Query 028054
Match_columns 214
No_of_seqs 115 out of 827
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:32:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028054.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028054hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2659 LisH motif-containing 100.0 5.8E-39 1.3E-43 263.2 19.2 191 22-212 8-199 (228)
2 PF10607 CLTH: CTLH/CRA C-term 100.0 2.6E-30 5.7E-35 201.4 13.5 132 78-212 2-136 (145)
3 KOG0396 Uncharacterized conser 100.0 7.3E-30 1.6E-34 220.0 17.3 171 39-212 114-285 (389)
4 KOG2817 Predicted E3 ubiquitin 99.9 1E-25 2.2E-30 196.3 17.9 173 35-210 110-289 (394)
5 smart00757 CRA CT11-RanBPM. pr 99.7 1.3E-16 2.9E-21 116.2 8.9 82 131-212 2-85 (99)
6 smart00668 CTLH C-terminal to 99.4 1E-12 2.2E-17 86.5 5.8 55 78-132 2-56 (58)
7 KOG0293 WD40 repeat-containing 98.8 5.8E-08 1.3E-12 86.0 10.5 130 16-169 7-137 (519)
8 PF08513 LisH: LisH; InterPro 98.4 3.8E-07 8.2E-12 50.9 4.0 27 41-67 1-27 (27)
9 smart00667 LisH Lissencephaly 98.2 3.5E-06 7.5E-11 48.7 4.7 32 39-70 2-33 (34)
10 KOG1477 SPRY domain-containing 98.2 5.7E-07 1.2E-11 82.5 1.5 170 42-211 251-441 (469)
11 COG5109 Uncharacterized conser 98.1 9.9E-05 2.1E-09 63.7 13.3 190 17-211 78-292 (396)
12 KOG0275 Conserved WD40 repeat- 96.1 0.082 1.8E-06 46.5 10.7 140 38-191 5-149 (508)
13 KOG1333 Uncharacterized conser 91.2 1.8 3.8E-05 35.7 8.4 103 41-143 6-116 (241)
14 PF09398 FOP_dimer: FOP N term 86.6 1.6 3.4E-05 30.7 4.5 30 42-71 20-49 (81)
15 PF04494 TFIID_90kDa: WD40 ass 82.0 4 8.6E-05 31.5 5.4 48 112-162 38-85 (142)
16 TIGR03362 VI_chp_7 type VI sec 78.4 28 0.00061 30.4 10.1 98 42-141 134-275 (301)
17 cd08044 TAF5_NTD2 TAF5_NTD2 is 75.3 5.2 0.00011 30.4 4.2 64 97-164 12-76 (133)
18 PF10607 CLTH: CTLH/CRA C-term 73.7 12 0.00025 28.4 5.9 58 46-104 7-67 (145)
19 PF14559 TPR_19: Tetratricopep 71.6 16 0.00035 23.3 5.5 56 87-147 1-56 (68)
20 PF07035 Mic1: Colon cancer-as 68.4 50 0.0011 26.3 8.5 83 42-142 30-115 (167)
21 PF04053 Coatomer_WDAD: Coatom 66.5 30 0.00065 31.9 7.8 76 43-141 297-372 (443)
22 PF01726 LexA_DNA_bind: LexA D 65.3 18 0.00039 24.1 4.6 31 40-70 8-38 (65)
23 PF13934 ELYS: Nuclear pore co 61.3 95 0.0021 25.8 9.5 112 26-144 29-168 (226)
24 KOG1585 Protein required for f 55.3 72 0.0016 27.6 7.5 66 36-101 186-251 (308)
25 PF12895 Apc3: Anaphase-promot 54.2 61 0.0013 21.7 6.0 51 84-140 32-82 (84)
26 KOG2659 LisH motif-containing 52.3 67 0.0014 27.0 6.8 61 45-105 68-131 (228)
27 PF12569 NARP1: NMDA receptor- 51.8 1.9E+02 0.0042 27.3 10.6 100 30-129 251-364 (517)
28 smart00668 CTLH C-terminal to 51.4 23 0.00049 22.1 3.2 27 120-146 5-31 (58)
29 KOG0273 Beta-transducin family 50.9 4.8 0.0001 37.1 -0.2 34 37-70 2-35 (524)
30 KOG4594 Sequence-specific sing 50.7 19 0.0004 31.4 3.3 29 40-68 17-45 (354)
31 PRK14574 hmsH outer membrane p 49.1 2.8E+02 0.0061 27.8 11.7 71 29-102 57-127 (822)
32 PF06588 Muskelin_N: Muskelin 48.9 31 0.00067 28.3 4.2 30 41-70 166-195 (199)
33 PF12550 GCR1_C: Transcription 48.6 48 0.001 22.8 4.7 65 39-103 7-80 (81)
34 KOG1156 N-terminal acetyltrans 48.2 2.4E+02 0.0052 27.6 10.5 115 42-162 146-264 (700)
35 PF10602 RPN7: 26S proteasome 46.2 1.5E+02 0.0032 23.5 14.3 103 44-146 39-143 (177)
36 PF04840 Vps16_C: Vps16, C-ter 45.4 2.1E+02 0.0046 25.1 12.4 77 49-141 185-262 (319)
37 PF04121 Nup84_Nup100: Nuclear 45.3 72 0.0016 31.1 6.9 27 77-103 133-159 (697)
38 PF13838 Clathrin_H_link: Clat 44.5 36 0.00079 22.9 3.4 40 117-158 7-47 (66)
39 PF04840 Vps16_C: Vps16, C-ter 44.2 2.2E+02 0.0048 25.0 9.6 86 35-141 202-287 (319)
40 KOG2437 Muskelin [Signal trans 44.1 1.5E+02 0.0032 28.2 8.3 37 112-149 621-657 (723)
41 KOG0263 Transcription initiati 43.3 52 0.0011 32.1 5.4 34 37-70 18-51 (707)
42 PF07208 DUF1414: Protein of u 43.2 34 0.00073 21.1 2.8 19 179-197 25-43 (44)
43 PF13934 ELYS: Nuclear pore co 42.3 2E+02 0.0043 23.8 13.3 66 88-168 89-155 (226)
44 PF07729 FCD: FCD domain; Int 41.1 51 0.0011 23.1 4.1 29 76-104 95-123 (125)
45 PRK10564 maltose regulon perip 40.4 32 0.00069 30.1 3.3 23 81-103 261-283 (303)
46 KOG2910 Uncharacterized conser 39.8 91 0.002 25.6 5.5 52 80-131 42-106 (209)
47 PRK02289 4-oxalocrotonate taut 39.3 44 0.00094 21.4 3.1 28 178-205 12-39 (60)
48 PF14276 DUF4363: Domain of un 38.3 39 0.00085 24.9 3.1 47 79-125 30-76 (121)
49 PF09295 ChAPs: ChAPs (Chs5p-A 37.9 3.2E+02 0.0068 24.9 10.8 102 36-147 164-267 (395)
50 PF07721 TPR_4: Tetratricopept 36.2 49 0.0011 17.3 2.5 17 85-101 9-25 (26)
51 PF06794 UPF0270: Uncharacteri 36.0 1.1E+02 0.0025 20.7 4.8 43 38-92 8-50 (70)
52 PF05843 Suf: Suppressor of fo 33.7 3E+02 0.0064 23.4 8.4 94 5-99 35-129 (280)
53 PF03997 VPS28: VPS28 protein; 33.6 1.3E+02 0.0027 24.6 5.6 56 4-70 4-64 (188)
54 PF13833 EF-hand_8: EF-hand do 33.1 65 0.0014 19.6 3.1 30 20-49 1-33 (54)
55 PF12569 NARP1: NMDA receptor- 33.1 4.3E+02 0.0092 25.0 12.2 59 43-104 196-255 (517)
56 PF01158 Ribosomal_L36e: Ribos 32.6 87 0.0019 22.8 4.0 45 116-164 48-92 (98)
57 PF10827 DUF2552: Protein of u 32.5 31 0.00068 23.5 1.6 16 92-107 60-75 (79)
58 PF04433 SWIRM: SWIRM domain; 31.4 1.7E+02 0.0038 20.0 5.8 37 18-57 48-84 (86)
59 KOG0396 Uncharacterized conser 31.2 1.9E+02 0.0041 26.2 6.6 63 46-109 158-223 (389)
60 PF09052 SipA: Salmonella inva 31.1 84 0.0018 29.9 4.6 89 7-95 556-650 (674)
61 COG5443 FlbT Flagellar biosynt 30.7 95 0.0021 23.9 4.0 55 53-107 68-124 (148)
62 PF13424 TPR_12: Tetratricopep 30.5 1.5E+02 0.0034 19.1 5.1 56 88-143 16-73 (78)
63 PHA00780 hypothetical protein 29.9 95 0.0021 21.5 3.6 33 111-143 37-73 (80)
64 PF09731 Mitofilin: Mitochondr 29.4 92 0.002 29.5 4.8 33 73-105 519-551 (582)
65 PF14689 SPOB_a: Sensor_kinase 29.2 1.3E+02 0.0027 19.6 4.1 32 76-107 22-53 (62)
66 PF13371 TPR_9: Tetratricopept 28.9 1.6E+02 0.0034 18.7 5.8 53 87-144 5-57 (73)
67 TIGR01470 cysG_Nterm siroheme 28.3 1.8E+02 0.0039 23.7 5.7 64 79-143 135-204 (205)
68 PF01671 ASFV_360: African swi 28.2 1.5E+02 0.0032 24.6 5.1 87 60-147 3-112 (215)
69 PF10834 DUF2560: Protein of u 27.7 1.1E+02 0.0025 21.2 3.7 33 111-143 37-73 (80)
70 PTZ00196 60S ribosomal protein 27.5 1.1E+02 0.0024 22.2 3.8 31 117-147 49-79 (98)
71 KOG0640 mRNA cleavage stimulat 27.4 2.1E+02 0.0045 25.6 6.1 32 39-70 10-41 (430)
72 PF07575 Nucleopor_Nup85: Nup8 27.2 1.3E+02 0.0029 28.4 5.5 61 26-102 390-450 (566)
73 smart00550 Zalpha Z-DNA-bindin 26.2 1.8E+02 0.0038 19.2 4.5 50 38-93 2-52 (68)
74 KOG1538 Uncharacterized conser 25.7 2.7E+02 0.0059 27.5 7.0 62 80-142 775-843 (1081)
75 COG5096 Vesicle coat complex, 25.5 5E+02 0.011 25.9 9.0 92 67-164 25-119 (757)
76 PF03704 BTAD: Bacterial trans 24.6 2.9E+02 0.0063 20.3 6.3 50 26-75 81-138 (146)
77 PRK07111 anaerobic ribonucleos 24.6 2.8E+02 0.0061 27.5 7.2 28 37-64 58-85 (735)
78 PF12931 Sec16_C: Sec23-bindin 24.1 81 0.0018 27.1 3.1 22 83-104 1-22 (284)
79 PF12169 DNA_pol3_gamma3: DNA 23.6 2E+02 0.0043 21.4 4.9 24 81-104 18-41 (143)
80 KOG3380 Actin-related protein 23.5 2E+02 0.0043 22.6 4.8 58 82-140 40-99 (152)
81 KOG0292 Vesicle coat complex C 23.2 19 0.00041 36.2 -1.1 51 41-104 620-670 (1202)
82 PF04699 P16-Arc: ARP2/3 compl 23.1 1.1E+02 0.0023 24.1 3.3 28 79-106 38-65 (152)
83 PF13171 DUF4004: Protein of u 22.9 4.3E+02 0.0094 21.7 7.3 100 11-114 53-159 (199)
84 PRK00794 flbT flagellar biosyn 22.7 3E+02 0.0065 21.0 5.6 31 76-106 92-122 (132)
85 KOG3192 Mitochondrial J-type c 22.6 95 0.0021 24.7 2.9 80 21-103 69-154 (168)
86 PRK09263 anaerobic ribonucleos 22.5 3.3E+02 0.0072 26.9 7.2 28 37-64 55-82 (711)
87 PF14691 Fer4_20: Dihydroprymi 22.2 1.3E+02 0.0029 22.1 3.6 28 115-142 37-64 (111)
88 PF09862 DUF2089: Protein of u 22.1 1.9E+02 0.004 21.6 4.3 52 45-99 40-111 (113)
89 COG3898 Uncharacterized membra 21.9 6.2E+02 0.013 23.5 8.2 86 56-146 99-186 (531)
90 PF03979 Sigma70_r1_1: Sigma-7 21.9 1.8E+02 0.004 19.9 4.0 45 8-56 9-53 (82)
91 TIGR00756 PPR pentatricopeptid 21.7 1.3E+02 0.0029 15.5 2.8 20 84-103 7-26 (35)
92 COG5051 RPL36A Ribosomal prote 21.5 1.8E+02 0.0039 20.7 3.8 43 119-165 53-95 (97)
93 PF03477 ATP-cone: ATP cone do 21.3 1.1E+02 0.0024 20.9 2.8 28 37-64 55-82 (90)
94 PLN03081 pentatricopeptide (PP 20.9 7.5E+02 0.016 23.8 9.7 90 44-141 395-487 (697)
95 PLN03077 Protein ECB2; Provisi 20.9 8.2E+02 0.018 24.2 12.7 100 33-141 547-650 (857)
96 PF12793 SgrR_N: Sugar transpo 20.9 1.4E+02 0.003 22.2 3.4 24 80-103 73-96 (115)
97 KOG3452 60S ribosomal protein 20.9 1.8E+02 0.0039 21.2 3.8 43 119-165 53-95 (102)
98 PF00627 UBA: UBA/TS-N domain; 20.8 79 0.0017 18.1 1.7 12 89-100 26-37 (37)
99 cd00491 4Oxalocrotonate_Tautom 20.7 1.5E+02 0.0033 18.2 3.2 26 179-204 12-37 (58)
100 PRK02220 4-oxalocrotonate taut 20.7 1.4E+02 0.0029 18.8 3.0 27 178-204 12-38 (61)
101 PF10552 ORF6C: ORF6C domain; 20.7 3.1E+02 0.0066 20.1 5.3 22 85-106 87-108 (116)
102 PRK13689 hypothetical protein; 20.3 1.2E+02 0.0026 20.9 2.7 22 179-200 50-71 (75)
103 PRK01271 4-oxalocrotonate taut 20.3 1.4E+02 0.0031 20.4 3.1 27 178-204 13-39 (76)
104 TIGR00083 ribF riboflavin kina 20.2 65 0.0014 28.0 1.7 52 54-105 115-170 (288)
No 1
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=5.8e-39 Score=263.22 Aligned_cols=191 Identities=57% Similarity=0.838 Sum_probs=186.4
Q ss_pred cCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCC-CccHHHHHHHHHHHHHHHCCCHHHHHHHH
Q 028054 22 KVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP-DIDLATITDRMAVKKAVQCGNVEDAIEKV 100 (214)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~-~~~~~~~~~r~~I~~~I~~g~i~~Al~~~ 100 (214)
+.+++++|.+.+.++.+..+.+|+||++||+++||.++|..|++|+|+++ ..|.+.+..|.+|+.+|..|+++.|++.+
T Consensus 8 ~~~~~~~w~~~~~~~~~~~~d~n~LVmnylv~eg~~EaA~~Fa~e~~i~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~i 87 (228)
T KOG2659|consen 8 SFSTKEEWEEQLMKVSVMREDLNRLVMNYLVHEGYVEAAEKFAKESGIKPPSIDLDSMDERLQIRRAIEEGQIEEAIEKV 87 (228)
T ss_pred ccCchhhhHHHHhccCcchhhHHHHHHHHHHhccHHHHHHHhccccCCCCccCchhhHhHHHHHHHHHHhccHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999987 88999999999999999999999999999
Q ss_pred HhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhhccCCCCCchhhhcCh
Q 028054 101 NDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNCPVGDLLDI 180 (214)
Q Consensus 101 ~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~~~~~~sp~~~l~~~ 180 (214)
+++.|.++..+..|.|.|++|++|||||.|...+||+|+|++++|++..+++++.+++++|++|+|+++..||+..+++.
T Consensus 88 n~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~~~~~elE~~l~lLvf~~~~~sp~~~l~~~ 167 (228)
T KOG2659|consen 88 NQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENPKKMEELERTLALLVFELSQESPSAELLSQ 167 (228)
T ss_pred HHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcCCcccCcHHHHHHH
Confidence 99999999999999999999999999999999999999999999999988899999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhCCCCCCCCchhhhhh
Q 028054 181 SQRLKTASEVNAAILTSQSHEKDFSQSSGQVM 212 (214)
Q Consensus 181 ~~r~~la~~~n~~iL~~~g~~~~~~L~~ll~~ 212 (214)
+.|.++|+.+|++||.+.|....|+|+.++|.
