Query 030981
Match_columns 168
No_of_seqs 138 out of 1277
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 07:28:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030981.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030981hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 1.3E-39 2.8E-44 247.0 5.8 156 1-164 1-183 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 1.9E-36 4.1E-41 197.0 3.5 75 2-76 1-75 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 1.7E-33 3.7E-38 185.7 3.8 79 2-80 1-80 (83)
4 smart00432 MADS MADS domain. 100.0 1.8E-32 3.9E-37 168.6 3.5 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 8.4E-32 1.8E-36 165.8 3.3 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 5E-30 1.1E-34 152.9 -1.9 51 9-59 1-51 (51)
7 KOG0015 Regulator of arginine 99.8 3E-22 6.4E-27 156.2 2.3 75 2-76 63-146 (338)
8 PF01486 K-box: K-box region; 99.6 1.1E-15 2.4E-20 104.3 9.0 77 84-168 11-87 (100)
9 COG5068 ARG80 Regulator of arg 99.5 1.8E-15 4E-20 123.2 2.6 67 1-67 81-147 (412)
10 PF10584 Proteasome_A_N: Prote 90.5 0.068 1.5E-06 26.3 -0.2 14 43-56 3-16 (23)
11 PRK04098 sec-independent trans 89.4 0.49 1.1E-05 34.7 3.4 86 42-137 14-99 (158)
12 PF06698 DUF1192: Protein of u 83.7 2.2 4.7E-05 26.1 3.5 33 110-142 12-44 (59)
13 PF05812 Herpes_BLRF2: Herpesv 82.1 14 0.00031 25.7 7.5 58 85-142 3-64 (118)
14 PHA03155 hypothetical protein; 80.4 17 0.00036 25.2 7.4 58 85-142 8-65 (115)
15 PF07106 TBPIP: Tat binding pr 79.9 16 0.00035 26.7 7.8 54 88-142 112-165 (169)
16 PHA03162 hypothetical protein; 74.5 28 0.00061 24.7 8.8 59 84-142 12-74 (135)
17 PF09151 DUF1936: Domain of un 70.8 3.3 7.2E-05 21.8 1.5 27 34-60 2-30 (36)
18 PLN03230 acetyl-coenzyme A car 67.9 26 0.00056 30.0 6.9 78 52-141 37-124 (431)
19 TIGR01478 STEVOR variant surfa 66.7 21 0.00046 28.8 5.9 44 7-71 25-69 (295)
20 PLN03229 acetyl-coenzyme A car 64.8 30 0.00064 31.7 7.0 87 43-142 50-146 (762)
21 COG0139 HisI Phosphoribosyl-AM 63.3 4.4 9.5E-05 27.9 1.3 37 17-53 50-95 (111)
22 COG4831 Roadblock/LC7 domain [ 62.7 8 0.00017 26.0 2.4 30 30-60 3-32 (109)
23 PF07956 DUF1690: Protein of U 61.7 58 0.0013 23.4 8.6 91 47-142 1-101 (142)
24 PRK13824 replication initiatio 60.4 20 0.00043 30.4 5.0 67 34-110 103-181 (404)
25 PF10504 DUF2452: Protein of u 60.3 38 0.00082 24.9 5.8 41 120-165 28-68 (159)
26 PRK10803 tol-pal system protei 59.3 5.8 0.00013 31.5 1.6 73 35-108 12-84 (263)
27 PF08317 Spc7: Spc7 kinetochor 58.4 49 0.0011 27.0 6.9 29 114-142 201-229 (325)
28 PF03428 RP-C: Replication pro 55.7 40 0.00087 25.2 5.5 62 41-110 96-169 (177)
29 TIGR02231 conserved hypothetic 55.4 1.2E+02 0.0025 26.5 9.1 46 118-165 123-168 (525)
30 PF09941 DUF2173: Uncharacteri 55.2 13 0.00029 25.5 2.6 27 32-59 3-29 (108)
31 KOG4311 Histidinol dehydrogena 55.1 42 0.00091 27.0 5.6 62 15-76 180-262 (359)
32 PF10211 Ax_dynein_light: Axon 55.0 53 0.0012 24.7 6.1 24 51-74 82-105 (189)
33 KOG0183 20S proteasome, regula 54.1 7 0.00015 30.2 1.2 19 41-59 4-24 (249)
34 KOG0184 20S proteasome, regula 53.7 7.3 0.00016 30.3 1.2 25 36-60 3-29 (254)
35 COG4917 EutP Ethanolamine util 53.0 9 0.00019 27.4 1.5 24 35-58 59-82 (148)
36 PF10491 Nrf1_DNA-bind: NLS-bi 52.7 9.7 0.00021 29.2 1.7 47 26-72 35-88 (214)
37 PTZ00370 STEVOR; Provisional 51.7 56 0.0012 26.5 5.9 42 8-71 26-68 (296)
38 cd00187 TOP4c DNA Topoisomeras 51.7 1.4E+02 0.0031 25.7 8.8 60 7-72 257-327 (445)
39 smart00787 Spc7 Spc7 kinetocho 51.0 87 0.0019 25.6 7.1 30 113-142 195-224 (312)
40 COG3883 Uncharacterized protei 50.1 1.3E+02 0.0029 24.1 8.1 33 122-163 80-112 (265)
41 PF14009 DUF4228: Domain of un 49.7 15 0.00032 26.6 2.3 34 39-72 12-46 (181)
42 KOG3718 Carnitine O-acyltransf 47.3 31 0.00067 30.1 4.0 29 48-76 14-42 (609)
43 PF11232 Med25: Mediator compl 46.8 13 0.00029 27.1 1.6 23 37-59 109-132 (152)
44 PF07926 TPR_MLP1_2: TPR/MLP1/ 46.8 99 0.0021 21.6 6.9 36 124-161 96-131 (132)
45 PF01502 PRA-CH: Phosphoribosy 46.7 6.3 0.00014 25.3 -0.1 37 17-53 18-63 (75)
46 COG4888 Uncharacterized Zn rib 43.7 20 0.00044 24.3 2.0 58 1-61 1-62 (104)
47 KOG4637 Adaptor for phosphoino 43.5 19 0.00041 30.2 2.2 40 33-74 367-413 (464)
48 PF10337 DUF2422: Protein of u 43.1 1.2E+02 0.0026 25.9 7.2 51 87-137 257-308 (459)
49 PF05991 NYN_YacP: YacP-like N 42.7 1.3E+02 0.0029 21.9 7.2 108 21-129 24-163 (166)
50 PLN02372 violaxanthin de-epoxi 42.5 2.2E+02 0.0048 24.4 10.0 22 43-64 316-337 (455)
51 PF03233 Cauli_AT: Aphid trans 41.7 1.4E+02 0.0031 22.0 7.4 24 119-142 135-158 (163)
52 TIGR02976 phageshock_pspB phag 41.1 74 0.0016 20.3 4.2 42 65-106 22-63 (75)
53 PF14263 DUF4354: Domain of un 40.6 11 0.00023 26.6 0.3 41 11-56 41-81 (124)
54 PF00992 Troponin: Troponin; 39.8 1.2E+02 0.0027 21.4 5.7 49 114-164 38-86 (132)
55 PF09177 Syntaxin-6_N: Syntaxi 39.1 1.1E+02 0.0024 20.1 6.2 78 61-139 16-94 (97)
56 KOG3650 Predicted coiled-coil 39.0 1.2E+02 0.0026 20.6 5.1 16 33-48 7-22 (120)
57 PF07438 DUF1514: Protein of u 38.9 59 0.0013 20.1 3.3 42 97-138 23-64 (66)
58 PF06667 PspB: Phage shock pro 38.5 89 0.0019 20.0 4.3 43 65-107 22-64 (75)
59 cd02980 TRX_Fd_family Thioredo 37.8 30 0.00064 21.3 2.1 29 39-68 47-76 (77)
60 KOG4603 TBP-1 interacting prot 37.1 1.5E+02 0.0033 22.2 5.9 27 116-142 146-172 (201)
61 PF09388 SpoOE-like: Spo0E lik 36.5 80 0.0017 17.7 4.4 39 98-138 3-41 (45)
62 KOG4252 GTP-binding protein [S 36.2 19 0.00042 27.4 1.1 28 39-72 91-118 (246)
63 PRK11546 zraP zinc resistance 35.5 1.1E+02 0.0024 22.1 4.9 45 61-105 51-109 (143)
64 KOG3048 Molecular chaperone Pr 35.3 93 0.002 22.6 4.4 30 113-142 7-36 (153)
65 cd01365 KISc_KIF1A_KIF1B Kines 35.1 32 0.0007 28.3 2.4 25 36-60 83-110 (356)
66 cd00106 KISc Kinesin motor dom 34.3 34 0.00073 27.6 2.4 25 36-60 73-100 (328)
67 PF04521 Viral_P18: ssRNA posi 33.1 85 0.0019 21.9 3.8 23 18-40 4-26 (120)
68 PF09403 FadA: Adhesion protei 32.9 1.2E+02 0.0025 21.4 4.6 20 122-141 89-108 (126)
69 PF14282 FlxA: FlxA-like prote 32.7 1.6E+02 0.0034 19.9 8.9 48 93-142 20-67 (106)
70 TIGR03545 conserved hypothetic 32.5 1.6E+02 0.0034 26.2 6.3 51 90-142 180-232 (555)
71 PF13252 DUF4043: Protein of u 32.4 24 0.00052 29.2 1.2 28 31-58 270-299 (341)
72 cd01109 HTH_YyaN Helix-Turn-He 32.2 45 0.00097 22.6 2.4 15 32-46 3-17 (113)
73 PF07676 PD40: WD40-like Beta 32.1 34 0.00074 18.0 1.5 19 42-60 10-28 (39)
74 PF12165 DUF3594: Domain of un 32.1 24 0.00053 25.0 1.0 33 20-52 9-47 (137)
75 TIGR00606 rad50 rad50. This fa 31.9 2.6E+02 0.0056 27.6 8.2 47 118-166 821-867 (1311)
76 TIGR01916 F420_cofE F420-0:gam 31.7 33 0.00073 27.0 1.8 28 33-60 133-160 (243)
77 PF01166 TSC22: TSC-22/dip/bun 31.0 1.2E+02 0.0025 18.5 3.7 28 84-111 13-40 (59)
78 KOG0933 Structural maintenance 30.5 5.1E+02 0.011 25.1 10.3 26 46-72 653-679 (1174)
79 PF04873 EIN3: Ethylene insens 30.0 17 0.00037 30.3 0.0 38 26-63 54-92 (354)
80 PF06020 Roughex: Drosophila r 29.8 25 0.00055 28.4 0.9 16 36-51 183-198 (334)
81 PRK05561 DNA topoisomerase IV 29.8 4.1E+02 0.0089 24.6 8.7 59 8-72 291-362 (742)
82 TIGR02338 gimC_beta prefoldin, 29.7 1.8E+02 0.0039 19.6 8.1 14 59-72 2-15 (110)
83 PF00225 Kinesin: Kinesin moto 29.5 30 0.00065 28.1 1.3 24 36-59 69-95 (335)
84 cd01371 KISc_KIF3 Kinesin moto 28.4 49 0.0011 27.0 2.4 25 36-60 76-103 (333)
85 cd01363 Motor_domain Myosin an 28.4 39 0.00085 25.0 1.7 24 37-60 19-45 (186)
86 PF11629 Mst1_SARAH: C termina 28.0 86 0.0019 18.3 2.7 27 115-141 4-34 (49)
87 PF04508 Pox_A_type_inc: Viral 27.8 85 0.0018 15.3 2.2 16 93-108 2-17 (23)
88 PRK14625 hypothetical protein; 27.6 2.1E+02 0.0045 19.6 6.7 67 88-162 5-94 (109)
89 PF04977 DivIC: Septum formati 27.3 1.2E+02 0.0026 18.6 3.7 25 87-111 26-50 (80)
90 PHA02592 52 DNA topisomerase I 27.1 4.1E+02 0.0089 22.9 11.0 42 26-72 285-326 (439)
91 cd03063 TRX_Fd_FDH_beta TRX-li 26.3 70 0.0015 21.2 2.4 36 38-73 44-81 (92)
92 COG5000 NtrY Signal transducti 26.2 41 0.00089 30.3 1.6 22 36-57 374-395 (712)
93 cd01668 TGS_RelA_SpoT TGS_RelA 25.9 65 0.0014 18.5 2.1 24 46-69 2-26 (60)
94 cd01369 KISc_KHC_KIF5 Kinesin 25.8 51 0.0011 26.7 2.0 24 37-60 72-98 (325)
95 PLN03194 putative disease resi 25.8 41 0.00089 25.4 1.4 30 39-68 79-108 (187)
96 cd01368 KISc_KIF23_like Kinesi 25.7 57 0.0012 26.8 2.4 25 36-60 83-110 (345)
97 PF06937 EURL: EURL protein; 25.6 1.3E+02 0.0029 24.1 4.2 34 109-142 209-242 (285)
98 KOG0182 20S proteasome, regula 25.5 41 0.00089 26.1 1.3 18 39-56 7-24 (246)
99 PF04417 DUF501: Protein of un 25.3 2.1E+02 0.0045 20.5 4.9 34 39-72 7-46 (139)
100 PRK09458 pspB phage shock prot 25.3 1.8E+02 0.0039 18.6 4.0 23 85-107 42-64 (75)
101 PF10112 Halogen_Hydrol: 5-bro 25.3 60 0.0013 24.3 2.2 53 24-76 95-152 (199)
102 PRK10265 chaperone-modulator p 25.1 2.1E+02 0.0046 19.0 4.7 79 32-111 10-97 (101)
103 cd03064 TRX_Fd_NuoE TRX-like [ 25.0 57 0.0012 20.4 1.8 28 39-69 52-80 (80)
104 smart00129 KISc Kinesin motor, 24.9 65 0.0014 26.1 2.5 23 37-59 75-100 (335)
105 cd01366 KISc_C_terminal Kinesi 24.9 59 0.0013 26.3 2.3 24 36-59 72-98 (329)
106 COG3938 Proline racemase [Amin 24.7 63 0.0014 26.5 2.3 23 39-61 73-95 (341)
107 TIGR02894 DNA_bind_RsfA transc 24.5 1.7E+02 0.0037 21.6 4.3 23 87-109 106-128 (161)
108 PRK10884 SH3 domain-containing 24.5 3.3E+02 0.0071 20.9 8.0 19 87-105 95-113 (206)
109 PRK10132 hypothetical protein; 24.3 2.4E+02 0.0052 19.3 5.2 51 84-142 11-61 (108)
110 PRK14627 hypothetical protein; 24.0 2.3E+02 0.005 19.0 6.6 37 117-161 56-92 (100)
111 PF04697 Pinin_SDK_N: pinin/SD 23.9 1.6E+02 0.0034 21.0 3.9 36 87-122 5-40 (134)
112 COG4575 ElaB Uncharacterized c 23.9 2.4E+02 0.0053 19.2 6.4 48 87-142 10-57 (104)
113 COG5179 TAF1 Transcription ini 23.5 77 0.0017 28.7 2.8 47 26-73 446-492 (968)
114 PF07106 TBPIP: Tat binding pr 23.5 2.9E+02 0.0064 20.0 8.3 53 86-142 80-132 (169)
115 PTZ00366 Surface antigen (SAG 23.4 51 0.0011 27.9 1.6 35 17-53 3-37 (392)
116 COG0749 PolA DNA polymerase I 23.0 2.3E+02 0.0051 25.5 5.6 41 87-127 213-253 (593)
117 cd01370 KISc_KIP3_like Kinesin 23.0 67 0.0014 26.3 2.2 25 36-60 82-109 (338)
118 smart00782 PhnA_Zn_Ribbon PhnA 22.5 47 0.001 19.2 0.9 22 28-49 2-23 (47)
119 PRK14622 hypothetical protein; 22.4 2.6E+02 0.0055 18.9 6.0 66 89-162 5-93 (103)
120 KOG2129 Uncharacterized conser 22.4 3.7E+02 0.0081 23.2 6.4 51 115-166 175-225 (552)
121 COG4052 Uncharacterized protei 22.3 77 0.0017 25.1 2.3 40 29-70 55-102 (310)
122 PRK13293 F420-0--gamma-glutamy 22.3 63 0.0014 25.5 1.9 28 33-60 134-161 (245)
123 PF10662 PduV-EutP: Ethanolami 22.2 61 0.0013 23.3 1.7 25 35-59 58-82 (143)
124 PRK14626 hypothetical protein; 22.1 2.7E+02 0.0058 19.0 6.9 67 87-161 7-96 (110)
125 COG3880 Modulator of heat shoc 22.0 3E+02 0.0064 20.6 5.2 35 123-165 137-171 (176)
126 PF10137 TIR-like: Predicted n 21.9 57 0.0012 22.9 1.4 26 28-55 40-65 (125)
127 PF15372 DUF4600: Domain of un 21.9 2E+02 0.0043 20.4 4.1 24 117-140 49-72 (129)
128 cd01374 KISc_CENP_E Kinesin mo 21.8 76 0.0017 25.7 2.3 24 37-60 69-95 (321)
129 cd01376 KISc_KID_like Kinesin 21.7 80 0.0017 25.6 2.4 25 36-60 75-102 (319)
130 cd08888 SRPBCC_PITPNA-B_like L 21.6 1.3E+02 0.0027 24.1 3.4 29 112-140 230-258 (258)
131 COG5068 ARG80 Regulator of arg 21.4 57 0.0012 27.7 1.5 47 8-60 18-64 (412)
132 cd01367 KISc_KIF2_like Kinesin 21.2 74 0.0016 25.8 2.1 25 36-60 79-106 (322)
133 cd04788 HTH_NolA-AlbR Helix-Tu 21.2 2.2E+02 0.0048 18.5 4.2 12 118-129 57-68 (96)
134 KOG4302 Microtubule-associated 21.1 2.4E+02 0.0053 25.7 5.4 28 115-142 153-180 (660)
135 KOG0250 DNA repair protein RAD 21.0 7.8E+02 0.017 24.0 9.8 26 84-109 660-685 (1074)
136 PF08432 Vfa1: AAA-ATPase Vps4 21.0 1.5E+02 0.0033 22.1 3.6 13 39-51 11-23 (182)
137 PF01920 Prefoldin_2: Prefoldi 20.9 2.2E+02 0.0049 18.4 4.2 25 87-111 78-102 (106)
138 COG1438 ArgR Arginine represso 20.9 57 0.0012 23.8 1.3 19 33-51 118-136 (150)
139 PF06717 DUF1202: Protein of u 20.9 1.8E+02 0.0039 23.6 4.1 34 86-119 153-186 (308)
140 cd03750 proteasome_alpha_type_ 20.8 41 0.00088 25.8 0.5 16 44-59 4-21 (227)
141 PF02887 PK_C: Pyruvate kinase 20.8 67 0.0015 21.7 1.6 21 32-53 8-28 (117)
142 COG1938 Archaeal enzymes of AT 20.7 2.5E+02 0.0053 22.3 4.8 20 88-107 207-226 (244)
143 PF12018 DUF3508: Domain of un 20.7 61 0.0013 26.0 1.5 33 19-61 210-242 (281)
144 PF06729 CENP-R: Kinetochore c 20.7 3.3E+02 0.0071 19.5 7.4 16 45-60 5-23 (139)
145 PF13082 DUF3931: Protein of u 20.6 43 0.00093 19.9 0.5 37 4-40 6-44 (66)
146 PRK06851 hypothetical protein; 20.6 2.7E+02 0.0058 23.4 5.3 29 24-52 42-70 (367)
147 PF06008 Laminin_I: Laminin Do 20.5 4.2E+02 0.0091 20.7 9.7 30 113-142 114-143 (264)
148 PF10224 DUF2205: Predicted co 20.5 2.2E+02 0.0047 18.4 3.8 25 87-111 39-63 (80)
149 PF00383 dCMP_cyt_deam_1: Cyti 20.5 58 0.0013 21.2 1.2 29 28-56 7-39 (102)
150 TIGR02698 CopY_TcrY copper tra 20.2 3.1E+02 0.0068 19.1 6.0 19 117-135 100-118 (130)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=1.3e-39 Score=246.99 Aligned_cols=156 Identities=47% Similarity=0.666 Sum_probs=125.6
Q ss_pred CCccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccccc--hhhHHHHhhhccccccc
Q 030981 1 MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCS--INKTIERYQKKTKDIGI 78 (168)
Q Consensus 1 M~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sps--v~~il~ry~~~~~~~~~ 78 (168)
|||+||+|++|+|+++|||||+|||.||||||+||||||||+||+|||||+|++|+|++|+ +..|+++|...+.....
