcCCC
Q 032052 26 IAVLVFSPAGNPYVHGSPSFDAVIDKFLSVNGG 58 (148)
Q Consensus 26 vavivfsp~gk~~~~~~psv~~Vi~ry~~~~~~ 58 (148)
|++|+|+| +|+...+. ++-.-+..|++....
T Consensus 14 i~llvFGp-~KLP~l~r-~lG~~i~~Fk~~~~~ 44 (51)
T PRK01470 14 IIFVLFGA-GKLPQVMS-DLAKGLKAFKDGMKD 44 (51)
T ss_pred HHHHhcCc-hHhHHHHH-HHHHHHHHHHHHhcc
Confidence 78899999 67665543 356677888775444
No 96
>PF08557 Lipid_DES: Sphingolipid Delta4-desaturase (DES); InterPro: IPR013866 Sphingolipids are important membrane signalling molecules involved in many different cellular functions in eukaryotes. Sphingolipid delta 4-desaturase catalyses the formation of (E)-sphing-4-enine []. Some proteins in this entry have bifunctional delta 4-desaturase/C-4-hydroxylase activity. Delta 4-desaturated sphingolipids may play a role in early signalling required for entry into meiotic and spermatid differentiation pathways during Drosophila spermatogenesis []. This small protein associates with FA_desaturase IPR005804 from INTERPRO and appears to be specific to sphingolipid delta 4-desaturase. ; GO: 0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 0006633 fatty acid biosynthetic process, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=25.97 E-value=42 Score=18.17 Aligned_cols=21 Identities=29% Similarity=0.555 Sum_probs=18.7
Q ss_pred ccccchHHHhHHHHHHhhCcc
Q 032052 5 SKRRQGLFKKAQEYANITGSQ 25 (148)
Q Consensus 5 ~KRr~GL~KKa~ELs~LCg~~ 25 (148)
..||.-+++|=-|+--|+|.+
T Consensus 16 ~~RRk~IL~k~PeIk~L~G~d 36 (39)
T PF08557_consen 16 ASRRKEILKKHPEIKKLMGPD 36 (39)
T ss_pred HHHHHHHHHhChHHHHHhCCC
Confidence 568999999999999999876
No 97
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=25.95 E-value=31 Score=27.82 Aligned_cols=20 Identities=30% Similarity=0.448 Sum_probs=16.4
Q ss_pred HHHHHhhCcceeEEEeCCCC
Q 032052 16 QEYANITGSQIAVLVFSPAG 35 (148)
Q Consensus 16 ~ELs~LCg~~vavivfsp~g 35 (148)
-.-++|||+.++++.|+..+
T Consensus 272 v~ralLlGaQA~~~A~G~~~ 291 (341)
T PF13252_consen 272 VARALLLGAQALVIAFGKSG 291 (341)
T ss_pred eeeeeeechhheeeeeeccC
Confidence 34578999999999999843
No 98
>PF12646 DUF3783: Domain of unknown function (DUF3783); InterPro: IPR016621 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=25.53 E-value=95 Score=17.98 Aligned_cols=19 Identities=11% Similarity=0.146 Sum_probs=14.9
Q ss_pred cCCcchHHHHHHhhhcCCC
Q 032052 40 HGSPSFDAVIDKFLSVNGG 58 (148)
Q Consensus 40 ~~~psv~~Vi~ry~~~~~~ 58 (148)
|..+.++.+++.+++..-+
T Consensus 9 ~~~~el~~~l~~~r~~~~~ 27 (58)
T PF12646_consen 9 FSGEELDKFLDALRKAGIP 27 (58)
T ss_pred CCHHHHHHHHHHHHHcCCC
Confidence 5556799999999988554
No 99
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=25.43 E-value=57 Score=20.40 Aligned_cols=28 Identities=32% Similarity=0.534 Sum_probs=19.6
Q ss_pred cceeEEEeCCCCCCcccCCcch---HHHHHHh
Q 032052 24 SQIAVLVFSPAGNPYVHGSPSF---DAVIDKF 52 (148)
Q Consensus 24 ~~vavivfsp~gk~~~~~~psv---~~Vi~ry 52 (148)
-.+.+.||+. ||....|..|+ ...++++
T Consensus 48 p~~t~~IF~s-Gki~itGaks~~~~~~a~~~i 78 (86)
T PF00352_consen 48 PKATVLIFSS-GKIVITGAKSEEEAKKAIEKI 78 (86)
T ss_dssp TTEEEEEETT-SEEEEEEESSHHHHHHHHHHH
T ss_pred CcEEEEEEcC-CEEEEEecCCHHHHHHHHHHH
Confidence 3578888887 99998887654 4444444
No 100
>TIGR01001 metA homoserine O-succinyltransferase. The apparent equivalog from Bacillus subtilis is broken into two tandem reading frames.
