Query 027339
Match_columns 224
No_of_seqs 131 out of 838
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 08:29:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027339.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027339hhsearch_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 9.6E-44 2.1E-48 289.2 21.5 219 4-222 8-228 (228)
2 PF10607 CLTH: CTLH/CRA C-term 100.0 4.3E-31 9.4E-36 205.4 13.9 140 60-202 2-144 (145)
3 KOG0396 Uncharacterized conser 100.0 7.4E-30 1.6E-34 218.3 14.7 179 20-201 113-292 (389)
4 KOG2817 Predicted E3 ubiquitin 99.9 4.9E-23 1.1E-27 178.3 19.5 199 17-218 110-329 (394)
5 smart00757 CRA CT11-RanBPM. pr 99.7 3.6E-17 7.9E-22 118.9 11.1 93 113-205 2-96 (99)
6 smart00668 CTLH C-terminal to 99.4 7.7E-13 1.7E-17 86.7 5.7 55 60-114 2-56 (58)
7 KOG0293 WD40 repeat-containing 99.3 5.2E-11 1.1E-15 104.2 11.6 171 20-201 15-188 (519)
8 PF08513 LisH: LisH; InterPro 98.5 1.8E-07 3.9E-12 51.6 3.9 27 23-49 1-27 (27)
9 smart00667 LisH Lissencephaly 98.3 1.9E-06 4.2E-11 49.5 4.7 32 21-52 2-33 (34)
10 KOG1477 SPRY domain-containing 98.2 4.6E-07 1E-11 82.8 1.6 178 26-203 253-451 (469)
11 KOG0275 Conserved WD40 repeat- 98.2 1.8E-05 3.9E-10 68.2 10.4 169 18-201 3-173 (508)
12 COG5109 Uncharacterized conser 97.3 0.0061 1.3E-07 52.4 12.2 179 18-202 96-301 (396)
13 KOG1333 Uncharacterized conser 95.1 0.25 5.4E-06 40.2 9.3 134 23-163 6-150 (241)
14 PF09398 FOP_dimer: FOP N term 91.2 0.45 9.8E-06 33.2 4.3 31 23-53 19-49 (81)
15 PF01726 LexA_DNA_bind: LexA D 74.5 4.4 9.5E-05 26.8 3.1 36 18-53 4-39 (65)
16 PF04494 TFIID_90kDa: WD40 ass 73.5 5.9 0.00013 30.4 4.1 48 94-144 38-85 (142)
17 TIGR03362 VI_chp_7 type VI sec 71.4 38 0.00083 29.5 9.1 31 19-49 129-159 (301)
18 PF14559 TPR_19: Tetratricopep 70.9 21 0.00046 22.6 5.9 55 69-128 1-55 (68)
19 PF04053 Coatomer_WDAD: Coatom 70.5 26 0.00057 32.2 8.3 76 25-123 297-372 (443)
20 PF07035 Mic1: Colon cancer-as 67.1 43 0.00092 26.6 7.8 81 24-124 30-115 (167)
21 KOG0273 Beta-transducin family 66.6 1.7 3.7E-05 39.7 -0.2 35 18-52 1-35 (524)
22 cd08044 TAF5_NTD2 TAF5_NTD2 is 65.9 2.6 5.6E-05 32.0 0.6 49 94-145 27-75 (133)
23 KOG1585 Protein required for f 62.2 51 0.0011 28.2 7.6 75 10-84 178-252 (308)
24 PF04840 Vps16_C: Vps16, C-ter 59.7 1.2E+02 0.0026 26.5 11.7 49 30-83 184-232 (319)
25 PF10607 CLTH: CTLH/CRA C-term 57.7 35 0.00077 25.6 5.7 58 28-86 7-67 (145)
26 smart00668 CTLH C-terminal to 54.8 17 0.00038 22.5 3.1 27 102-128 5-31 (58)
27 KOG1156 N-terminal acetyltrans 53.7 2.2E+02 0.0048 27.7 14.6 127 61-194 187-332 (700)
28 KOG4594 Sequence-specific sing 53.2 17 0.00038 31.3 3.5 29 22-50 17-45 (354)
29 KOG2051 Nonsense-mediated mRNA 52.7 1.4E+02 0.0029 30.7 9.9 179 19-197 437-639 (1128)
30 KOG2437 Muskelin [Signal trans 52.0 74 0.0016 30.0 7.5 59 86-148 613-671 (723)
31 PF14276 DUF4363: Domain of un 51.7 21 0.00046 26.3 3.5 47 61-107 30-76 (121)
32 PF13838 Clathrin_H_link: Clat 49.7 24 0.00051 23.6 3.0 41 99-141 7-48 (66)
33 PF04840 Vps16_C: Vps16, C-ter 47.3 99 0.0021 27.1 7.5 60 18-84 203-262 (319)
34 PF12895 Apc3: Anaphase-promot 47.3 27 0.00059 23.4 3.3 52 66-123 32-83 (84)
35 PRK10564 maltose regulon perip 43.3 28 0.0006 30.4 3.3 42 62-111 260-301 (303)
36 PF07729 FCD: FCD domain; Int 42.0 47 0.001 23.3 4.0 28 58-85 95-122 (125)
37 PF07721 TPR_4: Tetratricopept 41.7 35 0.00077 17.7 2.5 17 67-83 9-25 (26)
38 PF13371 TPR_9: Tetratricopept 41.7 92 0.002 19.8 5.7 53 69-126 5-57 (73)
39 KOG2659 LisH motif-containing 41.6 1.7E+02 0.0037 24.5 7.6 68 20-87 60-131 (228)
40 PF13934 ELYS: Nuclear pore co 41.4 2E+02 0.0044 23.7 9.8 104 8-128 29-138 (226)
41 PF09295 ChAPs: ChAPs (Chs5p-A 41.3 2.8E+02 0.006 25.2 10.9 102 18-129 164-267 (395)
42 COG5443 FlbT Flagellar biosynt 39.8 49 0.0011 25.2 3.7 56 34-89 67-124 (148)
43 PF10602 RPN7: 26S proteasome 39.4 1.9E+02 0.0041 22.8 10.8 103 25-128 38-143 (177)
44 PF10827 DUF2552: Protein of u 38.1 24 0.00051 23.8 1.6 17 74-90 60-76 (79)
45 PRK02289 4-oxalocrotonate taut 36.4 53 0.0011 20.9 3.2 27 160-186 12-38 (60)
46 PRK07111 anaerobic ribonucleos 35.4 1.5E+02 0.0032 29.3 7.3 28 19-46 58-85 (735)
47 PF12550 GCR1_C: Transcription 34.4 1.1E+02 0.0024 20.9 4.7 63 23-85 9-80 (81)
48 KOG2376 Signal recognition par 33.5 4.5E+02 0.0097 25.4 12.7 42 8-49 95-136 (652)
49 KOG0263 Transcription initiati 32.9 64 0.0014 31.4 4.2 34 19-52 18-51 (707)
50 PTZ00196 60S ribosomal protein 32.6 68 0.0015 23.1 3.4 33 98-130 48-80 (98)
51 PF15391 DUF4614: Domain of un 31.5 51 0.0011 26.6 2.9 49 77-125 114-179 (181)
52 PF14689 SPOB_a: Sensor_kinase 31.5 1.1E+02 0.0024 19.7 4.1 32 58-89 22-53 (62)
53 PF13934 ELYS: Nuclear pore co 31.3 3E+02 0.0065 22.7 12.4 97 17-126 72-168 (226)
54 PF01158 Ribosomal_L36e: Ribos 29.9 69 0.0015 23.1 3.1 32 98-129 48-79 (98)
55 PF06794 UPF0270: Uncharacteri 29.9 1.6E+02 0.0035 19.8 4.7 44 19-74 7-50 (70)
56 COG2178 Predicted RNA-binding 29.6 1.6E+02 0.0036 24.1 5.5 19 104-122 127-145 (204)
57 PF07208 DUF1414: Protein of u 29.2 83 0.0018 19.2 2.9 19 161-179 25-43 (44)
58 KOG2437 Muskelin [Signal trans 28.9 2E+02 0.0043 27.3 6.5 62 25-91 168-229 (723)
59 PF07079 DUF1347: Protein of u 28.5 5E+02 0.011 24.4 10.4 55 59-113 128-190 (549)
60 TIGR01470 cysG_Nterm siroheme 27.9 1.3E+02 0.0029 24.4 4.9 64 61-125 135-204 (205)
61 TIGR00756 PPR pentatricopeptid 27.2 92 0.002 16.1 2.8 20 66-85 7-26 (35)
62 smart00550 Zalpha Z-DNA-bindin 26.6 1.1E+02 0.0025 20.0 3.6 50 20-75 2-52 (68)
63 PF13812 PPR_3: Pentatricopept 26.3 98 0.0021 16.2 2.8 20 65-84 7-26 (34)
64 KOG0292 Vesicle coat complex C 26.2 21 0.00046 35.6 -0.1 49 25-86 622-670 (1202)
65 KOG0640 mRNA cleavage stimulat 25.9 2.4E+02 0.0051 25.1 6.1 33 20-52 9-41 (430)
66 KOG1498 26S proteasome regulat 25.7 4.1E+02 0.0089 24.3 7.7 89 18-109 126-218 (439)
67 PF07575 Nucleopor_Nup85: Nup8 25.6 1.7E+02 0.0037 27.7 5.8 43 8-50 390-432 (566)
68 PRK00794 flbT flagellar biosyn 25.5 3E+02 0.0065 20.9 6.1 32 57-88 91-122 (132)
69 cd02064 FAD_synthetase_N FAD s 25.4 58 0.0013 25.7 2.3 48 38-86 118-171 (180)
70 TIGR02552 LcrH_SycD type III s 25.0 2.6E+02 0.0057 19.9 9.1 102 17-126 11-113 (135)
71 PRK07143 hypothetical protein; 24.5 60 0.0013 27.9 2.3 24 64-87 153-176 (279)
72 PF13424 TPR_12: Tetratricopep 24.2 1.9E+02 0.0041 18.6 4.4 56 69-124 15-72 (78)
73 PF12854 PPR_1: PPR repeat 23.8 1.2E+02 0.0026 16.8 2.8 19 66-84 14-32 (34)
74 PF01535 PPR: PPR repeat; Int 23.7 94 0.002 15.8 2.3 20 66-85 7-26 (31)
75 PF09312 SurA_N: SurA N-termin 23.7 2E+02 0.0044 20.9 4.8 23 16-38 63-85 (118)
76 PF14691 Fer4_20: Dihydroprymi 23.4 1.1E+02 0.0023 22.5 3.2 30 95-124 35-64 (111)
77 PF00627 UBA: UBA/TS-N domain; 22.8 68 0.0015 18.2 1.7 17 66-82 19-37 (37)
78 KOG0412 Golgi transport comple 22.7 7.2E+02 0.016 24.6 9.2 109 12-128 411-530 (773)
79 PHA02701 ORF020 dsRNA-binding 22.5 59 0.0013 26.2 1.8 45 25-75 5-49 (183)
80 PRK11788 tetratricopeptide rep 22.3 5.1E+02 0.011 22.3 10.0 17 68-84 150-166 (389)
81 KOG1832 HIV-1 Vpr-binding prot 22.3 75 0.0016 32.1 2.7 46 7-52 840-885 (1516)
82 KOG1538 Uncharacterized conser 21.9 4.3E+02 0.0093 26.1 7.5 60 63-123 776-842 (1081)
83 PF12793 SgrR_N: Sugar transpo 21.5 1.3E+02 0.0027 22.2 3.3 24 62-85 73-96 (115)
84 smart00299 CLH Clathrin heavy 21.4 1.8E+02 0.0038 21.4 4.2 13 21-33 40-52 (140)
85 KOG2910 Uncharacterized conser 21.4 2.1E+02 0.0047 23.3 4.7 61 61-123 41-114 (209)
86 COG2186 FadR Transcriptional r 21.3 3.6E+02 0.0079 22.3 6.4 29 59-87 197-225 (241)
87 PF12931 Sec16_C: Sec23-bindin 21.2 1E+02 0.0022 26.4 3.1 21 65-85 1-21 (284)
88 TIGR02531 yecD_yerC TrpR-relat 21.1 3E+02 0.0065 19.2 5.5 57 24-82 3-59 (88)
89 PF03477 ATP-cone: ATP cone do 21.1 95 0.0021 21.2 2.5 28 19-46 55-82 (90)
90 PLN03077 Protein ECB2; Provisi 20.9 8.2E+02 0.018 24.2 13.0 104 12-123 544-650 (857)
91 PF14691 Fer4_20: Dihydroprymi 20.9 1.2E+02 0.0027 22.2 3.1 25 63-87 42-66 (111)
92 PRK09263 anaerobic ribonucleos 20.7 3.9E+02 0.0084 26.4 7.2 36 11-46 46-82 (711)
93 TIGR00083 ribF riboflavin kina 20.2 1E+02 0.0022 26.7 2.9 51 37-87 116-170 (288)
94 PRK00239 rpsT 30S ribosomal pr 20.1 1.2E+02 0.0026 21.3 2.8 29 63-91 32-60 (88)
No 1
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=9.6e-44 Score=289.20 Aligned_cols=219 Identities=58% Similarity=0.895 Sum_probs=211.9
Q ss_pred ccCCHHHHHHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCC-CCCHHhHHHHHHHHHHHHcCCHHHHHHHH
Q 027339 4 KVITREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP-DIDLATITDRMAVKKAVQCGNVEDAIEKV 82 (224)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~-~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~ 82 (224)
+.++.+.|.+.+..+.+.+.++|+||++||+++||.++|..|.+|+|+.+ ..|.+.+..|.+|+.+|..|+++.|++.+
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 45789999999999999999999999999999999999999999999997 88999999999999999999999999999
Q ss_pred HhcCchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCCCCCchhhhcCh
Q 027339 83 NDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNCPVGDLLDI 162 (224)
Q Consensus 83 ~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~~~sp~~~l~~~ 162 (224)
+.+.|.+++.+..|.|.|++|+||||||.|...+||+|+|++++|++..+++...+++++|++|+|+++..||+++++..