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 80 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK 80 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence 9999999999999999999999999999999999999999999999999999999999986 99999999998777654
Q ss_pred CCcchhhhh--------------------HHHHHHhhhhHHHHHHHHH---HHHHhhCCCCCCCCH-HHHHHHHHHHHHH
Q 030981 79 NSKIVEDHS--------------------QHAKEETSNMMTKLEFLEV---AKRKLLGDGLEPCTI-DELQQLENQLERS 134 (168)
Q Consensus 79 ~~~~~~~~~--------------------~~l~~e~~kL~~~~e~l~~---~~r~~~ge~l~~Ls~-~eL~~Le~~Le~~ 134 (168)
.+....... .........+....+.+.. ..+++.|+++.+++. .+|..++..++..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 443311110 1123334445555555553 367889999999999 9999999999999
Q ss_pred HHHHHHhhhcccccchhHHHHHHHH-HHHHH
Q 030981 135 LSRIRARKFRNLVFSQNQLFREQIE-KLKEK 164 (168)
Q Consensus 135 l~~Vr~RK~~~~~~~~~~ll~~~i~-~l~~k 164 (168)
+..++..+ ...+.+++. .+++.
T Consensus 161 ~~~~~~~~--------~~~~~~~~~~~~~~~ 183 (195)
T KOG0014|consen 161 LHNSRSSK--------SKPLSDSNFQVLQEK 183 (195)
T ss_pred hcCCCCCC--------CcCCcchhhhhhccc
Confidence 99999999 555555544 44433
No 2
>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=100.00 E-value=1.9e-36 Score=196.96 Aligned_cols=75 Identities=76% Similarity=1.040 Sum_probs=72.6
Q ss_pred CccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccccchhhHHHHhhhccccc
Q 030981 2 VRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSINKTIERYQKKTKDI 76 (168)
Q Consensus 2 ~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~~~~~ 76 (168)
||+||+|++|+|+.+|++||+||++||||||+|||+||||+||+|||||+|++|+|+||++.+||+||.+.++..
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~~~ 75 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSS 75 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhccccc
Confidence 899999999999999999999999999999999999999999999999999999999999999999999987654
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=99.98 E-value=1.7e-33 Score=185.65 Aligned_cols=79 Identities=51% Similarity=0.723 Sum_probs=73.7
Q ss_pred CccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccccc-hhhHHHHhhhcccccccCC
Q 030981 2 VRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCS-INKTIERYQKKTKDIGINS 80 (168)
Q Consensus 2 ~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sps-v~~il~ry~~~~~~~~~~~ 80 (168)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+++.|++++ +..++++|..++...+...
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 80 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALERKKK 80 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhhhcc
Confidence 899999999999999999999999999999999999999999999999999999987765 9999999999887765543
No 4
>smart00432 MADS MADS domain.
Probab=99.97 E-value=1.8e-32 Score=168.61 Aligned_cols=59 Identities=78% Similarity=1.100 Sum_probs=58.0
Q ss_pred CccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCccccccc
Q 030981 2 VRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 2 ~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sp 60 (168)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|++|.|++|
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999999887
No 5
>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=99.97 E-value=8.4e-32 Score=165.78 Aligned_cols=59 Identities=80% Similarity=1.116 Sum_probs=57.7
Q ss_pred CccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCccccccc
Q 030981 2 VRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 2 ~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sp 60 (168)
||+||+|++|+|+..|++||+||++||||||+||||||||+||+|||||+|+++.|++|
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 79999999999999999999999999999999999999999999999999999999876
No 6
>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=99.95 E-value=5e-30 Score=152.89 Aligned_cols=51 Identities=69% Similarity=1.072 Sum_probs=47.0
Q ss_pred eEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccc
Q 030981 9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS 59 (168)
Q Consensus 9 ~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~s 59 (168)
++|+|+..|++||+||+.||||||.|||+||||+||+|||||+|++|.|||
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence 589999999999999999999999999999999999999999999999986
No 7
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.85 E-value=3e-22 Score=156.18 Aligned_cols=75 Identities=37% Similarity=0.554 Sum_probs=66.6
Q ss_pred CccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccccchh---------hHHHHhhhc
Q 030981 2 VRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSIN---------KTIERYQKK 72 (168)
Q Consensus 2 ~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~---------~il~ry~~~ 72 (168)
||+||+|+||+|+..|.+||||||.||||||+|||||.|.+|-|+|.|.+|.+|.|+.|.++ .+|.-..+.
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq~cLn~ 142 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQACLNA 142 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHHHHhcC
Confidence 69999999999999999999999999999999999999999999999999999999998544 455555555
Q ss_pred cccc
Q 030981 73 TKDI 76 (168)
Q Consensus 73 ~~~~ 76 (168)
+..+
T Consensus 143 pd~~ 146 (338)
T KOG0015|consen 143 PDTP 146 (338)
T ss_pred CCCC
Confidence 5544
No 8
>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=99.65 E-value=1.1e-15 Score=104.29 Aligned_cols=77 Identities=40% Similarity=0.605 Sum_probs=73.6
Q ss_pred hhhhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHH
Q 030981 84 EDHSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKE 163 (168)
Q Consensus 84 ~~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~ 163 (168)
..+.+.++.++.+|+.+++.++..+|++.|+++++||++||..||..|+.+|..||+|| ++++.++|..|++
T Consensus 11 ~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK--------~~~l~~~i~~l~~ 82 (100)
T PF01486_consen 11 DSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRK--------DQLLMEQIEELKK 82 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHH--------HHHHHHHHHHHHH
Confidence 46688999999999999999999999999999999999999999999999999999999 9999999999999
Q ss_pred HHhcC
Q 030981 164 KVITF 168 (168)
Q Consensus 164 k~~~l 168 (168)
|+..|
T Consensus 83 ke~~l 87 (100)
T PF01486_consen 83 KEREL 87 (100)
T ss_pred HHHHH
Confidence 99754
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.55 E-value=1.8e-15 Score=123.16 Aligned_cols=67 Identities=40% Similarity=0.603 Sum_probs=62.8
Q ss_pred CCccccceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccccchhhHHH
Q 030981 1 MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSINKTIE 67 (168)
Q Consensus 1 M~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ 67 (168)
|||+||.|.+|+|+.+|.|||+||+.||+|||.||++|.|.+|.++|.|..|.++.|+.|..+.|+.
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~ 147 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVK 147 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCccccccc
Confidence 7899999999999999999999999999999999999999999999999999999999986555443
No 10
>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=90.45 E-value=0.068 Score=26.30 Aligned_cols=14 Identities=36% Similarity=0.888 Sum_probs=11.0
Q ss_pred eeeeeecCCCCccc
Q 030981 43 VALIIFSPRGKLYE 56 (168)
Q Consensus 43 v~~ivfsp~gk~~~ 56 (168)
-.+.+|||+|+++.
T Consensus 3 ~~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 3 RSITTFSPDGRLFQ 16 (23)
T ss_dssp SSTTSBBTTSSBHH
T ss_pred CCceeECCCCeEEe
Confidence 35678999999884
No 11
>PRK04098 sec-independent translocase; Provisional
Probab=89.42 E-value=0.49 Score=34.72 Aligned_cols=86 Identities=21% Similarity=0.205 Sum_probs=46.7
Q ss_pred ceeeeeecCCCCcccccccchhhHHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCH
Q 030981 42 EVALIIFSPRGKLYEFSSCSINKTIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTI 121 (168)
Q Consensus 42 ~v~~ivfsp~gk~~~~~spsv~~il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~ 121 (168)
=||+|||+|.. ++..+. .+-..+..|+......+.. ...+-.+..++.+..+.++.++....+++ ..+++
T Consensus 14 vVaLlvfGP~K-LP~~~r-~lGk~ir~~K~~~~~~k~~-l~~Ei~~~elk~e~~k~k~~l~~~~~~l~-------~~~~~ 83 (158)
T PRK04098 14 VVAIIFLGPDK-LPQAMV-DIAKFFKAVKKTINDAKST-LDKEINIEEIKEEALKYKKEFESAVESLK-------KKLKF 83 (158)
T ss_pred HHHHhhcCchH-HHHHHH-HHHHHHHHHHHHHHHHHHH-HHHHHhhHHHHHHHHHHHHHHHHHHHHHH-------hccCh
Confidence 37889999974 443322 3444444555443321110 00012345667777777777766666555 23777
Q ss_pred HHHHHHHHHHHHHHHH
Q 030981 122 DELQQLENQLERSLSR 137 (168)
Q Consensus 122 ~eL~~Le~~Le~~l~~ 137 (168)
++|.++-..+......
T Consensus 84 eel~~~~~~~~~~~~~ 99 (158)
T PRK04098 84 EELDDLKITAENEIKS 99 (158)
T ss_pred HHHHHHhhhhhhcchh
Confidence 7887776555543333
No 12
>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=83.67 E-value=2.2 Score=26.09 Aligned_cols=33 Identities=24% Similarity=0.411 Sum_probs=28.2
Q ss_pred HhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 110 KLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 110 ~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
+..|++|+.||++||.+-...|+.-+.+++.-.
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~ 44 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEAAI 44 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999999999999988888887655
No 13
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=82.13 E-value=14 Score=25.72 Aligned_cols=58 Identities=16% Similarity=0.091 Sum_probs=45.6
Q ss_pred hhhHHHHHHhhhhHHHHHHHHHHHHHhhC----CCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 85 DHSQHAKEETSNMMTKLEFLEVAKRKLLG----DGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 85 ~~~~~l~~e~~kL~~~~e~l~~~~r~~~g----e~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
...+.|..++.+|+-+|..|...++.-.| .+-.-|+..+=+.+....-..|...-++|
T Consensus 3 ~t~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~K 64 (118)
T PF05812_consen 3 MTMEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKK 64 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999999999988888776 66778999999999999999998888887
No 14
>PHA03155 hypothetical protein; Provisional
Probab=80.36 E-value=17 Score=25.20 Aligned_cols=58 Identities=14% Similarity=0.048 Sum_probs=48.3
Q ss_pred hhhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 85 DHSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 85 ~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
...+.|..++.+|+-+|..|...++.-.+.+-.-|+..|=+.+....-.+|...-++|
T Consensus 8 ~tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~K 65 (115)
T PHA03155 8 ADVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEK 65 (115)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999998888776655555677999999999999999998888877
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=79.88 E-value=16 Score=26.73 Aligned_cols=54 Identities=26% Similarity=0.382 Sum_probs=36.7
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 88 QHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 88 ~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
..+...+..|..+++.++..+..+.+ +....+.+|...++.......+..+.||
T Consensus 112 ~el~~~i~~l~~e~~~l~~kL~~l~~-~~~~vs~ee~~~~~~~~~~~~k~w~kRK 165 (169)
T PF07106_consen 112 EELREEIEELEEEIEELEEKLEKLRS-GSKPVSPEEKEKLEKEYKKWRKEWKKRK 165 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666666555554 4444778888888888888888887777
No 16
>PHA03162 hypothetical protein; Provisional
Probab=74.47 E-value=28 Score=24.73 Aligned_cols=59 Identities=14% Similarity=0.072 Sum_probs=48.2
Q ss_pred hhhhHHHHHHhhhhHHHHHHHHHHHHHhhCCC----CCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 84 EDHSQHAKEETSNMMTKLEFLEVAKRKLLGDG----LEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 84 ~~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~----l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
+...+.|..++.+|+-+|..|...++.-.|.+ -..|+..+=+.+....-..|...-++|
T Consensus 12 ~~tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kK 74 (135)
T PHA03162 12 QPTMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKK 74 (135)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678899999999999999998876655544 346999999999999999888888877
No 17
>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=70.77 E-value=3.3 Score=21.76 Aligned_cols=27 Identities=22% Similarity=0.448 Sum_probs=18.2
Q ss_pred hhccccCcceeeeeecCCC--Cccccccc
Q 030981 34 ELSVLCDAEVALIIFSPRG--KLYEFSSC 60 (168)
Q Consensus 34 ELs~LC~~~v~~ivfsp~g--k~~~~~sp 60 (168)
.|+--||+-|-+-||...| ++|-.+.|
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvfrcsnp 30 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVFRCSNP 30 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEEEES-T
T ss_pred ccCCccCceEEEEeecCCCcEEEEEcCCC
Confidence 3677899999999999988 45545555
No 18
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=67.91 E-value=26 Score=29.96 Aligned_cols=78 Identities=6% Similarity=0.088 Sum_probs=39.6
Q ss_pred CCccccccc------chhh----HHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCH
Q 030981 52 GKLYEFSSC------SINK----TIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTI 121 (168)
Q Consensus 52 gk~~~~~sp------sv~~----il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~ 121 (168)
+..++|||| ++.. .|.+|+-+........ ......+..|..+++.++... .+.--++ -
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------l~fe~pi~ele~ki~el~~~~----~~~~~~~-~ 104 (431)
T PLN03230 37 RLEHEYPWPEKLPQGELTTGALKILNRFKPLKNKPKPVT-------LPFEKPIVDLENRIDEVRELA----NKTGVDF-S 104 (431)
T ss_pred CCCCCCCCcccCCCCcccccHHHHHHhcCCCCCCCCCCc-------cchhhHHHHHHHHHHHHHhhh----hcccccH-H
Confidence 335788886 2333 6777766655433211 122334555555665554321 1111122 2
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 030981 122 DELQQLENQLERSLSRIRAR 141 (168)
Q Consensus 122 ~eL~~Le~~Le~~l~~Vr~R 141 (168)
+|+..|+..++.....|-+.
T Consensus 105 ~ei~~l~~~~~~~~~~i~~~ 124 (431)
T PLN03230 105 AQIAELEERYDQVRRELYSR 124 (431)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 56777777777666655443
No 19
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=66.74 E-value=21 Score=28.77 Aligned_cols=44 Identities=18% Similarity=0.351 Sum_probs=31.4
Q ss_pred ceeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccc-cchhhHHHHhhh
Q 030981 7 QMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS-CSINKTIERYQK 71 (168)
Q Consensus 7 ~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~s-psv~~il~ry~~ 71 (168)
.+.+|.|.+.|..+=++ .||..|.+ |+| .|-+ |.|++|++.|..
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p-----~Y~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNP-----HYHNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCC-----CCCCcHHHHHHHHHHhH
Confidence 46789999888776332 47777765 444 3555 899999999865
No 20
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=64.83 E-value=30 Score=31.70 Aligned_cols=87 Identities=10% Similarity=0.149 Sum_probs=43.7
Q ss_pred eeeeeecCCCCccccccc-----chhh----HHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHHHHHhhC
Q 030981 43 VALIIFSPRGKLYEFSSC-----SINK----TIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVAKRKLLG 113 (168)
Q Consensus 43 v~~ivfsp~gk~~~~~sp-----sv~~----il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~~r~~~g 113 (168)
+.|+.--..|+-++|||| ++.. .|.+|+-+....... .-....-+..|..+|+.++... .