Probab=25.11 E-value=29 Score=27.51 Aligned_cols=45 Identities=13% Similarity=0.246 Sum_probs=32.2
Q ss_pred HHHhHHHHHHhh-CcceeEEEeCC-CC-CCcccCCcc--hHHHHHHhhhc
Q 032052 11 LFKKAQEYANIT-GSQIAVLVFSP-AG-NPYVHGSPS--FDAVIDKFLSV 55 (148)
Q Consensus 11 L~KKa~ELs~LC-g~~vavivfsp-~g-k~~~~~~ps--v~~Vi~ry~~~ 55 (148)
-+++..+|.||. +.++++.+++. ++ ..|.+|||. .+...+.|.+-
T Consensus 200 ~i~~~~~L~vla~s~e~G~~l~~s~d~r~vfi~GH~EYd~~TL~~EY~RD 249 (300)
T TIGR01001 200 DIDKVTDLEILAESDEAGVYLAANKDERNIFVTGHPEYDAYTLHQEYVRD 249 (300)
T ss_pred HHhcCCCCeEEecCCCcceEEEEcCCCCEEEEcCCCccChhHHHHHHHHH
Confidence 345667899995 55777766654 44 577889996 77888888754
No 101
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=24.31 E-value=67 Score=18.91 Aligned_cols=34 Identities=18% Similarity=0.266 Sum_probs=24.8
Q ss_pred eEEEeCCCCCCccc---CCcchHHHHHHhhhcCCCCC
Q 032052 27 AVLVFSPAGNPYVH---GSPSFDAVIDKFLSVNGGAS 60 (148)
Q Consensus 27 avivfsp~gk~~~~---~~psv~~Vi~ry~~~~~~~~ 60 (148)
.+.|-+++|+.+.| .+..+..++++|....+.+.
T Consensus 2 ~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~ 38 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPP 38 (72)
T ss_dssp EEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCc
Confidence 46788888887766 23359999999987765544
No 102
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=24.17 E-value=88 Score=20.54 Aligned_cols=23 Identities=30% Similarity=0.504 Sum_probs=16.5
Q ss_pred HhHHHHHHhhCcceeEEEeCCCCC
Q 032052 13 KKAQEYANITGSQIAVLVFSPAGN 36 (148)
Q Consensus 13 KKa~ELs~LCg~~vavivfsp~gk 36 (148)
.=|.+++.-+||. +||+|+.+|.
T Consensus 6 ~aa~~~A~~~~ak-~Ivv~T~sG~ 28 (117)
T PF02887_consen 6 RAAVELAEDLNAK-AIVVFTESGR 28 (117)
T ss_dssp HHHHHHHHHHTES-EEEEE-SSSH
T ss_pred HHHHHHHHhcCCC-EEEEECCCch
Confidence 3467788888865 7889999883
No 103
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=24.15 E-value=1.4e+02 Score=18.35 Aligned_cols=20 Identities=15% Similarity=0.214 Sum_probs=12.8
Q ss_pred CCHHHHHHHHHHHHHHHHHH
Q 032052 110 RSAEDLSAVKAELEEVRVKV 129 (148)
Q Consensus 110 ls~eeL~~L~~~Le~~l~~v 129 (148)
||++.+.+|+..+...++.|
T Consensus 1 M~~E~l~~LE~ki~~aveti 20 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETI 20 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHH
Confidence 56777777777777666665
No 104
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=24.11 E-value=1.9e+02 Score=18.00 Aligned_cols=60 Identities=12% Similarity=-0.009 Sum_probs=38.8
Q ss_pred CchHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 032052 78 PTPFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLKHIE 137 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~~l~ 137 (148)
.|..-+..++.++..++... .+.+.-.-.+..++...=..|...|+.+++.+..+-+++.
T Consensus 14 ~Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~~~~~R~~L~~~l~~lv~~mE~K~dQI~ 74 (79)
T PF06657_consen 14 ALSEVLKALQDEFGHMKMEHQELQDEYKQMDPSLGRRKRRDLEQELEELVKRMEAKADQIY 74 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666666666555443 2311000111678888899999999999999988877764
No 105
>PF13991 BssS: BssS protein family
Probab=23.91 E-value=1.4e+02 Score=18.51 Aligned_cols=23 Identities=17% Similarity=-0.016 Sum_probs=19.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q 032052 109 CRSAEDLSAVKAELEEVRVKVLQ 131 (148)
Q Consensus 109 ~ls~eeL~~L~~~Le~~l~~v~~ 131 (148)
.|+.+..++|...|++.++.+..
T Consensus 41 ~lT~e~Ar~Li~~L~~~I~kiE~ 63 (73)
T PF13991_consen 41 WLTTEMARQLISILEAGIDKIES 63 (73)
T ss_pred EecHHHHHHHHHHHHHHHHHHHh
Confidence 48999999999999998887753
No 106
>PF09355 Phage_Gp19: Phage protein Gp19/Gp15/Gp42; InterPro: IPR018963 This entry is represented by Mycobacteriophage D29, Gp19. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=23.59 E-value=1.9e+02 Score=19.48 Aligned_cols=29 Identities=21% Similarity=0.201 Sum_probs=27.2
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 032052 105 KIKRCRSAEDLSAVKAELEEVRVKVLQRLK 134 (148)
Q Consensus 105 ~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~ 134 (148)
|| ..|+.+|-...+..|+..-..||.+..