T Consensus 168 s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~ 199 (228)
T KOG2659|consen 168 SLRQKVASEVNSAILASQEHESEPKLPFLLKL 199 (228)
T ss_pred HHHHHHHHHHHHHHHHHhcccccchHHHHHHH
Confidence 99999999999999999999999999999864
No 2
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=99.97 E-value=2.6e-30 Score=201.42 Aligned_cols=132 Identities=36% Similarity=0.554 Sum_probs=125.6
Q ss_pred HHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHH
Q 028054 78 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEEL 157 (214)
Q Consensus 78 ~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i 157 (214)
+..|+.|+++|.+||+++|++||++++|.+++.++.++|.|++|+||++|++|++.+||+|||+++.|+.. ...+++
T Consensus 2 ~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~~---~~~~~l 78 (145)
T PF10607_consen 2 FKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFND---EFLEEL 78 (145)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhHH---HHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999977664 458999
Q ss_pred HHHHhHhhccCCCC---CchhhhcChhhHHHHHHHHHHHHHhhCCCCCCCCchhhhhh
Q 028054 158 ERTVALLAFEDVSN---CPVGDLLDISQRLKTASEVNAAILTSQSHEKDFSQSSGQVM 212 (214)
Q Consensus 158 ~~l~~lL~~~~~~~---sp~~~l~~~~~r~~la~~~n~~iL~~~g~~~~~~L~~ll~~ 212 (214)
+++|++|+|+++++ +||++++++.+|+.+|+.||+++|..+|.+++|+|+.+++.
T Consensus 79 ~~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~ 136 (145)
T PF10607_consen 79 KKLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKA 136 (145)
T ss_pred HHHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHH
Confidence 99999999999997 79999999999999999999999999999999999998874
No 3
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=7.3e-30 Score=220.00 Aligned_cols=171 Identities=20% Similarity=0.290 Sum_probs=162.8
Q ss_pred CHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhh
Q 028054 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHL 118 (214)
Q Consensus 39 ~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L 118 (214)
+++.++++|.+|+.|+||++||..|.++++++...|.+.+...+.|+++|+.|++.+|+.||++|...|.+.+|.++|++
T Consensus 114 ~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~l 193 (389)
T KOG0396|consen 114 PRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLVDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQL 193 (389)
T ss_pred HHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhHhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHH
Confidence 55889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhhccCCC-CCchhhhcChhhHHHHHHHHHHHHHhh
Q 028054 119 QQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVS-NCPVGDLLDISQRLKTASEVNAAILTS 197 (214)
Q Consensus 119 ~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~~~~~-~sp~~~l~~~~~r~~la~~~n~~iL~~ 197 (214)
+.|+|||||+.++..+||+|+|++|+|++..+ .++++.+||+|+|+.-. .++|..+++..||+.+++.|-...+..
T Consensus 194 RlQefIELi~~~~~~~Ai~~akk~f~~~~~~~---~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~~l 270 (389)
T KOG0396|consen 194 RLQEFIELIKVDNYDKAIAFAKKHFAPWAKSH---KSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEALKL 270 (389)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHhhhhhhh---HHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHHHH
Confidence 99999999999999999999999999999766 79999999999999855 467999999999999999999999999
Q ss_pred CCCCCCCCchhhhhh
Q 028054 198 QSHEKDFSQSSGQVM 212 (214)
Q Consensus 198 ~g~~~~~~L~~ll~~ 212 (214)
.|.+-.|+|-..+.+
T Consensus 271 ~~i~~~~~L~~~l~~ 285 (389)
T KOG0396|consen 271 FGIPINPALTIYLQA 285 (389)
T ss_pred hCCCCCcHHHHHHHh
Confidence 999999999887764
No 4
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=1e-25 Score=196.31 Aligned_cols=173 Identities=19% Similarity=0.281 Sum_probs=157.3
Q ss_pred ccCCCHHH-HHHHHHHHHHhhCHHHHHHHHHHHhCCCCC--ccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcC
Q 028054 35 DVKIRKED-MNKLVMNFLVTEGYVDAAEKFRMESGTEPD--IDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN 111 (214)
Q Consensus 35 ~~~~~~~~-l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~--~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~ 111 (214)
++..+... +|.+|..|++|+|..|+|..|++|+|.... .....|.+.++|.++|++||+++|++|+..++..|.+.+
T Consensus 110 ~v~~~~~~~ln~ai~~h~~rqGm~dv~~~l~~Ea~~~~~~~~~~~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~ 189 (394)
T KOG2817|consen 110 SVDFDTSQVLNEAIVYHFYRQGMDDVGECLIKEAGLSEDESKSRTEFVELNQIVEALKERDLEPALEWAESNRQKLKEKS 189 (394)
T ss_pred CcChhHHHHHHHHHHHHHHHcCchHHHHHHHHHhcCCCcchhhhhhHHHHHHHHHHHHhccchhHHHHHHHhhhhhcccc
Confidence 45555544 599999999999999999999999998753 456799999999999999999999999999999999999
Q ss_pred CchhHhhHHHHHHHHHHcCChH--HHHHHHHHhcCccccccHHHHHHHHHHHhHhhccCC--CCCchhhhcChhhHHHHH
Q 028054 112 PQLFFHLQQQRLIELIRNGKVE--EALEFAQEELAPRGEENQSFLEELERTVALLAFEDV--SNCPVGDLLDISQRLKTA 187 (214)
Q Consensus 112 s~L~F~L~~q~fIeli~~~~~~--~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~~~~--~~sp~~~l~~~~~r~~la 187 (214)
+.|+|.||.++|+++++.|.-. +||.|||++++||+.++ .++||.+|++|.|-.. +++||.+++++..|..+.
T Consensus 190 s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~~~~---~~eIQklm~sl~~l~~gl~~spy~~~ls~~~w~~~~ 266 (394)
T KOG2817|consen 190 SSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFVADH---LREIQKLMGSLLYLRNGLEKSPYSEILSPKLWKELT 266 (394)
T ss_pred ccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccccch---HHHHHHHHHHHHHHHcCCCCCChHHHhCHHHHHHHH
Confidence 9999999999999999998765 99999999999999766 7999999999999775 689999999999999999
Q ss_pred HHHHHHHHhhCCCCCCCCchhhh
Q 028054 188 SEVNAAILTSQSHEKDFSQSSGQ 210 (214)
Q Consensus 188 ~~~n~~iL~~~g~~~~~~L~~ll 210 (214)
.+|-+..|...|.+.+++|-.++
T Consensus 267 ~~f~r~ycallg~s~eSPL~v~v 289 (394)
T KOG2817|consen 267 EEFTREYCALLGISVESPLSVLV 289 (394)
T ss_pred HHHHHHHHHHcCCCccCcHHHHH
Confidence 99999999999999998875543
No 5
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.69 E-value=1.3e-16 Score=116.19 Aligned_cols=82 Identities=43% Similarity=0.536 Sum_probs=77.8
Q ss_pred ChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhhccCC-CCCchhhhcChhhHHHHHHHHHHHHHhhC-CCCCCCCchh
Q 028054 131 KVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV-SNCPVGDLLDISQRLKTASEVNAAILTSQ-SHEKDFSQSS 208 (214)
Q Consensus 131 ~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~~~~-~~sp~~~l~~~~~r~~la~~~n~~iL~~~-g~~~~~~L~~ 208 (214)
++.+||+|||++++++..+++.+.++++++|++|+|+++ +.+||++++++++|+.+|+.||+++|... |.+.+|+|+.
T Consensus 2 ~~~eAi~yar~~l~~~~~~~~~~~~el~~~m~llaf~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~~~~~~~~~s~L~~ 81 (99)
T smart00757 2 KIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAEELNSAILELLHGKSSESPLEI 81 (99)
T ss_pred cHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHhcCCCCCCccHHHHCCHHHHHHHHHHHHHHHHHHccCCCCCChHHH
Confidence 578999999999999998888778999999999999999 88999999999999999999999999999 9999999999
Q ss_pred hhhh
Q 028054 209 GQVM 212 (214)
Q Consensus 209 ll~~ 212 (214)
+++.
T Consensus 82 ~~~~ 85 (99)
T smart00757 82 LLSA 85 (99)
T ss_pred HHHH
Confidence 9875
No 6
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.38 E-value=1e-12 Score=86.49 Aligned_cols=55 Identities=31% Similarity=0.669 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCCh
Q 028054 78 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKV 132 (214)
Q Consensus 78 ~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~ 132 (214)
+..+..|+++|.+|+|++|++||++++|.+.+.++.+.|.|++|+|+|+++.|+.
T Consensus 2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~ 56 (58)
T smart00668 2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKL 56 (58)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCc
Confidence 5678999999999999999999999999999999999999999999999998864
No 7
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=98.77 E-value=5.8e-08 Score=86.03 Aligned_cols=130 Identities=15% Similarity=0.233 Sum_probs=109.3
Q ss_pred HhhhcccCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCC-CccHHHHHHHHHHHHHHHCCCHH
Q 028054 16 AMAMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP-DIDLATITDRMAVKKAVQCGNVE 94 (214)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~-~~~~~~~~~r~~I~~~I~~g~i~ 94 (214)
+..++|+.|++.|+ .+++.+.|+.-||.+++..++.|+|+.. .++ -+.+.++++.|+|+
T Consensus 7 ~~l~~k~likk~ef--------------i~il~q~l~slgy~~S~~~lE~es~ll~~tat------~klf~q~vlqg~w~ 66 (519)
T KOG0293|consen 7 EILGSKGLIKKGEF--------------IRILWQILYSLGYDHSSPLLEWESGLLIPTAT------TKLFDQQVLQGQWD 66 (519)
T ss_pred hhhhhhceeccchh--------------hHhHHHHHHhcCccccchhhHHhhCcccccch------HHHHHHHHHcccHH
Confidence 46788999999999 8999999999999999999999999853 333 36688999999999
Q ss_pred HHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhhccCC
Q 028054 95 DAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV 169 (214)
Q Consensus 95 ~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~~~~ 169 (214)
.++.-.....-+..++.....|.+.+|.|+|+++.|++..|+...|..+.+.... .+++.++.+.|++++.
T Consensus 67 q~v~~~~~i~~~de~~~~ea~fLv~kQ~fLEf~k~~~is~al~~l~~~~~~lr~~----~kk~~el~~sll~sn~ 137 (519)
T KOG0293|consen 67 QQVMSLVRISFEDERNRKEAMFLVNKQIFLEFLKTGSISHALPVLRNPVLYLRKN----KKKFHELASSLLVSND 137 (519)
T ss_pred HHHHHHhhccCcchhhhHHHHHHHHHHHHHHHHhhccHhhhhHhhhcchhhhhhh----HHHHHHHHHHHhcccc
Confidence 9998887663333455578999999999999999999999999999877776543 4788899999998874
No 8
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=98.43 E-value=3.8e-07 Score=50.92 Aligned_cols=27 Identities=37% Similarity=0.811 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHhhCHHHHHHHHHHHh
Q 028054 41 EDMNKLVMNFLVTEGYVDAAEKFRMES 67 (214)
Q Consensus 41 ~~l~~lI~~yL~~~Gy~eta~~f~~E~ 67 (214)
+.||.+|.+||.++||.+||.+|.+|+
T Consensus 1 ~~Ln~lI~~YL~~~Gy~~tA~~f~~Ea 27 (27)
T PF08513_consen 1 EELNQLIYDYLVENGYKETAKAFAKEA 27 (27)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHCCcHHHHHHHHhcC
Confidence 468999999999999999999999985
No 9
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=98.20 E-value=3.5e-06 Score=48.73 Aligned_cols=32 Identities=31% Similarity=0.754 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCC
Q 028054 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 39 ~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~ 70 (214)
.+..++++|++||.++||.+|+.+|.+|+|+.
T Consensus 2 ~~~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 2 SRSELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred cHHHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 35678999999999999999999999999974
No 10
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=98.18 E-value=5.7e-07 Score=82.53 Aligned_cols=170 Identities=23% Similarity=0.167 Sum_probs=132.4
Q ss_pred HHHHHHHHHHHhhCHHHHHHHHHHHhCCCCC--c-----cHHH-----HHHHHHHHHHHHCCCHHHHHHHHHhhChhhhh
Q 028054 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTEPD--I-----DLAT-----ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 109 (214)
Q Consensus 42 ~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~--~-----~~~~-----~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~ 109 (214)
.....+..|+++.|+.+++..++..+.-... . ..+. -..+.....-+-.+.+..+.+.+.+..+....
T Consensus 251 l~t~~~~~~~l~~~~~~s~~~~s~~~~~~~~~~~~~e~~s~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~ 330 (469)
T KOG1477|consen 251 LSTVPYPYFLLPGGYEESIAYFSTGARRFNDPFTGKEENSIDAVGSQTDKIGLDYHQRKGRGQFTRNGAYNAALIPTYRK 330 (469)
T ss_pred ccCCCccceecCcchhhhhhhhcchhhccCCcccchhhhhhhccccccchhhhhhhhhcCcceeechhhhcccccccccc
Confidence 3446888999999999999999987653211 0 0111 01244444445555666666666655555444
Q ss_pred -------cCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCcccc--ccHHHHHHHHHHHhHhhccCCCCCchhhhcCh
Q 028054 110 -------TNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGE--ENQSFLEELERTVALLAFEDVSNCPVGDLLDI 180 (214)
Q Consensus 110 -------~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~--~~~~~~~~i~~l~~lL~~~~~~~sp~~~l~~~ 180 (214)
..+...+.++|+.++.+.+-+.+...+++.+..+++... ......+.+...++||+|++|..||...+.++
T Consensus 331 ~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~~Llays~p~~s~~g~~~~~ 410 (469)
T KOG1477|consen 331 VGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSSSLLAYSDPEESPVGYLLDP 410 (469)
T ss_pred cceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchHHHHHhcCcccCccccccCc
Confidence 346789999999999999999999999999999988765 33345789999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHhhCCCCCCCCchhhhh
Q 028054 181 SQRLKTASEVNAAILTSQSHEKDFSQSSGQV 211 (214)
Q Consensus 181 ~~r~~la~~~n~~iL~~~g~~~~~~L~~ll~ 211 (214)
..++-+++.+|.++|...+.++++.|+.++.
T Consensus 411 ~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~ 441 (469)
T KOG1477|consen 411 IQREPVAEALNSAILETDNNSKDPDLERVLS 441 (469)
T ss_pred ccchhHHhhhcccccccCCCCccchhhhhhc
Confidence 9999999999999999999999999887764
No 11
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.10 E-value=9.9e-05 Score=63.68 Aligned_cols=190 Identities=9% Similarity=-0.009 Sum_probs=138.5
Q ss_pred hhhcccCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCC-ccHHHHHHHHHHHHHHHCCCHHH
Q 028054 17 MAMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPD-IDLATITDRMAVKKAVQCGNVED 95 (214)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~-~~~~~~~~r~~I~~~I~~g~i~~ 95 (214)
....+..|+++.. +.+-........++.+...++.++|-..-+..|+.+.|..+. ...+.|...+.|.+.|.+.+...
T Consensus 78 ~~~~~~nFd~~~~-n~~~~f~~~~v~~~~~~~l~~~n~~dv~~~hi~~~~~g~~e~~~~~~~f~~lK~v~~gI~~k~~~l 156 (396)
T COG5109 78 EDCRPANFDVQVG-NQIYPFSTQTVTYLVVYYLLENNCADVVERHISETKDGKDEIIKIRDGFVKLKKVISGISEKSTFL 156 (396)
T ss_pred HhhccccCCHHHH-hhcCCCccceeeehHHHHHHHhhHHHHHHHHHHHhhcCccchhhHHHHHHHHHHHHHhhccchhHh
Confidence 3444555666655 334445555566677777778888888899999999998754 44689999999999999999999
Q ss_pred HHHHHHhhChhhhhcCCchhHhhHHHHHHHHHH-cCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhhccCC-----
Q 028054 96 AIEKVNDLNPEILDTNPQLFFHLQQQRLIELIR-NGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV----- 169 (214)
Q Consensus 96 Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~-~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~~~~----- 169 (214)
-++|. +....+.+.++..++.+.......+.. ..++.+|+.++++.++.|...| ...++.++-.+.+.+.
T Consensus 157 ~iE~~-Qi~gyl~kgdtesel~l~~~~~esl~l~hk~~~~a~r~c~t~~a~f~~kh---~~dv~~~~~~l~nap~dcfrh 232 (396)
T COG5109 157 LIEFL-QIEGYLSKGDTESELELYLVSHESLLLIHKRYDEALRLCFTKLASFVPKH---IQDVKPLLRFLVNAPTDCFRH 232 (396)
T ss_pred HHHHH-HhcCccccCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---ccchHHHHHHHHcCchHHhhh
Confidence 99999 455667776777777666665554332 3379999999999999998655 6778888877766432
Q ss_pred -CC-C-----c-h-hhhc-------C--hhhHHHHHHHHHHHHHhhCCCCCCCCchhhhh
Q 028054 170 -SN-C-----P-V-GDLL-------D--ISQRLKTASEVNAAILTSQSHEKDFSQSSGQV 211 (214)
Q Consensus 170 -~~-s-----p-~-~~l~-------~--~~~r~~la~~~n~~iL~~~g~~~~~~L~~ll~ 211 (214)
++ + | . +.++ | ..-|..+...|-+..|...|++-+++|..++.