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 hhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHHhh-cCCCCCCCCcCccccCCC
Q 027339 163 SQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQLDE-KAAYPRINDLATATLEDP 222 (224)
Q Consensus 163 ~~r~~la~~vn~~il~~~~~~~~~~Le~l~k~~~~~q~~L~~-~~~~p~~~~~~~~~~~~~ 222 (224)
++|.++|..+|++|+++++....++|..|++...|++..++. +..+|.+.++.+|.++.|
T Consensus 168 s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 228 (228)
T KOG2659|consen 168 SLRQKVASEVNSAILASQEHESEPKLPFLLKLISWAQEELDREKFSEPHFKDLTKIKSEEP 228 (228)
T ss_pred HHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHhHhhccccccCCccccccCCC
Confidence 999999999999999999988899999999999999999875 678999999999999876
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=4.3e-31 Score=205.42 Aligned_cols=140 Identities=38% Similarity=0.586 Sum_probs=132.9
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHH
Q 027339 60 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEEL 139 (224)
Q Consensus 60 ~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l 139 (224)
|.+|+.|+++|++||+++|++||++++|.+++.++.+.|.|++|+|||+|+++++.+||+|+|++++|+.. ...+++
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 67899999999999999999999999999999999999999999999999999999999999999977654 458899
Q ss_pred HHHhhHhcccCCCC---CchhhhcChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHH
Q 027339 140 ERTVALLAFEDVSN---CPVGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL 202 (224)
Q Consensus 140 ~~~~~LL~y~~~~~---sp~~~l~~~~~r~~la~~vn~~il~~~~~~~~~~Le~l~k~~~~~q~~L 202 (224)
+++|++|+|+++.+ +|+++++++.+|+.|++.||++++..+|.+..|+|+.+++++.++.++|
T Consensus 79 ~~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~l~~l 144 (145)
T PF10607_consen 79 KKLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSALKTL 144 (145)
T ss_pred HHHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHhhhc
Confidence 99999999999987 7999999999999999999999999999999999999999999998764
No 3
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=7.4e-30 Score=218.26 Aligned_cols=179 Identities=22% Similarity=0.321 Sum_probs=170.3
Q ss_pred CChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhc
Q 027339 20 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFH 99 (224)
Q Consensus 20 ~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~ 99 (224)
-++..++++|++|+.|+||.+||..|.++++++..+|.+.+...+.|+++|+.|++.+|+.||++|.-.|.+.++.++|.
T Consensus 113 w~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~ 192 (389)
T KOG0396|consen 113 WPRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLVDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQ 192 (389)
T ss_pred hHHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhHhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhH
Confidence 45788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCC-CCCchhhhcChhhHHHHHHHHHHHHHh
Q 027339 100 LQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV-SNCPVGDLLDISQRLKTASEVNAAILT 178 (224)
Q Consensus 100 L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~-~~sp~~~l~~~~~r~~la~~vn~~il~ 178 (224)
++.|+|||||+.+++.+||+|++++++|++..+ ..+++.+||+++|+.- +.++|..+++..||+.+++.|-....+
T Consensus 193 lRlQefIELi~~~~~~~Ai~~akk~f~~~~~~~---~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~~ 269 (389)
T KOG0396|consen 193 LRLQEFIELIKVDNYDKAIAFAKKHFAPWAKSH---KSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEALK 269 (389)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHhhhhhhh---HHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHHH
Confidence 999999999999999999999999999998644 7899999999999954 566799999999999999999999999
Q ss_pred hCCCCCCCcHHHHHHHHHHHHHH
Q 027339 179 SQSHEKDPKLPSLLKMLLWAQNQ 201 (224)
Q Consensus 179 ~~~~~~~~~Le~l~k~~~~~q~~ 201 (224)
.+|.+..|+|-..++.+..+++.
T Consensus 270 l~~i~~~~~L~~~l~~GLsalKT 292 (389)
T KOG0396|consen 270 LFGIPINPALTIYLQAGLSALKT 292 (389)
T ss_pred HhCCCCCcHHHHHHHhhhhhccc
Confidence 99999999999999999888877
No 4
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=4.9e-23 Score=178.31 Aligned_cols=199 Identities=20% Similarity=0.290 Sum_probs=172.2
Q ss_pred cCCCChHH-HHHHHHHHHHHhCHHHHHHHHHHHhCCCCC--CCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhcc
Q 027339 17 DVKIRKED-MNKLVMNFLVTEGYVDAAEKFRMESGTEPD--IDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN 93 (224)
Q Consensus 17 ~~~~~~~~-l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~--~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~ 93 (224)
++..+... ||.+|..|++++|..|+|..|.+|+|.... .....|.+.++|..+|.+||+.+|++|+..++..|.+.+
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 45555555 599999999999999999999999999753 446778999999999999999999999999999999999
Q ss_pred ccchhchHHHHHHHHHhcCChH--HHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCC--CCCchhhhcChhhHHHHH
Q 027339 94 PQLFFHLQQQRLIELIRNGKVE--EALEFAQEELAPRGEENQSFLEELERTVALLAFEDV--SNCPVGDLLDISQRLKTA 169 (224)
Q Consensus 94 ~~l~F~L~~q~fiEli~~~~~~--~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~--~~sp~~~l~~~~~r~~la 169 (224)
+.|+|.|+.++|+++++.|.-. +||.|+|++++||+.++ .++++++|++|.|-.. +++||.+++++..|..+.
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 9999999999999999988665 99999999999998765 6899999999999754 689999999999999999
Q ss_pred HHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHH--------------hhcCCCCCCCCcCccc
Q 027339 170 SEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL--------------DEKAAYPRINDLATAT 218 (224)
Q Consensus 170 ~~vn~~il~~~~~~~~~~Le~l~k~~~~~q~~L--------------~~~~~~p~~~~~~~~~ 218 (224)
..|-+......|.+.+++|..++..+..+--+| ..+...|--++|+.+.
T Consensus 267 ~~f~r~ycallg~s~eSPL~v~v~aG~~Alp~Llk~~~v~~~~~~~W~~~deLPveIeL~~~~ 329 (394)
T KOG2817|consen 267 EEFTREYCALLGISVESPLSVLVNAGCIALPQLLKYKSVMELKHGEWNTKDELPVEIELGKEY 329 (394)
T ss_pred HHHHHHHHHHcCCCccCcHHHHHHhhHHHHHHHHHHHHHHHHhccCccccccCccceeccccc
Confidence 999999999999999998888777654333222 2345677777777665
No 5
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.73 E-value=3.6e-17 Score=118.86 Aligned_cols=93 Identities=46% Similarity=0.568 Sum_probs=87.3
Q ss_pred ChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCC-CCCchhhhcChhhHHHHHHHHHHHHHhhC-CCCCCCcHHH
Q 027339 113 KVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV-SNCPVGDLLDISQRLKTASEVNAAILTSQ-SHEKDPKLPS 190 (224)
Q Consensus 113 ~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~-~~sp~~~l~~~~~r~~la~~vn~~il~~~-~~~~~~~Le~ 190 (224)
++.+||+|||++++|+...++...++++++|++|+|+++ +.+||+++++.++|..+++.||++|+..+ |.+.+|+|+.
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 578999999999999998887778899999999999999 89999999999999999999999999998 9999999999
Q ss_pred HHHHHHHHHHHHhhc
Q 027339 191 LLKMLLWAQNQLDEK 205 (224)
Q Consensus 191 l~k~~~~~q~~L~~~ 205 (224)
+++++.|++.++...
T Consensus 82 ~~~~~~~~~~~l~~~ 96 (99)
T smart00757 82 LLSAGLAALKTLLEK 96 (99)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999998653
No 6
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.39 E-value=7.7e-13 Score=86.67 Aligned_cols=55 Identities=31% Similarity=0.669 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhcCCh
Q 027339 60 ITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKV 114 (224)
Q Consensus 60 ~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~ 114 (224)
+..+..|+++|+.|+|++|++|+++++|.+.+.++.+.|.|++|+|+|+++.++.
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 4678999999999999999999999999999999999999999999999998764
No 7
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=99.26 E-value=5.2e-11 Score=104.21 Aligned_cols=171 Identities=15% Similarity=0.177 Sum_probs=136.4
Q ss_pred CChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhc
Q 027339 20 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFH 99 (224)
Q Consensus 20 ~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~ 99 (224)
+.+.++.+++.+.|+..||.+++..++.|+|+-... ++-+.+.+.++.|+|+.+..-+....-+..+......|.
T Consensus 15 ikk~efi~il~q~l~slgy~~S~~~lE~es~ll~~t-----at~klf~q~vlqg~w~q~v~~~~~i~~~de~~~~ea~fL 89 (519)
T KOG0293|consen 15 IKKGEFIRILWQILYSLGYDHSSPLLEWESGLLIPT-----ATTKLFDQQVLQGQWDQQVMSLVRISFEDERNRKEAMFL 89 (519)
T ss_pred eccchhhHhHHHHHHhcCccccchhhHHhhCccccc-----chHHHHHHHHHcccHHHHHHHHhhccCcchhhhHHHHHH
Confidence 456788999999999999999999999999987543 235668899999999999998887743335555789999
Q ss_pred hHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCCCCC-c--hhhhcChhhHHHHHHHHHHHH
Q 027339 100 LQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNC-P--VGDLLDISQRLKTASEVNAAI 176 (224)
Q Consensus 100 L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~~~s-p--~~~l~~~~~r~~la~~vn~~i 176 (224)
+.+|.|+|+++.|++..|+...|+.+.+.... .+++.++.+.|.+++...+ . -... ....|.+|.+++.+.|
T Consensus 90 v~kQ~fLEf~k~~~is~al~~l~~~~~~lr~~----~kk~~el~~sll~sn~~~~ne~~~~~~-~~n~R~~ll~elskyi 164 (519)
T KOG0293|consen 90 VNKQIFLEFLKTGSISHALPVLRNPVLYLRKN----KKKFHELASSLLVSNDQFSNEENTTAQ-LNNERDKLLDELSKYI 164 (519)
T ss_pred HHHHHHHHHHhhccHhhhhHhhhcchhhhhhh----HHHHHHHHHHHhccccccccccchhhh-hchhHHHHHHHHHhhC
Confidence 99999999999999999999999877777543 5677888878877753211 1 1111 1355899999999988
Q ss_pred HhhCCCCCCCcHHHHHHHHHHHHHH
Q 027339 177 LTSQSHEKDPKLPSLLKMLLWAQNQ 201 (224)
Q Consensus 177 l~~~~~~~~~~Le~l~k~~~~~q~~ 201 (224)
....- .|+.+|+.|+++++..|..