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~ldfEkpi~ele~ki~el~~~~----~ 118 (762)
T PLN03229 50 LAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKPKPV-------TLDFEKPLVDLEKKIVDVRKMA----N 118 (762)
T ss_pred eEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCCCCC-------CcchhhHHHHHHHHHHHHHhhh----h
Confidence 444444467777888886 3443 444444433322211 1122334555556665554321 1
Q ss_pred CCCCCCC-HHHHHHHHHHHHHHHHHHHHhh
Q 030981 114 DGLEPCT-IDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 114 e~l~~Ls-~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
+. +++ -+++..|+..+......|-.+-
T Consensus 119 ~~--~~~~~~ei~~Le~k~~~~~~~iy~~L 146 (762)
T PLN03229 119 ET--GLDFSDQIISLESKYQQALKDLYTHL 146 (762)
T ss_pred cc--cccHHHHHHHHHHHHHHHHHHHHccC
Confidence 11 122 2477778877777766665544
No 21
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=63.29 E-value=4.4 Score=27.89 Aligned_cols=37 Identities=24% Similarity=0.482 Sum_probs=27.3
Q ss_pred cceeccccccch---------hhhhhhhccccCcceeeeeecCCCC
Q 030981 17 RQVTFSKRRNGL---------LKKAFELSVLCDAEVALIIFSPRGK 53 (168)
Q Consensus 17 R~~tf~KRr~gL---------~KKa~ELs~LC~~~v~~ivfsp~gk 53 (168)
+-..||+=|+-| +-|..|+.+-||.|+-+++..|.|.
T Consensus 50 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 50 EAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred eEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 334446666644 5557899999999999999998553
No 22
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=62.73 E-value=8 Score=25.98 Aligned_cols=30 Identities=37% Similarity=0.350 Sum_probs=23.4
Q ss_pred hhhhhhccccCcceeeeeecCCCCccccccc
Q 030981 30 KKAFELSVLCDAEVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 30 KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sp 60 (168)
-|..||--+-||-+| =.|||+||+.+|-++
T Consensus 3 ekLdeLlqi~Gv~AA-Gefs~DGkLv~Ykgd 32 (109)
T COG4831 3 EKLDELLQIKGVMAA-GEFSPDGKLVEYKGD 32 (109)
T ss_pred hhHHHHhCccceeEe-ceeCCCCceEEeeCC
Confidence 456778778887555 569999999998775
No 23
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=61.67 E-value=58 Score=23.44 Aligned_cols=91 Identities=23% Similarity=0.283 Sum_probs=43.7
Q ss_pred eecCCCCcccccccchhhHHHHhhhcccccccCCcchhhhhHH-HHHHhhhhHHHH-HHHHHHHHH-hh----CCCCCCC
Q 030981 47 IFSPRGKLYEFSSCSINKTIERYQKKTKDIGINSKIVEDHSQH-AKEETSNMMTKL-EFLEVAKRK-LL----GDGLEPC 119 (168)
Q Consensus 47 vfsp~gk~~~~~spsv~~il~ry~~~~~~~~~~~~~~~~~~~~-l~~e~~kL~~~~-e~l~~~~r~-~~----ge~l~~L 119 (168)
||.|.. |..|+. .+|+...+.++.+.+.....+..++. ...++.+|+.+- ..++..+.. +. +..-.++
T Consensus 1 vf~~~~-pv~fS~----~ll~~L~~s~etD~sR~q~~e~~iq~Rva~eL~~L~~~~~~~~~~~l~~~~~~ed~~~~~~~l 75 (142)
T PF07956_consen 1 VFTPST-PVQFSQ----SLLSQLQSSTETDSSRAQTLELHIQERVAEELKRLEEEELKKFEEALEKSLLSEDEKDQDPGL 75 (142)
T ss_pred CCCCCC-CcccCH----HHHHHHhCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccc
Confidence 455554 344543 35666666655554322222233332 455566665332 222222211 22 2345677
Q ss_pred CHHHHHHHHHHHHHHHH---HHHHhh
Q 030981 120 TIDELQQLENQLERSLS---RIRARK 142 (168)
Q Consensus 120 s~~eL~~Le~~Le~~l~---~Vr~RK 142 (168)
|...+..=...|...|. .++...
T Consensus 76 Ss~~v~~~i~~L~~kLe~~~kl~~~~ 101 (142)
T PF07956_consen 76 SSKSVNEEIEKLREKLEERKKLRELK 101 (142)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 77766666666666655 444444
No 24
>PRK13824 replication initiation protein RepC; Provisional
Probab=60.41 E-value=20 Score=30.41 Aligned_cols=67 Identities=21% Similarity=0.276 Sum_probs=36.9
Q ss_pred hhccccCcceeeeee--cCCCCccccccc----------chhhHHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHH
Q 030981 34 ELSVLCDAEVALIIF--SPRGKLYEFSSC----------SINKTIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKL 101 (168)
Q Consensus 34 ELs~LC~~~v~~ivf--sp~gk~~~~~sp----------sv~~il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~ 101 (168)
-|+.|. |+++|++ ||+||-|-.-.+ +...++.||....... +..+.-+.++..++.++
T Consensus 103 hla~Lv--eaGLI~rrDSpNGKRyarr~~~G~i~~AfGfDLsPL~~R~~El~~~A--------~~~~ae~~~~r~lr~~i 172 (404)
T PRK13824 103 HLAALV--EAGLIIRRDSPNGKRYARKGRGGEIEEAFGFDLAPLLARAEEFEALA--------EQVAAERKALRRLRERL 172 (404)
T ss_pred HHHHHH--HCCCeEeecCCCCcccceeCCCCceeeeeccchHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHH
Confidence 344554 5667777 699998754322 4667888886654321 12222344445555555
Q ss_pred HHHHHHHHH
Q 030981 102 EFLEVAKRK 110 (168)
Q Consensus 102 e~l~~~~r~ 110 (168)
..+...++.
T Consensus 173 t~~rRdi~~ 181 (404)
T PRK13824 173 TLCRRDIAK 181 (404)
T ss_pred HHHHHHHHH
Confidence 555554444
No 25
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=60.27 E-value=38 Score=24.93 Aligned_cols=41 Identities=27% Similarity=0.350 Sum_probs=31.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHHHH
Q 030981 120 TIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKEKV 165 (168)
Q Consensus 120 s~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~k~ 165 (168)
+..||..|-.+++.+-.-++++- +++-.++.+||..||++-
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t-----~~kL~~I~eQi~~Lq~QA 68 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANT-----CNKLEVIAEQIRFLQEQA 68 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH-----HhHHHHHHHHHHHHHHHH
Confidence 67799999999999999888876 333557778888887753
No 26
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=59.32 E-value=5.8 Score=31.50 Aligned_cols=73 Identities=8% Similarity=0.134 Sum_probs=35.6
Q ss_pred hccccCcceeeeeecCCCCcccccccchhhHHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHHH
Q 030981 35 LSVLCDAEVALIIFSPRGKLYEFSSCSINKTIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVAK 108 (168)
Q Consensus 35 Ls~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~~ 108 (168)
|+.|++|-+...++.|.- +..-++++.++-+.+...........-...+..++.++.|+..|+.++|.+.-++
T Consensus 12 ~~~l~~~~~~~~~~a~a~-v~~~~~~~~~~r~~~le~~~~~~~~~~~~l~~ql~~lq~ev~~LrG~~E~~~~~l 84 (263)
T PRK10803 12 LSLLVGVAAPWAAFAQAP-ISSVGSGSVEDRVTQLERISNAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQL 84 (263)
T ss_pred HHHHHHHhhhHHHhcCCc-HHHcCCCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 455665433333333331 1223344556555555554433221101113456677888888877776665443
No 27
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=58.40 E-value=49 Score=27.04 Aligned_cols=29 Identities=31% Similarity=0.606 Sum_probs=25.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 114 DGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 114 e~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
..++.++.++|..+...|...-..|.+++
T Consensus 201 ~e~~~~D~~eL~~lr~eL~~~~~~i~~~k 229 (325)
T PF08317_consen 201 EEIESCDQEELEALRQELAEQKEEIEAKK 229 (325)
T ss_pred hhhhhcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45889999999999999999888888777
No 28
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=55.70 E-value=40 Score=25.21 Aligned_cols=62 Identities=21% Similarity=0.321 Sum_probs=36.0
Q ss_pred cceeeeee--cCCCCccccccc----------chhhHHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHHH
Q 030981 41 AEVALIIF--SPRGKLYEFSSC----------SINKTIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVAK 108 (168)
Q Consensus 41 ~~v~~ivf--sp~gk~~~~~sp----------sv~~il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~~ 108 (168)
+++++|++ ||+||-|..-++ +...++.||....... +...........++.++..+...+
T Consensus 96 veaGLI~rrDS~NgkRy~~R~~~G~I~~A~GfdLsPL~~R~~El~~~a--------~~~~~~~~~~r~lr~~it~~rR~i 167 (177)
T PF03428_consen 96 VEAGLIVRRDSPNGKRYARRDRGGRIVEAFGFDLSPLIARAEELAALA--------EAARAERRALRRLRRRITLLRRDI 167 (177)
T ss_pred HHCCCeeeccCCCCCccCccCCCCCEEeEeCcCHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888888 489988764332 4677888886654432 122333444455555555555444
Q ss_pred HH
Q 030981 109 RK 110 (168)
Q Consensus 109 r~ 110 (168)
+.
T Consensus 168 ~~ 169 (177)
T PF03428_consen 168 RK 169 (177)
T ss_pred HH
Confidence 43
No 29
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=55.38 E-value=1.2e+02 Score=26.49 Aligned_cols=46 Identities=11% Similarity=0.104 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHHHH
Q 030981 118 PCTIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKEKV 165 (168)
Q Consensus 118 ~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~k~ 165 (168)
..++.++.++-..+...+..++.+. .-+..+..-+.+++..|+++.
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~l~~~l 168 (525)
T TIGR02231 123 EPDLKEWFQAFDFNGSEIERLLTED--REAERRIRELEKQLSELQNEL 168 (525)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 5688999999999999998888877 334444445566666666654
No 30
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=55.23 E-value=13 Score=25.50 Aligned_cols=27 Identities=30% Similarity=0.217 Sum_probs=21.5
Q ss_pred hhhhccccCcceeeeeecCCCCcccccc
Q 030981 32 AFELSVLCDAEVALIIFSPRGKLYEFSS 59 (168)
Q Consensus 32 a~ELs~LC~~~v~~ivfsp~gk~~~~~s 59 (168)
-.+|..|-||-+ +..||++|++.+|-.
T Consensus 3 l~~Lm~lpGv~A-Ag~Fs~~G~l~e~~G 29 (108)
T PF09941_consen 3 LDKLMKLPGVVA-AGEFSDDGKLVEYKG 29 (108)
T ss_pred HHHhhcCCCeEE-EEEECCCCeEEeeec
Confidence 467888888855 467999999998755
No 31
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=55.11 E-value=42 Score=27.03 Aligned_cols=62 Identities=18% Similarity=0.442 Sum_probs=41.1
Q ss_pred CCcceeccccccch---------hhhhhhhccccCcceeeeeecCCCCcc-------ccccc-----chhhHHHHhhhcc
Q 030981 15 TSRQVTFSKRRNGL---------LKKAFELSVLCDAEVALIIFSPRGKLY-------EFSSC-----SINKTIERYQKKT 73 (168)
Q Consensus 15 ~~R~~tf~KRr~gL---------~KKa~ELs~LC~~~v~~ivfsp~gk~~-------~~~sp-----sv~~il~ry~~~~ 73 (168)
+.+-|.||+-|..| |-+.-.++|-||-|.-..+.-|+|+.| -|+.. +++.+|..-++..
T Consensus 180 ~g~gvy~SRsR~~lW~KGetSgn~q~ll~i~vDCD~D~l~f~v~q~g~gfCHl~t~~Cfg~~~~gL~~LEs~l~~Rk~~a 259 (359)
T KOG4311|consen 180 SGKGVYFSRSRSTLWTKGETSGNFQNLLDIYVDCDRDSLIFLVTQDGPGFCHLGTETCFGTSVFGLYSLESILSKRKETA 259 (359)
T ss_pred cCcceEEecccceeeeccccCcCceeeEEEeeccCccceEEEEecCCCcccccCcceeeeeechhhhhHHHHHHHhhhcC
Confidence 45667777777744 455568999999998887777877622 23332 6788876665543
Q ss_pred ccc
Q 030981 74 KDI 76 (168)
Q Consensus 74 ~~~ 76 (168)
+.+
T Consensus 260 Pee 262 (359)
T KOG4311|consen 260 PEE 262 (359)
T ss_pred Cch
Confidence 333
No 32
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=54.96 E-value=53 Score=24.72 Aligned_cols=24 Identities=25% Similarity=0.229 Sum_probs=12.7
Q ss_pred CCCcccccccchhhHHHHhhhccc
Q 030981 51 RGKLYEFSSCSINKTIERYQKKTK 74 (168)
Q Consensus 51 ~gk~~~~~spsv~~il~ry~~~~~ 74 (168)
.|-+-.-.+.....++++|..+..
T Consensus 82 RGlLL~rvrde~~~~l~~y~~l~~ 105 (189)
T PF10211_consen 82 RGLLLLRVRDEYRMTLDAYQTLYE 105 (189)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHH
Confidence 343333333456667777766544
No 33
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=54.13 E-value=7 Score=30.21 Aligned_cols=19 Identities=37% Similarity=0.847 Sum_probs=15.0
Q ss_pred cceeeeeecCCCCccc--ccc
Q 030981 41 AEVALIIFSPRGKLYE--FSS 59 (168)
Q Consensus 41 ~~v~~ivfsp~gk~~~--~~s 59 (168)
-|-|+-||||+|+++. |+.
T Consensus 4 ydraltvFSPDGhL~QVEYAq 24 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQVEYAQ 24 (249)
T ss_pred cccceEEECCCCCEEeeHhHH
Confidence 4678999999999884 643
No 34
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=53.66 E-value=7.3 Score=30.26 Aligned_cols=25 Identities=20% Similarity=0.511 Sum_probs=20.1
Q ss_pred ccccCcceeeeeecCCCCccc--cccc
Q 030981 36 SVLCDAEVALIIFSPRGKLYE--FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp~gk~~~--~~sp 60 (168)
||=.|-|.|+-+|||+|+.|. |+..
T Consensus 3 sIGtGyDls~s~fSpdGrvfQveYA~K 29 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQVEYAQK 29 (254)
T ss_pred cccccccccceeeCCCCceehHHHHHH
Confidence 455788999999999999985 6553
No 35
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=52.97 E-value=9 Score=27.40 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=19.3
Q ss_pred hccccCcceeeeeecCCCCccccc
Q 030981 35 LSVLCDAEVALIIFSPRGKLYEFS 58 (168)
Q Consensus 35 Ls~LC~~~v~~ivfsp~gk~~~~~ 58 (168)
++++|||||-++|-+.+++-..||
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f~ 82 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRFP 82 (148)
T ss_pred HHHhhccceeeeeecccCccccCC
Confidence 678999999999999877644443
No 36
>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=52.70 E-value=9.7 Score=29.19 Aligned_cols=47 Identities=13% Similarity=0.258 Sum_probs=35.5
Q ss_pred cchhhhh----hhhccccCcceeeeeecCCC---CcccccccchhhHHHHhhhc
Q 030981 26 NGLLKKA----FELSVLCDAEVALIIFSPRG---KLYEFSSCSINKTIERYQKK 72 (168)
Q Consensus 26 ~gL~KKa----~ELs~LC~~~v~~ivfsp~g---k~~~~~spsv~~il~ry~~~ 72 (168)
+-|+-|. .|++|-+|-++.|++.+|+. ....|+...++.|+..|...
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 3455554 79999999999999999864 23358887788888877764
No 37
>PTZ00370 STEVOR; Provisional
Probab=51.67 E-value=56 Score=26.47 Aligned_cols=42 Identities=21% Similarity=0.468 Sum_probs=27.0
Q ss_pred eeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCcccccc-cchhhHHHHhhh
Q 030981 8 MKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS-CSINKTIERYQK 71 (168)
Q Consensus 8 i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~s-psv~~il~ry~~ 71 (168)
+..|.|.+.|. |.+-| .||..|. |+| .|-. |.|++|++.|..
T Consensus 26 ~~li~n~t~~~-t~~sR------------~L~Ecel----~~p-----~YdNDpemK~i~d~~n~ 68 (296)
T PTZ00370 26 VSLIQNNTQRT-TIKSR------------LLAQTQN----HNP-----HYHNDPELKEIIDKMNE 68 (296)
T ss_pred cccccCCCccc-cccee------------ehhhhhc----CCC-----CCCCcHHHHHHHHHHhH
Confidence 45677777765 32222 4676665 444 3544 899999999865
No 38
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=51.66 E-value=1.4e+02 Score=25.66 Aligned_cols=60 Identities=20% Similarity=0.504 Sum_probs=37.6
Q ss_pred ceeEecCCCCc-ceecc---ccc-------cchhhhhhhhccccCcceeeeeecCCCCcccccccchhhHHHHhhhc
Q 030981 7 QMKRIENATSR-QVTFS---KRR-------NGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSINKTIERYQKK 72 (168)
Q Consensus 7 ~i~~I~n~~~R-~~tf~---KRr-------~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~ 72 (168)
.|.-|.+.+.| .+.|. ||. ++|+|+- .|.+--.+ -+++|.|+|+|..| ++.+||..|..+
T Consensus 257 ~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~t-~L~~s~~~--Nm~~~~~~g~p~~~---~l~~iL~~f~~~ 327 (445)
T cd00187 257 GISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVT-KLQTTFGI--NMVAFDPNGRPKKL---NLKEILQEFLDH 327 (445)
T ss_pred ccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhc-CCceeeee--eEEEEecCCeeEEe---CHHHHHHHHHHH
Confidence 46677777777 34442 332 2555443 22222222 67888899998888 778899888764
No 39
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=50.99 E-value=87 Score=25.63 Aligned_cols=30 Identities=30% Similarity=0.492 Sum_probs=25.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 113 GDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 113 ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
.++++.++.++|..+...|......|...+
T Consensus 195 ~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~ 224 (312)
T smart00787 195 EDELEDCDPTELDRAKEKLKKLLQEIMIKV 224 (312)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 356889999999999999988888888777
No 40
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.12 E-value=1.3e+02 Score=24.06 Aligned_cols=33 Identities=15% Similarity=0.402 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHH
Q 030981 122 DELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKE 163 (168)
Q Consensus 122 ~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~ 163 (168)
.++..|+..|+..-.+|++|+ ++|.++..-++.