T Consensus 233 rekelmqnI~~~l~ksligqPiEdIDkvnk~~k~l~~lF~~eycaa~gm~~~spL~~~v~ 292 (396)
T COG5109 233 REKELMQNIQEALKKSLIGQPIEDIDKVNKSRKKLIELFKSEYCAANGMPNRSPLRELVE 292 (396)
T ss_pred cchhHHHHHHHHHHHhhcCCcHHHHHHhhhhHHHHHHHHHHHHHHhcCCCccChHHHHHH
Confidence 11 0 1 0 1111 1 24689999999999999999999999877654
No 12
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=96.12 E-value=0.082 Score=46.47 Aligned_cols=140 Identities=17% Similarity=0.236 Sum_probs=92.0
Q ss_pred CCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHh
Q 028054 38 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFH 117 (214)
Q Consensus 38 ~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~ 117 (214)
+....+.++|.+||-.+..-.|.++|.+|+++.. .- ........+.|-+|.||..+.-++...- ...-.-.
T Consensus 5 iessdVIrli~QflKE~~L~rtl~tLQeEt~VSL-NT---VDSvd~Fv~dI~sG~WD~VL~~vqsLKL-----P~kkL~d 75 (508)
T KOG0275|consen 5 IESSDVIRLIEQFLKENSLHRTLQTLQEETNVSL-NT---VDSVDGFVNDINSGHWDTVLKTVQSLKL-----PDKKLID 75 (508)
T ss_pred eecchHHHHHHHHHhhhhHHHHHHHHHHhhccce-ee---chhHHHHHHhcccCchHHHHHHHHhccC-----chhHHHH
Confidence 3445678999999999999999999999999752 11 1122347789999999999998876542 1233457
Q ss_pred hHHHHHHHHHHcCChHHHHHHHHHhcCccc---cccHHHHHHHHHHHhHhh--ccCCCCCchhhhcChhhHHHHHHHHH
Q 028054 118 LQQQRLIELIRNGKVEEALEFAQEELAPRG---EENQSFLEELERTVALLA--FEDVSNCPVGDLLDISQRLKTASEVN 191 (214)
Q Consensus 118 L~~q~fIeli~~~~~~~Ai~yar~~l~~~~---~~~~~~~~~i~~l~~lL~--~~~~~~sp~~~l~~~~~r~~la~~~n 191 (214)
|+-|-.+|+|.-+.+..|-..+|+. .|.. ...|+ ..-++=.+|. |.||.+ .|.+--...+|..+|..+.
T Consensus 76 LYEqivlEliELREL~tAR~~lRQT-dpM~~lKQ~~pe---Ry~~lE~ll~R~YFDp~E-aY~dssKEkrRa~IAQ~ls 149 (508)
T KOG0275|consen 76 LYEQIVLELIELRELGTARSLLRQT-DPMIMLKQIQPE---RYIRLENLLNRSYFDPRE-AYGDSSKEKRRAVIAQALS 149 (508)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHhcc-CceehhhccChH---HHHHHHHHhcccccChhh-hcCcchHHHHHHHHHHHhc
Confidence 8999999999988887787777753 2222 22233 3333333443 444432 2444333556677776654
No 13
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.25 E-value=1.8 Score=35.69 Aligned_cols=103 Identities=16% Similarity=0.196 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhh----cC----C
Q 028054 41 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD----TN----P 112 (214)
Q Consensus 41 ~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~----~~----s 112 (214)
+.++.+|-+||+-.|+.-|.++|-.|...........=...-+..++|...|++.--..=.....+++. .. .
T Consensus 6 ~~tDelvReYL~frgf~~tLkalD~E~~~~Ke~~frvdrivdq~~~a~q~~Dl~aLr~~W~~l~~r~Fs~Le~~y~~~~~ 85 (241)
T KOG1333|consen 6 ERTDELVREYLLFRGFTHTLKALDAEIKADKEKGFRVDRIVDQLQQAMQVYDLAALRDYWSYLERRLFSRLEDIYRPTIH 85 (241)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHhHHHhhhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 456899999999999999999998887654222222223345567778888887654433322223332 11 2
Q ss_pred chhHhhHHHHHHHHHHcCChHHHHHHHHHhc
Q 028054 113 QLFFHLQQQRLIELIRNGKVEEALEFAQEEL 143 (214)
Q Consensus 113 ~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l 143 (214)
.++--+.+...+--+.++..++|=+|.++.-
T Consensus 86 kle~Sl~r~yLV~~~q~nr~~K~~EFF~K~a 116 (241)
T KOG1333|consen 86 KLETSLFRFYLVYTIQTNRNDKAQEFFAKQA 116 (241)
T ss_pred HHHHHHHHHHHhhhhhcCChHHHHHHHHHHH
Confidence 4666777778888889999999999988743
No 14
>PF09398 FOP_dimer: FOP N terminal dimerisation domain; InterPro: IPR018993 Fibroblast growth factor receptor 1 (FGFR1) oncogene partner (FOP) is a centrosomal protein that is involved in anchoring microtubules to centrosomes. This domain includes a Lis-homology motif. It forms an alpha-helical bundle and is involved in dimerisation []. ; GO: 0034453 microtubule anchoring, 0005813 centrosome; PDB: 2D68_A.
Probab=86.61 E-value=1.6 Score=30.67 Aligned_cols=30 Identities=23% Similarity=0.288 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhhCHHHHHHHHHHHhCCCC
Q 028054 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTEP 71 (214)
Q Consensus 42 ~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~ 71 (214)
.++.||.+||--.||.-|+..|..|+|...
T Consensus 20 Li~eLIrEyLef~~l~~TlsVf~~Es~~~~ 49 (81)
T PF09398_consen 20 LINELIREYLEFNNLDYTLSVFQPESGQPE 49 (81)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHT-TT
T ss_pred HHHHHHHHHHHHcCCccHHHHHhhccCCCC
Confidence 579999999999999999999999999863
No 15
>PF04494 TFIID_90kDa: WD40 associated region in TFIID subunit; InterPro: IPR007582 This region, possibly a domain is found in subunits of transcription factor TFIID. The function of this region is unknown.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2J4B_D 2J49_A 2NXP_F.
Probab=82.03 E-value=4 Score=31.48 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=38.1
Q ss_pred CchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHh
Q 028054 112 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA 162 (214)
Q Consensus 112 s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~ 162 (214)
..+.|=+.++-|++||.+|...+|-.|..++-.-+...+ .++|+++.+
T Consensus 38 ~~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~~~~---~~~i~~L~~ 85 (142)
T PF04494_consen 38 SRLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFEDSH---QEDIEKLSS 85 (142)
T ss_dssp GGGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGHGHG---HHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHhHHH---HHHHHHHHh
Confidence 568999999999999999999999999998777666544 455666654
No 16
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=78.43 E-value=28 Score=30.44 Aligned_cols=98 Identities=22% Similarity=0.266 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHhhCHHHHHHHHHHHhC--------C--------CCCccH----------------------------HH
Q 028054 42 DMNKLVMNFLVTEGYVDAAEKFRMESG--------T--------EPDIDL----------------------------AT 77 (214)
Q Consensus 42 ~l~~lI~~yL~~~Gy~eta~~f~~E~~--------~--------~~~~~~----------------------------~~ 77 (214)
++++++++.|.+-||.+.+.++..+.. + .|+.|. +.
T Consensus 134 Dgq~~~~qal~~lG~~~~a~aI~~el~~fL~RlP~L~~L~F~DGtPFad~~T~~WL~~~~~~~~~~~~~~~~~~~~~~~~ 213 (301)
T TIGR03362 134 DGQRLSAQALERLGYAAVAQAIRDELAAFLERLPGLLELKFSDGTPFADDETRAWLAQHATRSNAASVAPVAEVGEESDW 213 (301)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCcChhhcccCCCCCCCCHHHHHHHHhcccccccccccccccCcccccH
Confidence 357999999999999999999888853 1 122221 12
Q ss_pred HHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHH
Q 028054 78 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQE 141 (214)
Q Consensus 78 ~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~ 141 (214)
.....+.+.++.+|.+++|+.|+++..+........+..+|..-+..+ ..|...-|....++
T Consensus 214 ~~~~~eA~~l~~~~gl~~Al~~L~~~~~~~~s~R~rf~~rL~~A~l~~--~~g~~~lA~~ll~~ 275 (301)
T TIGR03362 214 EELREEARALAAEGGLEAALQRLQQRLAQAREPRERFHWRLLLARLLE--QAGKAELAQQLYAA 275 (301)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhhcccCCChHHHHHHHHHHHHHHH--HcCCHHHHHHHHHH
Confidence 233456778889999999999999766654443344555555555444 45555556555554
No 17
>cd08044 TAF5_NTD2 TAF5_NTD2 is the second conserved N-terminal region of TATA Binding Protein (TBP) Associated Factor 5 (TAF5), involved in forming Transcription Factor IID (TFIID). The TATA Binding Protein (TBP) Associated Factor 5 (TAF5) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TAF5 contains three domains, two conserved sequence motifs at the N-terminal and one at the C-terminal region. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. TAF5 may play a major role in forming TFIID and its related complexes. TAFs from various
Probab=75.30 E-value=5.2 Score=30.44 Aligned_cols=64 Identities=17% Similarity=0.285 Sum_probs=44.0
Q ss_pred HHHHHhhChhhhh-cCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHh
Q 028054 97 IEKVNDLNPEILD-TNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALL 164 (214)
Q Consensus 97 l~~~~~~~~~L~~-~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL 164 (214)
-.|++.. ++..+ .=..+.|=+...-|++||.+|...+|..|.+++-.-+.. .+.++++.+.++.
T Consensus 12 ~~wv~~~-ld~~k~EL~~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~~---~~~~~i~~L~~i~ 76 (133)
T cd08044 12 RKWIESS-LDIYKYELSQLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFED---SHSEDIKKLSSIT 76 (133)
T ss_pred HHHHHhC-cHhhHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhHH---HHHHHHHHHHccC
Confidence 4565544 33222 124588999999999999999999999999976655542 3456666665544
No 18
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=73.73 E-value=12 Score=28.41 Aligned_cols=58 Identities=16% Similarity=0.118 Sum_probs=44.5
Q ss_pred HHHHHHHhhCHHHHHHHHHHHhC--C-CCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhC
Q 028054 46 LVMNFLVTEGYVDAAEKFRMESG--T-EPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 104 (214)
Q Consensus 46 lI~~yL~~~Gy~eta~~f~~E~~--~-~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~ 104 (214)
-|.+.+ .+|-.+.|-..+++.. + +...+....-.+.++.+.|++|++.+|+++++++.
T Consensus 7 ~I~~~I-~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l 67 (145)
T PF10607_consen 7 KIRQAI-LNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHL 67 (145)
T ss_pred HHHHHH-HcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 355555 8888888888887753 1 22355667778889999999999999999999865
No 19
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=71.60 E-value=16 Score=23.27 Aligned_cols=56 Identities=20% Similarity=0.229 Sum_probs=34.7
Q ss_pred HHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccc
Q 028054 87 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRG 147 (214)
Q Consensus 87 ~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~ 147 (214)
++..|+++.|++.+++... ....+..+.+. --.-+++.|+..+|.++..+.+....
T Consensus 1 ll~~~~~~~A~~~~~~~l~-~~p~~~~~~~~----la~~~~~~g~~~~A~~~l~~~~~~~~ 56 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQ-RNPDNPEARLL----LAQCYLKQGQYDEAEELLERLLKQDP 56 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHH-HTTTSHHHHHH----HHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred ChhccCHHHHHHHHHHHHH-HCCCCHHHHHH----HHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 4678999999999875421 11122223332 22335678999999999987655443
No 20
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=68.40 E-value=50 Score=26.33 Aligned_cols=83 Identities=20% Similarity=0.337 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhH-H
Q 028054 42 DMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQ-Q 120 (214)
Q Consensus 42 ~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~-~ 120 (214)
.+..++.+=|++.|.+.....|.+-.=+.++... . ...+.-|. .+|...+-.-++.-+|. .
T Consensus 30 ~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~l---A-----~~LLs~~~----------~~~~~~Ql~lDMLkRL~~~ 91 (167)
T PF07035_consen 30 ELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPL---A-----CQLLSLGN----------QYPPAYQLGLDMLKRLGTA 91 (167)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHH---H-----HHHHHhHc----------cChHHHHHHHHHHHHhhhh
Confidence 4788888999999888888887654433322211 1 11122222 22333333344445555 3
Q ss_pred HH-HHH-HHHcCChHHHHHHHHHh
Q 028054 121 QR-LIE-LIRNGKVEEALEFAQEE 142 (214)
Q Consensus 121 q~-fIe-li~~~~~~~Ai~yar~~ 142 (214)
.. .+| ++..|++.+|+.|+|+.
T Consensus 92 ~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 92 YEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHc
Confidence 33 445 78899999999999974
No 21
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=66.54 E-value=30 Score=31.93 Aligned_cols=76 Identities=28% Similarity=0.333 Sum_probs=54.7
Q ss_pred HHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHH
Q 028054 43 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQR 122 (214)
Q Consensus 43 l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~ 122 (214)
...-|+.||...||.+.|-.|.++. +++..=+|.-|+++.|.+.+.+... -..+++=
T Consensus 297 ~~~~i~~fL~~~G~~e~AL~~~~D~-------------~~rFeLAl~lg~L~~A~~~a~~~~~----------~~~W~~L 353 (443)
T PF04053_consen 297 QGQSIARFLEKKGYPELALQFVTDP-------------DHRFELALQLGNLDIALEIAKELDD----------PEKWKQL 353 (443)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHSS-H-------------HHHHHHHHHCT-HHHHHHHCCCCST----------HHHHHHH
T ss_pred HHHHHHHHHHHCCCHHHHHhhcCCh-------------HHHhHHHHhcCCHHHHHHHHHhcCc----------HHHHHHH
Confidence 3677899999999999999986443 3567788999999999999876541 1244555
Q ss_pred HHHHHHcCChHHHHHHHHH
Q 028054 123 LIELIRNGKVEEALEFAQE 141 (214)
Q Consensus 123 fIeli~~~~~~~Ai~yar~ 141 (214)
--..+++|+..-|-+..++
T Consensus 354 g~~AL~~g~~~lAe~c~~k 372 (443)
T PF04053_consen 354 GDEALRQGNIELAEECYQK 372 (443)
T ss_dssp HHHHHHTTBHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHh
Confidence 5556788888877766664
No 22
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=65.31 E-value=18 Score=24.08 Aligned_cols=31 Identities=10% Similarity=0.359 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhhCHHHHHHHHHHHhCCC
Q 028054 40 KEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 40 ~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~ 70 (214)
+..+=..|.+|...+||.-|...+++..|+.
T Consensus 8 Q~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 8 QKEVLEFIREYIEENGYPPTVREIAEALGLK 38 (65)
T ss_dssp HHHHHHHHHHHHHHHSS---HHHHHHHHTSS
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHhCCC
Confidence 4456788999999999999999999999986
No 23
>PF13934 ELYS: Nuclear pore complex assembly
Probab=61.26 E-value=95 Score=25.78 Aligned_cols=112 Identities=16% Similarity=0.143 Sum_probs=63.0
Q ss_pred HHHHHHHHhccCCCHHHHHHHHHHHHHhhCH---HHHHHHHHHHhCCCCCc----------cHH-------------H-H
Q 028054 26 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGY---VDAAEKFRMESGTEPDI----------DLA-------------T-I 78 (214)
Q Consensus 26 ~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy---~eta~~f~~E~~~~~~~----------~~~-------------~-~ 78 (214)
.....+.+..-+++...=+-++.-+|...+- .+.+..|+...++++.- |.. . -
T Consensus 29 L~~Ll~~i~~~~~~~~~K~~l~~YlLlD~~~~~~~~~~~~Fa~~f~ip~~~~~~~~g~W~LD~~~~~~A~~~L~~ps~~~ 108 (226)
T PF13934_consen 29 LRALLDLILSSNVSLLKKHSLFYYLLLDLDDTRPSELAESFARAFGIPPKYIKFIQGFWLLDHGDFEEALELLSHPSLIP 108 (226)
T ss_pred HHHHHHHHhcCCcCHHHhHHHHHHHHHhcCccccccHHHHHHHHhCCCHHHHHHHHHHHHhChHhHHHHHHHhCCCCCCc
Confidence 4555555555555554434555555555543 36888999998886310 000 0 0
Q ss_pred HHHHHHHHH-HHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcC
Q 028054 79 TDRMAVKKA-VQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELA 144 (214)
Q Consensus 79 ~~r~~I~~~-I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~ 144 (214)
.--..|.+. +..|+.+-|+...+...|.+... --..-++..+.++.+.+|..|.|++-.