T Consensus 165 ~p~il-lP~rRLehLl~qAv~~Q~d 188 (519)
T KOG0293|consen 165 PPNIL-LPKRRLEHLLEQAVKYQRD 188 (519)
T ss_pred CHhhc-CChHHHHHHHHHHHHHHHh
Confidence 76654 5789999999999988865
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=98.51 E-value=1.8e-07 Score=51.63 Aligned_cols=27 Identities=37% Similarity=0.811 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHh
Q 027339 23 EDMNKLVMNFLVTEGYVDAAEKFRMES 49 (224)
Q Consensus 23 ~~l~~lI~~yL~~~Gy~~ta~~l~~e~ 49 (224)
++||.+|.+||.++||.+||.+|.+|+
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 469999999999999999999999985
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=98.27 E-value=1.9e-06 Score=49.53 Aligned_cols=32 Identities=31% Similarity=0.754 Sum_probs=29.5
Q ss_pred ChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 027339 21 RKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 52 (224)
Q Consensus 21 ~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~ 52 (224)
.+.+++++|++||.++||.+||.+|.+|+++.
T Consensus 2 ~~~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 2 SRSELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred cHHHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 46789999999999999999999999999874
No 10
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=98.21 E-value=4.6e-07 Score=82.76 Aligned_cols=178 Identities=24% Similarity=0.212 Sum_probs=135.7
Q ss_pred HHHHHHHHHHhCHHHHHHHHHHHhCCCCCC-------CHHhH-----HHHHHHHHHHHcCCHHHHHHHHHhcCchhhh--
Q 027339 26 NKLVMNFLVTEGYVDAAEKFRMESGTEPDI-------DLATI-----TDRMAVKKAVQCGNVEDAIEKVNDLNPEILD-- 91 (224)
Q Consensus 26 ~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~-------~~~~~-----~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~-- 91 (224)
...+-.|+++.|+.+++..++..+...... ..+.. ..+...+.-+-.|.+..+.+.+.+..+....
T Consensus 253 t~~~~~~~l~~~~~~s~~~~s~~~~~~~~~~~~~e~~s~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~ 332 (469)
T KOG1477|consen 253 TVPYPYFLLPGGYEESIAYFSTGARRFNDPFTGKEENSIDAVGSQTDKIGLDYHQRKGRGQFTRNGAYNAALIPTYRKVG 332 (469)
T ss_pred CCCccceecCcchhhhhhhhcchhhccCCcccchhhhhhhccccccchhhhhhhhhcCcceeechhhhcccccccccccc
Confidence 357889999999999999998876542110 00000 0233333333344444555555444444333
Q ss_pred -----ccccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCC--CChHHHHHHHHHhhHhcccCCCCCchhhhcChhh
Q 027339 92 -----TNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGE--ENQSFLEELERTVALLAFEDVSNCPVGDLLDISQ 164 (224)
Q Consensus 92 -----~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~--~~~~~~~~l~~~~~LL~y~~~~~sp~~~l~~~~~ 164 (224)
..+...+.+.|+.++.+.+.+.+...+++.+.++++... .+......++.+++|++|.+|..||..+..++.+
T Consensus 333 ~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~~Llays~p~~s~~g~~~~~~~ 412 (469)
T KOG1477|consen 333 QVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSSSLLAYSDPEESPVGYLLDPIQ 412 (469)
T ss_pred eeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchHHHHHhcCcccCccccccCccc
Confidence 247789999999999999999999999999999888765 3334567899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHHh
Q 027339 165 RLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQLD 203 (224)
Q Consensus 165 r~~la~~vn~~il~~~~~~~~~~Le~l~k~~~~~q~~L~ 203 (224)
|+-+++.+|.+|+...+.++++.|+.++.+.-.+...+.
T Consensus 413 ~e~v~~~~n~~il~t~~~~~~~~l~~~l~~~~~~~~~~~ 451 (469)
T KOG1477|consen 413 REPVAEALNSAILETDNNSKDPDLERVLSQTPAELSLYA 451 (469)
T ss_pred chhHHhhhcccccccCCCCccchhhhhhccchhhHhhhh
Confidence 999999999999999999999999999999887766653
No 11
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=98.18 E-value=1.8e-05 Score=68.22 Aligned_cols=169 Identities=18% Similarity=0.217 Sum_probs=115.9
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccch
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLF 97 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~ 97 (224)
+.+...++.+||.+||-.+.+-.|...|.+|.++.... ......+.+.|-+|.||..+.-++...-. ..-.
T Consensus 3 ieiessdVIrli~QflKE~~L~rtl~tLQeEt~VSLNT----VDSvd~Fv~dI~sG~WD~VL~~vqsLKLP-----~kkL 73 (508)
T KOG0275|consen 3 IEIESSDVIRLIEQFLKENSLHRTLQTLQEETNVSLNT----VDSVDGFVNDINSGHWDTVLKTVQSLKLP-----DKKL 73 (508)
T ss_pred eeeecchHHHHHHHHHhhhhHHHHHHHHHHhhccceee----chhHHHHHHhcccCchHHHHHHHHhccCc-----hhHH
Confidence 45566789999999999999999999999999876421 11234577899999999999999876533 2234
Q ss_pred hchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhc--ccCCCCCchhhhcChhhHHHHHHHHHHH
Q 027339 98 FHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLA--FEDVSNCPVGDLLDISQRLKTASEVNAA 175 (224)
Q Consensus 98 F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~--y~~~~~sp~~~l~~~~~r~~la~~vn~~ 175 (224)
-.|+.|-.+|||.-+.+..|-..+|+. .|+..-.+...++.-++=.||. |.||... |.+.-...+|..+|..+..
T Consensus 74 ~dLYEqivlEliELREL~tAR~~lRQT-dpM~~lKQ~~peRy~~lE~ll~R~YFDp~Ea-Y~dssKEkrRa~IAQ~ls~- 150 (508)
T KOG0275|consen 74 IDLYEQIVLELIELRELGTARSLLRQT-DPMIMLKQIQPERYIRLENLLNRSYFDPREA-YGDSSKEKRRAVIAQALSG- 150 (508)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHhcc-CceehhhccChHHHHHHHHHhcccccChhhh-cCcchHHHHHHHHHHHhcC-
Confidence 689999999999988888888778753 3433211111333333334553 5666432 4443334556666665544
Q ss_pred HHhhCCCCCCCcHHHHHHHHHHHHHH
Q 027339 176 ILTSQSHEKDPKLPSLLKMLLWAQNQ 201 (224)
Q Consensus 176 il~~~~~~~~~~Le~l~k~~~~~q~~ 201 (224)
.....+.++|..|+-|+.-+|..
T Consensus 151 ---EV~VVppSRLlaLlGQaLKWQqH 173 (508)
T KOG0275|consen 151 ---EVHVVPPSRLLALLGQALKWQQH 173 (508)
T ss_pred ---ceEEcChHHHHHHHHHHhhhHhh
Confidence 34456789999999998877654
No 12
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.30 E-value=0.0061 Score=52.45 Aligned_cols=179 Identities=13% Similarity=0.037 Sum_probs=123.8
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCC-CCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccc
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPD-IDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 96 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~-~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l 96 (224)
.+.+...++.+-..+..+.|-..-+..|+.+.|..+. ...+.|...+.|.+.|.+.+...-++|. +....+.+.++..
T Consensus 96 f~~~~v~~~~~~~l~~~n~~dv~~~hi~~~~~g~~e~~~~~~~f~~lK~v~~gI~~k~~~l~iE~~-Qi~gyl~kgdtes 174 (396)
T COG5109 96 FSTQTVTYLVVYYLLENNCADVVERHISETKDGKDEIIKIRDGFVKLKKVISGISEKSTFLLIEFL-QIEGYLSKGDTES 174 (396)
T ss_pred CccceeeehHHHHHHHhhHHHHHHHHHHHhhcCccchhhHHHHHHHHHHHHHhhccchhHhHHHHH-HhcCccccCCchh
Confidence 3444445556666666677777778889999988753 4468889999999999999999999999 4444555555555
Q ss_pred hhchHHH--HHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCC------C----------------
Q 027339 97 FFHLQQQ--RLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDV------S---------------- 152 (224)
Q Consensus 97 ~F~L~~q--~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~------~---------------- 152 (224)
.+.+... .++-++-+ ++++|+.++++.++.+...+ ...++..+-.+.+... +
T Consensus 175 el~l~~~~~esl~l~hk-~~~~a~r~c~t~~a~f~~kh---~~dv~~~~~~l~nap~dcfrhrekelmqnI~~~l~ksli 250 (396)
T COG5109 175 ELELYLVSHESLLLIHK-RYDEALRLCFTKLASFVPKH---IQDVKPLLRFLVNAPTDCFRHREKELMQNIQEALKKSLI 250 (396)
T ss_pred hhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHh---ccchHHHHHHHHcCchHHhhhcchhHHHHHHHHHHHhhc
Confidence 5555554 44445544 79999999999888775332 4455555555444210 0
Q ss_pred CCc--hhhhcChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHHHHHHHHHH
Q 027339 153 NCP--VGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKMLLWAQNQL 202 (224)
Q Consensus 153 ~sp--~~~l~~~~~r~~la~~vn~~il~~~~~~~~~~Le~l~k~~~~~q~~L 202 (224)
+-| +-+-+ ...|..+...|-+.+.+..|++-+++|..++..+.-+-.+|
T Consensus 251 gqPiEdIDkv-nk~~k~l~~lF~~eycaa~gm~~~spL~~~v~tG~iaf~~l 301 (396)
T COG5109 251 GQPIEDIDKV-NKSRKKLIELFKSEYCAANGMPNRSPLRELVETGTIAFLQL 301 (396)
T ss_pred CCcHHHHHHh-hhhHHHHHHHHHHHHHHhcCCCccChHHHHHHhhhHHHHHH
Confidence 011 11111 14589999999999999999999999999988866555443
No 13
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.12 E-value=0.25 Score=40.21 Aligned_cols=134 Identities=15% Similarity=0.189 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCC--CHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhc----c---
Q 027339 23 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDI--DLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT----N--- 93 (224)
Q Consensus 23 ~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~--~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~----~--- 93 (224)
+..+.+|.+||+-.|+.-|.++|-.|....... ..+. ..-++.++|...|++.--+.-.....+++.. .
T Consensus 6 ~~tDelvReYL~frgf~~tLkalD~E~~~~Ke~~frvdr--ivdq~~~a~q~~Dl~aLr~~W~~l~~r~Fs~Le~~y~~~ 83 (241)
T KOG1333|consen 6 ERTDELVREYLLFRGFTHTLKALDAEIKADKEKGFRVDR--IVDQLQQAMQVYDLAALRDYWSYLERRLFSRLEDIYRPT 83 (241)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHhHHHhhhhhcCCcHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence 457899999999999999999998887654321 2222 2445667777777776654433333333322 1
Q ss_pred -ccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCCC-CCchhhhcChh
Q 027339 94 -PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVS-NCPVGDLLDIS 163 (224)
Q Consensus 94 -~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~~-~sp~~~l~~~~ 163 (224)
..++--+.+...+-.|.++..++|-+|.++.-+.... . .+-++-+.+=..+.-+ ..|+...++..