T Consensus 1 l~-R~Lt~~E~~~a~~LL~~As~~Ir~~~~ 29 (116)
T PF09355_consen 1 LW-RPLTPEEQARAEALLEDASDLIRDRIP 29 (116)
T ss_pred CC-CCCCHHHHHHHHHHHHHHHHHHHHhhh
Confidence 67 899999999999999999999999987
No 107
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=23.54 E-value=2.4e+02 Score=20.11 Aligned_cols=20 Identities=5% Similarity=0.220 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHhhhhhh
Q 032052 121 ELEEVRVKVLQRLKHIEEDE 140 (148)
Q Consensus 121 ~Le~~l~~v~~r~~~l~~~~ 140 (148)
.|+..+..++.++.+|....
T Consensus 78 ~L~~~~~~l~~ei~~L~~~~ 97 (172)
T cd04790 78 VLRRRLAELNREIQRLRQQQ 97 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666655533
No 108
>TIGR03138 QueF 7-cyano-7-deazaguanine reductase. The enzymatic step represents the first point at which the biosynthesis of queuosine in bacteria and eukaryotes is distinguished from the biosynthesis of archaeosine in archaea.
Probab=23.46 E-value=77 Score=24.78 Aligned_cols=21 Identities=14% Similarity=0.395 Sum_probs=19.0
Q ss_pred HHHHHHhhCcceeEEEeCCCC
Q 032052 15 AQEYANITGSQIAVLVFSPAG 35 (148)
Q Consensus 15 a~ELs~LCg~~vavivfsp~g 35 (148)
..+||--||++|.|-+|+++.
T Consensus 109 ~~DLs~~~g~~V~V~l~~~~~ 129 (275)
T TIGR03138 109 EKDLSAAAGAEVSVELFPLDE 129 (275)
T ss_pred HHHHHHHhCCceEEEEEChhh
Confidence 579999999999999999964
No 109
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=23.45 E-value=1.5e+02 Score=24.71 Aligned_cols=45 Identities=11% Similarity=0.059 Sum_probs=26.5
Q ss_pred hHHHHHHhhhcCCCCCCCCcccCCCccccccCCCchHHHHHHHHHhHHHHHHh
Q 032052 45 FDAVIDKFLSVNGGASSSGQVGAHHNEADVCRTPTPFHLVLQNHHNEADVCRG 97 (148)
Q Consensus 45 v~~Vi~ry~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~l~~~~~~~ 97 (148)
++.+++.|........... .....+ .+..++.+++.+++..+...
T Consensus 140 ~n~l~~~yi~~~~~~~~~~------~~~~~~--fl~~ql~~~~~~L~~ae~~l 184 (498)
T TIGR03007 140 VQTLLTIFVEETLGSKRQD------SDSAQR--FIDEQIKTYEKKLEAAENRL 184 (498)
T ss_pred HHHHHHHHHHhhcccchhh------hHHHHH--HHHHHHHHHHHHHHHHHHHH
Confidence 5677788987654322111 011233 77778888888777765544
No 110
>KOG0432 consensus Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=23.25 E-value=24 Score=32.10 Aligned_cols=110 Identities=18% Similarity=0.214 Sum_probs=0.0
Q ss_pred cchHHHhHHHHHHhhCcceeEEEeCC---CCCCcccCCc---chHHHHHHhhhcCCCCCCCCcccCCCccccccCCCchH
Q 032052 8 RQGLFKKAQEYANITGSQIAVLVFSP---AGNPYVHGSP---SFDAVIDKFLSVNGGASSSGQVGAHHNEADVCRTPTPF 81 (148)
Q Consensus 8 r~GL~KKa~ELs~LCg~~vavivfsp---~gk~~~~~~p---sv~~Vi~ry~~~~~~~~~~~~~~~~~~~~~~~~~~L~~ 81 (148)
+.|.||..+- -|...+-+|+..| +|+++ +||- .+++.|-||.++.+....-....+|.+-.+|- =...
T Consensus 61 k~g~fkp~~~---~~~~~~f~i~~PPPNVTG~LH-iGHALt~aiqD~i~R~~rm~G~~vlw~PG~DHAGIATQ~--VVEK 134 (995)
T KOG0432|consen 61 KQGFFKPEYG---PNPGGVFVIPLPPPNVTGSLH-IGHALTVAIQDALARYNRMHGYQVLWVPGTDHAGIATQV--VVEK 134 (995)
T ss_pred HcCCCCcccC---CCCCCcceeecCCCCcccccc-hhHHHHHHHHHHHHHHHHhcCCeeeecCCccccchhHHH--HHHH
Q ss_pred HHHHHHHHhHHHHHHh-hhcccccccc--CCCCHHHHHHHHHHHH
Q 032052 82 HLVLQNHHNEADVCRG-FLMALEDKIK--RCRSAEDLSAVKAELE 123 (148)
Q Consensus 82 ~~~~l~~~l~~~~~~~-~l~~~~~~~~--~~ls~eeL~~L~~~Le 123 (148)
++.+.+..-+..--|. .+.+--.|++ .+-=.++|+.|..+++
T Consensus 135 ~l~~~~~~~Rh~lgRe~F~~~vw~Wk~e~g~~I~~Qlk~lGas~D 179 (995)
T KOG0432|consen 135 QLAREGGKTRHDLGREEFLKEVWEWKEEYGGRIYNQLKRLGASLD 179 (995)
T ss_pred HHHHhcCcchhhcCHHHHHHHHHHHHHHhCccHHHHHHHhcCccc
No 111
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=23.07 E-value=2.5e+02 Score=19.08 Aligned_cols=55 Identities=7% Similarity=-0.163 Sum_probs=32.3
Q ss_pred cccCCCchHHHHHHHHHhHHHHHHh-hhcc-ccccccCCCCHHHHHHHHHHHHHHHHHH
Q 032052 73 DVCRTPTPFHLVLQNHHNEADVCRG-FLMA-LEDKIKRCRSAEDLSAVKAELEEVRVKV 129 (148)
Q Consensus 73 ~~~~~~L~~~~~~l~~~l~~~~~~~-~l~~-~~~~~~~~ls~eeL~~L~~~Le~~l~~v 129 (148)
+++ +|-.++.+|+-+|..++++. .-.+ ....-+.-|++.+=+.+..+.-..+...