T Consensus 80 ~eik~l~~eI~~~~~~I~~r~---------~~l~~raRAmq~ 112 (265)
T COG3883 80 AEIKKLQKEIAELKENIVERQ---------ELLKKRARAMQV 112 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHH
Confidence 477888888888888888887 467777766653
No 41
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=49.72 E-value=15 Score=26.57 Aligned_cols=34 Identities=15% Similarity=0.279 Sum_probs=26.1
Q ss_pred cCcceeeeeecCCCCccccccc-chhhHHHHhhhc
Q 030981 39 CDAEVALIIFSPRGKLYEFSSC-SINKTIERYQKK 72 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~~~sp-sv~~il~ry~~~ 72 (168)
|+...++-|..++|++.+|..| .+.+|+..|=.+
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 3444555555589999999998 899999998766
No 42
>KOG3718 consensus Carnitine O-acyltransferase CROT [Lipid transport and metabolism]
Probab=47.31 E-value=31 Score=30.08 Aligned_cols=29 Identities=21% Similarity=0.343 Sum_probs=23.8
Q ss_pred ecCCCCcccccccchhhHHHHhhhccccc
Q 030981 48 FSPRGKLYEFSSCSINKTIERYQKKTKDI 76 (168)
Q Consensus 48 fsp~gk~~~~~spsv~~il~ry~~~~~~~ 76 (168)
||-.+.+++-|=|++++.|++|.....+-
T Consensus 14 Fs~qdsLPSLPlPeLeETleKYl~s~~pf 42 (609)
T KOG3718|consen 14 FSFQDSLPSLPLPELEETLEKYLSSIQPF 42 (609)
T ss_pred ccccccCCCCCCchHHHHHHHHHHhcccC
Confidence 66777788888899999999999875543
No 43
>PF11232 Med25: Mediator complex subunit 25 PTOV activation and synapsin 2; InterPro: IPR021394 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear []. ; PDB: 2KY6_A 2L23_A 2XNF_A 2L6U_A.
Probab=46.77 E-value=13 Score=27.07 Aligned_cols=23 Identities=26% Similarity=0.689 Sum_probs=18.2
Q ss_pred cccCcceeeeeecCCCCccc-ccc
Q 030981 37 VLCDAEVALIIFSPRGKLYE-FSS 59 (168)
Q Consensus 37 ~LC~~~v~~ivfsp~gk~~~-~~s 59 (168)
.-|++.|-+++|||..+.|. |..
T Consensus 109 p~c~iKvL~LlYs~kk~~flG~IP 132 (152)
T PF11232_consen 109 PPCEIKVLMLLYSPKKKAFLGFIP 132 (152)
T ss_dssp SSSS-SEEEEEEETTTTEEEEEEE
T ss_pred CCCceEEEEEEEcCCCceEEEEcC
Confidence 57999999999999998775 544
No 44
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=46.76 E-value=99 Score=21.65 Aligned_cols=36 Identities=33% Similarity=0.509 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHH
Q 030981 124 LQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKL 161 (168)
Q Consensus 124 L~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l 161 (168)
...=...|+.-+..+..|. ..|.+||.+|.++|+.+
T Consensus 96 w~~qk~~le~e~~~~~~r~--~dL~~QN~lLh~QlE~l 131 (132)
T PF07926_consen 96 WEEQKEQLEKELSELEQRI--EDLNEQNKLLHDQLESL 131 (132)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhhc
Confidence 3444566777777777777 77888999999998764
No 45
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=46.72 E-value=6.3 Score=25.25 Aligned_cols=37 Identities=30% Similarity=0.529 Sum_probs=26.7
Q ss_pred cceeccccccchhh---------hhhhhccccCcceeeeeecCCCC
Q 030981 17 RQVTFSKRRNGLLK---------KAFELSVLCDAEVALIIFSPRGK 53 (168)
Q Consensus 17 R~~tf~KRr~gL~K---------Ka~ELs~LC~~~v~~ivfsp~gk 53 (168)
+-+-||+-|++|-. ++.|+.+-||.|+-++..-|.|.
T Consensus 18 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 18 RATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp B-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred cEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 33445777767754 46799999999999999998885
No 46
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=43.67 E-value=20 Score=24.26 Aligned_cols=58 Identities=16% Similarity=0.169 Sum_probs=36.1
Q ss_pred CCccccceeEecCCCCcceeccccccchhhhhhhhccccCcc----eeeeeecCCCCcccccccc
Q 030981 1 MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAE----VALIIFSPRGKLYEFSSCS 61 (168)
Q Consensus 1 M~R~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~----v~~ivfsp~gk~~~~~sps 61 (168)
|||+|.+.+.|-. .|+-.+.|+-+.++= -+|.++-|-++ +++++.+..|--|++--|.
T Consensus 1 MG~rr~krr~~ik--~~~~~L~k~FtCp~C-ghe~vs~ctvkk~~~~g~~~Cg~CGls~e~ev~~ 62 (104)
T COG4888 1 MGRRRRKRRKIIK--RRPQVLPKTFTCPRC-GHEKVSSCTVKKTVNIGTAVCGNCGLSFECEVPE 62 (104)
T ss_pred CCcccccccccCc--ccCccCCceEecCcc-CCeeeeEEEEEecCceeEEEcccCcceEEEeccc
Confidence 9999988887654 333335555444432 25666666544 6778888888777765553
No 47
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=43.53 E-value=19 Score=30.22 Aligned_cols=40 Identities=30% Similarity=0.557 Sum_probs=27.8
Q ss_pred hhhccccCcce--eeeeecCCCCccccccc-----chhhHHHHhhhccc
Q 030981 33 FELSVLCDAEV--ALIIFSPRGKLYEFSSC-----SINKTIERYQKKTK 74 (168)
Q Consensus 33 ~ELs~LC~~~v--~~ivfsp~gk~~~~~sp-----sv~~il~ry~~~~~ 74 (168)
.=|||+||-+| |||--..+| |-|+.| ++++.+..|...+-
T Consensus 367 yalSV~~~~~V~HClIy~tatG--~GFa~pyn~y~tlk~lV~hY~h~SL 413 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATG--FGFAEPYNLYSTLKELVLHYQHTSL 413 (464)
T ss_pred eEEEEEECCceeeeEEeecccc--ccccchhHHHHHHHHHHHHHhhhhH
Confidence 45899999776 555444555 555555 78899999987654
No 48
>PF10337 DUF2422: Protein of unknown function (DUF2422); InterPro: IPR018823 This domain is found in proteins conserved in fungi. Their function is not known. This entry represents the N-terminal half of some member proteins which contain IPR018820 from INTERPRO at their C terminus.
Probab=43.09 E-value=1.2e+02 Score=25.92 Aligned_cols=51 Identities=16% Similarity=0.114 Sum_probs=37.7
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHhhCC-CCCCCCHHHHHHHHHHHHHHHHH
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKLLGD-GLEPCTIDELQQLENQLERSLSR 137 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~~ge-~l~~Ls~~eL~~Le~~Le~~l~~ 137 (168)
...++....+++.....++..+....-| ..+-++.+|+..+...+...+..
T Consensus 257 ~~~L~~~~~~l~~~~~~l~~~l~~~~~Eis~grl~~~Dl~~i~~~lr~l~~~ 308 (459)
T PF10337_consen 257 LKKLKATKAKLRALYAKLQAALRFLKLEISYGRLSPDDLKPIFSLLRSLMIP 308 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHeeecCCHHHHHHHHHHHHHHHHH
Confidence 4667777788888888888777665444 56779999999998887775443
No 49
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=42.72 E-value=1.3e+02 Score=21.94 Aligned_cols=108 Identities=18% Similarity=0.207 Sum_probs=58.0
Q ss_pred ccccccchhhhhhhhccccCcceeeeeecC----CCC---------cccccc--cchhhHHHHhhhcccccccCCcch--
Q 030981 21 FSKRRNGLLKKAFELSVLCDAEVALIIFSP----RGK---------LYEFSS--CSINKTIERYQKKTKDIGINSKIV-- 83 (168)
Q Consensus 21 f~KRr~gL~KKa~ELs~LC~~~v~~ivfsp----~gk---------~~~~~s--psv~~il~ry~~~~~~~~~~~~~~-- 83 (168)
|-.=|.-|+.-..+.+-+.+.+|. |||.. .+. -..|+. .++++.|+++-......+..-.+.
T Consensus 24 l~~aR~~Li~~L~~y~~~~~~~v~-VVFDa~~~~~~~~~~~~~~gi~Vvft~~~~tAD~~Ie~~v~~~~~~~~~v~VVTS 102 (166)
T PF05991_consen 24 LEAARERLIEMLSEYAQFSGYEVI-VVFDAYKVPGGSEEREEYGGIEVVFTKEGETADDYIERLVRELKNRPRQVTVVTS 102 (166)
T ss_pred HHHHHHHHHHHHHHHhcccCCEEE-EEEeCCcCCCCCceeeeeCceEEEECCCCCCHHHHHHHHHHHhccCCCeEEEEeC
Confidence 445566788888889999997765 55653 111 112444 279999999988655422111110
Q ss_pred hh--------------hhHHHHHHhhhhHHHHHHHHHHHHH-hhCCCCCCCCHHHHHHHHH
Q 030981 84 ED--------------HSQHAKEETSNMMTKLEFLEVAKRK-LLGDGLEPCTIDELQQLEN 129 (168)
Q Consensus 84 ~~--------------~~~~l~~e~~kL~~~~e~l~~~~r~-~~ge~l~~Ls~~eL~~Le~ 129 (168)
+. ..+.+..++.....+....-..... .-....+.||.+.+..|++
T Consensus 103 D~~iq~~~~~~GA~~iss~ef~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ls~~~~~~l~~ 163 (166)
T PF05991_consen 103 DREIQRAARGRGAKRISSEEFLRELKAAKREIRKEARERSSKKKKKLDDRLSPEELEKLEK 163 (166)
T ss_pred CHHHHHHHhhCCCEEEcHHHHHHHHHHHHHHHHHHHHhhhhhccccccCCCCHHHHHHHHH
Confidence 11 1234444555544444321111111 1223356788888887765
No 50
>PLN02372 violaxanthin de-epoxidase
Probab=42.53 E-value=2.2e+02 Score=24.45 Aligned_cols=22 Identities=14% Similarity=0.170 Sum_probs=12.4
Q ss_pred eeeeeecCCCCcccccccchhh
Q 030981 43 VALIIFSPRGKLYEFSSCSINK 64 (168)
Q Consensus 43 v~~ivfsp~gk~~~~~spsv~~ 64 (168)
.++|||.++|.+++-.-|.+..
T Consensus 316 gGAVvyTrs~~lP~~~~p~L~~ 337 (455)
T PLN02372 316 GGAVVYTRSSTLPESIVPELEK 337 (455)
T ss_pred cceEEEecCCCCChhhhHHHHH
Confidence 4667777777655422244333
No 51
>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=41.72 E-value=1.4e+02 Score=22.04 Aligned_cols=24 Identities=21% Similarity=0.350 Sum_probs=20.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 119 CTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 119 Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
.+.+++.++...++..|+.||+..
T Consensus 135 v~~~~i~e~IKd~de~L~~I~d~i 158 (163)
T PF03233_consen 135 VTEKLIEELIKDFDERLKEIRDKI 158 (163)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHH
Confidence 556789999999999999999876
No 52
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=41.14 E-value=74 Score=20.31 Aligned_cols=42 Identities=19% Similarity=0.151 Sum_probs=26.1
Q ss_pred HHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHH
Q 030981 65 TIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEV 106 (168)
Q Consensus 65 il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~ 106 (168)
++-.|.+........+.......+.+.....+|+++++.+|.
T Consensus 22 l~lHY~~k~~~~~~ls~~d~~~L~~L~~~a~rm~eRI~tLE~ 63 (75)
T TIGR02976 22 LILHYRSKRKTAASLSTDDQALLQELYAKADRLEERIDTLER 63 (75)
T ss_pred HHHHHHhhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455676554443322222234466778888899999988885
No 53
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=40.55 E-value=11 Score=26.63 Aligned_cols=41 Identities=27% Similarity=0.476 Sum_probs=28.1
Q ss_pred ecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCccc
Q 030981 11 IENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYE 56 (168)
Q Consensus 11 I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~ 56 (168)
|.++.....||.=.-+.+-++.-+|+.+| ++.|+|.|+.|-
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~C-----f~a~~~~gk~f~ 81 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKMC-----FKAYSPDGKEFK 81 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT-E-----EEEEETTS-EEE
T ss_pred ecCccceEEEEEEEEecCCCCccccccch-----hhhccccCCEEE
Confidence 44556667777777888888889999885 899999998654
No 54
>PF00992 Troponin: Troponin; InterPro: IPR001978 The troponin (Tn) complex regulates Ca2+ induced muscle contraction. Tn contains three subunits, Ca2+ binding (TnC), inhibitory (TnI), and tropomyosin binding (TnT). This family includes troponin T and troponin I. Troponin I binds to actin and troponin T binds to tropomyosin [, , ].; PDB: 1J1D_C 1MXL_I 1LXF_I 2KRD_I 1J1E_F 2L1R_B 2KGB_I 1YTZ_I 1YV0_I 1VDJ_A ....
Probab=39.76 E-value=1.2e+02 Score=21.37 Aligned_cols=49 Identities=22% Similarity=0.246 Sum_probs=34.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHHH
Q 030981 114 DGLEPCTIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKEK 164 (168)
Q Consensus 114 e~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~k 164 (168)
-++++++..+|+.+-..+...+..+.+-+ +.+..-..--..+|+.|..+
T Consensus 38 l~~~g~~~~eL~~~~k~lh~ri~~leeEr--yd~E~kv~k~~~Ei~elk~k 86 (132)
T PF00992_consen 38 LKLDGLSRAELQELCKELHERIDKLEEER--YDLEEKVAKQDYEIEELKKK 86 (132)
T ss_dssp --GTTSSHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHCCC
T ss_pred CCCCcccHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhcccHHHHHhH
Confidence 34778999999999999999999999988 34443333333455555443
No 55
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=39.15 E-value=1.1e+02 Score=20.07 Aligned_cols=78 Identities=15% Similarity=0.162 Sum_probs=45.4
Q ss_pred chhhHHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCC-CCCHHHHHHHHHHHHHHHHHHH
Q 030981 61 SINKTIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVAKRKLLGDGLE-PCTIDELQQLENQLERSLSRIR 139 (168)
Q Consensus 61 sv~~il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~-~Ls~~eL~~Le~~Le~~l~~Vr 139 (168)
.+..++.+|........ ...........+...+..+...+++++....-....+-. +++..|+..-...+...-..|.
T Consensus 16 ~l~~~~~~~~~~~~~~~-~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~np~kF~l~~~Ei~~Rr~fv~~~~~~i~ 94 (97)
T PF09177_consen 16 RLESLYRRWQRLRSDTS-SSEELKWLKRELRNALQSIEWDLEDLEEAVRIVEKNPSKFNLSEEEISRRRQFVSAIRNQIK 94 (97)
T ss_dssp HHHHHHHHHHHHTTHCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHT-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcccCC-CcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccccCCCHHHHHHHHHHHHHHHHHHH
Confidence 46667777777655443 111111223456777777888888888776554433211 6777777777766666555554
No 56
>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]
Probab=39.02 E-value=1.2e+02 Score=20.55 Aligned_cols=16 Identities=25% Similarity=0.065 Sum_probs=12.0
Q ss_pred hhhccccCcceeeeee
Q 030981 33 FELSVLCDAEVALIIF 48 (168)
Q Consensus 33 ~ELs~LC~~~v~~ivf 48 (168)
.+=..|.|.+.++.|-
T Consensus 7 ~ddipl~d~d~~v~I~ 22 (120)
T KOG3650|consen 7 EDDIPLTDIDLAVDID 22 (120)
T ss_pred cccCcccCCCcccccc
Confidence 3456788999998874
No 57
>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=38.88 E-value=59 Score=20.14 Aligned_cols=42 Identities=17% Similarity=0.222 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHH
Q 030981 97 MMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRI 138 (168)
Q Consensus 97 L~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~V 138 (168)
++++++.++-.+-.+...-+.+-+.++|.+++..++..-+++
T Consensus 23 lr~eiealkY~N~yL~~~~v~~~g~~gl~~~~~e~~r~~~~~ 64 (66)
T PF07438_consen 23 LRKEIEALKYMNDYLFDQFVRDNGYEGLEEYEIEIERIKKDF 64 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccCcchHHHHHHHHHHHHHHh
Confidence 344555555444444455566667778888888887765554
No 58
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=38.46 E-value=89 Score=19.96 Aligned_cols=43 Identities=28% Similarity=0.187 Sum_probs=26.3
Q ss_pred HHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHHHHHHH
Q 030981 65 TIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLEFLEVA 107 (168)
Q Consensus 65 il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e~l~~~ 107 (168)
++-.|.+.....+..+..+....+.|.....+|.++++.+|.-
T Consensus 22 L~lHY~sk~~~~~gLs~~d~~~L~~L~~~a~rm~eRI~tLE~I 64 (75)
T PF06667_consen 22 LILHYRSKWKSSQGLSEEDEQRLQELYEQAERMEERIETLERI 64 (75)
T ss_pred HHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666543333322222344677888888999999888853
No 59
>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=37.83 E-value=30 Score=21.33 Aligned_cols=29 Identities=17% Similarity=0.537 Sum_probs=19.2
Q ss_pred cCcceeeeeecCCCCccccccc-chhhHHHH
Q 030981 39 CDAEVALIIFSPRGKLYEFSSC-SINKTIER 68 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~~~sp-sv~~il~r 68 (168)
|+.--.++|+ |+|..|...+| .+.+|++.