T Consensus 109 ~~~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s~-------~~~~~~~~~La~~~v~EAf~~~R~~~~ 168 (226)
T PF13934_consen 109 WFPDKILQALLRRGDPKLALRYLRAVGPPLSSP-------EALTLYFVALANGLVTEAFSFQRSYPD 168 (226)
T ss_pred ccHHHHHHHHHHCCChhHHHHHHHhcCCCCCCH-------HHHHHHHHHHHcCCHHHHHHHHHhCch
Confidence 001224443 45677888888877776665442 111223444677888888888887654
No 24
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.29 E-value=72 Score=27.56 Aligned_cols=66 Identities=14% Similarity=0.157 Sum_probs=55.8
Q ss_pred cCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q 028054 36 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVN 101 (214)
Q Consensus 36 ~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~ 101 (214)
.+.--....-.|+=||.++.|..+-..+...++++.+...+.......+...--.||++++-+.+.
T Consensus 186 y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~gD~E~~~kvl~ 251 (308)
T KOG1585|consen 186 YNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEGDIEEIKKVLS 251 (308)
T ss_pred cccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccCCHHHHHHHHc
Confidence 333334467788899999999999999999999988888888888888999999999999988876
No 25
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=54.19 E-value=61 Score=21.71 Aligned_cols=51 Identities=29% Similarity=0.441 Sum_probs=28.4
Q ss_pred HHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHH
Q 028054 84 VKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQ 140 (214)
Q Consensus 84 I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar 140 (214)
-.-....|+.+.|+.+++. ......+....+.+ -+- ++..|+.++|++...
T Consensus 32 a~~~~~~~~y~~A~~~~~~--~~~~~~~~~~~~l~-a~~---~~~l~~y~eAi~~l~ 82 (84)
T PF12895_consen 32 AQCYFQQGKYEEAIELLQK--LKLDPSNPDIHYLL-ARC---LLKLGKYEEAIKALE 82 (84)
T ss_dssp HHHHHHTTHHHHHHHHHHC--HTHHHCHHHHHHHH-HHH---HHHTT-HHHHHHHHH
T ss_pred HHHHHHCCCHHHHHHHHHH--hCCCCCCHHHHHHH-HHH---HHHhCCHHHHHHHHh
Confidence 3445688899999988876 22222222222222 222 334577888887655
No 26
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=52.33 E-value=67 Score=27.02 Aligned_cols=61 Identities=15% Similarity=0.202 Sum_probs=49.6
Q ss_pred HHHHHHHHhhCHHHHHHHHHHHhCC---CCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhCh
Q 028054 45 KLVMNFLVTEGYVDAAEKFRMESGT---EPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNP 105 (214)
Q Consensus 45 ~lI~~yL~~~Gy~eta~~f~~E~~~---~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~ 105 (214)
|+...+++..|-.+.|-.+.....= +...+........+....|++|..++|++.++..-.
T Consensus 68 R~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA 131 (228)
T KOG2659|consen 68 RLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLA 131 (228)
T ss_pred HHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHcc
Confidence 8888899999999999998887762 223335677888999999999999999999985543
No 27
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=51.84 E-value=1.9e+02 Score=27.29 Aligned_cols=100 Identities=16% Similarity=0.215 Sum_probs=46.9
Q ss_pred HHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCC---CCCccHHHHHHHHHH----HHHHHCCCHHHHHHHHHh
Q 028054 30 EKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGT---EPDIDLATITDRMAV----KKAVQCGNVEDAIEKVND 102 (214)
Q Consensus 30 ~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~---~~~~~~~~~~~r~~I----~~~I~~g~i~~Al~~~~~ 102 (214)
.+.-...+....-||--.+-|++|.|..+.|...+.-.-- .+..+...+....-+ ....+.|++..|++.+..
T Consensus 251 ~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~ 330 (517)
T PF12569_consen 251 MDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHA 330 (517)
T ss_pred HHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 3333444455555666666777777766655554433211 222222222222222 122456677777666654
Q ss_pred hChhhhhc-CCchhHhhHHHH------HHHHHHc
Q 028054 103 LNPEILDT-NPQLFFHLQQQR------LIELIRN 129 (214)
Q Consensus 103 ~~~~L~~~-~s~L~F~L~~q~------fIeli~~ 129 (214)
.......- ...+.|+-+|.+ |++|++-
T Consensus 331 v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ 364 (517)
T PF12569_consen 331 VLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRW 364 (517)
T ss_pred HHHHHHHHhcccccHHHHHHhhccHHHHHHHHHH
Confidence 43322221 234555555443 6666653
No 28
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=51.40 E-value=23 Score=22.09 Aligned_cols=27 Identities=37% Similarity=0.528 Sum_probs=22.4
Q ss_pred HHHHHHHHHcCChHHHHHHHHHhcCcc
Q 028054 120 QQRLIELIRNGKVEEALEFAQEELAPR 146 (214)
Q Consensus 120 ~q~fIeli~~~~~~~Ai~yar~~l~~~ 146 (214)
...+.+.|..|+..+|+++++++-.+.
T Consensus 5 ~~~i~~~i~~g~~~~a~~~~~~~~~~l 31 (58)
T smart00668 5 RKRIRELILKGDWDEALEWLSSLKPPL 31 (58)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHcCHHH
Confidence 466788999999999999999765544
No 29
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=50.87 E-value=4.8 Score=37.14 Aligned_cols=34 Identities=29% Similarity=0.555 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCC
Q 028054 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 37 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~ 70 (214)
.++.+++|.||.-||-..||.=+|=+|..|+++.
T Consensus 2 sitsdEvN~LV~RYLqE~G~~hsaftf~~Et~is 35 (524)
T KOG0273|consen 2 SITSDEVNFLVWRYLQESGFSHSAFTFGIETGIS 35 (524)
T ss_pred cccHHHHHHHHHHHHHHcCcceeeEEeeeccccc
Confidence 4567788999999999999999999999999975
No 30
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=50.66 E-value=19 Score=31.37 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHhhCHHHHHHHHHHHhC
Q 028054 40 KEDMNKLVMNFLVTEGYVDAAEKFRMESG 68 (214)
Q Consensus 40 ~~~l~~lI~~yL~~~Gy~eta~~f~~E~~ 68 (214)
++.|.--|.+||+|-|-..+|++|..|..
T Consensus 17 rekLa~YvYEYLlhvgaqksaqtflseir 45 (354)
T KOG4594|consen 17 REKLALYVYEYLLHVGAQKSAQTFLSEIR 45 (354)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhHHHHH
Confidence 46678899999999999999999987753
No 31
>PRK14574 hmsH outer membrane protein; Provisional
Probab=49.14 E-value=2.8e+02 Score=27.84 Aligned_cols=71 Identities=4% Similarity=-0.034 Sum_probs=29.6
Q ss_pred HHHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHh
Q 028054 29 WEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVND 102 (214)
Q Consensus 29 ~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~ 102 (214)
+.+.+..-+.+...+. -++..+...|-.+.|...++..- . ..+......+....-....|+++.|++..++
T Consensus 57 L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~-~-p~n~~~~~llalA~ly~~~gdyd~Aiely~k 127 (822)
T PRK14574 57 LQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ-S-SMNISSRGLASAARAYRNEKRWDQALALWQS 127 (822)
T ss_pred HHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc-c-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 3333333344433344 33333334455555555554443 1 1111122222222334455666666666553
No 32
>PF06588 Muskelin_N: Muskelin N-terminus; InterPro: IPR010565 This entry represents the N-terminal region of muskelin and is found in conjunction with several IPR006652 from INTERPRO repeats. Muskelin is an intracellular, kelch repeat protein that is needed in cell-spreading responses to the matrix adhesion molecule, thrombospondin-1 [].
Probab=48.92 E-value=31 Score=28.32 Aligned_cols=30 Identities=23% Similarity=0.548 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhhCHHHHHHHHHHHhCCC
Q 028054 41 EDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 41 ~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~ 70 (214)
....|+++-||-.+||.++.+++.+.+++.
T Consensus 166 ~eaiRlcLKHlRq~~y~~aFesLqk~t~v~ 195 (199)
T PF06588_consen 166 KEAIRLCLKHLRQRGYLEAFESLQKQTGVQ 195 (199)
T ss_pred HHHHHHHHHHhhhcCchhHHHHHHHHcCCC
Confidence 456699999999999999999999999986
No 33
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=48.58 E-value=48 Score=22.84 Aligned_cols=65 Identities=14% Similarity=0.208 Sum_probs=45.8
Q ss_pred CHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCC---CCccHHHHHHHHHHHHHHHC-----C-CHHHHHHHHHhh
Q 028054 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE---PDIDLATITDRMAVKKAVQC-----G-NVEDAIEKVNDL 103 (214)
Q Consensus 39 ~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~---~~~~~~~~~~r~~I~~~I~~-----g-~i~~Al~~~~~~ 103 (214)
+...+..+..+|..-.+-..+...|.+..|.. ...+...|..|+.|.+.|.. | ..++|++.|+..
T Consensus 7 ~~~TV~dlw~Ew~~g~~g~psI~~le~~yG~~WR~~~~~~~~y~rRK~Ii~~I~~l~~~~g~~~~~ai~~le~~ 80 (81)
T PF12550_consen 7 SIKTVYDLWREWFTGLNGQPSIRSLEKKYGSKWRRDSKERRTYSRRKVIIDFIERLANERGISEEEAIEILEEI 80 (81)
T ss_pred CCCcHHHHHHHHhcCCCCCCCHHHHHHHhChhhccCcccchhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 34445667777766544556788888887743 34555799999999999877 3 777888877653
No 34
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=48.25 E-value=2.4e+02 Score=27.55 Aligned_cols=115 Identities=22% Similarity=0.313 Sum_probs=69.9
Q ss_pred HHHHHHHHHHHhhCH--HHHHHHHHHHhCCCC-CccH-HHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHh
Q 028054 42 DMNKLVMNFLVTEGY--VDAAEKFRMESGTEP-DIDL-ATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFH 117 (214)
Q Consensus 42 ~l~~lI~~yL~~~Gy--~eta~~f~~E~~~~~-~~~~-~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~ 117 (214)
.+--.|+.||.-+-- .++..+|.+..+-.+ ..+. ..-....++...+.+|..+.|++-+..+.+.+.. .+.|.
T Consensus 146 w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D---kla~~ 222 (700)
T KOG1156|consen 146 WIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD---KLAFE 222 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH---HHHHh
Confidence 345555555543321 244455555443112 1222 2445566777788999999999999998887655 34555
Q ss_pred hHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHh
Q 028054 118 LQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA 162 (214)
Q Consensus 118 L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~ 162 (214)
..+-.+.. +.+.+++|+...+..+.+..++. .+-..++.+++
T Consensus 223 e~ka~l~~--kl~~lEeA~~~y~~Ll~rnPdn~-~Yy~~l~~~lg 264 (700)
T KOG1156|consen 223 ETKADLLM--KLGQLEEAVKVYRRLLERNPDNL-DYYEGLEKALG 264 (700)
T ss_pred hhHHHHHH--HHhhHHhHHHHHHHHHhhCchhH-HHHHHHHHHHH
Confidence 55555443 44678999999998888776543 23344445444
No 35
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=46.24 E-value=1.5e+02 Score=23.54 Aligned_cols=103 Identities=11% Similarity=0.014 Sum_probs=69.4
Q ss_pred HHHHHHHHHhhCHHHHHHH-HHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhc-CCchhHhhHHH
Q 028054 44 NKLVMNFLVTEGYVDAAEK-FRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT-NPQLFFHLQQQ 121 (214)
Q Consensus 44 ~~lI~~yL~~~Gy~eta~~-f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~-~s~L~F~L~~q 121 (214)
..-+++|+.+.|-.+.|.. +.+-..--.....-.--...-|+-+|..||+..+...+++...-+.+. +......|.+.
T Consensus 39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~ 118 (177)
T PF10602_consen 39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVY 118 (177)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence 4578999999998755544 444222111111111123567888999999999999998876555442 35677889999
Q ss_pred HHHHHHHcCChHHHHHHHHHhcCcc
Q 028054 122 RLIELIRNGKVEEALEFAQEELAPR 146 (214)
Q Consensus 122 ~fIeli~~~~~~~Ai~yar~~l~~~ 146 (214)
.-+..+..++..+|-+..-+-...|
T Consensus 119 ~gL~~l~~r~f~~AA~~fl~~~~t~ 143 (177)
T PF10602_consen 119 EGLANLAQRDFKEAAELFLDSLSTF 143 (177)
T ss_pred HHHHHHHhchHHHHHHHHHccCcCC
Confidence 9999999999888866555544444
No 36
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=45.37 E-value=2.1e+02 Score=25.09 Aligned_cols=77 Identities=14% Similarity=0.186 Sum_probs=41.2
Q ss_pred HHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHH-H
Q 028054 49 NFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIEL-I 127 (214)
Q Consensus 49 ~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIel-i 127 (214)
..|+..|....|..+.++.+++ |.-=-.-.|+.....|+|++-.++... +.|++-|+- |++. +
T Consensus 185 ~~li~~~~~k~A~kl~k~Fkv~-----dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyep----Fv~~~~ 248 (319)
T PF04840_consen 185 RKLIEMGQEKQAEKLKKEFKVP-----DKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEP----FVEACL 248 (319)
T ss_pred HHHHHCCCHHHHHHHHHHcCCc-----HHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHH----HHHHHH
Confidence 3445566666777777777664 212224456666666777666666542 123433332 3442 3
Q ss_pred HcCChHHHHHHHHH
Q 028054 128 RNGKVEEALEFAQE 141 (214)
Q Consensus 128 ~~~~~~~Ai~yar~ 141 (214)
+.|+..+|..|...
T Consensus 249 ~~~~~~eA~~yI~k 262 (319)
T PF04840_consen 249 KYGNKKEASKYIPK 262 (319)
T ss_pred HCCCHHHHHHHHHh
Confidence 44556666666665
No 37
>PF04121 Nup84_Nup100: Nuclear pore protein 84 / 107 ; InterPro: IPR007252 Nup84p forms a complex with five proteins, including Nup120p, Nup85p, Sec13p, and a Sec13p homolog. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 3CQC_A 3CQG_A 3I4R_A 3IKO_I 3JRO_C.
Probab=45.26 E-value=72 Score=31.15 Aligned_cols=27 Identities=15% Similarity=0.138 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHhh
Q 028054 77 TITDRMAVKKAVQCGNVEDAIEKVNDL 103 (214)
Q Consensus 77 ~~~~r~~I~~~I~~g~i~~Al~~~~~~ 103 (214)
.-...+.|-..|+.|++++|.+||.+.
T Consensus 133 e~~~~~~i~~llR~G~~~eA~~lc~~~ 159 (697)
T PF04121_consen 133 ERALLKYIFELLRAGRIEEAQELCRER 159 (697)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHC
Confidence 345567888899999999999999864
No 38
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=44.55 E-value=36 Score=22.87 Aligned_cols=40 Identities=30% Similarity=0.474 Sum_probs=27.5
Q ss_pred hhHHHHHHHHHHcCChHHHHHHHHHhcCcccc-ccHHHHHHHH
Q 028054 117 HLQQQRLIELIRNGKVEEALEFAQEELAPRGE-ENQSFLEELE 158 (214)
Q Consensus 117 ~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~-~~~~~~~~i~ 158 (214)
.+..++|-+++..|+..+|-..|-+ +|-+- ..++.+.+++
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~--sP~giLRt~~Ti~rFk 47 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAAN--SPRGILRTPETINRFK 47 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHH--SGGGTT-SHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHh--CccchhcCHHHHHHHH
Confidence 5789999999999999999988875 34321 2344455554
No 39
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=44.21 E-value=2.2e+02 Score=24.97 Aligned_cols=86 Identities=19% Similarity=0.262 Sum_probs=58.9
Q ss_pred ccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCch
Q 028054 35 DVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 114 (214)
Q Consensus 35 ~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L 114 (214)
..+++....-++.+.-|...|.++-...|+++- +++...++| |..++..|+..+|..++....+ ...+
T Consensus 202 ~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~sk--KsPIGyepF-----v~~~~~~~~~~eA~~yI~k~~~-----~~rv 269 (319)
T PF04840_consen 202 EFKVPDKRFWWLKIKALAENKDWDELEKFAKSK--KSPIGYEPF-----VEACLKYGNKKEASKYIPKIPD-----EERV 269 (319)
T ss_pred HcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhCC--CCCCChHHH-----HHHHHHCCCHHHHHHHHHhCCh-----HHHH
Confidence 356888888888888899999999888888763 244444443 5667888899999888876221 1122
Q ss_pred hHhhHHHHHHHHHHcCChHHHHHHHHH
Q 028054 115 FFHLQQQRLIELIRNGKVEEALEFAQE 141 (214)
Q Consensus 115 ~F~L~~q~fIeli~~~~~~~Ai~yar~ 141 (214)
+. +++.|+..+|++.|.+
T Consensus 270 ~~---------y~~~~~~~~A~~~A~~ 287 (319)
T PF04840_consen 270 EM---------YLKCGDYKEAAQEAFK 287 (319)
T ss_pred HH---------HHHCCCHHHHHHHHHH
Confidence 22 2456777777777664
No 40
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=44.10 E-value=1.5e+02 Score=28.23 Aligned_cols=37 Identities=16% Similarity=0.204 Sum_probs=30.2
Q ss_pred CchhHhhHHHHHHHHHHcCChHHHHHHHHHhcCccccc
Q 028054 112 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEE 149 (214)
Q Consensus 112 s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~ 149 (214)
+...+.++.++|.|+... ++..|++|.++.+.|..+.