T Consensus 84 ~~kle~Sl~r~yLV~~~q~nr~~K~~EFF~K~a~~lqn-q----~eWkDWF~fPf~~~a~~tppf~~~F~kt 150 (241)
T KOG1333|consen 84 IHKLETSLFRFYLVYTIQTNRNDKAQEFFAKQATELQN-Q----AEWKDWFVLPFLPSAKDTPPFRKYFDKT 150 (241)
T ss_pred HHHHHHHHHHHHHhhhhhcCChHHHHHHHHHHHHHHhc-c----hhhhhheecccCCCCCCCccHHHHHHhh
Confidence 3355566777778888899999999999876544432 1 2334322222222223 34577777654
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=91.22 E-value=0.45 Score=33.15 Aligned_cols=31 Identities=23% Similarity=0.283 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhCCCC
Q 027339 23 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEP 53 (224)
Q Consensus 23 ~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~ 53 (224)
..++.||.+||...||.=|+..|..|+|...
T Consensus 19 ~Li~eLIrEyLef~~l~~TlsVf~~Es~~~~ 49 (81)
T PF09398_consen 19 RLINELIREYLEFNNLDYTLSVFQPESGQPE 49 (81)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHT-TT
T ss_pred HHHHHHHHHHHHHcCCccHHHHHhhccCCCC
Confidence 3578999999999999999999999999864
No 15
>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=74.46 E-value=4.4 Score=26.85 Aligned_cols=36 Identities=11% Similarity=0.350 Sum_probs=27.6
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCC
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP 53 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~ 53 (224)
.+-.+.++-..|.+|...+||.-|...+++..|+..
T Consensus 4 LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S 39 (65)
T PF01726_consen 4 LTERQKEVLEFIREYIEENGYPPTVREIAEALGLKS 39 (65)
T ss_dssp --HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSSS
T ss_pred CCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCC
Confidence 444567788999999999999999999999999874
No 16
>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=73.51 E-value=5.9 Score=30.37 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=36.8
Q ss_pred ccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhh
Q 027339 94 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVA 144 (224)
Q Consensus 94 ~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~ 144 (224)
..+.|=+.++-|++||.+|...+|..|..++-.-+...+ ..+++++.+
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 568999999999999999999999999998766654333 445665543
No 17
>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=71.41 E-value=38 Score=29.50 Aligned_cols=31 Identities=26% Similarity=0.154 Sum_probs=26.9
Q ss_pred CCChHHHHHHHHHHHHHhCHHHHHHHHHHHh
Q 027339 19 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMES 49 (224)
Q Consensus 19 ~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~ 49 (224)
....-++++++++.|.+.||.+.+.++..+.
T Consensus 129 ~pfWLDgq~~~~qal~~lG~~~~a~aI~~el 159 (301)
T TIGR03362 129 APFWLDGQRLSAQALERLGYAAVAQAIRDEL 159 (301)
T ss_pred CchhhHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 5556778899999999999999999988875
No 18
>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=70.94 E-value=21 Score=22.62 Aligned_cols=55 Identities=20% Similarity=0.262 Sum_probs=33.5
Q ss_pred HHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCC
Q 027339 69 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPR 128 (224)
Q Consensus 69 ~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~ 128 (224)
++..|++++|++.+++.... ...+..+.+ .-..=+++.|+.++|..+..+-+...
T Consensus 1 ll~~~~~~~A~~~~~~~l~~-~p~~~~~~~----~la~~~~~~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQR-NPDNPEARL----LLAQCYLKQGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHH-TTTSHHHHH----HHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred ChhccCHHHHHHHHHHHHHH-CCCCHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 46789999999998864311 111222222 22233567899999999988655443
No 19
>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=70.51 E-value=26 Score=32.23 Aligned_cols=76 Identities=28% Similarity=0.347 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHH
Q 027339 25 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQR 104 (224)
Q Consensus 25 l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~ 104 (224)
...-|+.||...||.+.|-.|+++. +++..=+|.-|+++.|.+.+.+.... ..++|=
T Consensus 297 ~~~~i~~fL~~~G~~e~AL~~~~D~-------------~~rFeLAl~lg~L~~A~~~a~~~~~~----------~~W~~L 353 (443)
T PF04053_consen 297 QGQSIARFLEKKGYPELALQFVTDP-------------DHRFELALQLGNLDIALEIAKELDDP----------EKWKQL 353 (443)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHSS-H-------------HHHHHHHHHCT-HHHHHHHCCCCSTH----------HHHHHH
T ss_pred HHHHHHHHHHHCCCHHHHHhhcCCh-------------HHHhHHHHhcCCHHHHHHHHHhcCcH----------HHHHHH
Confidence 4677899999999999999996432 57788899999999999998765421 255566
Q ss_pred HHHHHhcCChHHHHHHHHH
Q 027339 105 LIELIRNGKVEEALEFAQE 123 (224)
Q Consensus 105 fiEli~~~~~~~Al~~~r~ 123 (224)
--+.++.|++.-|-++.++
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 6667888888888777764
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=67.07 E-value=43 Score=26.60 Aligned_cols=81 Identities=19% Similarity=0.315 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHH--hcCchhhhccccchhchH
Q 027339 24 DMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVN--DLNPEILDTNPQLFFHLQ 101 (224)
Q Consensus 24 ~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~--~~~~~l~~~~~~l~F~L~ 101 (224)
.+..++.+=|++.|-......|..-.=+.+. ..-|...++ ..+|...+..-++...|.
T Consensus 30 ~L~~lli~lLi~~~~~~~L~qllq~~Vi~DS--------------------k~lA~~LLs~~~~~~~~~Ql~lDMLkRL~ 89 (167)
T PF07035_consen 30 ELYELLIDLLIRNGQFSQLHQLLQYHVIPDS--------------------KPLACQLLSLGNQYPPAYQLGLDMLKRLG 89 (167)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHhhcccCCc--------------------HHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence 3777777777777776666666544433322 222222222 123333333334444444
Q ss_pred -H-HHHHH-HHhcCChHHHHHHHHHh
Q 027339 102 -Q-QRLIE-LIRNGKVEEALEFAQEE 124 (224)
Q Consensus 102 -~-q~fiE-li~~~~~~~Al~~~r~~ 124 (224)
. -..+| ++..|++.+|+.|+|+.
T Consensus 90 ~~~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 90 TAYEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence 3 34456 78899999999999974
No 21
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=66.59 E-value=1.7 Score=39.71 Aligned_cols=35 Identities=29% Similarity=0.554 Sum_probs=32.4
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 52 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~ 52 (224)
++++++++|.||--||-..||.-||=+|..|+++.
T Consensus 1 msitsdEvN~LV~RYLqE~G~~hsaftf~~Et~is 35 (524)
T KOG0273|consen 1 MSITSDEVNFLVWRYLQESGFSHSAFTFGIETGIS 35 (524)
T ss_pred CcccHHHHHHHHHHHHHHcCcceeeEEeeeccccc
Confidence 35788999999999999999999999999999885
No 22
>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=65.91 E-value=2.6 Score=31.99 Aligned_cols=49 Identities=20% Similarity=0.372 Sum_probs=36.8
Q ss_pred ccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhH
Q 027339 94 PQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVAL 145 (224)
Q Consensus 94 ~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~L 145 (224)
..+.|=+...-|++||.+|...+|..|.+++-.-+. +.+.++++.+.++
T Consensus 27 ~~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~---~~~~~~i~~L~~i 75 (133)
T cd08044 27 SQLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFE---DSHSEDIKKLSSI 75 (133)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhH---HHHHHHHHHHHcc
Confidence 458899999999999999999999999997654442 2345566655443
No 23
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.16 E-value=51 Score=28.22 Aligned_cols=75 Identities=13% Similarity=0.134 Sum_probs=58.6
Q ss_pred HHHHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHh
Q 027339 10 EWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVND 84 (224)
Q Consensus 10 ~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~ 84 (224)
.|-+...+.+.-=......|+=||..+.|..+-..+...++++...+.+.......+..+--+||++++-..++.
T Consensus 178 ~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~gD~E~~~kvl~s 252 (308)
T KOG1585|consen 178 VAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDEGDIEEIKKVLSS 252 (308)
T ss_pred hHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhccCCHHHHHHHHcC
Confidence 344444444444445677888999999999999999999998877677777777888888899999999888864
No 24
>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=59.73 E-value=1.2e+02 Score=26.54 Aligned_cols=49 Identities=14% Similarity=0.093 Sum_probs=28.1
Q ss_pred HHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHH
Q 027339 30 MNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVN 83 (224)
Q Consensus 30 ~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~ 83 (224)
+..|+..|....|..+.++..++. ..=-...|+.++..|+|++-.++..
T Consensus 184 i~~li~~~~~k~A~kl~k~Fkv~d-----krfw~lki~aLa~~~~w~eL~~fa~ 232 (319)
T PF04840_consen 184 IRKLIEMGQEKQAEKLKKEFKVPD-----KRFWWLKIKALAENKDWDELEKFAK 232 (319)
T ss_pred HHHHHHCCCHHHHHHHHHHcCCcH-----HHHHHHHHHHHHhcCCHHHHHHHHh
Confidence 344555666677777777766542 1112445666666666666666554
No 25
>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=57.66 E-value=35 Score=25.62 Aligned_cols=58 Identities=16% Similarity=0.118 Sum_probs=42.3
Q ss_pred HHHHHHHHhCHHHHHHHHHHHhC--C-CCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcC
Q 027339 28 LVMNFLVTEGYVDAAEKFRMESG--T-EPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 86 (224)
Q Consensus 28 lI~~yL~~~Gy~~ta~~l~~e~~--~-~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~ 86 (224)
-|.+.+ .+|-.+.|-....+.. + +...+....-.+.++.+.|..|++.+|+++++++.
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 455566 7787777777766543 1 12345556677889999999999999999999855
No 26
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=54.84 E-value=17 Score=22.53 Aligned_cols=27 Identities=37% Similarity=0.528 Sum_probs=22.2
Q ss_pred HHHHHHHHhcCChHHHHHHHHHhcCCC
Q 027339 102 QQRLIELIRNGKVEEALEFAQEELAPR 128 (224)
Q Consensus 102 ~q~fiEli~~~~~~~Al~~~r~~l~p~ 128 (224)
...+.+.|..|+..+|++++++.-.+.
T Consensus 5 ~~~i~~~i~~g~~~~a~~~~~~~~~~l 31 (58)
T smart00668 5 RKRIRELILKGDWDEALEWLSSLKPPL 31 (58)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHcCHHH
Confidence 467888999999999999999765443
No 27
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=53.70 E-value=2.2e+02 Score=27.66 Aligned_cols=127 Identities=20% Similarity=0.267 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHH
Q 027339 61 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELE 140 (224)
Q Consensus 61 ~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~ 140 (224)
....+....+..|..+.|++.+..+.+.+.+ .+-|....-.+..- -+..++|+...+..+.+..++. .+...++
T Consensus 187 ~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D---kla~~e~ka~l~~k--l~~lEeA~~~y~~Ll~rnPdn~-~Yy~~l~ 260 (700)
T KOG1156|consen 187 LLLYQNQILIEAGSLQKALEHLLDNEKQIVD---KLAFEETKADLLMK--LGQLEEAVKVYRRLLERNPDNL-DYYEGLE 260 (700)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHhhhhHHHH---HHHHhhhHHHHHHH--HhhHHhHHHHHHHHHhhCchhH-HHHHHHH
Confidence 3345566678999999999999999988775 34555555554433 3468999999998887765443 2334555
Q ss_pred HHhh--------H-hccc----CC--CCC----chhhhcChhhHHHHHHHHHHHHHhhCCCCCCCcHHHHHHH
Q 027339 141 RTVA--------L-LAFE----DV--SNC----PVGDLLDISQRLKTASEVNAAILTSQSHEKDPKLPSLLKM 194 (224)
Q Consensus 141 ~~~~--------L-L~y~----~~--~~s----p~~~l~~~~~r~~la~~vn~~il~~~~~~~~~~Le~l~k~ 194 (224)
.+++ + .+|. .+ ..+ |..-+-+.+-+..+...++..+..... +.-+.|+.|.+.