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 6554455544 77777777776 67777765
No 60
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=37.09 E-value=1.5e+02 Score=22.21 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=13.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 116 LEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 116 l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
....+.+|-.+.++.-+...+.-|.|+
T Consensus 146 ~~~vtpedk~~v~~~y~~~~~~wrk~k 172 (201)
T KOG4603|consen 146 TNHVTPEDKEQVYREYQKYCKEWRKRK 172 (201)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555554
No 61
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=36.53 E-value=80 Score=17.67 Aligned_cols=39 Identities=18% Similarity=0.239 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHH
Q 030981 98 MTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRI 138 (168)
Q Consensus 98 ~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~V 138 (168)
..+|+.++..+..+.... +++-.+...+.+.||..+...
T Consensus 3 ~~~Ie~~R~~L~~~~~~~--~l~~~~vl~~Sq~LD~lI~~y 41 (45)
T PF09388_consen 3 LEEIEELRQELNELAEKK--GLTDPEVLELSQELDKLINEY 41 (45)
T ss_dssp HHHHHHHHHHHHHHHHHC--CTTCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHH
Confidence 344444444444433333 778888999999998887654
No 62
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=36.20 E-value=19 Score=27.36 Aligned_cols=28 Identities=32% Similarity=0.615 Sum_probs=19.1
Q ss_pred cCcceeeeeecCCCCcccccccchhhHHHHhhhc
Q 030981 39 CDAEVALIIFSPRGKLYEFSSCSINKTIERYQKK 72 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~ 72 (168)
-||.+||+|||.++. + |.+.+++=|...
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 589999999998874 2 334555555443
No 63
>PRK11546 zraP zinc resistance protein; Provisional
Probab=35.50 E-value=1.1e+02 Score=22.10 Aligned_cols=45 Identities=13% Similarity=0.135 Sum_probs=23.9
Q ss_pred chhhHHHHhhhccccccc--------------CCcchhhhhHHHHHHhhhhHHHHHHHH
Q 030981 61 SINKTIERYQKKTKDIGI--------------NSKIVEDHSQHAKEETSNMMTKLEFLE 105 (168)
Q Consensus 61 sv~~il~ry~~~~~~~~~--------------~~~~~~~~~~~l~~e~~kL~~~~e~l~ 105 (168)
.++.|.++|..-+.+.+. ...+++..+..+..|+..|+.++...+
T Consensus 51 ~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r 109 (143)
T PRK11546 51 AWQKIHNDFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELR 109 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 377777888776554431 111223335556666666665555443
No 64
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=35.30 E-value=93 Score=22.57 Aligned_cols=30 Identities=20% Similarity=0.387 Sum_probs=24.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 113 GDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 113 ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
+-++..||+++|..|.+++|.-+.-+..--
T Consensus 7 ~idltkLsleQL~~lk~q~dqEl~~lq~Sl 36 (153)
T KOG3048|consen 7 GIDLTKLSLEQLGALKKQFDQELNFLQDSL 36 (153)
T ss_pred CCChhhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 457889999999999999888777666554
No 65
>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=35.07 E-value=32 Score=28.33 Aligned_cols=25 Identities=20% Similarity=0.316 Sum_probs=20.5
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
+++-|..+|++.|++ +||.|+ |+.+
T Consensus 83 ~~l~G~n~~i~ayGqtGSGKT~Tm~G~~ 110 (356)
T cd01365 83 HAFEGYNVCLFAYGQTGSGKSYTMMGYK 110 (356)
T ss_pred HHhCCCceEEEEecCCCCCCeEEecCCC
Confidence 468999999999997 568887 7665
No 66
>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=34.31 E-value=34 Score=27.65 Aligned_cols=25 Identities=32% Similarity=0.448 Sum_probs=19.7
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
+++.|.++|+++|++ +||.|. |+++
T Consensus 73 ~~~~G~~~~i~~yG~tgSGKT~tl~G~~ 100 (328)
T cd00106 73 SVLEGYNGTIFAYGQTGSGKTYTMFGSP 100 (328)
T ss_pred HHhCCCceeEEEecCCCCCCeEEecCCC
Confidence 347799999999997 568887 6654
No 67
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=33.12 E-value=85 Score=21.95 Aligned_cols=23 Identities=26% Similarity=0.169 Sum_probs=18.5
Q ss_pred ceeccccccchhhhhhhhccccC
Q 030981 18 QVTFSKRRNGLLKKAFELSVLCD 40 (168)
Q Consensus 18 ~~tf~KRr~gL~KKa~ELs~LC~ 40 (168)
-.+|+|+|..++++-.+-.+-|.
T Consensus 4 ~~~~rk~R~~~y~~lgl~~vkC~ 26 (120)
T PF04521_consen 4 FRCVRKYRASVYKKLGLSAVKCR 26 (120)
T ss_pred hHHHHHHHHHHHHHcCCeeeeec
Confidence 35789999999999988777554
No 68
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=32.95 E-value=1.2e+02 Score=21.44 Aligned_cols=20 Identities=20% Similarity=0.399 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 030981 122 DELQQLENQLERSLSRIRAR 141 (168)
Q Consensus 122 ~eL~~Le~~Le~~l~~Vr~R 141 (168)
++-.+|-..-...++.+...
T Consensus 89 ~eYk~llk~y~~~~~~L~k~ 108 (126)
T PF09403_consen 89 DEYKELLKKYKDLLNKLDKE 108 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555554443
No 69
>PF14282 FlxA: FlxA-like protein
Probab=32.70 E-value=1.6e+02 Score=19.89 Aligned_cols=48 Identities=15% Similarity=0.225 Sum_probs=29.1
Q ss_pred HhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 93 ETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 93 e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
.+..|.+++..|...+..+... .+++.++-..-...|..-+..+....
T Consensus 20 ~I~~L~~Qi~~Lq~ql~~l~~~--~~~~~e~k~~q~q~Lq~QI~~LqaQI 67 (106)
T PF14282_consen 20 QIEQLQKQIKQLQEQLQELSQD--SDLDAEQKQQQIQLLQAQIQQLQAQI 67 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHcc--cCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444454555444444332 56688877777777777777777766
No 70
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=32.52 E-value=1.6e+02 Score=26.23 Aligned_cols=51 Identities=16% Similarity=0.196 Sum_probs=26.0
Q ss_pred HHHHhhhh--HHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 90 AKEETSNM--MTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 90 l~~e~~kL--~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
|......| +.+++.++.....+...++. ++.++.+....++.....+++-+
T Consensus 180 w~~~~~~Lp~~~~~~~yk~~v~~i~~~~ik--~p~~i~~~~~e~d~lk~e~~~~~ 232 (555)
T TIGR03545 180 WKKRKKDLPNKQDLEEYKKRLEAIKKKDIK--NPLELQKIKEEFDKLKKEGKADK 232 (555)
T ss_pred HHHHHHhcCCchhHHHHHHHHHHHHhccCC--CHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444 44555555555555554443 34455555556665555555443
No 71
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=32.44 E-value=24 Score=29.22 Aligned_cols=28 Identities=21% Similarity=0.305 Sum_probs=20.8
Q ss_pred hhhhhccccCcceeeeeecC--CCCccccc
Q 030981 31 KAFELSVLCDAEVALIIFSP--RGKLYEFS 58 (168)
Q Consensus 31 Ka~ELs~LC~~~v~~ivfsp--~gk~~~~~ 58 (168)
.+-.-++||||.++++.|+. +|-.|.|.
T Consensus 270 ~~v~ralLlGaQA~~~A~G~~~~~~~~~w~ 299 (341)
T PF13252_consen 270 VAVARALLLGAQALVIAFGKSGSGMRFFWV 299 (341)
T ss_pred cceeeeeeechhheeeeeeccCCCcccccc
Confidence 34566899999999999997 44455553
No 72
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, 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 domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=32.19 E-value=45 Score=22.57 Aligned_cols=15 Identities=7% Similarity=-0.035 Sum_probs=8.2
Q ss_pred hhhhccccCcceeee
Q 030981 32 AFELSVLCDAEVALI 46 (168)
Q Consensus 32 a~ELs~LC~~~v~~i 46 (168)
..|+|-+||+-+..|
T Consensus 3 i~e~a~~~gvs~~tl 17 (113)
T cd01109 3 IKEVAEKTGLSADTL 17 (113)
T ss_pred HHHHHHHHCcCHHHH
Confidence 456666666554443
No 73
>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=32.13 E-value=34 Score=18.02 Aligned_cols=19 Identities=32% Similarity=0.408 Sum_probs=13.5
Q ss_pred ceeeeeecCCCCccccccc
Q 030981 42 EVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 42 ~v~~ivfsp~gk~~~~~sp 60 (168)
.-.-..|||+|+-..|++.
T Consensus 10 ~~~~p~~SpDGk~i~f~s~ 28 (39)
T PF07676_consen 10 DDGSPAWSPDGKYIYFTSN 28 (39)
T ss_dssp SEEEEEE-TTSSEEEEEEE
T ss_pred cccCEEEecCCCEEEEEec
Confidence 4455789999998888773
No 74
>PF12165 DUF3594: Domain of unknown function (DUF3594); InterPro: IPR021998 This presumed domain is functionally uncharacterised.This domain family is found in eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00628 from PFAM.
Probab=32.05 E-value=24 Score=24.97 Aligned_cols=33 Identities=36% Similarity=0.701 Sum_probs=23.7
Q ss_pred eccccccchhhhh----hhhccccCcce-eeeeec-CCC
Q 030981 20 TFSKRRNGLLKKA----FELSVLCDAEV-ALIIFS-PRG 52 (168)
Q Consensus 20 tf~KRr~gL~KKa----~ELs~LC~~~v-~~ivfs-p~g 52 (168)
-|+-||.||++-. .|+.-+||-+- .+-+|+ |+|
T Consensus 9 df~~RR~g~v~ALT~dve~Fy~~CDP~kenLCLYG~p~~ 47 (137)
T PF12165_consen 9 DFSGRRAGIVRALTTDVEEFYQQCDPEKENLCLYGHPDG 47 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCccccceEEecCCCC
Confidence 3889999998864 67889999665 344455 555
No 75
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.87 E-value=2.6e+02 Score=27.58 Aligned_cols=47 Identities=23% Similarity=0.229 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHHHHh
Q 030981 118 PCTIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKEKVI 166 (168)
Q Consensus 118 ~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~k~~ 166 (168)
+.++++|..-...++..+..++... ..+.++.+-+..+|..|+.++.
T Consensus 821 ~~s~~ele~ei~~~~~el~~l~~~~--e~l~~e~e~~~~eI~~Lq~ki~ 867 (1311)
T TIGR00606 821 DRTVQQVNQEKQEKQHELDTVVSKI--ELNRKLIQDQQEQIQHLKSKTN 867 (1311)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 3588888887777777777775544 2233334455677777766654
No 76
>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=31.71 E-value=33 Score=27.03 Aligned_cols=28 Identities=21% Similarity=0.310 Sum_probs=23.3
Q ss_pred hhhccccCcceeeeeecCCCCccccccc
Q 030981 33 FELSVLCDAEVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 33 ~ELs~LC~~~v~~ivfsp~gk~~~~~sp 60 (168)
.+|.-.+|++|+|||+.+.|+++--+.+
T Consensus 133 ~~l~~~~g~~v~VIItDt~gr~~R~G~~ 160 (243)
T TIGR01916 133 RGLRELTGVDVGVIITDTNGRPFREGQV 160 (243)
T ss_pred HHHHHHHCCCEEEEEECCCCCccccCCC
Confidence 3566678999999999999998877665
No 77
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=31.00 E-value=1.2e+02 Score=18.46 Aligned_cols=28 Identities=18% Similarity=0.211 Sum_probs=21.9
Q ss_pred hhhhHHHHHHhhhhHHHHHHHHHHHHHh
Q 030981 84 EDHSQHAKEETSNMMTKLEFLEVAKRKL 111 (168)
Q Consensus 84 ~~~~~~l~~e~~kL~~~~e~l~~~~r~~ 111 (168)
...++-|+..+..|..++..++.++..+
T Consensus 13 rEEVevLK~~I~eL~~~n~~Le~EN~~L 40 (59)
T PF01166_consen 13 REEVEVLKEQIAELEERNSQLEEENNLL 40 (59)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3557788899999999998888876543
No 78
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=30.46 E-value=5.1e+02 Score=25.12 Aligned_cols=26 Identities=23% Similarity=0.331 Sum_probs=14.5
Q ss_pred eeecCCCCccc-ccccchhhHHHHhhhc
Q 030981 46 IIFSPRGKLYE-FSSCSINKTIERYQKK 72 (168)
Q Consensus 46 ivfsp~gk~~~-~~spsv~~il~ry~~~ 72 (168)
=||.|.|-+.- +.+++.. +|..++.+
T Consensus 653 DV~dP~GtlTGGs~~~~a~-~L~~l~~l 679 (1174)
T KOG0933|consen 653 DVYDPSGTLTGGSRSKGAD-LLRQLQKL 679 (1174)
T ss_pred ceeCCCCcccCCCCCCccc-HHHHHHHH
Confidence 36788886664 3344444 55555444
No 79
>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=30.01 E-value=17 Score=30.25 Aligned_cols=38 Identities=37% Similarity=0.415 Sum_probs=0.0
Q ss_pred cchhhhhhhhccccCcceee-eeecCCCCcccccccchh
Q 030981 26 NGLLKKAFELSVLCDAEVAL-IIFSPRGKLYEFSSCSIN 63 (168)
Q Consensus 26 ~gL~KKa~ELs~LC~~~v~~-ivfsp~gk~~~~~spsv~ 63 (168)
.|++|=+.=..-+|+|..+| -+.+..||+-+|+||++.
T Consensus 54 d~ilkym~~~m~~~n~~gfvy~~~~~~~k~~~~~s~slr 92 (354)
T PF04873_consen 54 DGILKYMFPEMELCNAPGFVYTIISSSGKPVEGVSPSLR 92 (354)
T ss_dssp ---------------------------------------
T ss_pred hHHHHhhccccccccCceeeecCCCCCCCccCCcCCccc
Confidence 45555557778899999998 788899999999999876
No 80
>PF06020 Roughex: Drosophila roughex protein; InterPro: IPR009259 This family consists of several roughex (RUX) proteins specific to Drosophila species. Roughex can influence the intracellular distribution of cyclin A and is therefore defined as a distinct and specialised cell cycle inhibitor for cyclin A-dependent kinase activity []. Rux is though to regulate the metaphase to anaphase transition during development [].
Probab=29.83 E-value=25 Score=28.45 Aligned_cols=16 Identities=13% Similarity=0.331 Sum_probs=13.1
Q ss_pred ccccCcceeeeeecCC
Q 030981 36 SVLCDAEVALIIFSPR 51 (168)
Q Consensus 36 s~LC~~~v~~ivfsp~ 51 (168)
.-+||++|||+||--.
T Consensus 183 ~~~~~~EICLavYek~ 198 (334)
T PF06020_consen 183 GQVSGFEICLAVYEKG 198 (334)
T ss_pred CccccceEEeeehhhh
Confidence 4579999999999754
No 81
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=29.82 E-value=4.1e+02 Score=24.58 Aligned_cols=59 Identities=14% Similarity=0.269 Sum_probs=34.2
Q ss_pred eeEecCCCCcc--eecc---ccc--------cchhhhhhhhccccCcceeeeeecCCCCcccccccchhhHHHHhhhc
Q 030981 8 MKRIENATSRQ--VTFS---KRR--------NGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSINKTIERYQKK 72 (168)
Q Consensus 8 i~~I~n~~~R~--~tf~---KRr--------~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~ 72 (168)
|.-|.+.+.|. +.|- ||. +.|+|+- .|-+-.. +-+++|+++|+|.. -++.++|..|..+
T Consensus 291 i~~~~d~s~~~~~~r~~i~~k~~~~~~~~~~~~l~k~t-~l~~~~~--~n~~~~d~~~~p~~---~~l~~il~~f~~~ 362 (742)
T PRK05561 291 IADVRDESDRENPVRIVIEPKSNRVDPEALMNHLFATT-DLESSYR--VNMNAIGLDGRPRV---KGLKEILSEWLDH 362 (742)
T ss_pred cccceeccCCCCCEEEEEEECCCcCCHHHHHHHHHHhc-Ccceeee--eeEEEEccCCEEEE---CCHHHHHHHHHHH
Confidence 55566777776 4442 333 2445332 2222222 26788888888643 3788899888764
No 82
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=29.75 E-value=1.8e+02 Score=19.60 Aligned_cols=14 Identities=7% Similarity=0.204 Sum_probs=9.4
Q ss_pred ccchhhHHHHhhhc
Q 030981 59 SCSINKTIERYQKK 72 (168)
Q Consensus 59 spsv~~il~ry~~~ 72 (168)
+|.+..++..|...