T Consensus 4 t~E--eLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~ 60 (118)
T PF05812_consen 4 TME--ELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQ 60 (118)
T ss_dssp HHH--HHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHH
T ss_pred CHH--HHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHH
Confidence 445 78888999998888888765 2111 0001116789998888877666555443
No 112
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=22.83 E-value=1.4e+02 Score=19.14 Aligned_cols=23 Identities=13% Similarity=0.224 Sum_probs=19.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Q 032052 109 CRSAEDLSAVKAELEEVRVKVLQ 131 (148)
Q Consensus 109 ~ls~eeL~~L~~~Le~~l~~v~~ 131 (148)
.+++++|+.|...|....+.+..
T Consensus 70 ~c~~e~L~~Li~~Lk~A~~~~e~ 92 (95)
T cd04751 70 TCTLEQLQDLVNKLKDAAKNIER 92 (95)
T ss_pred EeCHHHHHHHHHHHHHHHHHHHH
Confidence 68999999999999988877653
No 113
>PLN03194 putative disease resistance protein; Provisional
Probab=22.72 E-value=56 Score=24.07 Aligned_cols=14 Identities=43% Similarity=0.743 Sum_probs=11.5
Q ss_pred hhCcceeEEEeCCC
Q 032052 21 ITGSQIAVLVFSPA 34 (148)
Q Consensus 21 LCg~~vavivfsp~ 34 (148)
+=.+.++|+||||+
T Consensus 78 IeeSri~IvVfS~~ 91 (187)
T PLN03194 78 IRNCKVGVAVFSPR 91 (187)
T ss_pred HHhCeEEEEEECCC
Confidence 34788999999994
No 114
>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=22.59 E-value=85 Score=28.47 Aligned_cols=31 Identities=23% Similarity=0.473 Sum_probs=22.4
Q ss_pred eEEEeC-CCCCCcccCCcc---hHHHHHHhhhcCCC
Q 032052 27 AVLVFS-PAGNPYVHGSPS---FDAVIDKFLSVNGG 58 (148)
Q Consensus 27 avivfs-p~gk~~~~~~ps---v~~Vi~ry~~~~~~ 58 (148)
++.+|. |+|.+| -||+. +-+|+.||+++.+-
T Consensus 38 vl~mfPYpSG~LH-vGH~r~Yti~Dv~aRykRm~Gy 72 (814)
T COG0495 38 VLVMFPYPSGALH-VGHVRNYTIGDVIARYKRMQGY 72 (814)
T ss_pred EEeCCCCCCCCcc-cCccccccHHHHHHHHHHhcCC
Confidence 445565 677744 67763 78999999998764
No 115
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=22.57 E-value=1e+02 Score=17.11 Aligned_cols=25 Identities=16% Similarity=0.200 Sum_probs=18.6
Q ss_pred EEEeCCCCCCcccCCc-chHHHHHHh
Q 032052 28 VLVFSPAGNPYVHGSP-SFDAVIDKF 52 (148)
Q Consensus 28 vivfsp~gk~~~~~~p-sv~~Vi~ry 52 (148)
+.||-|+|..+.+..+ ++.+++...
T Consensus 1 ~~~~~~~g~~~~~~~~~t~~~~~~~~ 26 (60)
T cd01668 1 IYVFTPKGEIIELPAGATVLDFAYAI 26 (60)
T ss_pred CEEECCCCCEEEcCCCCCHHHHHHHH
Confidence 4689999998888765 467777654
No 116
>PF04019 DUF359: Protein of unknown function (DUF359); InterPro: IPR007164 This is family of archaebacterial proteins, which are about 170 amino acids in length. They have no known function. The most conserved portion of the protein contains the sequence GEEDL that may be important for its function.
Probab=22.54 E-value=41 Score=22.89 Aligned_cols=17 Identities=24% Similarity=0.735 Sum_probs=11.5
Q ss_pred EEEeCCCCCCcccCCcc
Q 032052 28 VLVFSPAGNPYVHGSPS 44 (148)
Q Consensus 28 vivfsp~gk~~~~~~ps 44 (148)
+|++.|.|..-.||.|.