T Consensus 261 ~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p-~vf~dl~SLyk~ 332 (700)
T KOG1156|consen 261 KALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP-SVFKDLRSLYKD 332 (700)
T ss_pred HHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC-chhhhhHHHHhc
Confidence 5544 1 1222 11 123 333344456677777777877765433 234556665554
No 28
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=53.19 E-value=17 Score=31.31 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHhCHHHHHHHHHHHhC
Q 027339 22 KEDMNKLVMNFLVTEGYVDAAEKFRMESG 50 (224)
Q Consensus 22 ~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~ 50 (224)
|+.|.--|-+||+|-|-.++|+.|..|.-
T Consensus 17 rekLa~YvYEYLlhvgaqksaqtflseir 45 (354)
T KOG4594|consen 17 REKLALYVYEYLLHVGAQKSAQTFLSEIR 45 (354)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhHHHHH
Confidence 67889999999999999999999988753
No 29
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=52.67 E-value=1.4e+02 Score=30.69 Aligned_cols=179 Identities=13% Similarity=0.113 Sum_probs=103.0
Q ss_pred CCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhh----c-c
Q 027339 19 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD----T-N 93 (224)
Q Consensus 19 ~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~----~-~ 93 (224)
.|++..++++-.+|.....-.-+=+.+.+-.=..|..+.+..--..+...-+.....+-|-+.++..+-.+.. . .
T Consensus 437 ~vsrdliD~~a~ef~~nlNtKa~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~M~dvat~lv~~L~~eFr~~~hkK~q 516 (1128)
T KOG2051|consen 437 CVSRDLIDQAAIEFCSNLNTKANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKCMPDVATELVTMLRKEFRSHLHKKAQ 516 (1128)
T ss_pred hHHHHHHHHHHHHHHHHhccHHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence 4566777777777766533333334444443333334444333334444445555556666666555443321 1 1
Q ss_pred ccchhchHHHHHHH-HHhcC--ChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcccCCCCC-chhhhcChhhHHHHH
Q 027339 94 PQLFFHLQQQRLIE-LIRNG--KVEEALEFAQEELAPRGEENQSFLEELERTVALLAFEDVSNC-PVGDLLDISQRLKTA 169 (224)
Q Consensus 94 ~~l~F~L~~q~fiE-li~~~--~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y~~~~~s-p~~~l~~~~~r~~la 169 (224)
..+.-.+.+-.||. |++=+ ...+++.+.+..+..|...+-+...-+-+.+|...|..|+.. ....+++.-+|.+.+
T Consensus 517 ~~ietk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~dF~~hnIEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a 596 (1128)
T KOG2051|consen 517 INIETKLKIVRFISELCKFQLVPKFEIFSCLKMLLNDFTHHNIEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRA 596 (1128)
T ss_pred hhhhhhhhhhhhHHhhhhhCccChHHHHHHHHHHHHhcccccHHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHH
Confidence 34555666667765 55533 346678888888777765555556667778888889988754 466677777777777
Q ss_pred HHHHH---HHH-hhC--CCCC---------CCcHHHHHHHHHH
Q 027339 170 SEVNA---AIL-TSQ--SHEK---------DPKLPSLLKMLLW 197 (224)
Q Consensus 170 ~~vn~---~il-~~~--~~~~---------~~~Le~l~k~~~~ 197 (224)
..++. ++. ..| -.|| .|++...+|.++.
T Consensus 597 ~~lDsr~~~~iENay~~~~PPe~~~~~~k~r~p~~efiR~Li~ 639 (1128)
T KOG2051|consen 597 SALDSRQATLIENAYYLCNPPERSKRLSKKRPPMQEFIRYLIR 639 (1128)
T ss_pred hhhchHHHHHHHHhHHhccChhhcccccccCCcHHHHHHHHHH
Confidence 76655 222 111 2232 3678888888763
No 30
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=52.02 E-value=74 Score=30.00 Aligned_cols=59 Identities=19% Similarity=0.168 Sum_probs=40.3
Q ss_pred CchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHHhcCCCCCCChHHHHHHHHHhhHhcc
Q 027339 86 NPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELAPRGEENQSFLEELERTVALLAF 148 (224)
Q Consensus 86 ~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~~~~~~~~~l~~~~~LL~y 148 (224)
+|...---+...+.++.++|.|+... +...|++|.++.+.|..+..+ -+..+.+.++++
T Consensus 613 rp~~~~~l~~~~~~~~~HrF~E~~~~-~~l~a~~ylq~~~~~~~D~s~---~~~~~e~~lla~ 671 (723)
T KOG2437|consen 613 RPSKDYLLRHCKYLIRKHRFEEKAQV-DPLSALKYLQNDLYITVDHSD---PEETKEFQLLAS 671 (723)
T ss_pred ccchhhhhhcchhhhHHHHHHHHhhh-hhHHHhHhhhhcceeccccCc---hhhhHHHHHHHH
Confidence 44443333567889999999999876 588999999998888654332 233344445554
No 31
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=51.72 E-value=21 Score=26.30 Aligned_cols=47 Identities=13% Similarity=0.194 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHH
Q 027339 61 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE 107 (224)
Q Consensus 61 ~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiE 107 (224)
.....+.+.|.++||+.|.+.+.+....-.+....+.|.+..+++=+
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 45677999999999999999998877666666677788887777644
No 32
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=49.72 E-value=24 Score=23.57 Aligned_cols=41 Identities=29% Similarity=0.474 Sum_probs=29.3
Q ss_pred chHHHHHHHHHhcCChHHHHHHHHHhcCCCC-CCChHHHHHHHH
Q 027339 99 HLQQQRLIELIRNGKVEEALEFAQEELAPRG-EENQSFLEELER 141 (224)
Q Consensus 99 ~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~-~~~~~~~~~l~~ 141 (224)
.|..++|-+++..|++.+|-.++-+ +|-. -..++..++|+.
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~--sP~giLRt~~Ti~rFk~ 48 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAAN--SPRGILRTPETINRFKQ 48 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHH--SGGGTT-SHHHHHHHHT
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHh--CccchhcCHHHHHHHHc
Confidence 5789999999999999999988875 3422 235666677763
No 33
>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=47.35 E-value=99 Score=27.10 Aligned_cols=60 Identities=20% Similarity=0.265 Sum_probs=31.4
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHh
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVND 84 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~ 84 (224)
..|+....-++.+.-|...|..+-...|.++ -.++...+.| +.-++..|+..+|..++..
T Consensus 203 Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepF-----v~~~~~~~~~~eA~~yI~k 262 (319)
T PF04840_consen 203 FKVPDKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPF-----VEACLKYGNKKEASKYIPK 262 (319)
T ss_pred cCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHH-----HHHHHHCCCHHHHHHHHHh
Confidence 3455555555555555555555555555543 2233444444 5555555555555555544
No 34
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=47.26 E-value=27 Score=23.42 Aligned_cols=52 Identities=29% Similarity=0.440 Sum_probs=29.0
Q ss_pred HHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHH
Q 027339 66 VKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQE 123 (224)
Q Consensus 66 I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~ 123 (224)
-.-....|+++.|+.+++. ......+....+.+ -+- +++-|+.++|++...+
T Consensus 32 a~~~~~~~~y~~A~~~~~~--~~~~~~~~~~~~l~-a~~---~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 32 AQCYFQQGKYEEAIELLQK--LKLDPSNPDIHYLL-ARC---LLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHTTHHHHHHHHHHC--HTHHHCHHHHHHHH-HHH---HHHTT-HHHHHHHHHH
T ss_pred HHHHHHCCCHHHHHHHHHH--hCCCCCCHHHHHHH-HHH---HHHhCCHHHHHHHHhc
Confidence 4446688888888888877 22322222233322 333 3345778888876653
No 35
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=43.26 E-value=28 Score=30.37 Aligned_cols=42 Identities=21% Similarity=0.337 Sum_probs=30.0
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhc
Q 027339 62 DRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRN 111 (224)
Q Consensus 62 ~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~ 111 (224)
-...|++++..||++.|+.+++|-. .|=+.=-++-||..|..
T Consensus 260 y~~aI~~AVk~gDi~KAL~LldEAe--------~LG~~~Ar~tFik~V~~ 301 (303)
T PRK10564 260 FNQAIKQAVKKGDVDKALKLLDEAE--------RLGSTSARSTFISSVKG 301 (303)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHH--------HhCCchHHHHHHHHhhc
Confidence 4688999999999999999998743 22233345666666653
No 36
>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=42.01 E-value=47 Score=23.28 Aligned_cols=28 Identities=18% Similarity=0.344 Sum_probs=19.8
Q ss_pred HhHHHHHHHHHHHHcCCHHHHHHHHHhc
Q 027339 58 ATITDRMAVKKAVQCGNVEDAIEKVNDL 85 (224)
Q Consensus 58 ~~~~~r~~I~~~I~~g~~~~Ai~~~~~~ 85 (224)
........|.++|.+||.+.|.+++..|
T Consensus 95 ~~~~~h~~i~~ai~~~d~~~a~~~~~~h 122 (125)
T PF07729_consen 95 RSLEEHREIIDAIRAGDPEAAREALRQH 122 (125)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3456677788888888888888777665
No 37
>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=41.74 E-value=35 Score=17.68 Aligned_cols=17 Identities=12% Similarity=0.253 Sum_probs=12.7
Q ss_pred HHHHHcCCHHHHHHHHH
Q 027339 67 KKAVQCGNVEDAIEKVN 83 (224)
Q Consensus 67 ~~~I~~g~~~~Ai~~~~ 83 (224)
+-+...|++++|..++.
T Consensus 9 ~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 9 RALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHcCCHHHHHHHHh
Confidence 34667888888888765
No 38
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=41.67 E-value=92 Score=19.80 Aligned_cols=53 Identities=32% Similarity=0.333 Sum_probs=35.6
Q ss_pred HHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHHHHhcCChHHHHHHHHHhcC
Q 027339 69 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIELIRNGKVEEALEFAQEELA 126 (224)
Q Consensus 69 ~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~ 126 (224)
++..++++.|++.++.. +..++. ...++...=.=+...|+..+|++...+.+.
T Consensus 5 ~~~~~~~~~A~~~~~~~----l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 5 YLQQEDYEEALEVLERA----LELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred HHhCCCHHHHHHHHHHH----HHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 57889999999998743 233333 334444444445667889999998887654
No 39
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=41.63 E-value=1.7e+02 Score=24.50 Aligned_cols=68 Identities=18% Similarity=0.241 Sum_probs=52.8
Q ss_pred CChHHHH-HHHHHHHHHhCHHHHHHHHHHHhCCC---CCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCc
Q 027339 20 IRKEDMN-KLVMNFLVTEGYVDAAEKFRMESGTE---PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNP 87 (224)
Q Consensus 20 ~~~~~l~-~lI~~yL~~~Gy~~ta~~l~~e~~~~---~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~ 87 (224)
++...++ |+....++..|-.+.|-.+.....=+ ...++...-...++...|++|...+|++..+..-.