T Consensus 621 ~~~~~~~~~HrF~E~~~~-~~l~a~~ylq~~~~~~~D~ 657 (723)
T KOG2437|consen 621 RHCKYLIRKHRFEEKAQV-DPLSALKYLQNDLYITVDH 657 (723)
T ss_pred hcchhhhHHHHHHHHhhh-hhHHHhHhhhhcceecccc
Confidence 455678999999999875 6889999999988776643
No 41
>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=43.26 E-value=52 Score=32.11 Aligned_cols=34 Identities=24% Similarity=0.469 Sum_probs=29.8
Q ss_pred CCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCC
Q 028054 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 37 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~ 70 (214)
.+....+|+.+.+||...||..|-..+.+|.++.
T Consensus 18 ~~~~~~~n~~v~~yl~~~~y~~te~~l~~e~~l~ 51 (707)
T KOG0263|consen 18 GSHTRDLNRIVLEYLRKKKYSRTEEMLRQEANLP 51 (707)
T ss_pred CcchHHHHHHHHHHHhhhcccccchhhhhhhccc
Confidence 4556778999999999999999999999998753
No 42
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=43.23 E-value=34 Score=21.14 Aligned_cols=19 Identities=26% Similarity=0.226 Sum_probs=16.4
Q ss_pred ChhhHHHHHHHHHHHHHhh
Q 028054 179 DISQRLKTASEVNAAILTS 197 (214)
Q Consensus 179 ~~~~r~~la~~~n~~iL~~ 197 (214)
.+.+|+.+|+.|.+++.++
T Consensus 25 ~~~qR~~iAe~Fa~AL~~S 43 (44)
T PF07208_consen 25 PPAQRQAIAEKFAQALKSS 43 (44)
T ss_dssp -HHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHhc
Confidence 4889999999999999875
No 43
>PF13934 ELYS: Nuclear pore complex assembly
Probab=42.28 E-value=2e+02 Score=23.85 Aligned_cols=66 Identities=23% Similarity=0.355 Sum_probs=41.3
Q ss_pred HHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHH-HHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhhc
Q 028054 88 VQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE-LIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAF 166 (214)
Q Consensus 88 I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIe-li~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~~ 166 (214)
+-.|+++.|++.+.. |.+... +..+.+. +++.|+...|+.|.|.--.|... .+.+.-.+..|+-
T Consensus 89 LD~~~~~~A~~~L~~--ps~~~~--------~~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s-----~~~~~~~~~~La~ 153 (226)
T PF13934_consen 89 LDHGDFEEALELLSH--PSLIPW--------FPDKILQALLRRGDPKLALRYLRAVGPPLSS-----PEALTLYFVALAN 153 (226)
T ss_pred hChHhHHHHHHHhCC--CCCCcc--------cHHHHHHHHHHCCChhHHHHHHHhcCCCCCC-----HHHHHHHHHHHHc
Confidence 556899999999843 333211 1112333 45578999999999976555543 2555566666665
Q ss_pred cC
Q 028054 167 ED 168 (214)
Q Consensus 167 ~~ 168 (214)
..
T Consensus 154 ~~ 155 (226)
T PF13934_consen 154 GL 155 (226)
T ss_pred CC
Confidence 54
No 44
>PF07729 FCD: FCD domain; InterPro: IPR011711 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=41.11 E-value=51 Score=23.06 Aligned_cols=29 Identities=17% Similarity=0.300 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHhhC
Q 028054 76 ATITDRMAVKKAVQCGNVEDAIEKVNDLN 104 (214)
Q Consensus 76 ~~~~~r~~I~~~I~~g~i~~Al~~~~~~~ 104 (214)
.....-..|.++|.+||.+.|.+.+.+|.
T Consensus 95 ~~~~~h~~i~~ai~~~d~~~a~~~~~~h~ 123 (125)
T PF07729_consen 95 RSLEEHREIIDAIRAGDPEAAREALRQHI 123 (125)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence 45666778888888888888888877653
No 45
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=40.40 E-value=32 Score=30.15 Aligned_cols=23 Identities=30% Similarity=0.569 Sum_probs=20.9
Q ss_pred HHHHHHHHHCCCHHHHHHHHHhh
Q 028054 81 RMAVKKAVQCGNVEDAIEKVNDL 103 (214)
Q Consensus 81 r~~I~~~I~~g~i~~Al~~~~~~ 103 (214)
...|++++..||++.|+.+++|-
T Consensus 261 ~~aI~~AVk~gDi~KAL~LldEA 283 (303)
T PRK10564 261 NQAIKQAVKKGDVDKALKLLDEA 283 (303)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHH
Confidence 47799999999999999999875
No 46
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=39.76 E-value=91 Score=25.55 Aligned_cols=52 Identities=17% Similarity=0.323 Sum_probs=35.6
Q ss_pred HHHHHHHHHHCCCHHHHHHHHHhhCh--hhhh-----------cCCchhHhhHHHHHHHHHHcCC
Q 028054 80 DRMAVKKAVQCGNVEDAIEKVNDLNP--EILD-----------TNPQLFFHLQQQRLIELIRNGK 131 (214)
Q Consensus 80 ~r~~I~~~I~~g~i~~Al~~~~~~~~--~L~~-----------~~s~L~F~L~~q~fIeli~~~~ 131 (214)
+|..-+++|+.|+=+.|+-.+...+- .|+. .-++++|.....++++-++.|+
T Consensus 42 Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~GN 106 (209)
T KOG2910|consen 42 ERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQGN 106 (209)
T ss_pred HHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556777777777777655543222 2222 2368999999999999999884
No 47
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=39.30 E-value=44 Score=21.44 Aligned_cols=28 Identities=18% Similarity=0.080 Sum_probs=24.5
Q ss_pred cChhhHHHHHHHHHHHHHhhCCCCCCCC
Q 028054 178 LDISQRLKTASEVNAAILTSQSHEKDFS 205 (214)
Q Consensus 178 ~~~~~r~~la~~~n~~iL~~~g~~~~~~ 205 (214)
.+.+++.++++.+..++.+..|.|.++-
T Consensus 12 rs~EqK~~L~~~it~a~~~~~~~p~~~v 39 (60)
T PRK02289 12 RSQEQKNALAREVTEVVSRIAKAPKEAI 39 (60)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcceE
Confidence 3788999999999999999999986643
No 48
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=38.28 E-value=39 Score=24.93 Aligned_cols=47 Identities=13% Similarity=0.194 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHH
Q 028054 79 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE 125 (214)
Q Consensus 79 ~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIe 125 (214)
.....+.+.|.++||+.|.+.+.+....-.+....+.|.+..+++=+
T Consensus 30 ~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~ 76 (121)
T PF14276_consen 30 EQLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDN 76 (121)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHH
Confidence 44567999999999999999988776555555566677776666543
No 49
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=37.92 E-value=3.2e+02 Score=24.91 Aligned_cols=102 Identities=19% Similarity=0.153 Sum_probs=67.5
Q ss_pred cCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchh
Q 028054 36 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLF 115 (214)
Q Consensus 36 ~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~ 115 (214)
.+.-.+.|..-++.|+...|-.+.|..+.++.....+. ... .-.+-.+..++-.+|++.+++.- .+. +-.
T Consensus 164 ~t~~~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pe-v~~----~LA~v~l~~~~E~~AI~ll~~aL---~~~--p~d 233 (395)
T PF09295_consen 164 PTIVNNYLVDTLLKYLSLTQRYDEAIELLEKLRERDPE-VAV----LLARVYLLMNEEVEAIRLLNEAL---KEN--PQD 233 (395)
T ss_pred CCCcchHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCc-HHH----HHHHHHHhcCcHHHHHHHHHHHH---HhC--CCC
Confidence 44566778888889999988888888888776543221 111 22444456778888998887543 222 222
Q ss_pred HhhHHHHHHHHHHcCChHHHHHHHHH--hcCccc
Q 028054 116 FHLQQQRLIELIRNGKVEEALEFAQE--ELAPRG 147 (214)
Q Consensus 116 F~L~~q~fIeli~~~~~~~Ai~yar~--~l~~~~ 147 (214)
..|...+---++.+++.+.|++.|++ .++|..
T Consensus 234 ~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~ 267 (395)
T PF09295_consen 234 SELLNLQAEFLLSKKKYELALEIAKKAVELSPSE 267 (395)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh
Confidence 56666665557788889999999997 455543
No 50
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=36.24 E-value=49 Score=17.29 Aligned_cols=17 Identities=12% Similarity=0.253 Sum_probs=11.8
Q ss_pred HHHHHCCCHHHHHHHHH
Q 028054 85 KKAVQCGNVEDAIEKVN 101 (214)
Q Consensus 85 ~~~I~~g~i~~Al~~~~ 101 (214)
.-....|++++|..+++
T Consensus 9 ~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 9 RALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHcCCHHHHHHHHh
Confidence 34567788888877765
No 51
>PF06794 UPF0270: Uncharacterised protein family (UPF0270); InterPro: IPR010648 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1Y0N_A.
Probab=36.00 E-value=1.1e+02 Score=20.74 Aligned_cols=43 Identities=23% Similarity=0.395 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCC
Q 028054 38 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGN 92 (214)
Q Consensus 38 ~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~ 92 (214)
++++.|+.+|-+|..|.|..---.. ...-....+++.++.+|+
T Consensus 8 L~~eTL~nLIeefv~ReGTdyG~~E------------~sL~~kv~qv~~qL~~G~ 50 (70)
T PF06794_consen 8 LPPETLNNLIEEFVLREGTDYGEQE------------LSLEEKVEQVKQQLKSGE 50 (70)
T ss_dssp S-HHHHHHHHHHHHH------------------------HHHHHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHccCcccCccc------------ccHHHHHHHHHHHHHcCC
Confidence 5677889999999999986421111 122234566788888886
No 52
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=33.72 E-value=3e+02 Score=23.38 Aligned_cols=94 Identities=13% Similarity=0.134 Sum_probs=54.4
Q ss_pred HHHHHhHHHHHHhhhcccCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHh-CCCCCccHHHHHHHHH
Q 028054 5 WIVIRQLAEIEAMAMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMES-GTEPDIDLATITDRMA 83 (214)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~-~~~~~~~~~~~~~r~~ 83 (214)
|-|.-..|.+|--.+.+......-|+..+...+-+.+....-| +||++.|..+-+.++-+.+ +.-+.......--.+-
T Consensus 35 ~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~-~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~ 113 (280)
T PF05843_consen 35 YHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYL-DFLIKLNDINNARALFERAISSLPKEKQSKKIWKKF 113 (280)
T ss_dssp THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHH-HHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHH-HHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHH
Confidence 4455567778777777777778888888888888777776666 8888888777776655543 2211111011112233
Q ss_pred HHHHHHCCCHHHHHHH
Q 028054 84 VKKAVQCGNVEDAIEK 99 (214)
Q Consensus 84 I~~~I~~g~i~~Al~~ 99 (214)
|.-.-.-||++.+.+.
T Consensus 114 i~fE~~~Gdl~~v~~v 129 (280)
T PF05843_consen 114 IEFESKYGDLESVRKV 129 (280)
T ss_dssp HHHHHHHS-HHHHHHH
T ss_pred HHHHHHcCCHHHHHHH
Confidence 3334556777766554
No 53
>PF03997 VPS28: VPS28 protein; InterPro: IPR007143 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ].; PDB: 2J9W_B 2J9U_C 2G3K_A 2F66_E 2F6M_D 2J9V_A 2CAZ_E 2P22_B.
Probab=33.64 E-value=1.3e+02 Score=24.56 Aligned_cols=56 Identities=21% Similarity=0.379 Sum_probs=41.7
Q ss_pred HHHHHHhHHHHHHhhhcccCCCHHHHHHHHhccCCCHHHHHHHHHHH-----HHhhCHHHHHHHHHHHhCCC
Q 028054 4 FWIVIRQLAEIEAMAMSKKVITREEWEKKLNDVKIRKEDMNKLVMNF-----LVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~y-----L~~~Gy~eta~~f~~E~~~~ 70 (214)
.+.+|.-|..+|.. |-|+.|+.++.... .++||.+| ..+.+.+...+.|+++.++.
T Consensus 4 LysII~tle~LEka-yikD~It~~eYt~~----------c~kLl~Qyk~~~~~~~~~~~~~le~F~~~y~l~ 64 (188)
T PF03997_consen 4 LYSIIKTLEHLEKA-YIKDSITEKEYTTA----------CNKLLNQYKTILKQLKDDEFPDLEEFMKKYNLD 64 (188)
T ss_dssp HHHHHHHHHHHHHH-HHTTSS-HHHHHHH----------HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHHHHH-HhhccCCHHHHHHH----------HHHHHHHHHHHHHHcccccCCCHHHHHHHhccc
Confidence 45677788888776 99999999998554 58999999 23333567799999999975
No 54
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=33.10 E-value=65 Score=19.63 Aligned_cols=30 Identities=30% Similarity=0.597 Sum_probs=21.1
Q ss_pred cccCCCHHHHHHHHh--ccC-CCHHHHHHHHHH
Q 028054 20 SKKVITREEWEKKLN--DVK-IRKEDMNKLVMN 49 (214)
Q Consensus 20 ~~~~~~~~~~~~~~~--~~~-~~~~~l~~lI~~ 49 (214)
+++.|+++++...+. +++ .++..++.++..
T Consensus 1 ~~G~i~~~~~~~~l~~~g~~~~s~~e~~~l~~~ 33 (54)
T PF13833_consen 1 KDGKITREEFRRALSKLGIKDLSEEEVDRLFRE 33 (54)
T ss_dssp SSSEEEHHHHHHHHHHTTSSSSCHHHHHHHHHH
T ss_pred CcCEECHHHHHHHHHHhCCCCCCHHHHHHHHHh
Confidence 367788888888875 346 777777766543
No 55
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=33.06 E-value=4.3e+02 Score=24.99 Aligned_cols=59 Identities=10% Similarity=0.155 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhhCHHHHHHHHHHHh-CCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhC
Q 028054 43 MNKLVMNFLVTEGYVDAAEKFRMES-GTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 104 (214)
Q Consensus 43 l~~lI~~yL~~~Gy~eta~~f~~E~-~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~ 104 (214)
+...+++|.-+.|..+.|-.+..++ ...|. ..+.+-..-+|. -..|++..|.+++++-+
T Consensus 196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~Karil--Kh~G~~~~Aa~~~~~Ar 255 (517)
T PF12569_consen 196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARIL--KHAGDLKEAAEAMDEAR 255 (517)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHH--HHCCCHHHHHHHHHHHH
Confidence 5578899999999988888777653 33332 233333333332 24677777777776543
No 56
>PF01158 Ribosomal_L36e: Ribosomal protein L36e; InterPro: IPR000509 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. The L36E ribosomal family consists of mammalian, Caenorhabditis elegans and Drosophila L36, Candida albicans L39, and yeast YL39 ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1B_Q 4A1D_Q 4A19_Q 4A18_Q 3IZS_k 3IZR_k.
Probab=32.59 E-value=87 Score=22.77 Aligned_cols=45 Identities=27% Similarity=0.374 Sum_probs=32.6
Q ss_pred HhhHHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHh
Q 028054 116 FHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALL 164 (214)
Q Consensus 116 F~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL 164 (214)
|.=+-.+-+||++.+.-..|+.|+++.+..+... ..+.+++...|
T Consensus 48 faPYEkr~mELlkv~kdKrAlKf~KKRlGth~RA----KrKrEel~~vl 92 (98)
T PF01158_consen 48 FAPYEKRAMELLKVSKDKRALKFAKKRLGTHIRA----KRKREELSNVL 92 (98)
T ss_dssp HCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHHHH----HHHHHHHHHHH
T ss_pred CChHHHHHHHHHhcchhHHHHHHHHHHhhhhHHH----HHHHHHHHHHH
Confidence 4456677899999999999999999999776532 34445554444
No 57
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=32.53 E-value=31 Score=23.53 Aligned_cols=16 Identities=25% Similarity=0.376 Sum_probs=13.9
Q ss_pred CHHHHHHHHHhhChhh
Q 028054 92 NVEDAIEKVNDLNPEI 107 (214)
Q Consensus 92 ~i~~Al~~~~~~~~~L 107 (214)
.++.|++|+.+|.|.+
T Consensus 60 tld~Ai~Wi~e~M~~i 75 (79)
T PF10827_consen 60 TLDLAIAWIGEHMPHI 75 (79)
T ss_pred cHHHHHHHHHhcccch
Confidence 5799999999998865
No 58
>PF04433 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins. It is named after the proteins SWI3, RSC8 and MOIRA in which it was first recognised. This domain is predicted to mediate protein-protein interactions in the assembly of chromatin-protein complexes. The SWIRM domain can be linked to different domains, such as the ZZ-type zinc finger (IPR000433 from INTERPRO), the Myb DNA-binding domain (IPR001005 from INTERPRO), the HORMA domain (IPR003511 from INTERPRO), the amino-oxidase domain, the chromo domain (IPR000953 from INTERPRO), and the JAB1/PAD1 domain.; GO: 0005515 protein binding; PDB: 2Z3Y_A 2UXN_A 2Y48_A 2HKO_A 2XAF_A 2X0L_A 2XAJ_A 2UXX_A 2V1D_A 2L3D_A ....