T Consensus 2 ~~~~q~~~~~~q~~ 15 (110)
T TIGR02338 2 PPQVQNQLAQLQQL 15 (110)
T ss_pred CHHHHHHHHHHHHH
Confidence 45677777777664
No 83
>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=29.47 E-value=30 Score=28.06 Aligned_cols=24 Identities=33% Similarity=0.553 Sum_probs=18.3
Q ss_pred ccccCcceeeeeecCC--CCccc-ccc
Q 030981 36 SVLCDAEVALIIFSPR--GKLYE-FSS 59 (168)
Q Consensus 36 s~LC~~~v~~ivfsp~--gk~~~-~~s 59 (168)
+++-|..+|++.|+++ ||.|+ |++
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 4678999999999974 68886 665
No 84
>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=28.45 E-value=49 Score=27.00 Aligned_cols=25 Identities=20% Similarity=0.236 Sum_probs=20.1
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
+++-|..+|++.|++ +||.|+ |+.+
T Consensus 76 ~~~~G~n~~i~ayG~tgSGKTyTm~G~~ 103 (333)
T cd01371 76 SVLEGYNGTIFAYGQTGTGKTFTMEGVR 103 (333)
T ss_pred HHhCCCceeEEecCCCCCCCcEeecCCC
Confidence 678999999999996 568887 6643
No 85
>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=28.42 E-value=39 Score=24.99 Aligned_cols=24 Identities=21% Similarity=0.311 Sum_probs=18.6
Q ss_pred cccCcceeeeeecCC--CCccc-cccc
Q 030981 37 VLCDAEVALIIFSPR--GKLYE-FSSC 60 (168)
Q Consensus 37 ~LC~~~v~~ivfsp~--gk~~~-~~sp 60 (168)
++.|-++|+++|+++ ||-|. |+.+
T Consensus 19 ~~~G~n~~i~~yG~tGsGKT~Tm~G~~ 45 (186)
T cd01363 19 ALDGYNVCIFAYGQTGSGKTYTMEGKR 45 (186)
T ss_pred HhCCcceeEEEECCCCCcceEecCCCC
Confidence 467899999999975 68776 5544
No 86
>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=27.99 E-value=86 Score=18.32 Aligned_cols=27 Identities=30% Similarity=0.445 Sum_probs=14.9
Q ss_pred CCCCCCHHHHHHH----HHHHHHHHHHHHHh
Q 030981 115 GLEPCTIDELQQL----ENQLERSLSRIRAR 141 (168)
Q Consensus 115 ~l~~Ls~~eL~~L----e~~Le~~l~~Vr~R 141 (168)
.+..+|.+||... ...++.-+..+|.|
T Consensus 4 fLk~ls~~eL~~rl~~LD~~ME~Eieelr~R 34 (49)
T PF11629_consen 4 FLKFLSYEELQQRLASLDPEMEQEIEELRQR 34 (49)
T ss_dssp GGGGS-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhCCHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 3566778877764 34444455555554
No 87
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=27.80 E-value=85 Score=15.30 Aligned_cols=16 Identities=19% Similarity=0.216 Sum_probs=8.8
Q ss_pred HhhhhHHHHHHHHHHH
Q 030981 93 ETSNMMTKLEFLEVAK 108 (168)
Q Consensus 93 e~~kL~~~~e~l~~~~ 108 (168)
++..++.+|.+|+.++
T Consensus 2 E~~rlr~rI~dLer~L 17 (23)
T PF04508_consen 2 EMNRLRNRISDLERQL 17 (23)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3455566666666543
No 88
>PRK14625 hypothetical protein; Provisional
Probab=27.65 E-value=2.1e+02 Score=19.64 Aligned_cols=67 Identities=7% Similarity=0.061 Sum_probs=44.9
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHHh---------------hCC--------CCCCCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 030981 88 QHAKEETSNMMTKLEFLEVAKRKL---------------LGD--------GLEPCTIDELQQLENQLERSLSRIRARKFR 144 (168)
Q Consensus 88 ~~l~~e~~kL~~~~e~l~~~~r~~---------------~ge--------~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK~~ 144 (168)
..+-.+...++++++.++.++... .|. +.+-++.+|..-|+..+-.+.+....+-
T Consensus 5 ~~mmkqaq~mQ~km~~~Q~el~~~~v~g~sggG~VkV~~~G~~~v~~I~Idp~ll~~eD~e~LeDLI~aA~NdA~~k~-- 82 (109)
T PRK14625 5 GGLMKQAQAMQQKLADAQARLAETTVEGTSGGGMVTVTLMGNGELVRVLMDESLVQPGEGEVIADLIVAAHADAKKKL-- 82 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEEEEECCCeEEEEEecCceEEEEEECHHHcCCccHHHHHHHHHHHHHHHHHHH--
Confidence 344455666777777777666542 121 1234677788889999999999888888
Q ss_pred ccccchhHHHHHHHHHHH
Q 030981 145 NLVFSQNQLFREQIEKLK 162 (168)
Q Consensus 145 ~~~~~~~~ll~~~i~~l~ 162 (168)
++...++++.+.
T Consensus 83 ------~~~~~~~m~~~t 94 (109)
T PRK14625 83 ------DAKQAQLMQEAA 94 (109)
T ss_pred ------HHHHHHHHHHHh
Confidence 777777666543
No 89
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=27.30 E-value=1.2e+02 Score=18.58 Aligned_cols=25 Identities=16% Similarity=0.158 Sum_probs=14.0
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHh
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKL 111 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~ 111 (168)
+..++.++..++.+++.++.+...+
T Consensus 26 i~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 26 IAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455566666666666665554443
No 90
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=27.14 E-value=4.1e+02 Score=22.93 Aligned_cols=42 Identities=14% Similarity=0.253 Sum_probs=27.0
Q ss_pred cchhhhhhhhccccCcceeeeeecCCCCcccccccchhhHHHHhhhc
Q 030981 26 NGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSINKTIERYQKK 72 (168)
Q Consensus 26 ~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~ 72 (168)
++|+|+- .|.+- .-+-+++|+++|++..|. ++.+||..|..+
T Consensus 285 ~~L~k~~-~L~~~--~~~Nm~~~d~~g~~~~~~--~~~~Il~~f~~~ 326 (439)
T PHA02592 285 EKIMKDF-GLIER--VSQNITVINENGKLKVYE--NAEDLIRDFVEI 326 (439)
T ss_pred HHHHHhc-Cchhe--eeeeEEEEecCCeeeecC--CHHHHHHHHHHH
Confidence 3566543 23222 236678899999888774 557888887653
No 91
>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=26.28 E-value=70 Score=21.18 Aligned_cols=36 Identities=11% Similarity=0.076 Sum_probs=27.1
Q ss_pred ccCcceeeeeecCCC-Cccccccc-chhhHHHHhhhcc
Q 030981 38 LCDAEVALIIFSPRG-KLYEFSSC-SINKTIERYQKKT 73 (168)
Q Consensus 38 LC~~~v~~ivfsp~g-k~~~~~sp-sv~~il~ry~~~~ 73 (168)
+|..+--|.|+.|+| -.|....| .+.+|++.+...+
T Consensus 44 ~C~~ePlV~V~~p~g~v~Y~~V~~edv~~Iv~~~~~~~ 81 (92)
T cd03063 44 MYWLEPLVEVETPGGRVAYGPVTPADVASLLDAGALEG 81 (92)
T ss_pred ecCCCCEEEEEeCCCcEEEEeCCHHHHHHHHHHHhhcC
Confidence 588888888887888 45555556 6899999887643
No 92
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=26.21 E-value=41 Score=30.32 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=19.6
Q ss_pred ccccCcceeeeeecCCCCcccc
Q 030981 36 SVLCDAEVALIIFSPRGKLYEF 57 (168)
Q Consensus 36 s~LC~~~v~~ivfsp~gk~~~~ 57 (168)
|||.|+-++||+|.++|..+.+
T Consensus 374 ~VLsgvtaGVi~~d~~g~i~t~ 395 (712)
T COG5000 374 AVLSGLTAGVIGFDNRGCITTV 395 (712)
T ss_pred HHHhcCceeEEEEcCCCeeEee
Confidence 5999999999999999987764
No 93
>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=25.86 E-value=65 Score=18.46 Aligned_cols=24 Identities=17% Similarity=0.436 Sum_probs=18.5
Q ss_pred eeecCCCCccccccc-chhhHHHHh
Q 030981 46 IIFSPRGKLYEFSSC-SINKTIERY 69 (168)
Q Consensus 46 ivfsp~gk~~~~~sp-sv~~il~ry 69 (168)
.||=|+|..++|+.+ ++.+++...
T Consensus 2 ~~~~~~g~~~~~~~~~t~~~~~~~~ 26 (60)
T cd01668 2 YVFTPKGEIIELPAGATVLDFAYAI 26 (60)
T ss_pred EEECCCCCEEEcCCCCCHHHHHHHH
Confidence 578899999999876 677777643
No 94
>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=25.82 E-value=51 Score=26.72 Aligned_cols=24 Identities=21% Similarity=0.277 Sum_probs=19.2
Q ss_pred cccCcceeeeeecC--CCCccc-cccc
Q 030981 37 VLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 37 ~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
++-|..++++.|++ +||.|. |+.+
T Consensus 72 ~~~G~n~~i~ayG~tgSGKT~Tm~G~~ 98 (325)
T cd01369 72 VLNGYNGTIFAYGQTGSGKTYTMEGPP 98 (325)
T ss_pred HHcCccceEEEeCCCCCCceEEecCCC
Confidence 57899999999996 568887 5554
No 95
>PLN03194 putative disease resistance protein; Provisional
Probab=25.81 E-value=41 Score=25.44 Aligned_cols=30 Identities=23% Similarity=0.297 Sum_probs=22.7
Q ss_pred cCcceeeeeecCCCCcccccccchhhHHHH
Q 030981 39 CDAEVALIIFSPRGKLYEFSSCSINKTIER 68 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~~~spsv~~il~r 68 (168)
=.+.++||||||+=--..||-..+..|++.
T Consensus 79 eeSri~IvVfS~~Ya~S~WCLdEL~~I~e~ 108 (187)
T PLN03194 79 RNCKVGVAVFSPRYCESYFCLHELALIMES 108 (187)
T ss_pred HhCeEEEEEECCCcccchhHHHHHHHHHHc
Confidence 467899999999765566777777777764
No 96
>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=25.73 E-value=57 Score=26.81 Aligned_cols=25 Identities=24% Similarity=0.307 Sum_probs=20.2
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
.++-|..++++.|++ +||.|+ |+.+
T Consensus 83 ~~l~G~n~ti~aYGqtGSGKTyTm~G~~ 110 (345)
T cd01368 83 DLLKGKNSLLFTYGVTNSGKTYTMQGSP 110 (345)
T ss_pred HHhCCCceEEEEeCCCCCCCeEEecCCC
Confidence 467899999999997 568887 7665
No 97
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=25.59 E-value=1.3e+02 Score=24.12 Aligned_cols=34 Identities=24% Similarity=0.352 Sum_probs=27.5
Q ss_pred HHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 109 RKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 109 r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
.++.-+.+.+|+++||.+|-..|-..+..|-+--
T Consensus 209 ~~~SrEeL~~Mt~~EL~qL~~~L~~qIq~vfeeL 242 (285)
T PF06937_consen 209 PHYSREELNSMTLDELKQLNEKLLQQIQDVFEEL 242 (285)
T ss_pred cccCHHHhhhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455678899999999999999888877777666
No 98
>KOG0182 consensus 20S proteasome, regulatory subunit alpha type PSMA6/SCL1 [Posttranslational modification, protein turnover, chaperones]
Probab=25.46 E-value=41 Score=26.06 Aligned_cols=18 Identities=39% Similarity=0.822 Sum_probs=15.1
Q ss_pred cCcceeeeeecCCCCccc
Q 030981 39 CDAEVALIIFSPRGKLYE 56 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~ 56 (168)
.|-|-.+.||||.|++|.
T Consensus 7 agfDrhitIFspeGrLyQ 24 (246)
T KOG0182|consen 7 AGFDRHITIFSPEGRLYQ 24 (246)
T ss_pred CCccceEEEECCCceEEe
Confidence 466778899999999985
No 99
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=25.35 E-value=2.1e+02 Score=20.45 Aligned_cols=34 Identities=18% Similarity=0.287 Sum_probs=22.4
Q ss_pred cCcceeeeeec--CCCCccc---ccc-cchhhHHHHhhhc
Q 030981 39 CDAEVALIIFS--PRGKLYE---FSS-CSINKTIERYQKK 72 (168)
Q Consensus 39 C~~~v~~ivfs--p~gk~~~---~~s-psv~~il~ry~~~ 72 (168)
||.-..+.++. ++|+||. |-+ |.+...++|....
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 55555555554 5788875 555 7788888887654
No 100
>PRK09458 pspB phage shock protein B; Provisional
Probab=25.31 E-value=1.8e+02 Score=18.61 Aligned_cols=23 Identities=17% Similarity=0.284 Sum_probs=17.3
Q ss_pred hhhHHHHHHhhhhHHHHHHHHHH
Q 030981 85 DHSQHAKEETSNMMTKLEFLEVA 107 (168)
Q Consensus 85 ~~~~~l~~e~~kL~~~~e~l~~~ 107 (168)
+..+.+-....+++++++.+|.-
T Consensus 42 ~~L~~L~~~A~rm~~RI~tLE~I 64 (75)
T PRK09458 42 QRLAQLTEKAERMRERIQALEAI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666778888888888888853
No 101
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=25.26 E-value=60 Score=24.33 Aligned_cols=53 Identities=11% Similarity=0.185 Sum_probs=36.0
Q ss_pred cccchhhhhhhhccccCcceeeeeecCCC----Ccccccc-cchhhHHHHhhhccccc
Q 030981 24 RRNGLLKKAFELSVLCDAEVALIIFSPRG----KLYEFSS-CSINKTIERYQKKTKDI 76 (168)
Q Consensus 24 Rr~gL~KKa~ELs~LC~~~v~~ivfsp~g----k~~~~~s-psv~~il~ry~~~~~~~ 76 (168)
|..-++++..++...|..=...|.-.|.. ..|.+-+ |++.+++++|.......
T Consensus 95 ~~~~~~~~~~~~~~~~~~I~~~v~~~P~~l~~a~~Fl~~yLp~~~~l~~kY~~l~~~~ 152 (199)
T PF10112_consen 95 RDLEMIEKVSRIEKIARRIFKYVEKDPERLTQARKFLYYYLPTAVKLLEKYAELESQP 152 (199)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHCHHhHHHHHHHHHHHhhHHHHHHHHHHHHHhcc
Confidence 44456777777777777666666666743 2333333 89999999999976643
No 102
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=25.13 E-value=2.1e+02 Score=19.02 Aligned_cols=79 Identities=8% Similarity=0.055 Sum_probs=39.0
Q ss_pred hhhhccccCcceeeee-------ecCCCC-cccccccc-hhhHHHHhhhcccccccCCcchhhhhHHHHHHhhhhHHHHH
Q 030981 32 AFELSVLCDAEVALII-------FSPRGK-LYEFSSCS-INKTIERYQKKTKDIGINSKIVEDHSQHAKEETSNMMTKLE 102 (168)
Q Consensus 32 a~ELs~LC~~~v~~iv-------fsp~gk-~~~~~sps-v~~il~ry~~~~~~~~~~~~~~~~~~~~l~~e~~kL~~~~e 102 (168)
..|||..||++...|. +.|.+. +-.|..++ .-.++.+...+..+-.-+-.. -.-+-.|-.++..|++++.
T Consensus 10 ~~Elc~~~gi~~~~l~eLve~GlIep~~~~~~~~~F~~~~l~r~~~a~rL~~dl~in~~g-ialvl~LLd~i~~Lr~el~ 88 (101)
T PRK10265 10 ITEFCLHTGVSEEELNEIVGLGVIEPREIQETTWVFDDHAAIVVQRAVRLRHELALDWPG-IAVALTLLDEIAHLKQENR 88 (101)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCeecCCCCcccceECHHHHHHHHHHHHHHHHcCCCHHH-HHHHHHHHHHHHHHHHHHH
Confidence 4688889998766542 234332 23333332 233344444443322211100 1224456667777777777
Q ss_pred HHHHHHHHh
Q 030981 103 FLEVAKRKL 111 (168)
Q Consensus 103 ~l~~~~r~~ 111 (168)
.++..++.+
T Consensus 89 ~L~~~l~~~ 97 (101)
T PRK10265 89 LLRQRLSRF 97 (101)
T ss_pred HHHHHHHHH
Confidence 776655443
No 103
>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=25.00 E-value=57 Score=20.45 Aligned_cols=28 Identities=18% Similarity=0.425 Sum_probs=18.2
Q ss_pred cCcceeeeeecCCCCccccccc-chhhHHHHh
Q 030981 39 CDAEVALIIFSPRGKLYEFSSC-SINKTIERY 69 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~~~sp-sv~~il~ry 69 (168)
|+--.+++| +|..|...+| .+.+|++.|
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 665555665 3677777776 677777654
No 104
>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=24.94 E-value=65 Score=26.13 Aligned_cols=23 Identities=22% Similarity=0.397 Sum_probs=18.7
Q ss_pred cccCcceeeeeecC--CCCccc-ccc
Q 030981 37 VLCDAEVALIIFSP--RGKLYE-FSS 59 (168)
Q Consensus 37 ~LC~~~v~~ivfsp--~gk~~~-~~s 59 (168)
++-|..+|+++|++ +||.|. |++
T Consensus 75 ~~~G~~~~i~~yG~tgSGKT~tl~G~ 100 (335)
T smart00129 75 VLEGYNATIFAYGQTGSGKTYTMSGT 100 (335)
T ss_pred HhcCCceeEEEeCCCCCCCceEecCC
Confidence 57899999999997 568886 655
No 105
>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=24.88 E-value=59 Score=26.34 Aligned_cols=24 Identities=25% Similarity=0.376 Sum_probs=19.2
Q ss_pred ccccCcceeeeeecC--CCCccc-ccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSS 59 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~s 59 (168)
+++-|..+|++.|++ +||.|. |+.