T Consensus 60 ~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA 131 (228)
T KOG2659|consen 60 IDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLA 131 (228)
T ss_pred CchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHcc
Confidence 4556666 78889999999999999888776522 22234566788899999999999999999986443
No 40
>PF13934 ELYS: Nuclear pore complex assembly
Probab=41.36 E-value=2e+02 Score=23.71 Aligned_cols=104 Identities=17% Similarity=0.273 Sum_probs=51.8
Q ss_pred HHHHHHHHhcCCCChHHHHHHHHHHHHHhCH---HHHHHHHHHHhCCCCCCCHHhHHHHHHHHH--HHHcCCHHHHHHHH
Q 027339 8 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGY---VDAAEKFRMESGTEPDIDLATITDRMAVKK--AVQCGNVEDAIEKV 82 (224)
Q Consensus 8 ~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy---~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~--~I~~g~~~~Ai~~~ 82 (224)
.....+.+...+++...=+.+|.=+|...+- .+.+..|....++++.. +..|+. ++-.|+++.|++.+
T Consensus 29 L~~Ll~~i~~~~~~~~~K~~l~~YlLlD~~~~~~~~~~~~Fa~~f~ip~~~-------~~~~~g~W~LD~~~~~~A~~~L 101 (226)
T PF13934_consen 29 LRALLDLILSSNVSLLKKHSLFYYLLLDLDDTRPSELAESFARAFGIPPKY-------IKFIQGFWLLDHGDFEEALELL 101 (226)
T ss_pred HHHHHHHHhcCCcCHHHhHHHHHHHHHhcCccccccHHHHHHHHhCCCHHH-------HHHHHHHHHhChHhHHHHHHHh
Confidence 4455555555555543333344444444433 35788888888887421 222222 34446677776666
Q ss_pred HhcCchhhhccccchhchHHHHHHH-HHhcCChHHHHHHHHHhcCCC
Q 027339 83 NDLNPEILDTNPQLFFHLQQQRLIE-LIRNGKVEEALEFAQEELAPR 128 (224)
Q Consensus 83 ~~~~~~l~~~~~~l~F~L~~q~fiE-li~~~~~~~Al~~~r~~l~p~ 128 (224)
.. |.+... +-.+++. +++.++..-|+.|.+.--.|.
T Consensus 102 ~~--ps~~~~--------~~~~Il~~L~~~~~~~lAL~y~~~~~p~l 138 (226)
T PF13934_consen 102 SH--PSLIPW--------FPDKILQALLRRGDPKLALRYLRAVGPPL 138 (226)
T ss_pred CC--CCCCcc--------cHHHHHHHHHHCCChhHHHHHHHhcCCCC
Confidence 32 222111 1112333 334566666666666543333
No 41
>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=41.35 E-value=2.8e+02 Score=25.22 Aligned_cols=102 Identities=18% Similarity=0.134 Sum_probs=68.9
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccch
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQLF 97 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~ 97 (224)
.+.-.+-|..-++.|+...|-.+.|..+.++..-.... .. ..-.+-.+..++-.+|++++++.- .+. .-.
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-VA----VLLARVYLLMNEEVEAIRLLNEAL---KEN--PQD 233 (395)
T ss_pred CCCcchHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCc-HH----HHHHHHHHhcCcHHHHHHHHHHHH---HhC--CCC
Confidence 34556778888889998888888888777776544321 21 123444567788889999988633 222 222
Q ss_pred hchHHHHHHHHHhcCChHHHHHHHHHh--cCCCC
Q 027339 98 FHLQQQRLIELIRNGKVEEALEFAQEE--LAPRG 129 (224)
Q Consensus 98 F~L~~q~fiEli~~~~~~~Al~~~r~~--l~p~~ 129 (224)
..|...+---++.+++.+.|++.+++- ++|..
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 666666666678888999999999974 55654
No 42
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=39.82 E-value=49 Score=25.19 Aligned_cols=56 Identities=20% Similarity=0.170 Sum_probs=44.0
Q ss_pred HHhCHHHHHHHHHHHhCCC--CCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchh
Q 027339 34 VTEGYVDAAEKFRMESGTE--PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 89 (224)
Q Consensus 34 ~~~Gy~~ta~~l~~e~~~~--~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l 89 (224)
.-.|-.++.+.|.+..+.- ...+.+.....++|-..+.+|..-+|+..+...+|.-
T Consensus 67 np~gaeq~~~~F~~~l~~l~~~f~~~eil~~lk~Id~lV~~~~~feALkaiR~lyp~E 124 (148)
T COG5443 67 NPAGAEQATEMFRKSLNMLLACFKDAEILAALKRIDGLVMAGRAFEALKAIRGLYPIE 124 (148)
T ss_pred CHhhHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccHHHHHHHHHhhhchhH
Confidence 3446667777787776532 2346788899999999999999999999999999853
No 43
>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=39.43 E-value=1.9e+02 Score=22.83 Aligned_cols=103 Identities=11% Similarity=0.029 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHhCHHHHH-HHHHHHhCCCCCCCHHhH-HHHHHHHHHHHcCCHHHHHHHHHhcCchhhhc-cccchhchH
Q 027339 25 MNKLVMNFLVTEGYVDAA-EKFRMESGTEPDIDLATI-TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDT-NPQLFFHLQ 101 (224)
Q Consensus 25 l~~lI~~yL~~~Gy~~ta-~~l~~e~~~~~~~~~~~~-~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~-~~~l~F~L~ 101 (224)
-..-+++|+.+.|-.+.| +++.+-..-.. .....+ -...-|+-+|..|||..+...+++...-+.+. +......|.
T Consensus 38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~-~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk 116 (177)
T PF10602_consen 38 ALEDLADHYCKIGDLEEALKAYSRARDYCT-SPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK 116 (177)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHhhhcC-CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 344788999999976655 44444222111 111111 23667888999999999999999877655442 245677899
Q ss_pred HHHHHHHHhcCChHHHHHHHHHhcCCC
Q 027339 102 QQRLIELIRNGKVEEALEFAQEELAPR 128 (224)
Q Consensus 102 ~q~fiEli~~~~~~~Al~~~r~~l~p~ 128 (224)
+..-+..+..++..+|-+..-.-...+
T Consensus 117 ~~~gL~~l~~r~f~~AA~~fl~~~~t~ 143 (177)
T PF10602_consen 117 VYEGLANLAQRDFKEAAELFLDSLSTF 143 (177)
T ss_pred HHHHHHHHHhchHHHHHHHHHccCcCC
Confidence 999999999999988866555444333
No 44
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=38.07 E-value=24 Score=23.85 Aligned_cols=17 Identities=24% Similarity=0.329 Sum_probs=14.4
Q ss_pred CHHHHHHHHHhcCchhh
Q 027339 74 NVEDAIEKVNDLNPEIL 90 (224)
Q Consensus 74 ~~~~Ai~~~~~~~~~l~ 90 (224)
-++.|++|+.+|.|.+-
T Consensus 60 tld~Ai~Wi~e~M~~iT 76 (79)
T PF10827_consen 60 TLDLAIAWIGEHMPHIT 76 (79)
T ss_pred cHHHHHHHHHhcccchh
Confidence 57899999999998753
No 45
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=36.37 E-value=53 Score=20.89 Aligned_cols=27 Identities=19% Similarity=0.137 Sum_probs=23.2
Q ss_pred cChhhHHHHHHHHHHHHHhhCCCCCCC
Q 027339 160 LDISQRLKTASEVNAAILTSQSHEKDP 186 (224)
Q Consensus 160 ~~~~~r~~la~~vn~~il~~~~~~~~~ 186 (224)
.+.+++.+|++.+..++.+.+|.|+++
T Consensus 12 rs~EqK~~L~~~it~a~~~~~~~p~~~ 38 (60)
T PRK02289 12 RSQEQKNALAREVTEVVSRIAKAPKEA 38 (60)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcce
Confidence 368999999999999999999976543
No 46
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=35.45 E-value=1.5e+02 Score=29.32 Aligned_cols=28 Identities=25% Similarity=0.504 Sum_probs=26.2
Q ss_pred CCChHHHHHHHHHHHHHhCHHHHHHHHH
Q 027339 19 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 46 (224)
Q Consensus 19 ~~~~~~l~~lI~~yL~~~Gy~~ta~~l~ 46 (224)
.++-.++..+|..-|...||.++|+++.
T Consensus 58 ~isve~IqDiVe~~L~~~g~~~vAkaYI 85 (735)
T PRK07111 58 EVTVEDIQDLVEKVLIENGHAETAKAYI 85 (735)
T ss_pred CCCHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence 6888999999999999999999999985
No 47
>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=34.39 E-value=1.1e+02 Score=20.89 Aligned_cols=63 Identities=14% Similarity=0.204 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhCCCC---CCCHHhHHHHHHHHHHHHc-----C-CHHHHHHHHHhc
Q 027339 23 EDMNKLVMNFLVTEGYVDAAEKFRMESGTEP---DIDLATITDRMAVKKAVQC-----G-NVEDAIEKVNDL 85 (224)
Q Consensus 23 ~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~---~~~~~~~~~r~~I~~~I~~-----g-~~~~Ai~~~~~~ 85 (224)
..+..+..+|..-.+-.-+...|.+..|... ..+...+..|+.|.+.|.. | ..++|++.|+..
T Consensus 9 ~TV~dlw~Ew~~g~~g~psI~~le~~yG~~WR~~~~~~~~y~rRK~Ii~~I~~l~~~~g~~~~~ai~~le~~ 80 (81)
T PF12550_consen 9 KTVYDLWREWFTGLNGQPSIRSLEKKYGSKWRRDSKERRTYSRRKVIIDFIERLANERGISEEEAIEILEEI 80 (81)
T ss_pred CcHHHHHHHHhcCCCCCCCHHHHHHHhChhhccCcccchhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 3466677777655444567788888877543 3344678999999998877 4 777788777653
No 48
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.52 E-value=4.5e+02 Score=25.39 Aligned_cols=42 Identities=17% Similarity=0.065 Sum_probs=29.4
Q ss_pred HHHHHHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHh
Q 027339 8 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMES 49 (224)
Q Consensus 8 ~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~ 49 (224)
.|+..+.+.+..-....+..|=+|+|++.|-++.|-......
T Consensus 95 ~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L 136 (652)
T KOG2376|consen 95 LDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHL 136 (652)
T ss_pred HHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 355566666555555668888999999999887776555544
No 49
>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=32.90 E-value=64 Score=31.38 Aligned_cols=34 Identities=24% Similarity=0.469 Sum_probs=29.9
Q ss_pred CCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 027339 19 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 52 (224)
Q Consensus 19 ~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~ 52 (224)
.+....+|+.+.+||...||..|-..+..|.++.
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 3456789999999999999999999999998753
No 50
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=32.62 E-value=68 Score=23.15 Aligned_cols=33 Identities=33% Similarity=0.602 Sum_probs=27.3
Q ss_pred hchHHHHHHHHHhcCChHHHHHHHHHhcCCCCC
Q 027339 98 FHLQQQRLIELIRNGKVEEALEFAQEELAPRGE 130 (224)
Q Consensus 98 F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~~ 130 (224)
|.=+....+|||+.+.-..|+.|+++.+..+..