T Consensus 79 ail~aP~gs~V~YGQP~ 95 (121)
T PF04019_consen 79 AILYAPEGSVVLYGQPG 95 (121)
T ss_pred HHHhCCCCCEEEECCCC
Confidence 34566777777778775
No 117
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=22.53 E-value=84 Score=27.25 Aligned_cols=30 Identities=27% Similarity=0.573 Sum_probs=22.9
Q ss_pred EEEeCCC-----------CCCcccCCcc---hHHHHHHhhhcCC
Q 032052 28 VLVFSPA-----------GNPYVHGSPS---FDAVIDKFLSVNG 57 (148)
Q Consensus 28 vivfsp~-----------gk~~~~~~ps---v~~Vi~ry~~~~~ 57 (148)
+||||.+ ||||.||..+ --.|+..|+-.+.
T Consensus 546 iIVFsDnvfALk~YAikl~KpfIYG~Tsq~ERm~ILqnFq~n~~ 589 (776)
T KOG1123|consen 546 IIVFSDNVFALKEYAIKLGKPFIYGPTSQNERMKILQNFQTNPK 589 (776)
T ss_pred EEEEeccHHHHHHHHHHcCCceEECCCchhHHHHHHHhcccCCc
Confidence 7999986 7999998765 2378888876543
No 118
>PHA03162 hypothetical protein; Provisional
Probab=22.19 E-value=2.8e+02 Score=19.27 Aligned_cols=56 Identities=5% Similarity=-0.196 Sum_probs=37.3
Q ss_pred ccccCCCchHHHHHHHHHhHHHHHHhhhc-ccc-ccccCCCCHHHHHHHHHHHHHHHHHH
Q 032052 72 ADVCRTPTPFHLVLQNHHNEADVCRGFLM-ALE-DKIKRCRSAEDLSAVKAELEEVRVKV 129 (148)
Q Consensus 72 ~~~~~~~L~~~~~~l~~~l~~~~~~~~l~-~~~-~~~~~~ls~eeL~~L~~~Le~~l~~v 129 (148)
.++| +|-.++.+|+-+|..++++..-. +.. ..-+..|+..+=+.+..+.-..+...
T Consensus 13 ~tmE--eLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~ 70 (135)
T PHA03162 13 PTME--DLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQ 70 (135)
T ss_pred CCHH--HHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHH
Confidence 4566 89999999999998888765211 111 11115689999888887766555543
No 119
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=22.12 E-value=3.2e+02 Score=23.15 Aligned_cols=24 Identities=8% Similarity=0.123 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 032052 113 EDLSAVKAELEEVRVKVLQRLKHI 136 (148)
Q Consensus 113 eeL~~L~~~Le~~l~~v~~r~~~l 136 (148)
..|..++....+.+..-...+..|
T Consensus 417 ~kl~~~~e~~~~~~~s~d~~I~dL 440 (493)
T KOG0804|consen 417 GKLKELEEREKEALGSKDEKITDL 440 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444443
No 120
>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes. It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu
Probab=22.10 E-value=64 Score=19.64 Aligned_cols=28 Identities=14% Similarity=0.357 Sum_probs=16.8
Q ss_pred hCcceeEEEeCCCCCCcccCCcc-hHHHHHHh
Q 032052 22 TGSQIAVLVFSPAGNPYVHGSPS-FDAVIDKF 52 (148)
Q Consensus 22 Cg~~vavivfsp~gk~~~~~~ps-v~~Vi~ry 52 (148)
|+-..+++| .|..|...+|. +.+++++|
T Consensus 52 C~~gP~v~v---~g~~y~~vt~~~i~~i~~~~ 80 (80)
T cd03064 52 CDLAPVMMI---NDDVYGRLTPEKVDAILEAL 80 (80)
T ss_pred CCCCCEEEE---CCEEECCCCHHHHHHHHHhC
Confidence 544444455 36777766764 77777654
No 121
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=22.10 E-value=63 Score=28.53 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=38.3
Q ss_pred chHHHhHHHHHHhhCcceeEEEeCCCCCCcccCCcchHHHH-HHhhhcCC
Q 032052 9 QGLFKKAQEYANITGSQIAVLVFSPAGNPYVHGSPSFDAVI-DKFLSVNG 57 (148)
Q Consensus 9 ~GL~KKa~ELs~LCg~~vavivfsp~gk~~~~~~psv~~Vi-~ry~~~~~ 57 (148)
+++|++|.||.+=--+++.++=||. ..|+..+.|.|...| .=|++.+.
T Consensus 446 ~e~i~t~~elTvgDtsp~~L~EySE-e~P~~Lsn~GMas~l~nYYRK~Ne 494 (968)
T COG5179 446 QEIIKTAGELTVGDTSPFSLFEYSE-EEPFFLSNPGMASLLNNYYRKSNE 494 (968)
T ss_pred hhhhccccceeccCCCceeeeeecc-cCceeecCchHHHHHHHHHHhccc
Confidence 6899999999999999999999998 677777888876554 55565544
No 122
>PF09584 Phageshock_PspD: Phage shock protein PspD (Phageshock_PspD); InterPro: IPR014321 Members of this entry are phage shock protein PspD, they are found in a minority of bacteria that carry the defining genes of the phage shock regulon (pspA, pspB, pspC, and pspF). It is found in Escherichia coli, Yersinia pestis, and closely related species, where it is part of the phage shock operon. It is known to be expressed but its function is unknown.