T Consensus 72 ~~~~G~~~~i~ayG~tgSGKT~tl~G~ 98 (329)
T cd01366 72 SALDGYNVCIFAYGQTGSGKTYTMEGP 98 (329)
T ss_pred HHhCCCceEEEEeCCCCCCCcEEecCC
Confidence 467899999999997 568886 555
No 106
>COG3938 Proline racemase [Amino acid transport and metabolism]
Probab=24.68 E-value=63 Score=26.46 Aligned_cols=23 Identities=39% Similarity=0.442 Sum_probs=20.0
Q ss_pred cCcceeeeeecCCCCcccccccc
Q 030981 39 CDAEVALIIFSPRGKLYEFSSCS 61 (168)
Q Consensus 39 C~~~v~~ivfsp~gk~~~~~sps 61 (168)
-||++|+|++-|+|-++-.+|.+
T Consensus 73 pda~aa~ii~eps~~~pMsGsnt 95 (341)
T COG3938 73 PDADAAVIIMEPSGCLPMSGSNT 95 (341)
T ss_pred CCccEEEEEEccCCCCCcCCCCc
Confidence 48999999999999888888863
No 107
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=24.50 E-value=1.7e+02 Score=21.62 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=13.9
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHH
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKR 109 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r 109 (168)
.+.++.++..|+++++.|+.++.
T Consensus 106 ~~~l~~e~~~l~~~~e~Le~e~~ 128 (161)
T TIGR02894 106 NERLKNQNESLQKRNEELEKELE 128 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666666666543
No 108
>PRK10884 SH3 domain-containing protein; Provisional
Probab=24.46 E-value=3.3e+02 Score=20.86 Aligned_cols=19 Identities=11% Similarity=0.267 Sum_probs=9.8
Q ss_pred hHHHHHHhhhhHHHHHHHH
Q 030981 87 SQHAKEETSNMMTKLEFLE 105 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~ 105 (168)
+..++.++..++.++..+.
T Consensus 95 lp~le~el~~l~~~l~~~~ 113 (206)
T PRK10884 95 VPDLENQVKTLTDKLNNID 113 (206)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555555555554443
No 109
>PRK10132 hypothetical protein; Provisional
Probab=24.28 E-value=2.4e+02 Score=19.25 Aligned_cols=51 Identities=18% Similarity=0.198 Sum_probs=33.9
Q ss_pred hhhhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 84 EDHSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 84 ~~~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
+.+.+.+..++..|-...+.+-. ...+-+-+++..+-..++..|...|++-
T Consensus 11 ~~q~e~L~~Dl~~L~~~le~ll~--------~~~~~~~~~~~~lR~r~~~~L~~ar~~l 61 (108)
T PRK10132 11 DDGVQDIQNDVNQLADSLESVLK--------SWGSDAKGEAEAARRKAQALLKETRARM 61 (108)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH--------HHhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666555544322 2244566788899999999999988776
No 110
>PRK14627 hypothetical protein; Provisional
Probab=24.03 E-value=2.3e+02 Score=18.97 Aligned_cols=37 Identities=22% Similarity=0.344 Sum_probs=28.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHH
Q 030981 117 EPCTIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKL 161 (168)
Q Consensus 117 ~~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l 161 (168)
+-++.+|..-|+..|-.+++....+- .+...+++..+
T Consensus 56 ~ll~~ed~e~LeDLI~aA~N~A~~k~--------~~~~~~~m~~~ 92 (100)
T PRK14627 56 EVVDPDDVEMLQDLLLVAINDASRKA--------QQLAEERMQPL 92 (100)
T ss_pred HHcCcccHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHH
Confidence 34667788889999999988888888 77766666554
No 111
>PF04697 Pinin_SDK_N: pinin/SDK conserved region; InterPro: IPR006787 This conserved region is found at the N-terminal of the member proteins. It is located adjacent and N-terminal to the pinin/SKD/memA domain IPR006786 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque [, ]. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=23.89 E-value=1.6e+02 Score=20.96 Aligned_cols=36 Identities=11% Similarity=0.095 Sum_probs=28.2
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHH
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTID 122 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~ 122 (168)
+..|+.++.+.++.+..+...++++.|.+.++.-.-
T Consensus 5 v~~Lq~qlE~Ake~Lk~vDenIkKltGRDp~e~rp~ 40 (134)
T PF04697_consen 5 VRTLQAQLEKAKESLKNVDENIKKLTGRDPSENRPG 40 (134)
T ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHhCCCccccCcc
Confidence 456788888888888888999999999876655443
No 112
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=23.87 E-value=2.4e+02 Score=19.20 Aligned_cols=48 Identities=21% Similarity=0.216 Sum_probs=32.9
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
++.+..++..|-...+.+-. .-.+.+-+++..|...++..|+.+|.|-
T Consensus 10 ~~~l~~el~~L~d~lEevL~--------ssg~~a~~e~~~lR~r~~~~Lk~~r~rl 57 (104)
T COG4575 10 IDQLLAELQELLDTLEEVLK--------SSGSLAGDEAEELRSKAESALKEARDRL 57 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHH--------hcccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 35556555555444433322 2256778899999999999999999887
No 113
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=23.52 E-value=77 Score=28.73 Aligned_cols=47 Identities=21% Similarity=0.294 Sum_probs=37.7
Q ss_pred cchhhhhhhhccccCcceeeeeecCCCCcccccccchhhHHHHhhhcc
Q 030981 26 NGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCSINKTIERYQKKT 73 (168)
Q Consensus 26 ~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~spsv~~il~ry~~~~ 73 (168)
.++|++|.||++=--+.+.++=||... |+..+.|.|...|--|..-+
T Consensus 446 ~e~i~t~~elTvgDtsp~~L~EySEe~-P~~Lsn~GMas~l~nYYRK~ 492 (968)
T COG5179 446 QEIIKTAGELTVGDTSPFSLFEYSEEE-PFFLSNPGMASLLNNYYRKS 492 (968)
T ss_pred hhhhccccceeccCCCceeeeeecccC-ceeecCchHHHHHHHHHHhc
Confidence 689999999999998999999998765 55566688887777765543
No 114
>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=23.46 E-value=2.9e+02 Score=19.97 Aligned_cols=53 Identities=19% Similarity=0.266 Sum_probs=34.0
Q ss_pred hhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 86 HSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 86 ~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
.+..++.++..++.++..++.++..+. ..++.+||......|..-+..+.+|-
T Consensus 80 ei~~L~~el~~l~~~~k~l~~eL~~L~----~~~t~~el~~~i~~l~~e~~~l~~kL 132 (169)
T PF07106_consen 80 EIKELREELAELKKEVKSLEAELASLS----SEPTNEELREEIEELEEEIEELEEKL 132 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh----cCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 355566666666666666666555544 44667777777777777776666666
No 115
>PTZ00366 Surface antigen (SAG) superfamily; Provisional
Probab=23.37 E-value=51 Score=27.92 Aligned_cols=35 Identities=26% Similarity=0.432 Sum_probs=27.3
Q ss_pred cceeccccccchhhhhhhhccccCcceeeeeecCCCC
Q 030981 17 RQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGK 53 (168)
Q Consensus 17 R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk 53 (168)
|...--.||-|+--||++|...| -.+|+.||.+--
T Consensus 3 r~~~~~~r~~g~~s~a~kl~avc--~~gvll~s~g~~ 37 (392)
T PTZ00366 3 RTGRMQQRRGGFRSKARKLMAVC--MGGVLLLSSGQA 37 (392)
T ss_pred cccchhhcccccccchhhhheee--eeeEEEecCchh
Confidence 44555679999999999999999 467777885543
No 116
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=23.02 E-value=2.3e+02 Score=25.46 Aligned_cols=41 Identities=22% Similarity=0.216 Sum_probs=32.0
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCCCHHHHHHH
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPCTIDELQQL 127 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~Ls~~eL~~L 127 (168)
.+.|......+..++..++.+...+-|++++--|++||..+
T Consensus 213 ~~~L~~l~~el~~~l~~le~eiy~laG~~FNi~SPKQL~~I 253 (593)
T COG0749 213 VQYLKELSKELGCELAELEEEIYELAGEEFNINSPKQLGEI 253 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHH
Confidence 45566666667778888888888888998888888888874
No 117
>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=23.02 E-value=67 Score=26.31 Aligned_cols=25 Identities=16% Similarity=0.263 Sum_probs=19.8
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
+++-|..+|++.|++ +||.|+ |+.+
T Consensus 82 ~~~~G~n~~i~ayGqtGSGKTyTm~G~~ 109 (338)
T cd01370 82 GVLNGYNATVFAYGATGAGKTHTMLGTD 109 (338)
T ss_pred HHHCCCCceEEeeCCCCCCCeEEEcCCC
Confidence 457899999999997 568887 5654
No 118
>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=22.50 E-value=47 Score=19.19 Aligned_cols=22 Identities=23% Similarity=0.581 Sum_probs=17.0
Q ss_pred hhhhhhhhccccCcceeeeeec
Q 030981 28 LLKKAFELSVLCDAEVALIIFS 49 (168)
Q Consensus 28 L~KKa~ELs~LC~~~v~~ivfs 49 (168)
|.+.+..-+=||+++..+.+|-
T Consensus 2 L~~Rs~~kCELC~a~~~L~vy~ 23 (47)
T smart00782 2 LLARCESKCELCGSDSPLVVYA 23 (47)
T ss_pred hhHHcCCcccCcCCCCCceEEe
Confidence 3445556688999999999986
No 119
>PRK14622 hypothetical protein; Provisional
Probab=22.41 E-value=2.6e+02 Score=18.89 Aligned_cols=66 Identities=8% Similarity=0.084 Sum_probs=42.5
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHh---------------hCC--------CCCCCCHHHHHHHHHHHHHHHHHHHHhhhcc
Q 030981 89 HAKEETSNMMTKLEFLEVAKRKL---------------LGD--------GLEPCTIDELQQLENQLERSLSRIRARKFRN 145 (168)
Q Consensus 89 ~l~~e~~kL~~~~e~l~~~~r~~---------------~ge--------~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~ 145 (168)
.+-.+..++++++..++.++... .|. +.+-+..+|..-|+..|-.+++....+-
T Consensus 5 ~lmkqaq~mQ~~m~~~q~el~~~~v~g~sggG~VkV~~nG~~~v~~i~Idp~~l~~ed~e~LeDLI~aA~N~A~~k~--- 81 (103)
T PRK14622 5 YLMRQAKKLEKAMADAKEKLAEIAVEAESGGGLVKVAMNGKCEVTRLTVDPKAVDPNDKAMLEDLVTAAVNAAVEKA--- 81 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccEEEEEECCceEEEEEEcCceEEEEEECHHHcCcccHHHHHHHHHHHHHHHHHHH---
Confidence 34445556666666666665442 121 1134566788888999999998888888
Q ss_pred cccchhHHHHHHHHHHH
Q 030981 146 LVFSQNQLFREQIEKLK 162 (168)
Q Consensus 146 ~~~~~~~ll~~~i~~l~ 162 (168)
.+...+++..+.
T Consensus 82 -----~~~~~~~m~~~t 93 (103)
T PRK14622 82 -----RTAADESMSKAT 93 (103)
T ss_pred -----HHHHHHHHHHHh
Confidence 777777666543
No 120
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=22.39 E-value=3.7e+02 Score=23.22 Aligned_cols=51 Identities=20% Similarity=0.248 Sum_probs=30.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHHHHh
Q 030981 115 GLEPCTIDELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKEKVI 166 (168)
Q Consensus 115 ~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~k~~ 166 (168)
.+...++++|.-=--+|++.+..=.+-. .|-||-..+.|..+-+.||+|.+
T Consensus 175 ~~kq~~leQLRre~V~lentlEQEqEal-vN~LwKrmdkLe~ekr~Lq~KlD 225 (552)
T KOG2129|consen 175 LLKQNTLEQLRREAVQLENTLEQEQEAL-VNSLWKRMDKLEQEKRYLQKKLD 225 (552)
T ss_pred HHhhhhHHHHHHHHHHHhhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566778877654444444444433333 34445556777788888888864
No 121
>COG4052 Uncharacterized protein related to methyl coenzyme M reductase subunit C [General function prediction only]
Probab=22.32 E-value=77 Score=25.06 Aligned_cols=40 Identities=28% Similarity=0.301 Sum_probs=26.3
Q ss_pred hhhhhhh------ccccCcceeeeeecCCCCccccccc--chhhHHHHhh
Q 030981 29 LKKAFEL------SVLCDAEVALIIFSPRGKLYEFSSC--SINKTIERYQ 70 (168)
Q Consensus 29 ~KKa~EL------s~LC~~~v~~ivfsp~gk~~~~~sp--sv~~il~ry~ 70 (168)
-+||.|| +-|.|.++|+| ||+=--+..|+| .+.+-|.||-
T Consensus 55 k~~A~ellG~i~~aPlaGtEIAvV--sptLarHHlPHsaCDiaEYLRr~G 102 (310)
T COG4052 55 KEKAGELLGKIIEAPLAGTEIAVV--SPTLARHHLPHSACDIAEYLRRPG 102 (310)
T ss_pred HHHHHHhhhhheecccCCceEEEe--ccchhhccCCCchhhHHHHHhccC
Confidence 4577776 67999999987 676555566665 4444444443
No 122
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=22.29 E-value=63 Score=25.53 Aligned_cols=28 Identities=21% Similarity=0.263 Sum_probs=22.6
Q ss_pred hhhccccCcceeeeeecCCCCccccccc
Q 030981 33 FELSVLCDAEVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 33 ~ELs~LC~~~v~~ivfsp~gk~~~~~sp 60 (168)
.+|.-.||++|+|||....|+++-.+..
T Consensus 134 ~~l~~~~g~~v~VIItDt~gr~~R~G~t 161 (245)
T PRK13293 134 EGLEELTGKKVGVIITDTNGRPFRKGQR 161 (245)
T ss_pred HHHHHHHCCCEEEEEEcCCCcccccCCc
Confidence 3456678999999999999988876654
No 123
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=22.21 E-value=61 Score=23.35 Aligned_cols=25 Identities=20% Similarity=0.262 Sum_probs=19.3
Q ss_pred hccccCcceeeeeecCCCCcccccc
Q 030981 35 LSVLCDAEVALIIFSPRGKLYEFSS 59 (168)
Q Consensus 35 Ls~LC~~~v~~ivfsp~gk~~~~~s 59 (168)
+++-||||+-++|.+.+.....||+
T Consensus 58 i~ta~dad~V~ll~dat~~~~~~pP 82 (143)
T PF10662_consen 58 IVTAQDADVVLLLQDATEPRSVFPP 82 (143)
T ss_pred HHHHhhCCEEEEEecCCCCCccCCc
Confidence 6788999999999998875444543
No 124
>PRK14626 hypothetical protein; Provisional
Probab=22.09 E-value=2.7e+02 Score=19.04 Aligned_cols=67 Identities=13% Similarity=0.147 Sum_probs=43.2
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHhh---------------CC--------CCCCCCHHHHHHHHHHHHHHHHHHHHhhh
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKLL---------------GD--------GLEPCTIDELQQLENQLERSLSRIRARKF 143 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~~---------------ge--------~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK~ 143 (168)
...+-.+..+++++++.++.++.... |. +.+-++.+|..-|+..|-.+++..-++-
T Consensus 7 ~~~mmkqaq~mQ~km~~~qeeL~~~~v~g~sggG~VkV~~nG~~ev~~i~Id~~ll~~ed~e~LeDLI~aA~N~A~~k~- 85 (110)
T PRK14626 7 LAELMKQMQSIKENVEKAKEELKKEEIVVEVGGGMVKVVSNGLGEIKDVEIDKSLLNEDEYEVLKDLLIAAFNEASRRS- 85 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccEEEEEecCcEEEEEEECCccEEEEEECHHHcCcccHHHHHHHHHHHHHHHHHHH-
Confidence 34455556666777777776665421 21 1134566777888888888888888887
Q ss_pred cccccchhHHHHHHHHHH
Q 030981 144 RNLVFSQNQLFREQIEKL 161 (168)
Q Consensus 144 ~~~~~~~~~ll~~~i~~l 161 (168)
.+...+++..+
T Consensus 86 -------~~~~~e~m~~~ 96 (110)
T PRK14626 86 -------KEVMGEKMTQA 96 (110)
T ss_pred -------HHHHHHHHHHH
Confidence 77766666543
No 125
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=22.05 E-value=3e+02 Score=20.58 Aligned_cols=35 Identities=26% Similarity=0.386 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccccchhHHHHHHHHHHHHHH
Q 030981 123 ELQQLENQLERSLSRIRARKFRNLVFSQNQLFREQIEKLKEKV 165 (168)
Q Consensus 123 eL~~Le~~Le~~l~~Vr~RK~~~~~~~~~~ll~~~i~~l~~k~ 165 (168)
++..|...|...+.+=.=-. -.++++||..|+.+.
T Consensus 137 ~I~~L~e~Lq~~i~~EefEe--------AA~iRDqIr~Lk~k~ 171 (176)
T COG3880 137 KIIALKEALQDLIEREEFEE--------AAVIRDQIRALKAKN 171 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhhc
Confidence 56666666665554433333 779999999999874
No 126
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=21.91 E-value=57 Score=22.89 Aligned_cols=26 Identities=23% Similarity=0.445 Sum_probs=17.8
Q ss_pred hhhhhhhhccccCcceeeeeecCCCCcc
Q 030981 28 LLKKAFELSVLCDAEVALIIFSPRGKLY 55 (168)
Q Consensus 28 L~KKa~ELs~LC~~~v~~ivfsp~gk~~ 55 (168)
++.|..+-+-- ++.|+|+|+|++-.+
T Consensus 40 iie~le~~~~~--~~faIvl~TpDD~~~ 65 (125)
T PF10137_consen 40 IIEKLEEAADS--VDFAIVLFTPDDIGY 65 (125)
T ss_pred hHHHHHHHhcc--CCEEEEEEccccccc
Confidence 45555555433 679999999987543
No 127
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=21.90 E-value=2e+02 Score=20.45 Aligned_cols=24 Identities=29% Similarity=0.459 Sum_probs=18.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Q 030981 117 EPCTIDELQQLENQLERSLSRIRA 140 (168)
Q Consensus 117 ~~Ls~~eL~~Le~~Le~~l~~Vr~ 140 (168)
+.|+++.|..|-.+|+.-...+..