T Consensus 48 faPYErr~mELLkv~kdKrAlKfaKkRlGth~R 80 (98)
T PTZ00196 48 FSPYERRMIELLKVGKDKRALKYAKKRLGTHKR 80 (98)
T ss_pred ccHHHHHHHHHHHhcchHHHHHHHHHHhhhHHH
Confidence 455677889999999889999999999877643
No 51
>PF15391 DUF4614: Domain of unknown function (DUF4614)
Probab=31.52 E-value=51 Score=26.56 Aligned_cols=49 Identities=31% Similarity=0.417 Sum_probs=34.7
Q ss_pred HHHHHHHhcCchhhhccccchhch-HHHHHHHHHhcC----------------ChHHHHHHHHHhc
Q 027339 77 DAIEKVNDLNPEILDTNPQLFFHL-QQQRLIELIRNG----------------KVEEALEFAQEEL 125 (224)
Q Consensus 77 ~Ai~~~~~~~~~l~~~~~~l~F~L-~~q~fiEli~~~----------------~~~~Al~~~r~~l 125 (224)
+||+-+....|.++..|..|.-+| .-|+|||.-+.= .++++-+|+|.|=
T Consensus 114 dAiEALTaYSPA~lALnDMLkQQL~LTqqFve~sr~LH~Sll~SL~~~~~hY~TLEetKeyIr~hr 179 (181)
T PF15391_consen 114 DAIEALTAYSPAVLALNDMLKQQLSLTQQFVEASRHLHQSLLQSLDADSFHYHTLEETKEYIRRHR 179 (181)
T ss_pred HHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcceeeHHHHHHHHHHcC
Confidence 578888888898887776554444 467999965531 2688888888663
No 52
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=31.52 E-value=1.1e+02 Score=19.73 Aligned_cols=32 Identities=19% Similarity=0.320 Sum_probs=23.6
Q ss_pred HhHHHHHHHHHHHHcCCHHHHHHHHHhcCchh
Q 027339 58 ATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 89 (224)
Q Consensus 58 ~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l 89 (224)
|.....+-|...+..|++++|.+.+++....+
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 44566777888899999999999988765443
No 53
>PF13934 ELYS: Nuclear pore complex assembly
Probab=31.29 E-value=3e+02 Score=22.69 Aligned_cols=97 Identities=14% Similarity=0.162 Sum_probs=66.3
Q ss_pred cCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccccc
Q 027339 17 DVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQL 96 (224)
Q Consensus 17 ~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~l 96 (224)
...+++..+..+=.=|++.+|-++.|-.+-.+.++.+... .+-++-.+..|+.+.|+..+....|.+...
T Consensus 72 ~f~ip~~~~~~~~g~W~LD~~~~~~A~~~L~~ps~~~~~~------~~Il~~L~~~~~~~lAL~y~~~~~p~l~s~---- 141 (226)
T PF13934_consen 72 AFGIPPKYIKFIQGFWLLDHGDFEEALELLSHPSLIPWFP------DKILQALLRRGDPKLALRYLRAVGPPLSSP---- 141 (226)
T ss_pred HhCCCHHHHHHHHHHHHhChHhHHHHHHHhCCCCCCcccH------HHHHHHHHHCCChhHHHHHHHhcCCCCCCH----
Confidence 3577777777777777777777777766655554433211 122455667899999999999988876543
Q ss_pred hhchHHHHHHHHHhcCChHHHHHHHHHhcC
Q 027339 97 FFHLQQQRLIELIRNGKVEEALEFAQEELA 126 (224)
Q Consensus 97 ~F~L~~q~fiEli~~~~~~~Al~~~r~~l~ 126 (224)
--..-++.++.++.+.||..|.|++-.
T Consensus 142 ---~~~~~~~~~La~~~v~EAf~~~R~~~~ 168 (226)
T PF13934_consen 142 ---EALTLYFVALANGLVTEAFSFQRSYPD 168 (226)
T ss_pred ---HHHHHHHHHHHcCCHHHHHHHHHhCch
Confidence 122334455778999999999997654
No 54
>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=29.94 E-value=69 Score=23.12 Aligned_cols=32 Identities=31% Similarity=0.474 Sum_probs=27.3
Q ss_pred hchHHHHHHHHHhcCChHHHHHHHHHhcCCCC
Q 027339 98 FHLQQQRLIELIRNGKVEEALEFAQEELAPRG 129 (224)
Q Consensus 98 F~L~~q~fiEli~~~~~~~Al~~~r~~l~p~~ 129 (224)
|.=+..+.+||++.+.-..|+.|+++.+....
T Consensus 48 faPYEkr~mELlkv~kdKrAlKf~KKRlGth~ 79 (98)
T PF01158_consen 48 FAPYEKRAMELLKVSKDKRALKFAKKRLGTHI 79 (98)
T ss_dssp HCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHH
T ss_pred CChHHHHHHHHHhcchhHHHHHHHHHHhhhhH
Confidence 55577889999999988999999999987664
No 55
>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=29.90 E-value=1.6e+02 Score=19.85 Aligned_cols=44 Identities=25% Similarity=0.461 Sum_probs=24.0
Q ss_pred CCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCC
Q 027339 19 KIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGN 74 (224)
Q Consensus 19 ~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~ 74 (224)
.++.+.|+.||-+|..|+|.. .|.. ....-....++++.+.+|+
T Consensus 7 ~L~~eTL~nLIeefv~ReGTd---------yG~~---E~sL~~kv~qv~~qL~~G~ 50 (70)
T PF06794_consen 7 QLPPETLNNLIEEFVLREGTD---------YGEQ---ELSLEEKVEQVKQQLKSGE 50 (70)
T ss_dssp GS-HHHHHHHHHHHHH------------------------HHHHHHHHHHHHHTTS
T ss_pred HCCHHHHHHHHHHHHHccCcc---------cCcc---cccHHHHHHHHHHHHHcCC
Confidence 467788999999999999943 1111 1112234677888888885
No 56
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=29.61 E-value=1.6e+02 Score=24.07 Aligned_cols=19 Identities=42% Similarity=0.744 Sum_probs=10.4
Q ss_pred HHHHHHhcCChHHHHHHHH
Q 027339 104 RLIELIRNGKVEEALEFAQ 122 (224)
Q Consensus 104 ~fiEli~~~~~~~Al~~~r 122 (224)
++++.+++|++.+|=.+.+
T Consensus 127 ~~le~l~~~~~~~Ae~~~~ 145 (204)
T COG2178 127 HVLELLRKGSFEEAERFLK 145 (204)
T ss_pred HHHHHHHhccHHHHHHHHH
Confidence 4555555565555555544
No 57
>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=29.21 E-value=83 Score=19.19 Aligned_cols=19 Identities=26% Similarity=0.226 Sum_probs=15.7
Q ss_pred ChhhHHHHHHHHHHHHHhh
Q 027339 161 DISQRLKTASEVNAAILTS 179 (224)
Q Consensus 161 ~~~~r~~la~~vn~~il~~ 179 (224)
.+.+|..+|+.|..++..+
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 4789999999999998753
No 58
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=28.85 E-value=2e+02 Score=27.33 Aligned_cols=62 Identities=10% Similarity=0.104 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhh
Q 027339 25 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILD 91 (224)
Q Consensus 25 l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~ 91 (224)
--+..+.||..+||.|....+.+.+.+..... -..+|++++....-+..........|.++.
T Consensus 168 a~r~cL~~fr~~G~~DI~e~l~k~~~~~Ieh~-----~l~~i~d~l~~~gd~~~e~i~~~~~~~lf~ 229 (723)
T KOG2437|consen 168 AIRLCLKHFRQHGYTDIFESLQKKTKIAIEHP-----MLTDIHDKLVLKGDACEELIEKAVNDGLFN 229 (723)
T ss_pred HHHHHHHHHHHcCchHHHHHHHHhhcccCCCh-----HHHHHHHHHHHcccHHHHHHHhhhccHHHh
Confidence 45778999999999999999999998765432 356788877665555555555566666553
No 59
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=28.52 E-value=5e+02 Score=24.38 Aligned_cols=55 Identities=13% Similarity=0.249 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhcc--------ccchhchHHHHHHHHHhcCC
Q 027339 59 TITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN--------PQLFFHLQQQRLIELIRNGK 113 (224)
Q Consensus 59 ~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~--------~~l~F~L~~q~fiEli~~~~ 113 (224)
.+-.-..+-.+|..|.++++...++...+.++++. ..+...|-+-.|+|+.....
T Consensus 128 f~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s 190 (549)
T PF07079_consen 128 FFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMS 190 (549)
T ss_pred HHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcc
Confidence 34455667789999999999999999999998842 23444667778888876543
No 60
>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=27.86 E-value=1.3e+02 Score=24.38 Aligned_cols=64 Identities=13% Similarity=0.142 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHhcCchhhhccc------cchhchHHHHHHHHHhcCChHHHHHHHHHhc
Q 027339 61 TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNP------QLFFHLQQQRLIELIRNGKVEEALEFAQEEL 125 (224)
Q Consensus 61 ~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~------~l~F~L~~q~fiEli~~~~~~~Al~~~r~~l 125 (224)
.-|.+|.+.+-. +++.-++++...+..+.+..+ .+...+..-.|.++++.|+..+|.+++.+.+
T Consensus 135 ~lr~~ie~~l~~-~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 204 (205)
T TIGR01470 135 LLRERIETLLPP-SLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRL 204 (205)
T ss_pred HHHHHHHHhcch-hHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhh
Confidence 345555555432 567777777777776654322 2333444456888899999999988887654
No 61
>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=27.22 E-value=92 Score=16.14 Aligned_cols=20 Identities=25% Similarity=0.551 Sum_probs=15.8
Q ss_pred HHHHHHcCCHHHHHHHHHhc
Q 027339 66 VKKAVQCGNVEDAIEKVNDL 85 (224)
Q Consensus 66 I~~~I~~g~~~~Ai~~~~~~ 85 (224)
|......|++++|.+...+.
T Consensus 7 i~~~~~~~~~~~a~~~~~~M 26 (35)
T TIGR00756 7 IDGLCKAGRVEEALELFKEM 26 (35)
T ss_pred HHHHHHCCCHHHHHHHHHHH
Confidence 56678889999998887754
No 62
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=26.64 E-value=1.1e+02 Score=19.98 Aligned_cols=50 Identities=14% Similarity=0.256 Sum_probs=37.1
Q ss_pred CChHHHHHHHHHHHHHhCH-HHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCH
Q 027339 20 IRKEDMNKLVMNFLVTEGY-VDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNV 75 (224)
Q Consensus 20 ~~~~~l~~lI~~yL~~~Gy-~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~ 75 (224)
+++....+-|+++|...|= .-++..++++.|+... .-++.+..+..+|-+
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 4567788999999999986 3789999999998753 134556666666654
No 63
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=26.27 E-value=98 Score=16.24 Aligned_cols=20 Identities=10% Similarity=0.413 Sum_probs=16.1
Q ss_pred HHHHHHHcCCHHHHHHHHHh
Q 027339 65 AVKKAVQCGNVEDAIEKVND 84 (224)
Q Consensus 65 ~I~~~I~~g~~~~Ai~~~~~ 84 (224)
-|..+...|+++.|.+.+++
T Consensus 7 ll~a~~~~g~~~~a~~~~~~ 26 (34)
T PF13812_consen 7 LLRACAKAGDPDAALQLFDE 26 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHH
Confidence 36678889999999888765
No 64
>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.15 E-value=21 Score=35.60 Aligned_cols=49 Identities=27% Similarity=0.552 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcC
Q 027339 25 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLN 86 (224)
Q Consensus 25 l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~ 86 (224)
+-+-|..||...||.+.|--|.++.. .+..=++..||++.|++.+.+..