Probab=31.41 E-value=1.7e+02 Score=20.00 Aligned_cols=37 Identities=19% Similarity=0.318 Sum_probs=24.3
Q ss_pred hhcccCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCHH
Q 028054 18 AMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYV 57 (214)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~ 57 (214)
.-+.+++++.+..+.+. ..+.+.+. -|-+||.+.|+.
T Consensus 48 ~n~~~~lt~~~~~~~i~--~~d~~~~~-ri~~FL~~~G~I 84 (86)
T PF04433_consen 48 KNPNKYLTKTDARKLIK--GIDVNKIR-RIYDFLERWGLI 84 (86)
T ss_dssp HHTTS---HHHHHHHTT--SSSHHHHH-HHHHHHHHTTSS
T ss_pred HCCCCcccHHHHHHHcc--ccCHHHHH-HHHHHHHHcCcc
Confidence 45788899999977765 24555554 458999999985
No 59
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.23 E-value=1.9e+02 Score=26.20 Aligned_cols=63 Identities=13% Similarity=0.071 Sum_probs=45.7
Q ss_pred HHHHHHHhhCHHHHHHHHHHHhCCC---CCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhh
Q 028054 46 LVMNFLVTEGYVDAAEKFRMESGTE---PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 109 (214)
Q Consensus 46 lI~~yL~~~Gy~eta~~f~~E~~~~---~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~ 109 (214)
.|.+-|.+.. .+.+-++++|-... .....|.-...++....|+.++++.|++.+++++...-+
T Consensus 158 ~I~~sll~~~-l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~~ 223 (389)
T KOG0396|consen 158 GIRDSLLAGE-LEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWAK 223 (389)
T ss_pred HHHHHHHhcc-hHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhhh
Confidence 3555555544 67777788875532 234456777788899999999999999999988876544
No 60
>PF09052 SipA: Salmonella invasion protein A; InterPro: IPR015138 Salmonella invasion protein A (SipA) is a virulence factor that is translocated into host cells by a type III secretion system. In the host cell it binds to actin, stimulates actin polymerisation and counteracts F-actin destabilising proteins. This contributes towards cytoskeletal rearrangements that allow the entry of the pathogen into the host cell []. ; PDB: 2HSQ_B 2IBF_B 3RF3_D 2GWW_B 2GDC_B 1Q5Z_A 2FM8_C 2FM9_A.
Probab=31.13 E-value=84 Score=29.87 Aligned_cols=89 Identities=10% Similarity=0.124 Sum_probs=53.7
Q ss_pred HHHhHHHHHHhhhcccCCCHHHHHHHHhccCC------CHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHH
Q 028054 7 VIRQLAEIEAMAMSKKVITREEWEKKLNDVKI------RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITD 80 (214)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~ 80 (214)
|-|.+.+...-+-+...+++...+.....++. +-+.|.+.|..|=.++-..+.|.+|.+|.|+.+..+...+..
T Consensus 556 qrRefd~lr~eIl~sdt~~~~~~k~q~sd~~~~~~l~~~adtLke~i~~Hp~~EKl~evA~~~~Rea~Ltkl~~~t~~lL 635 (674)
T PF09052_consen 556 QRREFDGLRKEILPSDTEKSIALKAQCSDINIHPELKEKADTLKEVITNHPQYEKLAEVARQFAREAGLTKLKGETDYLL 635 (674)
T ss_dssp HHHHHHHHHHHHS-SSHHHHHHHHHHHGGGGG-HHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH-CCCCGGGS-HHH
T ss_pred HHHHHHHHHhhcCCcchhHHHHHHhhhcccccchHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHhhCcccccCcchHHH
Confidence 44556566555666666666666666655543 456788889999888889999999999999876544322222
Q ss_pred HHHHHHHHHCCCHHH
Q 028054 81 RMAVKKAVQCGNVED 95 (214)
Q Consensus 81 r~~I~~~I~~g~i~~ 95 (214)
-..|-..+-+++|..
T Consensus 636 s~~Ldgl~~d~~~r~ 650 (674)
T PF09052_consen 636 SDDLDGLIGDNDWRA 650 (674)
T ss_dssp HHHHHHHSTT-GGG-
T ss_pred HhhHhhhccCccccc
Confidence 222334444455543
No 61
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=30.66 E-value=95 Score=23.88 Aligned_cols=55 Identities=20% Similarity=0.204 Sum_probs=44.3
Q ss_pred hhCHHHHHHHHHHHhCC--CCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhh
Q 028054 53 TEGYVDAAEKFRMESGT--EPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 107 (214)
Q Consensus 53 ~~Gy~eta~~f~~E~~~--~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L 107 (214)
-.|-.++...|.+..+. -.+.+.+.....+.|-.++.+|..-+|++.+...+|.-
T Consensus 68 p~gaeq~~~~F~~~l~~l~~~f~~~eil~~lk~Id~lV~~~~~feALkaiR~lyp~E 124 (148)
T COG5443 68 PAGAEQATEMFRKSLNMLLACFKDAEILAALKRIDGLVMAGRAFEALKAIRGLYPIE 124 (148)
T ss_pred HhhHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccHHHHHHHHHhhhchhH
Confidence 35777788888877653 13456788999999999999999999999999998853
No 62
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=30.52 E-value=1.5e+02 Score=19.12 Aligned_cols=56 Identities=20% Similarity=0.147 Sum_probs=29.1
Q ss_pred HHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHH--HHHcCChHHHHHHHHHhc
Q 028054 88 VQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE--LIRNGKVEEALEFAQEEL 143 (214)
Q Consensus 88 I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIe--li~~~~~~~Ai~yar~~l 143 (214)
...|+++.|+++.++--......+..-........=+- ....|+..+|+++.++-+
T Consensus 16 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 16 RELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 36788888888887654431122211111122222111 234678888888887643
No 63
>PHA00780 hypothetical protein
Probab=29.91 E-value=95 Score=21.54 Aligned_cols=33 Identities=21% Similarity=0.144 Sum_probs=22.5
Q ss_pred CCchhHhhHHHHHHHHHHcCC----hHHHHHHHHHhc
Q 028054 111 NPQLFFHLQQQRLIELIRNGK----VEEALEFAQEEL 143 (214)
Q Consensus 111 ~s~L~F~L~~q~fIeli~~~~----~~~Ai~yar~~l 143 (214)
++.|.|+|.+++|-.--..+. ..+||+-+++-+
T Consensus 37 d~~Lk~ElF~~q~~~~~~E~~~vart~kAIq~akEAL 73 (80)
T PHA00780 37 TDELKLELFKIHFQSGGANSDITTRTIEAVRKSKEAL 73 (80)
T ss_pred chHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHH
Confidence 478999999999987544443 445666655544
No 64
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=29.38 E-value=92 Score=29.47 Aligned_cols=33 Identities=12% Similarity=0.099 Sum_probs=26.7
Q ss_pred ccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhCh
Q 028054 73 IDLATITDRMAVKKAVQCGNVEDAIEKVNDLNP 105 (214)
Q Consensus 73 ~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~ 105 (214)
...+..+...+....+..||++.|+..++....
T Consensus 519 ~~~d~~~ilarae~~l~~gdL~~A~~~~~~L~g 551 (582)
T PF09731_consen 519 EGDDVESILARAEYYLERGDLDKAARELNQLKG 551 (582)
T ss_pred CCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence 344566777889999999999999999987654
No 65
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=29.18 E-value=1.3e+02 Score=19.59 Aligned_cols=32 Identities=19% Similarity=0.320 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHhhChhh
Q 028054 76 ATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 107 (214)
Q Consensus 76 ~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L 107 (214)
|.....+-|...+..|++++|.+.+++....+
T Consensus 22 D~~NhLqvI~gllqlg~~~~a~eYi~~~~~~~ 53 (62)
T PF14689_consen 22 DFLNHLQVIYGLLQLGKYEEAKEYIKELSKDL 53 (62)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 55666777888899999999999988765444
No 66
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=28.93 E-value=1.6e+02 Score=18.70 Aligned_cols=53 Identities=30% Similarity=0.290 Sum_probs=35.2
Q ss_pred HHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHHHHHHHHhcC
Q 028054 87 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELA 144 (214)
Q Consensus 87 ~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l~ 144 (214)
.+..++++.|++.++..- ..++. ...++...=.=+...|+..+|++...+.+.
T Consensus 5 ~~~~~~~~~A~~~~~~~l----~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 5 YLQQEDYEEALEVLERAL----ELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred HHhCCCHHHHHHHHHHHH----HhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 478899999999987432 22222 333333344445567899999999988664
No 67
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=28.30 E-value=1.8e+02 Score=23.69 Aligned_cols=64 Identities=13% Similarity=0.150 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCC------chhHhhHHHHHHHHHHcCChHHHHHHHHHhc
Q 028054 79 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNP------QLFFHLQQQRLIELIRNGKVEEALEFAQEEL 143 (214)
Q Consensus 79 ~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s------~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l 143 (214)
..|.+|.+.+- -.++.-++++...+..+.+..+ .+-..+..-.|.++++.|+..+|.+++.+.+
T Consensus 135 ~lr~~ie~~l~-~~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 204 (205)
T TIGR01470 135 LLRERIETLLP-PSLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRL 204 (205)
T ss_pred HHHHHHHHhcc-hhHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhh
Confidence 34555555543 2567777888777777765432 2223333445788899999999888887654
No 68
>PF01671 ASFV_360: African swine fever virus multigene family 360 protein; InterPro: IPR002595 The multigene family 360 protein are found within the African swine fever virus (ASFV) genome which consist of dsDNA and has similar structural features to the poxviruses []. The biological function of this family is not known [], although Q65137 from SWISSPROT is a major structural protein [].; GO: 0042330 taxis
Probab=28.21 E-value=1.5e+02 Score=24.64 Aligned_cols=87 Identities=13% Similarity=0.216 Sum_probs=49.8
Q ss_pred HHHHHHHhCCCC-CccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcC-----CchhHhhHHHH---------HH
Q 028054 60 AEKFRMESGTEP-DIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN-----PQLFFHLQQQR---------LI 124 (214)
Q Consensus 60 a~~f~~E~~~~~-~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~-----s~L~F~L~~q~---------fI 124 (214)
-+.||++.|-++ ..+.+...-...+.....++++--+.+....| |-+..-+ .-+.+.+.... +-
T Consensus 3 tr~LC~~LGAk~~l~~~~il~iF~~~~~~kts~nIILcheif~nN-p~l~~v~~~~l~~~I~~~l~~l~~~~~l~~~s~~ 81 (215)
T PF01671_consen 3 TRDLCRELGAKEPLNEMEILQIFFKIKRNKTSSNIILCHEIFSNN-PLLENVNNHDLRMIIYWELRRLSINEILDEISFN 81 (215)
T ss_pred HHHHHHHhCCCccccHHHHHHHHHHHHhcCCccceeeehHhhcCC-hHHhhhhHHHHHHHHHHHHccchHHHHhccchHH
Confidence 356888888764 44455555555566666667777777777766 6553322 12333333331 11
Q ss_pred HHHH--------cCChHHHHHHHHHhcCccc
Q 028054 125 ELIR--------NGKVEEALEFAQEELAPRG 147 (214)
Q Consensus 125 eli~--------~~~~~~Ai~yar~~l~~~~ 147 (214)
+++. ..++.+||+|.-++...+.
T Consensus 82 ~~LtkyWY~~Av~ynL~~AI~Yfyq~y~hl~ 112 (215)
T PF01671_consen 82 EMLTKYWYAIAVQYNLKEAIQYFYQKYPHLN 112 (215)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHhccchh
Confidence 1111 1368899999988765543
No 69
>PF10834 DUF2560: Protein of unknown function (DUF2560); InterPro: IPR022544 This entry is represented by Bacteriophage P22, Orf80. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=27.67 E-value=1.1e+02 Score=21.24 Aligned_cols=33 Identities=15% Similarity=0.236 Sum_probs=22.9
Q ss_pred CCchhHhhHHHHHHHHHHcCC----hHHHHHHHHHhc
Q 028054 111 NPQLFFHLQQQRLIELIRNGK----VEEALEFAQEEL 143 (214)
Q Consensus 111 ~s~L~F~L~~q~fIeli~~~~----~~~Ai~yar~~l 143 (214)
++.+.|+|.+++|-.--..++ ..+||+-+++-|
T Consensus 37 d~~LK~ElF~~q~~~~~~e~~~vart~KAIq~~kEAL 73 (80)
T PF10834_consen 37 DSELKYELFKDQYNRVGAESTVVARTIKAIQESKEAL 73 (80)
T ss_pred CcHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHH
Confidence 478999999999988644443 445666665544
No 70
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=27.50 E-value=1.1e+02 Score=22.22 Aligned_cols=31 Identities=32% Similarity=0.562 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHHcCChHHHHHHHHHhcCccc
Q 028054 117 HLQQQRLIELIRNGKVEEALEFAQEELAPRG 147 (214)
Q Consensus 117 ~L~~q~fIeli~~~~~~~Ai~yar~~l~~~~ 147 (214)
-=+-...+||++.+.-..|+.|+++.+..+.
T Consensus 49 aPYErr~mELLkv~kdKrAlKfaKkRlGth~ 79 (98)
T PTZ00196 49 SPYERRMIELLKVGKDKRALKYAKKRLGTHK 79 (98)
T ss_pred cHHHHHHHHHHHhcchHHHHHHHHHHhhhHH
Confidence 3455678999999988999999999987665
No 71
>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]
Probab=27.43 E-value=2.1e+02 Score=25.61 Aligned_cols=32 Identities=19% Similarity=0.253 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCC
Q 028054 39 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 70 (214)
Q Consensus 39 ~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~ 70 (214)
+++.+-+||..+|.+.|+...|..++.....+
T Consensus 10 dre~lyrLiisqL~ydg~~qiA~~lan~~~~~ 41 (430)
T KOG0640|consen 10 DREILYRLIISQLRYDGLSQIASALANATMTP 41 (430)
T ss_pred hHHHHHHHHHHHHhhccHHHHHHHHHHhhcCc
Confidence 56778999999999999999999999876654
No 72
>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human. Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.
Probab=27.16 E-value=1.3e+02 Score=28.39 Aligned_cols=61 Identities=20% Similarity=0.234 Sum_probs=39.0
Q ss_pred HHHHHHHHhccCCCHHHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHh
Q 028054 26 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVND 102 (214)
Q Consensus 26 ~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~ 102 (214)
+..+...+.++|++.+.-..=+.......|+.++++..++-.|. .++.+|++.+|+.|+..
T Consensus 390 ~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~----------------~~~~~~~~g~AL~~~~r 450 (566)
T PF07575_consen 390 RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQ----------------RLLKEGRYGEALSWFIR 450 (566)
T ss_dssp HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHH----------------HHHHCCCHHHHHHHHHH
Confidence 77777888888877766555555777777888888887776663 24556777777777753
No 73
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=26.16 E-value=1.8e+02 Score=19.17 Aligned_cols=50 Identities=14% Similarity=0.256 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHHHHHhhCH-HHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCH
Q 028054 38 IRKEDMNKLVMNFLVTEGY-VDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNV 93 (214)
Q Consensus 38 ~~~~~l~~lI~~yL~~~Gy-~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i 93 (214)
++++...+-|+++|.++|- .=++..++++.|+... .-++.+..+...|-+
T Consensus 2 ~~~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~------~v~r~L~~L~~~G~V 52 (68)
T smart00550 2 LTQDSLEEKILEFLENSGDETSTALQLAKNLGLPKK------EVNRVLYSLEKKGKV 52 (68)
T ss_pred CCchHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH------HHHHHHHHHHHCCCE
Confidence 3456668899999999987 3689999999998631 234555555566654
No 74
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=25.69 E-value=2.7e+02 Score=27.52 Aligned_cols=62 Identities=19% Similarity=0.301 Sum_probs=43.8
Q ss_pred HHHHHHHH-HHCCCHHHHHHHHHhhChhhhhcC--CchhHhhHHHHHHH----HHHcCChHHHHHHHHHh
Q 028054 80 DRMAVKKA-VQCGNVEDAIEKVNDLNPEILDTN--PQLFFHLQQQRLIE----LIRNGKVEEALEFAQEE 142 (214)
Q Consensus 80 ~r~~I~~~-I~~g~i~~Al~~~~~~~~~L~~~~--s~L~F~L~~q~fIe----li~~~~~~~Ai~yar~~ 142 (214)
+.+.|.+. +..|+|++|...++.+ |+++..- +.-.|.--.-+|+| .++.|...+|+....+.