Probab=21.92 E-value=25 Score=21.32 Aligned_cols=24 Identities=38% Similarity=0.654 Sum_probs=18.1
Q ss_pred ccch-HHHhHHHHHHhhCcceeEEEeCCCC
Q 032052 7 RRQG-LFKKAQEYANITGSQIAVLVFSPAG 35 (148)
Q Consensus 7 Rr~G-L~KKa~ELs~LCg~~vavivfsp~g 35 (148)
=|.| ++|+|.-+.++. .+.|.|.|
T Consensus 3 ~~~g~~lk~~~K~~l~~-----aL~ygPAG 27 (66)
T PF09584_consen 3 VKPGPALKKAGKFILIL-----ALTYGPAG 27 (66)
T ss_pred CCchHHHHHHHHHHHHH-----HHHhCcHH
Confidence 3556 789998888776 67788876
No 123
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=21.75 E-value=1.5e+02 Score=16.85 Aligned_cols=20 Identities=25% Similarity=0.155 Sum_probs=13.7
Q ss_pred CCCCHHHHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEEVRV 127 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~ 127 (148)
..+|.+||++....|+.-+.
T Consensus 6 k~ls~~eL~~rl~~LD~~ME 25 (49)
T PF11629_consen 6 KFLSYEELQQRLASLDPEME 25 (49)
T ss_dssp GGS-HHHHHHHHHHHHHHHH
T ss_pred hhCCHHHHHHHHHhCCHHHH
Confidence 67889999887777665443
No 124
>smart00782 PhnA_Zn_Ribbon PhnA Zinc-Ribbon. This protein family includes an uncharacterised member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterised phosphonoacetate hydrolase designated PhnA.
Probab=21.74 E-value=26 Score=19.72 Aligned_cols=22 Identities=18% Similarity=0.511 Sum_probs=16.1
Q ss_pred HHHhHHHHHHhhCcceeEEEeC
Q 032052 11 LFKKAQEYANITGSQIAVLVFS 32 (148)
Q Consensus 11 L~KKa~ELs~LCg~~vavivfs 32 (148)
|.+.+..-+-|||++..+.+|-
T Consensus 2 L~~Rs~~kCELC~a~~~L~vy~ 23 (47)
T smart00782 2 LLARCESKCELCGSDSPLVVYA 23 (47)
T ss_pred hhHHcCCcccCcCCCCCceEEe
Confidence 3444555688999999888876
No 125
>PF08796 DUF1797: Protein of unknown function (DUF1797); InterPro: IPR014904 The function of this protein is unknown. It forms a central anti-parallel beta sheet with flanking alpha helical regions. ; PDB: 2FFG_B.
Probab=21.66 E-value=54 Score=19.97 Aligned_cols=19 Identities=5% Similarity=0.338 Sum_probs=14.8
Q ss_pred hCcceeEEEeCCCCCCccc
Q 032052 22 TGSQIAVLVFSPAGNPYVH 40 (148)
Q Consensus 22 Cg~~vavivfsp~gk~~~~ 40 (148)
-|+++|.|-|.|....|..
T Consensus 24 ~G~~~c~V~y~~~t~~F~l 42 (67)
T PF08796_consen 24 EGVEVCTVTYDQETETFEL 42 (67)
T ss_dssp TTEEEEEEEEETTTTEEEE
T ss_pred CCEEEEEEEEECCCCeEEE
Confidence 4899999999997665543
No 126
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=21.64 E-value=2.4e+02 Score=18.54 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 032052 113 EDLSAVKAELEEVRVKVLQRLKH 135 (148)
Q Consensus 113 eeL~~L~~~Le~~l~~v~~r~~~ 135 (148)
++|..|...|+.-...-+..+++
T Consensus 72 EqL~~Lk~kl~~e~~~~~k~i~~ 94 (100)
T PF04568_consen 72 EQLKKLKEKLKEEIEHHRKEIDE 94 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555533333333333
No 127
>PF10654 DUF2481: Protein of unknown function (DUF2481) ; InterPro: IPR018916 This entry is represented by Bacteriophage A500, Gp59. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.63 E-value=1.2e+02 Score=20.62 Aligned_cols=42 Identities=5% Similarity=0.006 Sum_probs=28.6
Q ss_pred CchHHHHHHHHHhHHHHHHhhhc----c--ccccccCCCCHHHHHHHHH
Q 032052 78 PTPFHLVLQNHHNEADVCRGFLM----A--LEDKIKRCRSAEDLSAVKA 120 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~~l~----~--~~~~~~~~ls~eeL~~L~~ 120 (148)
.|+.++..|.+++-+++++.... . ..--| +.+++-|+..|..