T Consensus 49 e~Ms~~~l~~llkqLEkeK~~Le~ 72 (129)
T PF15372_consen 49 EQMSVESLNQLLKQLEKEKRSLEN 72 (129)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999988876655543
No 128
>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=21.79 E-value=76 Score=25.66 Aligned_cols=24 Identities=13% Similarity=0.195 Sum_probs=19.1
Q ss_pred cccCcceeeeeecC--CCCccc-cccc
Q 030981 37 VLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 37 ~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
++-|..+|++.|++ +||.|. |+++
T Consensus 69 ~l~G~n~~i~ayG~tgSGKT~T~~G~~ 95 (321)
T cd01374 69 ALEGYNGTIFAYGQTSSGKTFTMSGDE 95 (321)
T ss_pred HHCCCceeEEeecCCCCCCceeccCCC
Confidence 57899999999997 568887 6553
No 129
>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=21.67 E-value=80 Score=25.59 Aligned_cols=25 Identities=12% Similarity=0.275 Sum_probs=19.6
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
+++-|..+|++.|++ +||.|+ |+.+
T Consensus 75 ~~~~G~n~~i~ayG~tgSGKTyTm~G~~ 102 (319)
T cd01376 75 HLLSGQNATVFAYGSTGAGKTHTMLGDP 102 (319)
T ss_pred HHhCCCceEEEEECCCCCCCcEEEeCCc
Confidence 467799999999997 568887 5543
No 130
>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=21.58 E-value=1.3e+02 Score=24.08 Aligned_cols=29 Identities=21% Similarity=0.444 Sum_probs=24.7
Q ss_pred hCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 030981 112 LGDGLEPCTIDELQQLENQLERSLSRIRA 140 (168)
Q Consensus 112 ~ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~ 140 (168)
|-+.=-+||++|+..+|......|..+|.
T Consensus 230 W~DeW~gltmedIR~~E~~t~~~l~~~~~ 258 (258)
T cd08888 230 WLDKWHGLTMDDIRRMEDETKKELDEMRE 258 (258)
T ss_pred hHHHHcCCCHHHHHHHHHHHHHHHHHhhC
Confidence 44556689999999999999999998873
No 131
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=21.41 E-value=57 Score=27.71 Aligned_cols=47 Identities=21% Similarity=0.301 Sum_probs=39.0
Q ss_pred eeEecCCCCcceeccccccchhhhhhhhccccCcceeeeeecCCCCccccccc
Q 030981 8 MKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSC 60 (168)
Q Consensus 8 i~~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sp 60 (168)
|+.+.+...-..||.+++.| |++.+|+..+-+.+|-...-...|+.+
T Consensus 18 i~~~~d~~~ps~~~~~~~~~------~~~~~~~g~~~~~~~~~~~~~~~~~~~ 64 (412)
T COG5068 18 IQGDSDANIPSNTINRLSPG------ELSQQNDGKFDVMIFDSKHSVRVYSNE 64 (412)
T ss_pred cccccccCCccccccccCcc------cchhhccCCcccccccccccccccCCc
Confidence 67777888888899999999 999999998888887766666677775
No 132
>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=21.24 E-value=74 Score=25.84 Aligned_cols=25 Identities=16% Similarity=0.288 Sum_probs=19.7
Q ss_pred ccccCcceeeeeecC--CCCccc-cccc
Q 030981 36 SVLCDAEVALIIFSP--RGKLYE-FSSC 60 (168)
Q Consensus 36 s~LC~~~v~~ivfsp--~gk~~~-~~sp 60 (168)
+++.|..+|++.|++ +||.|+ |+++
T Consensus 79 ~~~~G~n~~i~ayGqtGSGKTyTm~G~~ 106 (322)
T cd01367 79 HVFEGGVATCFAYGQTGSGKTYTMLGDE 106 (322)
T ss_pred HHhCCCceEEEeccCCCCCCceEecCcC
Confidence 467899999999996 568887 6553
No 133
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=21.23 E-value=2.2e+02 Score=18.52 Aligned_cols=12 Identities=8% Similarity=0.188 Sum_probs=6.5
Q ss_pred CCCHHHHHHHHH
Q 030981 118 PCTIDELQQLEN 129 (168)
Q Consensus 118 ~Ls~~eL~~Le~ 129 (168)
+++++|+..+-.
T Consensus 57 G~~l~eI~~~l~ 68 (96)
T cd04788 57 GFSLREIGRALD 68 (96)
T ss_pred CCCHHHHHHHHh
Confidence 455666555543
No 134
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=21.13 E-value=2.4e+02 Score=25.71 Aligned_cols=28 Identities=14% Similarity=0.234 Sum_probs=24.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 115 GLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 115 ~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
+..++|.+.|.+|...|...-...+.|.
T Consensus 153 D~~dlsl~kLeelr~~L~~L~~ek~~Rl 180 (660)
T KOG4302|consen 153 DESDLSLEKLEELREHLNELQKEKSDRL 180 (660)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHH
Confidence 4568999999999999999988888888
No 135
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=21.04 E-value=7.8e+02 Score=23.98 Aligned_cols=26 Identities=23% Similarity=0.348 Sum_probs=18.8
Q ss_pred hhhhHHHHHHhhhhHHHHHHHHHHHH
Q 030981 84 EDHSQHAKEETSNMMTKLEFLEVAKR 109 (168)
Q Consensus 84 ~~~~~~l~~e~~kL~~~~e~l~~~~r 109 (168)
++.+++++.+...+++++-.++...+
T Consensus 660 d~~ie~le~e~~~l~~~~~~l~~~~~ 685 (1074)
T KOG0250|consen 660 DDEIEDLEREASRLQKEILELENQRR 685 (1074)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688888888888887766665443
No 136
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=20.98 E-value=1.5e+02 Score=22.06 Aligned_cols=13 Identities=31% Similarity=0.664 Sum_probs=10.3
Q ss_pred cCcceeeeeecCC
Q 030981 39 CDAEVALIIFSPR 51 (168)
Q Consensus 39 C~~~v~~ivfsp~ 51 (168)
.|+..|.|||-|+
T Consensus 11 ~~~k~C~IC~Kps 23 (182)
T PF08432_consen 11 TDAKACFICYKPS 23 (182)
T ss_pred CCCCceeEecCCC
Confidence 6788888888874
No 137
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=20.93 E-value=2.2e+02 Score=18.40 Aligned_cols=25 Identities=16% Similarity=0.141 Sum_probs=12.1
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHh
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKL 111 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~ 111 (168)
+..+......+.+++..++..++.+
T Consensus 78 i~~l~~~~~~l~~~l~~~~~~l~~~ 102 (106)
T PF01920_consen 78 IKKLEKQLKYLEKKLKELKKKLYEL 102 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444445555555555555444433
No 138
>COG1438 ArgR Arginine repressor [Transcription]
Probab=20.91 E-value=57 Score=23.76 Aligned_cols=19 Identities=16% Similarity=0.242 Sum_probs=15.3
Q ss_pred hhhccccCcceeeeeecCC
Q 030981 33 FELSVLCDAEVALIIFSPR 51 (168)
Q Consensus 33 ~ELs~LC~~~v~~ivfsp~ 51 (168)
.=|.|+||.|.++|++-..
T Consensus 118 eIlGTIaGdDTilVi~r~~ 136 (150)
T COG1438 118 EILGTIAGDDTILVICRSE 136 (150)
T ss_pred hhheeeeCCCeEEEEecCc
Confidence 4478999999999987543
No 139
>PF06717 DUF1202: Protein of unknown function (DUF1202); InterPro: IPR009592 This family consists of several hypothetical bacterial proteins of around 335 residues in length. Members of this family are found exclusively in Escherichia coli and Salmonella species and are often referred to as YggM proteins. The function of this family is unknown.
Probab=20.87 E-value=1.8e+02 Score=23.60 Aligned_cols=34 Identities=6% Similarity=0.049 Sum_probs=26.5
Q ss_pred hhHHHHHHhhhhHHHHHHHHHHHHHhhCCCCCCC
Q 030981 86 HSQHAKEETSNMMTKLEFLEVAKRKLLGDGLEPC 119 (168)
Q Consensus 86 ~~~~l~~e~~kL~~~~e~l~~~~r~~~ge~l~~L 119 (168)
.+..|++++..|.+++..++..+..+||.+-++-
T Consensus 153 ~I~~L~~qisaLdkqi~ai~Kkid~yWgkda~gk 186 (308)
T PF06717_consen 153 KIPGLNKQISALDKQIVAINKKIDRYWGKDANGK 186 (308)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC
Confidence 3566788888888888888888888999776553
No 140
>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=20.83 E-value=41 Score=25.80 Aligned_cols=16 Identities=44% Similarity=0.812 Sum_probs=12.4
Q ss_pred eeeeecCCCCccc--ccc
Q 030981 44 ALIIFSPRGKLYE--FSS 59 (168)
Q Consensus 44 ~~ivfsp~gk~~~--~~s 59 (168)
.+-+|||+|+++. |+.
T Consensus 4 ~~t~fsp~Grl~QveyA~ 21 (227)
T cd03750 4 SLTTFSPSGKLVQIEYAL 21 (227)
T ss_pred CCceECCCCeEhHHHHHH
Confidence 4568999999884 755
No 141
>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=20.82 E-value=67 Score=21.73 Aligned_cols=21 Identities=33% Similarity=0.605 Sum_probs=14.8
Q ss_pred hhhhccccCcceeeeeecCCCC
Q 030981 32 AFELSVLCDAEVALIIFSPRGK 53 (168)
Q Consensus 32 a~ELs~LC~~~v~~ivfsp~gk 53 (168)
|.+++.-++|. ++|||+.+|.
T Consensus 8 a~~~A~~~~ak-~Ivv~T~sG~ 28 (117)
T PF02887_consen 8 AVELAEDLNAK-AIVVFTESGR 28 (117)
T ss_dssp HHHHHHHHTES-EEEEE-SSSH
T ss_pred HHHHHHhcCCC-EEEEECCCch
Confidence 56677777765 6788999985
No 142
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=20.73 E-value=2.5e+02 Score=22.25 Aligned_cols=20 Identities=20% Similarity=0.270 Sum_probs=9.1
Q ss_pred HHHHHHhhhhHHHHHHHHHH
Q 030981 88 QHAKEETSNMMTKLEFLEVA 107 (168)
Q Consensus 88 ~~l~~e~~kL~~~~e~l~~~ 107 (168)
..|.++...++.+++++.++
T Consensus 207 d~L~keAe~i~~~lekl~eq 226 (244)
T COG1938 207 DKLEKEAEEIEEQLEKLAEQ 226 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444433
No 143
>PF12018 DUF3508: Domain of unknown function (DUF3508); InterPro: IPR021897 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 280 amino acids in length. This domain has two conserved sequence motifs: GFC and GLL. This family is also known as UPF0704.
Probab=20.70 E-value=61 Score=25.96 Aligned_cols=33 Identities=30% Similarity=0.584 Sum_probs=22.3
Q ss_pred eeccccccchhhhhhhhccccCcceeeeeecCCCCcccccccc
Q 030981 19 VTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSCS 61 (168)
Q Consensus 19 ~tf~KRr~gL~KKa~ELs~LC~~~v~~ivfsp~gk~~~~~sps 61 (168)
.||.+|. ||+ +--++.++++.| .|+.|.|+|++
T Consensus 210 ~tl~~~~-GLL-------lPG~p~~Gv~~~--~~k~y~F~s~~ 242 (281)
T PF12018_consen 210 WTLAERD-GLL-------LPGNPSIGVLKY--KDKYYAFSSRE 242 (281)
T ss_pred EEEeccC-cee-------ecCCCccceeEE--cCEEEEeCCHH
Confidence 4555553 643 455667777777 67899999984
No 144
>PF06729 CENP-R: Kinetochore component, CENP-R; InterPro: IPR009601 This family consists of mammalian nuclear receptor co-activator NRIF3 proteins. NRIF3 exhibits a distinct receptor specificity in interacting with and potentiating the activity of only TRs and RXRs but not other examined nuclear receptors. NRIF3 as a coregulator that possesses both transactivation and transrepression domains and/or functions. Collectively, the NRIF3 family of coregulators may play dual roles in mediating both positive and negative regulatory effects on gene expression [].
Probab=20.67 E-value=3.3e+02 Score=19.49 Aligned_cols=16 Identities=38% Similarity=0.665 Sum_probs=11.2
Q ss_pred eeeecC-CC--Cccccccc
Q 030981 45 LIIFSP-RG--KLYEFSSC 60 (168)
Q Consensus 45 ~ivfsp-~g--k~~~~~sp 60 (168)
+..||| +| .+..|+||
T Consensus 5 ~~~yspttgt~q~sp~sSp 23 (139)
T PF06729_consen 5 ITSYSPTTGTCQMSPFSSP 23 (139)
T ss_pred ccccCCCCCceeecCCCCC
Confidence 567998 45 45568887
No 145
>PF13082 DUF3931: Protein of unknown function (DUF3931)
Probab=20.60 E-value=43 Score=19.86 Aligned_cols=37 Identities=27% Similarity=0.426 Sum_probs=25.9
Q ss_pred cccceeEecCCCCcceeccccccchhhhhhhhc--cccC
Q 030981 4 GKTQMKRIENATSRQVTFSKRRNGLLKKAFELS--VLCD 40 (168)
Q Consensus 4 ~Ki~i~~I~n~~~R~~tf~KRr~gL~KKa~ELs--~LC~ 40 (168)
+|-.+--|.......-|||--+--.-.|..|+| +|||
T Consensus 6 kkcnvisidgkkkksdtysypklvvenktyefssfvlcg 44 (66)
T PF13082_consen 6 KKCNVISIDGKKKKSDTYSYPKLVVENKTYEFSSFVLCG 44 (66)
T ss_pred ccccEEEeccccccCCcccCceEEEeCceEEEEEEEEEc
Confidence 344555667777777788877777778888887 4665
No 146
>PRK06851 hypothetical protein; Provisional
Probab=20.60 E-value=2.7e+02 Score=23.39 Aligned_cols=29 Identities=21% Similarity=0.133 Sum_probs=21.4
Q ss_pred cccchhhhhhhhccccCcceeeeeecCCC
Q 030981 24 RRNGLLKKAFELSVLCDAEVALIIFSPRG 52 (168)
Q Consensus 24 Rr~gL~KKa~ELs~LC~~~v~~ivfsp~g 52 (168)
-|..|++++.+-..-+|-+|..++++++.
T Consensus 42 GKStl~~~i~~~~~~~g~~Ve~~~~~~d~ 70 (367)
T PRK06851 42 GKSTLMKKIGEEFLEKGYDVEFLHCSSDN 70 (367)
T ss_pred CHHHHHHHHHHHHHHcCCeEEEEEcCCCC
Confidence 45678888777766678888888777643
No 147
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=20.54 E-value=4.2e+02 Score=20.70 Aligned_cols=30 Identities=20% Similarity=0.333 Sum_probs=27.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Q 030981 113 GDGLEPCTIDELQQLENQLERSLSRIRARK 142 (168)
Q Consensus 113 ge~l~~Ls~~eL~~Le~~Le~~l~~Vr~RK 142 (168)
|....+++..+|...-...+..|..||.|-
T Consensus 114 ~~~~~~~~~~~l~~~l~ea~~mL~emr~r~ 143 (264)
T PF06008_consen 114 NENGDQLPSEDLQRALAEAQRMLEEMRKRD 143 (264)
T ss_pred CcccCCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 457888999999999999999999999997
No 148
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=20.51 E-value=2.2e+02 Score=18.40 Aligned_cols=25 Identities=24% Similarity=0.348 Sum_probs=12.7
Q ss_pred hHHHHHHhhhhHHHHHHHHHHHHHh
Q 030981 87 SQHAKEETSNMMTKLEFLEVAKRKL 111 (168)
Q Consensus 87 ~~~l~~e~~kL~~~~e~l~~~~r~~ 111 (168)
++..+.+..+|..+++.|+..+..+
T Consensus 39 ve~Vk~E~~kL~~EN~~Lq~YI~nL 63 (80)
T PF10224_consen 39 VEEVKEENEKLESENEYLQQYIGNL 63 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555555555544443
No 149
>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=20.46 E-value=58 Score=21.16 Aligned_cols=29 Identities=28% Similarity=0.492 Sum_probs=20.7
Q ss_pred hhhhhhhhcccc----CcceeeeeecCCCCccc
Q 030981 28 LLKKAFELSVLC----DAEVALIIFSPRGKLYE 56 (168)
Q Consensus 28 L~KKa~ELs~LC----~~~v~~ivfsp~gk~~~ 56 (168)
+|+.|.+++-.. ...|+.||++|+|+...
T Consensus 7 ~m~~a~~~a~~s~~~~~~~vgaviv~~~~~~i~ 39 (102)
T PF00383_consen 7 FMRIAIELAKRSRPCGNFPVGAVIVDPDGKIIA 39 (102)
T ss_dssp HHHHHHHHHHTHBTTTSSSEEEEEEETTTEEEE
T ss_pred HHHHHHHHHHhccccCCCCEEEEEEeccCccEE
Confidence 456666665555 88899999998765443
No 150
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=20.20 E-value=3.1e+02 Score=19.06 Aligned_cols=19 Identities=21% Similarity=0.422 Sum_probs=15.9
Q ss_pred CCCCHHHHHHHHHHHHHHH
Q 030981 117 EPCTIDELQQLENQLERSL 135 (168)
Q Consensus 117 ~~Ls~~eL~~Le~~Le~~l 135 (168)
+.+|.+|+..|.+.|+...
T Consensus 100 ~~ls~eele~L~~li~~~~ 118 (130)
T TIGR02698 100 SPLSQTDIEKLEKLLSEKK 118 (130)
T ss_pred CCCCHHHHHHHHHHHHhcc
Confidence 6799999999999887653
Done!