T Consensus 775 D~ksiVqlHve~~~W~eAFalAe~h-Pe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQL 843 (1081)
T KOG1538|consen 775 DLKSLVQLHVETQRWDEAFALAEKH-PEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQL 843 (1081)
T ss_pred cHHHHhhheeecccchHhHhhhhhC-ccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHh
Confidence 34555554 8999999999998876 7776531 33455556667777 35678888898888754
No 75
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]
Probab=25.46 E-value=5e+02 Score=25.90 Aligned_cols=92 Identities=20% Similarity=0.157 Sum_probs=64.7
Q ss_pred hC-CCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhc--CCchhHhhHHHHHHHHHHcCChHHHHHHHHHhc
Q 028054 67 SG-TEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT--NPQLFFHLQQQRLIELIRNGKVEEALEFAQEEL 143 (214)
Q Consensus 67 ~~-~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~--~s~L~F~L~~q~fIeli~~~~~~~Ai~yar~~l 143 (214)
+| ++...+...+...++|...+..|+- ....+|.+.+. -.+.++.=.+.-|++.+-++++++++--.++.+
T Consensus 25 sg~l~s~n~~~kidAmK~iIa~M~~G~d------mssLf~dViK~~~trd~ElKrL~ylYl~~yak~~P~~~lLavNti~ 98 (757)
T COG5096 25 SGRLESSNDYKKIDAMKKIIAQMSLGED------MSSLFPDVIKNVATRDVELKRLLYLYLERYAKLKPELALLAVNTIQ 98 (757)
T ss_pred cccccccChHHHHHHHHHHHHHHhcCCC------hHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence 45 6666677888999999999999975 34445655542 235666667778888888999999988888887
Q ss_pred CccccccHHHHHHHHHHHhHh
Q 028054 144 APRGEENQSFLEELERTVALL 164 (214)
Q Consensus 144 ~~~~~~~~~~~~~i~~l~~lL 164 (214)
..+.+.+|..+.--=+.+++|
T Consensus 99 kDl~d~N~~iR~~AlR~ls~l 119 (757)
T COG5096 99 KDLQDPNEEIRGFALRTLSLL 119 (757)
T ss_pred hhccCCCHHHHHHHHHHHHhc
Confidence 777776654444333444444
No 76
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=24.61 E-value=2.9e+02 Score=20.33 Aligned_cols=50 Identities=20% Similarity=0.273 Sum_probs=32.1
Q ss_pred HHHHHHHHhccCCCHHHHHHHHHHHHHhhCHHHH--------HHHHHHHhCCCCCccH
Q 028054 26 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDA--------AEKFRMESGTEPDIDL 75 (214)
Q Consensus 26 ~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~et--------a~~f~~E~~~~~~~~~ 75 (214)
-..+.+.....+...+.+.+..+.-+...|-... ...|.+|.|++|....
T Consensus 81 a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~ 138 (146)
T PF03704_consen 81 ALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET 138 (146)
T ss_dssp HHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence 3456667777788888889888899999885543 3557778899875543
No 77
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=24.55 E-value=2.8e+02 Score=27.46 Aligned_cols=28 Identities=25% Similarity=0.504 Sum_probs=25.6
Q ss_pred CCCHHHHHHHHHHHHHhhCHHHHHHHHH
Q 028054 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 64 (214)
Q Consensus 37 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~ 64 (214)
.++-..+..+|..-|...|+.++|+++.
T Consensus 58 ~isve~IqDiVe~~L~~~g~~~vAkaYI 85 (735)
T PRK07111 58 EVTVEDIQDLVEKVLIENGHAETAKAYI 85 (735)
T ss_pred CCCHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence 5788888999999999999999999985
No 78
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=24.07 E-value=81 Score=27.07 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=16.3
Q ss_pred HHHHHHHCCCHHHHHHHHHhhC
Q 028054 83 AVKKAVQCGNVEDAIEKVNDLN 104 (214)
Q Consensus 83 ~I~~~I~~g~i~~Al~~~~~~~ 104 (214)
+|++++..||.++|+++|-++.
T Consensus 1 ~I~~~Ll~G~~~~Av~~al~~~ 22 (284)
T PF12931_consen 1 KIQQLLLVGNREEAVELALDNG 22 (284)
T ss_dssp HHHHHHHTT-HHHHHHHHHHTT
T ss_pred CHHHHHhCCCHHHHHHHHHHCC
Confidence 4778888888888888886654
No 79
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=23.57 E-value=2e+02 Score=21.39 Aligned_cols=24 Identities=25% Similarity=0.389 Sum_probs=19.1
Q ss_pred HHHHHHHHHCCCHHHHHHHHHhhC
Q 028054 81 RMAVKKAVQCGNVEDAIEKVNDLN 104 (214)
Q Consensus 81 r~~I~~~I~~g~i~~Al~~~~~~~ 104 (214)
...+.++|.+||...|+..+++..
T Consensus 18 i~~l~~ai~~~d~~~~l~~~~~l~ 41 (143)
T PF12169_consen 18 IFELLDAILEGDAAEALELLNELL 41 (143)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHH
Confidence 356889999999999999988654
No 80
>KOG3380 consensus Actin-related protein Arp2/3 complex, subunit ARPC5 [Cytoskeleton]
Probab=23.50 E-value=2e+02 Score=22.59 Aligned_cols=58 Identities=12% Similarity=0.070 Sum_probs=38.0
Q ss_pred HHHHHHHHCCCHHHHHHHHHhhChhhhhcCCc--hhHhhHHHHHHHHHHcCChHHHHHHHH
Q 028054 82 MAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQ--LFFHLQQQRLIELIRNGKVEEALEFAQ 140 (214)
Q Consensus 82 ~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~--L~F~L~~q~fIeli~~~~~~~Ai~yar 140 (214)
.+|++++..|+...|+.-+-.+-|- ..++.. =.......+.+.-+|+.+++.+++-.-
T Consensus 40 ~ev~sll~qg~~~~AL~~aL~~~P~-~t~~q~vK~~a~~~v~~vL~~ik~adI~~~v~~Ls 99 (152)
T KOG3380|consen 40 REVRSLLTQGKSLEALQTALLNPPY-GTKDQEVKDRALNVVLKVLTSIKQADIEAAVKKLS 99 (152)
T ss_pred HHHHHHHHcccHHHHHHHHHhCCCC-CCccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhh
Confidence 6699999999999999998877553 222211 123333445555667777777765544
No 81
>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.18 E-value=19 Score=36.16 Aligned_cols=51 Identities=27% Similarity=0.537 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHhhCHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhC
Q 028054 41 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 104 (214)
Q Consensus 41 ~~l~~lI~~yL~~~Gy~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~ 104 (214)
+..-+.|..||...||.+.|--|.++.... ..-++..|+++.|++.+.+..
T Consensus 620 ~LvGqaiIaYLqKkgypeiAL~FVkD~~tR-------------F~LaLe~gnle~ale~akkld 670 (1202)
T KOG0292|consen 620 NLVGQAIIAYLQKKGYPEIALHFVKDERTR-------------FELALECGNLEVALEAAKKLD 670 (1202)
T ss_pred CcccHHHHHHHHhcCCcceeeeeecCcchh-------------eeeehhcCCHHHHHHHHHhcC
Confidence 344678899999999999999888776532 344577788888887776543
No 82
>PF04699 P16-Arc: ARP2/3 complex 16 kDa subunit (p16-Arc); InterPro: IPR006789 The Arp2/3 protein complex has been implicated in the control of actin polymerisation. The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc. The precise function of p16-Arc is currently unknown. Its structure consists of a single domain containing a bundle of seven alpha helices [, ].; GO: 0030833 regulation of actin filament polymerization, 0005856 cytoskeleton; PDB: 3DWL_G 1TYQ_G 1U2V_G 2P9U_G 2P9L_G 1K8K_G 3DXM_G 2P9N_G 3DXK_G 2P9I_G ....
Probab=23.12 E-value=1.1e+02 Score=24.07 Aligned_cols=28 Identities=18% Similarity=0.335 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHhhChh
Q 028054 79 TDRMAVKKAVQCGNVEDAIEKVNDLNPE 106 (214)
Q Consensus 79 ~~r~~I~~~I~~g~i~~Al~~~~~~~~~ 106 (214)
..-.++++.+..||..+|++.+-++-|-
T Consensus 38 ~~~~qvr~ll~~g~~~~ALk~aL~npP~ 65 (152)
T PF04699_consen 38 PKEQQVRQLLSSGDNEEALKAALENPPY 65 (152)
T ss_dssp GTHHHHHHHHHCT-HHHHHHHHTSS--T
T ss_pred hhHHHHHHHHhCCCHHHHHHHhccCCCc
Confidence 3457799999999999999999988553
No 83
>PF13171 DUF4004: Protein of unknown function (DUF4004)
Probab=22.94 E-value=4.3e+02 Score=21.74 Aligned_cols=100 Identities=17% Similarity=0.211 Sum_probs=50.4
Q ss_pred HHHHHHhhhcccCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCHH--HHHHHHHHHhCCCCCccHHHHHHHHHHHHHH
Q 028054 11 LAEIEAMAMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYV--DAAEKFRMESGTEPDIDLATITDRMAVKKAV 88 (214)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~--eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I 88 (214)
|+.|+.-..=|...|.++.-+-+..-..+ ..+-.+++.+.|-. .+++.|....|-.........-...-+.+.+
T Consensus 53 L~RIekI~~mKd~~SLDELA~mfSp~~~~----~~~~~~~l~~~~ivs~~~~~~f~~~~~~~~~f~f~e~l~lyvl~~ll 128 (199)
T PF13171_consen 53 LERIEKIQKMKDDLSLDELAEMFSPNVSD----VVFTEEELLKRNIVSQAVLELFMEQIGEEEEFSFEELLFLYVLEKLL 128 (199)
T ss_pred HHHHHHHHHhcccCCHHHHHHHcCCCccc----ceecHHHHHHcCcccHHHHHHHHHHhCccccccHHHHHHHHHHHHHH
Confidence 34444444446666666664443221111 23345667776664 3444455555532222233333444466667
Q ss_pred HCCCHHH-----HHHHHHhhChhhhhcCCch
Q 028054 89 QCGNVED-----AIEKVNDLNPEILDTNPQL 114 (214)
Q Consensus 89 ~~g~i~~-----Al~~~~~~~~~L~~~~s~L 114 (214)
.+|++.. ++..+.+|++.+...+..+
T Consensus 129 ~sg~is~eE~k~l~~~l~~~~~~~~~~~~~l 159 (199)
T PF13171_consen 129 QSGEISLEEGKMLLQFLEENYPKFEGKNCEL 159 (199)
T ss_pred HhCCCCHHHHHHHHHHHHHHHHHHhCCCcEE
Confidence 7776543 3566667777766554443
No 84
>PRK00794 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=22.68 E-value=3e+02 Score=21.02 Aligned_cols=31 Identities=19% Similarity=0.347 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHhhChh
Q 028054 76 ATITDRMAVKKAVQCGNVEDAIEKVNDLNPE 106 (214)
Q Consensus 76 ~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~ 106 (214)
+.......|.+++.+|+.-+|++.+....|.
T Consensus 92 ~~~~~l~~i~~~V~~g~~y~ALk~lR~L~~~ 122 (132)
T PRK00794 92 DILAGLKAIDELVEAGRYYEALKALRGLYPI 122 (132)
T ss_pred HHHHHHHHHHHHHHCCcHHHHHHHHHHhhHH
Confidence 4556677899999999999999999887763
No 85
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=22.61 E-value=95 Score=24.66 Aligned_cols=80 Identities=15% Similarity=0.224 Sum_probs=38.3
Q ss_pred ccCCCHHHHHHHHhccCCCHHHHHH---HHHHHHHhhCHHHHHHHHHHHhCC---CCCccHHHHHHHHHHHHHHHCCCHH
Q 028054 21 KKVITREEWEKKLNDVKIRKEDMNK---LVMNFLVTEGYVDAAEKFRMESGT---EPDIDLATITDRMAVKKAVQCGNVE 94 (214)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~l~~---lI~~yL~~~Gy~eta~~f~~E~~~---~~~~~~~~~~~r~~I~~~I~~g~i~ 94 (214)
+++++|....-.+.+++...+.++- ++.+=|-.+- ......-+.++ .............++..+..+.+++
T Consensus 69 k~pL~RA~Yilkl~g~e~~sne~stDpe~Lmevle~~E---~IS~~~De~~l~~lk~q~q~ri~q~~~qlge~~esk~~~ 145 (168)
T KOG3192|consen 69 KDPLARARYLLKLKGQEQTSNELSTDPEFLMEVLEYHE---AISEMDDEEDLKQLKSQNQERIAQCKQQLGEAFESKKYD 145 (168)
T ss_pred HhHHHHHHHHHHHhCCCCchhhhccCHHHHHHHHHHHH---HHHhccCcHHHHHHHHHHHHHHHHHHHHHHHHHhhccHH
Confidence 5667777777777776655555442 3333222111 11100000110 0011122334455667777777788
Q ss_pred HHHHHHHhh
Q 028054 95 DAIEKVNDL 103 (214)
Q Consensus 95 ~Al~~~~~~ 103 (214)
+|+..+...
T Consensus 146 ~Al~~i~rl 154 (168)
T KOG3192|consen 146 EALKKILRL 154 (168)
T ss_pred HHHHHHHHH
Confidence 887776543
No 86
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=22.53 E-value=3.3e+02 Score=26.86 Aligned_cols=28 Identities=21% Similarity=0.321 Sum_probs=24.9
Q ss_pred CCCHHHHHHHHHHHHHhhCHHHHHHHHH
Q 028054 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 64 (214)
Q Consensus 37 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~ 64 (214)
.++-..|..+|...|...|+.++|+++.
T Consensus 55 ~isve~Iqd~Ve~~L~~~g~~~vAkaYI 82 (711)
T PRK09263 55 EVDIEEIQDAVENQLMAGPYKALARAYI 82 (711)
T ss_pred CCCHHHHHHHHHHHHHhcChHHHHHHHH
Confidence 4777778999999999999999999985
No 87
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=22.24 E-value=1.3e+02 Score=22.08 Aligned_cols=28 Identities=36% Similarity=0.563 Sum_probs=21.1
Q ss_pred hHhhHHHHHHHHHHcCChHHHHHHHHHh
Q 028054 115 FFHLQQQRLIELIRNGKVEEALEFAQEE 142 (214)
Q Consensus 115 ~F~L~~q~fIeli~~~~~~~Ai~yar~~ 142 (214)
...+....||.+++.|+..+|++..++.
T Consensus 37 P~~~dip~~i~~i~~g~~~~A~~~i~~~ 64 (111)
T PF14691_consen 37 PAHIDIPEYIRLIREGNFKEAYELIRED 64 (111)
T ss_dssp TT---HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHCCCHHHHHHHHHHh
Confidence 3467779999999999999999999964
No 88
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=22.12 E-value=1.9e+02 Score=21.60 Aligned_cols=52 Identities=21% Similarity=0.379 Sum_probs=29.6
Q ss_pred HHHHHHHHhhCHHHHHHHHHHHhCCC------------------CCccHHHHHHHHHHHHHHHCCC--HHHHHHH
Q 028054 45 KLVMNFLVTEGYVDAAEKFRMESGTE------------------PDIDLATITDRMAVKKAVQCGN--VEDAIEK 99 (214)
Q Consensus 45 ~lI~~yL~~~Gy~eta~~f~~E~~~~------------------~~~~~~~~~~r~~I~~~I~~g~--i~~Al~~ 99 (214)
..|..|+...|-. +.++++.|+. +....+.-..+..|.+.+.+|. .++|++.