T Consensus 31 ~LqkeLn~Lm~~nTEeK~kt~~~kt~~r~v~~K~w-e~iti~Efi~LR~ 78 (126)
T PF10654_consen 31 ELQKELNQLMNENTEEKMKTYWTKTFDRIVGNKNW-EEITIREFIELRH 78 (126)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHHHHHHhcccH-hHhhHHHHHHHHh
Confidence 67788888888888887776111 0 22234 8888888887753
No 128
>PF01099 Uteroglobin: Uteroglobin family; InterPro: IPR006038 Uteroglobin (or blastokinin) is a mammalian steroid-inducible secreted protein originally isolated from the uterus of rabbits during early pregnancy. The mucosal epithelia of several organs that communicate with the external environment express uteroglobin. Its tissue-specific expression is regulated by steroid hormones, and is augmented in the uterus by non-steroidal prolactin. Uteroglobin may be a multi-functional protein with anti-inflammatory/immunomodulatory properties, acting to inhibit phospholipase A2 activity, and binding to (and possibly sequestering) several hydrophobic ligands such as progesterone, retinols, polychlorinated biphenyls, phospholipids and prostaglandins. In addition, uteroglobin has anti-chemotactic, anti-allergic, anti-tumourigenic and embryo growth-stimulatory properties. Uteroglobin may have a homeostatic role against oxidative damage, inflammation, autoimmunity and cancer [, , , ]. Uteroglobin consists of a disulphide-linked dimer of two identical polypeptides, each polypeptide being composed of four helices. It is a member of the secretoglobin superfamily. This entry represents uteroglobin proteins from several mammalian species, as well as other members of the secretoglobin superfamily, such as lipophilin B [], prostatic steroid-binding protein [], mammaglobin [], and the related allergen Fel d 1 (Felis domesticus allergen 1) [].; GO: 0005488 binding, 0005576 extracellular region; PDB: 1UTR_B 1CCD_A 1UTG_A 2UTG_A 1ZKR_B 1PUO_B 2EJN_B.
Probab=21.63 E-value=1.2e+02 Score=18.03 Aligned_cols=19 Identities=21% Similarity=0.104 Sum_probs=14.6
Q ss_pred CCCCHHHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEEVR 126 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l 126 (148)
+.+|.+++..+...|+...
T Consensus 44 d~ls~e~~~~i~~~l~~I~ 62 (67)
T PF01099_consen 44 DKLSNETRENILKLLEKIY 62 (67)
T ss_dssp TTS-HHHHHHHHHHHHHHH
T ss_pred HhCCHHHHHHHHHHHHHHH
Confidence 7889999888888877654
No 129
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=21.60 E-value=3.3e+02 Score=19.94 Aligned_cols=53 Identities=13% Similarity=-0.029 Sum_probs=36.2
Q ss_pred CchHHHHHHHHHhHHHHHHh-hhccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 032052 78 PTPFHLVLQNHHNEADVCRG-FLMALEDKIKRCRSAEDLSAVKAELEEVRVKVLQRLK 134 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~-~l~~~~~~~~~~ls~eeL~~L~~~Le~~l~~v~~r~~ 134 (148)
.++..+.+|.++...-++|. .+.. +. +-.+++|..+.....+...+.-|.|..
T Consensus 120 emQe~i~~L~kev~~~~erl~~~k~-g~---~~vtpedk~~v~~~y~~~~~~wrk~kr 173 (201)
T KOG4603|consen 120 EMQEEIQELKKEVAGYRERLKNIKA-GT---NHVTPEDKEQVYREYQKYCKEWRKRKR 173 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-hc---ccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55556666666555555554 3432 22 778999999999999888888777764
No 130
>PHA03155 hypothetical protein; Provisional
Probab=21.56 E-value=2.7e+02 Score=18.83 Aligned_cols=51 Identities=20% Similarity=0.008 Sum_probs=35.5
Q ss_pred cccCCCchHHHHHHHHHhHHHHHHhhh-ccccccccCCCCHHHHHHHHHHHHHHHHH
Q 032052 73 DVCRTPTPFHLVLQNHHNEADVCRGFL-MALEDKIKRCRSAEDLSAVKAELEEVRVK 128 (148)
Q Consensus 73 ~~~~~~L~~~~~~l~~~l~~~~~~~~l-~~~~~~~~~~ls~eeL~~L~~~Le~~l~~ 128 (148)
++| +|-.++.+|+-+|..++++..= +..+. .-|+..+=+.+..+.-..+..
T Consensus 9 tvE--eLaaeL~kL~~ENK~LKkkl~~~~~p~d---~~LT~~qKea~I~s~v~~Lt~ 60 (115)
T PHA03155 9 DVE--ELEKELQKLKIENKALKKKLLQHGNPED---ELLTPAQKDAIINSLVNKLTK 60 (115)
T ss_pred CHH--HHHHHHHHHHHHHHHHHHHHHccCCCCc---cccCHHHHHHHHHHHHHHHHH
Confidence 566 8899999999999888876511 11111 568888888887766655544
No 131
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=21.17 E-value=12 Score=25.04 Aligned_cols=29 Identities=21% Similarity=0.226 Sum_probs=23.2
Q ss_pred hHHHhHHHHHHhhCcceeEEEeCCCCCCc
Q 032052 10 GLFKKAQEYANITGSQIAVLVFSPAGNPY 38 (148)
Q Consensus 10 GL~KKa~ELs~LCg~~vavivfsp~gk~~ 38 (148)
|=+-|+.|+.+-||.++-+++..|.|.+.
T Consensus 69 G~~q~v~~i~~DCD~Dall~~V~q~gg~a 97 (111)
T COG0139 69 GHTQKVVEIRLDCDGDALLLLVEQIGGPA 97 (111)
T ss_pred CceEEEEEEEcCCCCCEEEEEEEeCCCCc
Confidence 44556788999999999999999966544
No 132
>PRK02195 V-type ATP synthase subunit D; Provisional
Probab=21.05 E-value=2.2e+02 Score=20.98 Aligned_cols=48 Identities=15% Similarity=0.058 Sum_probs=30.2
Q ss_pred CCccc-CCc-chHHHHHHhhhcCCCCCCCCcccCCCccccccCCCchHHHHHHHHHhHHHHHHh
Q 032052 36 NPYVH-GSP-SFDAVIDKFLSVNGGASSSGQVGAHHNEADVCRTPTPFHLVLQNHHNEADVCRG 97 (148)
Q Consensus 36 k~~~~-~~p-sv~~Vi~ry~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~l~~~~~~~ 97 (148)
.+|.| ++| .++..++.|...-+. ..+.+.+...+..|..+++.-++|.
T Consensus 107 ~~Y~~~~t~~~lD~a~~~~~~ll~~--------------~i~lAe~E~~l~~L~~ei~kT~rRV 156 (201)
T PRK02195 107 IEYSLLNTPIWVDTGIELLKELVQL--------------KIEAEVLQERLLLLEEELRKTTQRV 156 (201)
T ss_pred CCcCCccCCHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45665 445 488888888654222 3344466677777777777766665
No 133
>PF09638 Ph1570: Ph1570 protein; InterPro: IPR018596 This entry includes a hypothetical protein from Pyrococcus horikoshii, which has no known function. It contains six alpha helices and eight beta strands and is thought to be monomeric. ; PDB: 2HQ4_B.
Probab=20.84 E-value=63 Score=22.46 Aligned_cols=25 Identities=24% Similarity=0.514 Sum_probs=20.1
Q ss_pred EeCCCCCCcccCCcchHHHHHHhhh
Q 032052 30 VFSPAGNPYVHGSPSFDAVIDKFLS 54 (148)
Q Consensus 30 vfsp~gk~~~~~~psv~~Vi~ry~~ 54 (148)
+..|.|.+|.|.-||+.+.|=+|.-
T Consensus 126 ild~~g~LfvFnKPs~~e~ilKYig 150 (152)
T PF09638_consen 126 ILDERGRLFVFNKPSARELILKYIG 150 (152)
T ss_dssp EE-TTSEEEEESSTTHHHHHHTTTT
T ss_pred EECCCceEEEEcCccHHHHHHHHHh
Confidence 4566788999999999999988853
No 134
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=20.83 E-value=2.5e+02 Score=18.27 Aligned_cols=20 Identities=5% Similarity=-0.079 Sum_probs=15.4
Q ss_pred CchHHHHHHHHHhHHHHHHh
Q 032052 78 PTPFHLVLQNHHNEADVCRG 97 (148)
Q Consensus 78 ~L~~~~~~l~~~l~~~~~~~ 97 (148)
+++.|+.+|+.++.....+.
T Consensus 7 ~I~~eI~kLqe~lk~~e~ke 26 (98)
T PRK13848 7 KIREEIAKLQEQLKQAETRE 26 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 77888888888887766544
No 135
>PRK13971 hydroxyproline-2-epimerase; Provisional
Probab=20.66 E-value=82 Score=25.35 Aligned_cols=24 Identities=17% Similarity=0.296 Sum_probs=20.5
Q ss_pred CcceeEEEeCCCCCCcccCCcchH
Q 032052 23 GSQIAVLVFSPAGNPYVHGSPSFD 46 (148)
Q Consensus 23 g~~vavivfsp~gk~~~~~~psv~ 46 (148)
++++.+++|.|.|.+.-.|||.+-
T Consensus 73 ~Ad~gvrfFtp~~e~~mcGH~TIg 96 (333)
T PRK13971 73 DCDFAILFIETSGCLPMCGHGTIG 96 (333)
T ss_pred CCCEEEEEECCCcccCcCccHHHH
Confidence 578999999999988878999744
No 136
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=20.31 E-value=2.1e+02 Score=17.26 Aligned_cols=22 Identities=23% Similarity=0.339 Sum_probs=17.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHH
Q 032052 108 RCRSAEDLSAVKAELEEVRVKV 129 (148)
Q Consensus 108 ~~ls~eeL~~L~~~Le~~l~~v 129 (148)
.+-+.++|.+++..+++..+.+
T Consensus 43 ~~~g~~gl~~~~~e~~r~~~~~ 64 (66)
T PF07438_consen 43 RDNGYEGLEEYEIEIERIKKDF 64 (66)
T ss_pred hccCcchHHHHHHHHHHHHHHh
Confidence 5677888999999988877665
Done!