T Consensus 40 ~Fi~~Fi~~rGnl---Ke~e~~lgiSYPTvR~rLd~ii~~lg~~~~~~~~~~~~~~~IL~~L~~GeIs~eeA~~~ 111 (113)
T PF09862_consen 40 EFIKLFIKNRGNL---KEMEKELGISYPTVRNRLDKIIEKLGYEEDEEEEEEDERKEILDKLEKGEISVEEALEI 111 (113)
T ss_pred HHHHHHHHhcCCH---HHHHHHHCCCcHHHHHHHHHHHHHhCCCCCcccccchhHHHHHHHHHcCCCCHHHHHHH
Confidence 4567778888743 3344455542 2222344456777788887774 3455544
No 89
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=21.94 E-value=6.2e+02 Score=23.54 Aligned_cols=86 Identities=22% Similarity=0.244 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHHHHHHHHHcCChHHH
Q 028054 56 YVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEA 135 (214)
Q Consensus 56 y~eta~~f~~E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q~fIeli~~~~~~~A 135 (214)
.-..|..+.++++-...+|.+.....-.-+.++.+||.+.|-+..+..- ..+.....=.+.-|||.=+.|+.+.|
T Consensus 99 da~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl-----~dPEtRllGLRgLyleAqr~GareaA 173 (531)
T COG3898 99 DASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAML-----DDPETRLLGLRGLYLEAQRLGAREAA 173 (531)
T ss_pred chHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHh-----cChHHHHHhHHHHHHHHHhcccHHHH
Confidence 3445666666666444566677666677788899999999988776432 12333333344558888899999999
Q ss_pred HHHHHH--hcCcc
Q 028054 136 LEFAQE--ELAPR 146 (214)
Q Consensus 136 i~yar~--~l~~~ 146 (214)
..|+-. ..+|.
T Consensus 174 r~yAe~Aa~~Ap~ 186 (531)
T COG3898 174 RHYAERAAEKAPQ 186 (531)
T ss_pred HHHHHHHHhhccC
Confidence 999876 34454
No 90
>PF03979 Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A.
Probab=21.92 E-value=1.8e+02 Score=19.87 Aligned_cols=45 Identities=24% Similarity=0.370 Sum_probs=26.7
Q ss_pred HHhHHHHHHhhhcccCCCHHHHHHHHhccCCCHHHHHHHHHHHHHhhCH
Q 028054 8 IRQLAEIEAMAMSKKVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGY 56 (214)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy 56 (214)
|++|-+.| -.++.+|.+++.+.+-...++++.+..++ ++|-..|.
T Consensus 9 i~~Li~~g---K~~G~lT~~eI~~~L~~~~~~~e~id~i~-~~L~~~gI 53 (82)
T PF03979_consen 9 IKKLIEKG---KKKGYLTYDEINDALPEDDLDPEQIDEIY-DTLEDEGI 53 (82)
T ss_dssp HHHHHHHH---HHHSS-BHHHHHHH-S-S---HHHHHHHH-HHHHTT--
T ss_pred HHHHHHHH---hhcCcCCHHHHHHHcCccCCCHHHHHHHH-HHHHHCCC
Confidence 34454444 46899999999999998889988877654 56666654
No 91
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=21.70 E-value=1.3e+02 Score=15.55 Aligned_cols=20 Identities=25% Similarity=0.551 Sum_probs=14.9
Q ss_pred HHHHHHCCCHHHHHHHHHhh
Q 028054 84 VKKAVQCGNVEDAIEKVNDL 103 (214)
Q Consensus 84 I~~~I~~g~i~~Al~~~~~~ 103 (214)
|......|++++|.+...+.
T Consensus 7 i~~~~~~~~~~~a~~~~~~M 26 (35)
T TIGR00756 7 IDGLCKAGRVEEALELFKEM 26 (35)
T ss_pred HHHHHHCCCHHHHHHHHHHH
Confidence 55667888888888887654
No 92
>COG5051 RPL36A Ribosomal protein L36E [Translation, ribosomal structure and biogenesis]
Probab=21.55 E-value=1.8e+02 Score=20.74 Aligned_cols=43 Identities=26% Similarity=0.410 Sum_probs=32.7
Q ss_pred HHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhh
Q 028054 119 QQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLA 165 (214)
Q Consensus 119 ~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~ 165 (214)
+-.+.|++|++.+-..|=..+++.|..+... ..+++++...|.
T Consensus 53 yErr~i~Lirns~~krArKlakKRLGs~kRA----kaKvEel~~~i~ 95 (97)
T COG5051 53 YERRVIELIRNSQDKRARKLAKKRLGSLKRA----KAKVEELTSVIQ 95 (97)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHhhhHHHH----HHHHHHHHHHHh
Confidence 3456899999998899999999999887643 466777666553
No 93
>PF03477 ATP-cone: ATP cone domain; InterPro: IPR005144 The ATP-cone is an evolutionarily mobile, ATP-binding regulatory domain which is found in a variety of proteins including ribonucleotide reductases, phosphoglycerate kinases and transcriptional regulators []. In ribonucleotide reductase protein R1 (P28903 from SWISSPROT) from Escherichia coli this domain is located at the N terminus, and is composed mostly of helices []. It forms part of the allosteric effector region and contains the general allosteric activity site in a cleft located at the tip of the N-terminal region []. This site binds either ATP (activating) or dATP (inhibitory), with the base bound in a hydrophobic pocket and the phosphates bound to basic residues. Substrate binding to this site is thought to affect enzyme activity by altering the relative positions of the two subunits of ribonucleotide reductase.; PDB: 2XO4_A 1RLR_A 7R1R_B 5R1R_A 2XO5_B 2XAW_A 2R1R_C 2XAY_B 2X0X_C 2XAZ_A ....
Probab=21.30 E-value=1.1e+02 Score=20.95 Aligned_cols=28 Identities=32% Similarity=0.601 Sum_probs=24.0
Q ss_pred CCCHHHHHHHHHHHHHhhCHHHHHHHHH
Q 028054 37 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 64 (214)
Q Consensus 37 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~ 64 (214)
.++...|..+|.+.|...|+.+.|.++.
T Consensus 55 ~is~~eI~~~v~~~L~~~~~~~~a~~yi 82 (90)
T PF03477_consen 55 EISTEEIQDIVENALMEEGFYDVARAYI 82 (90)
T ss_dssp TEEHHHHHHHHHHHHHTSTTHHHHHHHH
T ss_pred CeeHHHHHHHHHHHHHcCChHHHHHHHH
Confidence 4677888999999999999999888764
No 94
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=20.94 E-value=7.5e+02 Score=23.76 Aligned_cols=90 Identities=20% Similarity=0.228 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhCHHHHHHHHHH--HhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhhcCCchhHhhHHH
Q 028054 44 NKLVMNFLVTEGYVDAAEKFRM--ESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQ 121 (214)
Q Consensus 44 ~~lI~~yL~~~Gy~eta~~f~~--E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~~~s~L~F~L~~q 121 (214)
|-+|.-|..+.-..++.+.|.+ +.|+.| +...-..-|..+-..|++++|.+..++.. +....-.-..+.-
T Consensus 395 n~lI~~y~~~G~~~~A~~lf~~M~~~g~~P----d~~T~~~ll~a~~~~g~~~~a~~~f~~m~----~~~g~~p~~~~y~ 466 (697)
T PLN03081 395 NALIAGYGNHGRGTKAVEMFERMIAEGVAP----NHVTFLAVLSACRYSGLSEQGWEIFQSMS----ENHRIKPRAMHYA 466 (697)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCCC----CHHHHHHHHHHHhcCCcHHHHHHHHHHHH----HhcCCCCCccchH
Q ss_pred HHHH-HHHcCChHHHHHHHHH
Q 028054 122 RLIE-LIRNGKVEEALEFAQE 141 (214)
Q Consensus 122 ~fIe-li~~~~~~~Ai~yar~ 141 (214)
-.|+ +.+.|+.++|.++.++
T Consensus 467 ~li~~l~r~G~~~eA~~~~~~ 487 (697)
T PLN03081 467 CMIELLGREGLLDEAYAMIRR 487 (697)
T ss_pred hHHHHHHhcCCHHHHHHHHHH
No 95
>PLN03077 Protein ECB2; Provisional
Probab=20.92 E-value=8.2e+02 Score=24.19 Aligned_cols=100 Identities=24% Similarity=0.340 Sum_probs=55.5
Q ss_pred HhccCCCHHHHHHHHHHHHHhhCHH-HHHHHHHH--HhCCCCCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhChhhhh
Q 028054 33 LNDVKIRKEDMNKLVMNFLVTEGYV-DAAEKFRM--ESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 109 (214)
Q Consensus 33 ~~~~~~~~~~l~~lI~~yL~~~Gy~-eta~~f~~--E~~~~~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~~L~~ 109 (214)
+...+.+...-|-+|.-|. ++|.. ++...|.+ +.|+.|.... + ..-|..+-..|++++|.++.++.... ..
T Consensus 547 f~~~~~d~~s~n~lI~~~~-~~G~~~~A~~lf~~M~~~g~~Pd~~T--~--~~ll~a~~~~g~v~ea~~~f~~M~~~-~g 620 (857)
T PLN03077 547 FNSHEKDVVSWNILLTGYV-AHGKGSMAVELFNRMVESGVNPDEVT--F--ISLLCACSRSGMVTQGLEYFHSMEEK-YS 620 (857)
T ss_pred HHhcCCChhhHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCCccc--H--HHHHHHHhhcChHHHHHHHHHHHHHH-hC
Confidence 3334444445566666554 55555 44444542 4576654322 2 22345667889999999888754311 01
Q ss_pred cCCchhHhhHHHHHHH-HHHcCChHHHHHHHHH
Q 028054 110 TNPQLFFHLQQQRLIE-LIRNGKVEEALEFAQE 141 (214)
Q Consensus 110 ~~s~L~F~L~~q~fIe-li~~~~~~~Ai~yar~ 141 (214)
..++. -+..-.+. +.+.|+.++|.++.++
T Consensus 621 i~P~~---~~y~~lv~~l~r~G~~~eA~~~~~~ 650 (857)
T PLN03077 621 ITPNL---KHYACVVDLLGRAGKLTEAYNFINK 650 (857)
T ss_pred CCCch---HHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 11222 12233444 4567899999999886
No 96
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=20.90 E-value=1.4e+02 Score=22.17 Aligned_cols=24 Identities=13% Similarity=0.123 Sum_probs=20.3
Q ss_pred HHHHHHHHHHCCCHHHHHHHHHhh
Q 028054 80 DRMAVKKAVQCGNVEDAIEKVNDL 103 (214)
Q Consensus 80 ~r~~I~~~I~~g~i~~Al~~~~~~ 103 (214)
....+...+.+|+++.|++++...
T Consensus 73 ~~~~~~~~l~~g~~~~a~~ll~~~ 96 (115)
T PF12793_consen 73 LEQQAEELLEQGKYEQALQLLDFD 96 (115)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhC
Confidence 456688899999999999999844
No 97
>KOG3452 consensus 60S ribosomal protein L36 [Translation, ribosomal structure and biogenesis]
Probab=20.88 E-value=1.8e+02 Score=21.16 Aligned_cols=43 Identities=23% Similarity=0.339 Sum_probs=31.2
Q ss_pred HHHHHHHHHHcCChHHHHHHHHHhcCccccccHHHHHHHHHHHhHhh
Q 028054 119 QQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLA 165 (214)
Q Consensus 119 ~~q~fIeli~~~~~~~Ai~yar~~l~~~~~~~~~~~~~i~~l~~lL~ 165 (214)
+-..-+||++..+-..|+.++++.+..+... ..+.+++...|+
T Consensus 53 yErr~meLlkvskdkrA~K~lKkRlGth~RA----k~KrEELsnvl~ 95 (102)
T KOG3452|consen 53 YERRAMELLKVSKDKRALKLLKKRLGTHKRA----KRKREELSNVLA 95 (102)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHhhHHHHH----HHHHHHHHHHHH
Confidence 4456789999998899999999999877543 345555555443
No 98
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=20.76 E-value=79 Score=18.07 Aligned_cols=12 Identities=42% Similarity=0.540 Sum_probs=9.3
Q ss_pred HCCCHHHHHHHH
Q 028054 89 QCGNVEDAIEKV 100 (214)
Q Consensus 89 ~~g~i~~Al~~~ 100 (214)
..||++.|+.|+
T Consensus 26 ~~~nve~A~~~L 37 (37)
T PF00627_consen 26 CNGNVERAVDWL 37 (37)
T ss_dssp TTTSHHHHHHHH
T ss_pred cCCCHHHHHHhC
Confidence 356899999885
No 99
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=20.73 E-value=1.5e+02 Score=18.18 Aligned_cols=26 Identities=12% Similarity=0.014 Sum_probs=22.9
Q ss_pred ChhhHHHHHHHHHHHHHhhCCCCCCC
Q 028054 179 DISQRLKTASEVNAAILTSQSHEKDF 204 (214)
Q Consensus 179 ~~~~r~~la~~~n~~iL~~~g~~~~~ 204 (214)
+.+++.+++..+.+++.+..|.+.+.
T Consensus 12 t~eqk~~l~~~i~~~l~~~~g~~~~~ 37 (58)
T cd00491 12 TDEQKRELIERVTEAVSEILGAPEAT 37 (58)
T ss_pred CHHHHHHHHHHHHHHHHHHhCcCccc
Confidence 57889999999999999999998653
No 100
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=20.70 E-value=1.4e+02 Score=18.78 Aligned_cols=27 Identities=15% Similarity=0.087 Sum_probs=23.4
Q ss_pred cChhhHHHHHHHHHHHHHhhCCCCCCC
Q 028054 178 LDISQRLKTASEVNAAILTSQSHEKDF 204 (214)
Q Consensus 178 ~~~~~r~~la~~~n~~iL~~~g~~~~~ 204 (214)
.+.+++.+++..+..++.+..|.|++.
T Consensus 12 rs~eqk~~l~~~it~~l~~~~~~p~~~ 38 (61)
T PRK02220 12 RTEEQLKALVKDVTAAVSKNTGAPAEH 38 (61)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcChhh
Confidence 368899999999999999999998653
No 101
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=20.69 E-value=3.1e+02 Score=20.08 Aligned_cols=22 Identities=23% Similarity=0.466 Sum_probs=19.3
Q ss_pred HHHHHCCCHHHHHHHHHhhChh
Q 028054 85 KKAVQCGNVEDAIEKVNDLNPE 106 (214)
Q Consensus 85 ~~~I~~g~i~~Al~~~~~~~~~ 106 (214)
..+|...|++.|++++....|.
T Consensus 87 Y~~I~~kdfd~A~~~I~~W~p~ 108 (116)
T PF10552_consen 87 YKDIPRKDFDEALEFINNWEPS 108 (116)
T ss_pred HHhhhHHHHHHHHHHHHHcCCC
Confidence 4578899999999999999885
No 102
>PRK13689 hypothetical protein; Provisional
Probab=20.34 E-value=1.2e+02 Score=20.87 Aligned_cols=22 Identities=23% Similarity=0.173 Sum_probs=19.2
Q ss_pred ChhhHHHHHHHHHHHHHhhCCC
Q 028054 179 DISQRLKTASEVNAAILTSQSH 200 (214)
Q Consensus 179 ~~~~r~~la~~~n~~iL~~~g~ 200 (214)
.+.+|+.+|+.|.+++.++..-
T Consensus 50 ~~~qR~~iAe~Fa~AL~~Sv~~ 71 (75)
T PRK13689 50 APAQRQAIAESFARALQSSVKE 71 (75)
T ss_pred CHHHHHHHHHHHHHHHHHHhhc
Confidence 4889999999999999988654
No 103
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=20.30 E-value=1.4e+02 Score=20.45 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=23.8
Q ss_pred cChhhHHHHHHHHHHHHHhhCCCCCCC
Q 028054 178 LDISQRLKTASEVNAAILTSQSHEKDF 204 (214)
Q Consensus 178 ~~~~~r~~la~~~n~~iL~~~g~~~~~ 204 (214)
.+.++...++.++.+++.+.+|.+.+.
T Consensus 13 ~s~EqK~~La~~iT~a~~~~lg~~~e~ 39 (76)
T PRK01271 13 LDEEQKAALAADITDVIIRHLNSKDSS 39 (76)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcce
Confidence 467889999999999999999998763
No 104
>TIGR00083 ribF riboflavin kinase/FMN adenylyltransferase. multifunctional enzyme: riboflavin kinase (EC 2.7.1.26) (flavokinase) / FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase).
Probab=20.19 E-value=65 Score=27.96 Aligned_cols=52 Identities=13% Similarity=-0.009 Sum_probs=34.8
Q ss_pred hCHHHHHHHHHHHhCCC----CCccHHHHHHHHHHHHHHHCCCHHHHHHHHHhhCh
Q 028054 54 EGYVDAAEKFRMESGTE----PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNP 105 (214)
Q Consensus 54 ~Gy~eta~~f~~E~~~~----~~~~~~~~~~r~~I~~~I~~g~i~~Al~~~~~~~~ 105 (214)
.|-.+..+.++++.|.. +....+..-.-..||++|.+||++.|-+++-..+.
T Consensus 115 ~G~~~~L~~~~~~~g~~v~~~~~~~~~~~ISST~IR~~l~~G~i~~A~~lLGr~y~ 170 (288)
T TIGR00083 115 QGDFLLLQLFGNTTIFCVIVKQLFCQDIRISSSAIRQALKNGDLELANKLLGRPYF 170 (288)
T ss_pred CCCHHHHHHhccccCcEEEEeccccCCCeECHHHHHHHHHcCCHHHHHHhhhhhhc
Confidence 46778888888887742 11110011122569999999999999999976553
Done!