T Consensus 622 vGqaiIaYLqKkgypeiAL~FVkD~~-------------tRF~LaLe~gnle~ale~akkld 670 (1202)
T KOG0292|consen 622 VGQAIIAYLQKKGYPEIALHFVKDER-------------TRFELALECGNLEVALEAAKKLD 670 (1202)
T ss_pred ccHHHHHHHHhcCCcceeeeeecCcc-------------hheeeehhcCCHHHHHHHHHhcC
Confidence 44667889999999999988877653 34455778888888888887654
No 65
>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]
Probab=25.91 E-value=2.4e+02 Score=25.10 Aligned_cols=33 Identities=18% Similarity=0.224 Sum_probs=28.7
Q ss_pred CChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 027339 20 IRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 52 (224)
Q Consensus 20 ~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~ 52 (224)
-||+.+-+||...|.+.||...|..|+.....+
T Consensus 9 kdre~lyrLiisqL~ydg~~qiA~~lan~~~~~ 41 (430)
T KOG0640|consen 9 KDREILYRLIISQLRYDGLSQIASALANATMTP 41 (430)
T ss_pred chHHHHHHHHHHHHhhccHHHHHHHHHHhhcCc
Confidence 368889999999999999999999999866554
No 66
>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]
Probab=25.66 E-value=4.1e+02 Score=24.34 Aligned_cols=89 Identities=11% Similarity=0.104 Sum_probs=64.9
Q ss_pred CCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhH----HHHHHHHHHHHcCCHHHHHHHHHhcCchhhhcc
Q 027339 18 VKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATI----TDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTN 93 (224)
Q Consensus 18 ~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~----~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~ 93 (224)
+++.|..|..++++-.-.+|-.+.|.....|..++.....+.- =..-+.|-++..+||-.|--.-.+..+..++.+
T Consensus 126 vEvERarlTk~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~ 205 (439)
T KOG1498|consen 126 VEVERARLTKMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKP 205 (439)
T ss_pred EeehHHHHHHHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCc
Confidence 4788999999999999999999999888888777643222111 123456778999999999888888888877765
Q ss_pred ccchhchHHHHHHHHH
Q 027339 94 PQLFFHLQQQRLIELI 109 (224)
Q Consensus 94 ~~l~F~L~~q~fiEli 109 (224)
. ..-.+.+|-|++
T Consensus 206 ~---~~~lKlkyY~lm 218 (439)
T KOG1498|consen 206 D---VQELKLKYYELM 218 (439)
T ss_pred c---HHHHHHHHHHHH
Confidence 3 344455666643
No 67
>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=25.62 E-value=1.7e+02 Score=27.68 Aligned_cols=43 Identities=23% Similarity=0.266 Sum_probs=25.7
Q ss_pred HHHHHHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhC
Q 027339 8 REEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESG 50 (224)
Q Consensus 8 ~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~ 50 (224)
......-+.+++++.++-..=++..+...|+.+++...++-.|
T Consensus 390 ~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~ 432 (566)
T PF07575_consen 390 RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILG 432 (566)
T ss_dssp HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHH
T ss_pred HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3445566677777766666666677778888888877776654
No 68
>PRK00794 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=25.53 E-value=3e+02 Score=20.91 Aligned_cols=32 Identities=19% Similarity=0.312 Sum_probs=26.2
Q ss_pred HHhHHHHHHHHHHHHcCCHHHHHHHHHhcCch
Q 027339 57 LATITDRMAVKKAVQCGNVEDAIEKVNDLNPE 88 (224)
Q Consensus 57 ~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~ 88 (224)
-+.......|.++|.+|++-.|++.+....|.
T Consensus 91 p~~~~~l~~i~~~V~~g~~y~ALk~lR~L~~~ 122 (132)
T PRK00794 91 PDILAGLKAIDELVEAGRYYEALKALRGLYPI 122 (132)
T ss_pred HHHHHHHHHHHHHHHCCcHHHHHHHHHHhhHH
Confidence 34456678899999999999999999887764
No 69
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=25.36 E-value=58 Score=25.75 Aligned_cols=48 Identities=19% Similarity=0.203 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhCCCC----CC--CHHhHHHHHHHHHHHHcCCHHHHHHHHHhcC
Q 027339 38 YVDAAEKFRMESGTEP----DI--DLATITDRMAVKKAVQCGNVEDAIEKVNDLN 86 (224)
Q Consensus 38 y~~ta~~l~~e~~~~~----~~--~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~ 86 (224)
..+..+.+.++.|+.. .. +...+ .-..||++|.+|+++.|-+++...+
T Consensus 118 ~~~~L~~~~~~~g~~v~~v~~~~~~~~~i-SST~IR~~i~~G~i~~an~lLg~~y 171 (180)
T cd02064 118 DAELLKELGKKYGFEVTVVPPVTLDGERV-SSTRIREALAEGDVELANELLGRPY 171 (180)
T ss_pred CHHHHHHhhhhcCcEEEEeCcEecCCcEE-cHHHHHHHHHhCCHHHHHHHcCCCc
Confidence 3466667777776541 11 11111 2356999999999999998886544
No 70
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=24.96 E-value=2.6e+02 Score=19.92 Aligned_cols=102 Identities=17% Similarity=0.192 Sum_probs=50.0
Q ss_pred cCCCChHH-HHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchhhhcccc
Q 027339 17 DVKIRKED-MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEILDTNPQ 95 (224)
Q Consensus 17 ~~~~~~~~-l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~~~~~ 95 (224)
..+.+... +..+..-|+...-|.++...|.+-..+.+. +.+.. ...-.-....|+++.|+.+++..- .+...+..
T Consensus 11 ~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~--~~la~~~~~~~~~~~A~~~~~~~~-~~~p~~~~ 86 (135)
T TIGR02552 11 GLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYW--LGLAACCQMLKEYEEAIDAYALAA-ALDPDDPR 86 (135)
T ss_pred cCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-hcCCCChH
Confidence 34443333 334444444444455555556554454442 22222 122223446799999998877431 11111222
Q ss_pred chhchHHHHHHHHHhcCChHHHHHHHHHhcC
Q 027339 96 LFFHLQQQRLIELIRNGKVEEALEFAQEELA 126 (224)
Q Consensus 96 l~F~L~~q~fiEli~~~~~~~Al~~~r~~l~ 126 (224)
..+.+- . +.+.. |+..+|+.+.+.-+.
T Consensus 87 ~~~~la--~-~~~~~-g~~~~A~~~~~~al~ 113 (135)
T TIGR02552 87 PYFHAA--E-CLLAL-GEPESALKALDLAIE 113 (135)
T ss_pred HHHHHH--H-HHHHc-CCHHHHHHHHHHHHH
Confidence 232222 2 22223 579999999887544
No 71
>PRK07143 hypothetical protein; Provisional
Probab=24.50 E-value=60 Score=27.95 Aligned_cols=24 Identities=13% Similarity=0.043 Sum_probs=21.0
Q ss_pred HHHHHHHHcCCHHHHHHHHHhcCc
Q 027339 64 MAVKKAVQCGNVEDAIEKVNDLNP 87 (224)
Q Consensus 64 ~~I~~~I~~g~~~~Ai~~~~~~~~ 87 (224)
..||++|.+||++.|-+++...+.
T Consensus 153 T~IR~~l~~G~i~~A~~lLGr~y~ 176 (279)
T PRK07143 153 SLLKEFIEFGDIELLNSLLLYNYS 176 (279)
T ss_pred HHHHHHHHcCCHHHHHHHcCCCcE
Confidence 569999999999999999887664
No 72
>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=24.15 E-value=1.9e+02 Score=18.59 Aligned_cols=56 Identities=18% Similarity=0.110 Sum_probs=26.1
Q ss_pred HHHcCCHHHHHHHHHhcCchhhhccccchhchHHHHHHH--HHhcCChHHHHHHHHHh
Q 027339 69 AVQCGNVEDAIEKVNDLNPEILDTNPQLFFHLQQQRLIE--LIRNGKVEEALEFAQEE 124 (224)
Q Consensus 69 ~I~~g~~~~Ai~~~~~~~~~l~~~~~~l~F~L~~q~fiE--li~~~~~~~Al~~~r~~ 124 (224)
....|++++|+.+.++--......+..-........=+- ....|+.++|+++.++-
T Consensus 15 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a 72 (78)
T PF13424_consen 15 YRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA 72 (78)
T ss_dssp HHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred HHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 346778888887777544331111111111111111111 23456788888877754
No 73
>PF12854 PPR_1: PPR repeat
Probab=23.76 E-value=1.2e+02 Score=16.76 Aligned_cols=19 Identities=21% Similarity=0.490 Sum_probs=14.7
Q ss_pred HHHHHHcCCHHHHHHHHHh
Q 027339 66 VKKAVQCGNVEDAIEKVND 84 (224)
Q Consensus 66 I~~~I~~g~~~~Ai~~~~~ 84 (224)
|...-..|++++|++.+++
T Consensus 14 I~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 14 IDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHHCCCHHHHHHHHHh
Confidence 5556688999999888764
No 74
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=23.67 E-value=94 Score=15.83 Aligned_cols=20 Identities=20% Similarity=0.486 Sum_probs=15.3
Q ss_pred HHHHHHcCCHHHHHHHHHhc
Q 027339 66 VKKAVQCGNVEDAIEKVNDL 85 (224)
Q Consensus 66 I~~~I~~g~~~~Ai~~~~~~ 85 (224)
|..+...|++++|.++.++.
T Consensus 7 i~~~~~~~~~~~a~~~~~~M 26 (31)
T PF01535_consen 7 ISGYCKMGQFEEALEVFDEM 26 (31)
T ss_pred HHHHHccchHHHHHHHHHHH
Confidence 55677888999998887653
No 75
>PF09312 SurA_N: SurA N-terminal domain; InterPro: IPR015391 The correct folding of outer membrane proteins in Gram negative bacteria is facilitated by the survival protein SurA []. This entry represents the domain found at the N terminus of the chaperone SurA. It is a helical domain of unknown function. The C terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment. ; PDB: 3RGC_B 2PV3_B 1M5Y_A.
Probab=23.65 E-value=2e+02 Score=20.91 Aligned_cols=23 Identities=13% Similarity=0.328 Sum_probs=12.4
Q ss_pred hcCCCChHHHHHHHHHHHHHhCH
Q 027339 16 NDVKIRKEDMNKLVMNFLVTEGY 38 (224)
Q Consensus 16 ~~~~~~~~~l~~lI~~yL~~~Gy 38 (224)
.++.++..+++..|.+..-.+|.
T Consensus 63 ~gI~vsd~evd~~i~~ia~~n~l 85 (118)
T PF09312_consen 63 LGIKVSDEEVDEAIANIAKQNNL 85 (118)
T ss_dssp CT----HHHHHHHHHHHHHHTT-
T ss_pred cCCCCCHHHHHHHHHHHHHHcCC
Confidence 35666777777777777777766
No 76
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=23.45 E-value=1.1e+02 Score=22.46 Aligned_cols=30 Identities=33% Similarity=0.506 Sum_probs=22.6
Q ss_pred cchhchHHHHHHHHHhcCChHHHHHHHHHh
Q 027339 95 QLFFHLQQQRLIELIRNGKVEEALEFAQEE 124 (224)
Q Consensus 95 ~l~F~L~~q~fiEli~~~~~~~Al~~~r~~ 124 (224)
.....+.-..||.+|+.|+..+|++.+++.
T Consensus 35 aCP~~~dip~~i~~i~~g~~~~A~~~i~~~ 64 (111)
T PF14691_consen 35 ACPAHIDIPEYIRLIREGNFKEAYELIRED 64 (111)
T ss_dssp TSTT---HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred CCCCCCcHHHHHHHHHCCCHHHHHHHHHHh
Confidence 456678889999999999999999999853
No 77
>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=22.77 E-value=68 Score=18.20 Aligned_cols=17 Identities=35% Similarity=0.542 Sum_probs=11.5
Q ss_pred HHHHH--HcCCHHHHHHHH
Q 027339 66 VKKAV--QCGNVEDAIEKV 82 (224)
Q Consensus 66 I~~~I--~~g~~~~Ai~~~ 82 (224)
.+.++ -.||++.|+.|+
T Consensus 19 ~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 19 AREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHhC
Confidence 44444 346899999886
No 78
>KOG0412 consensus Golgi transport complex COD1 protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.75 E-value=7.2e+02 Score=24.58 Aligned_cols=109 Identities=20% Similarity=0.256 Sum_probs=67.0
Q ss_pred HHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCCC----------CCCHHhHHHHHHHHHHHHcCCHHHHHHH
Q 027339 12 EKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTEP----------DIDLATITDRMAVKKAVQCGNVEDAIEK 81 (224)
Q Consensus 12 ~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~----------~~~~~~~~~r~~I~~~I~~g~~~~Ai~~ 81 (224)
.+.+++-..-...+.+++-.|+.-++|+-- +...+.-+++. -+|.-.+-.|+-|+.++-.|+++.-.+.
T Consensus 411 ~~~f~n~s~~~~~mQel~~~y~~LE~yfm~-esv~kAi~ld~ye~~~~~~SSmVDDV~yivrk~irRA~~T~si~~~~a~ 489 (773)
T KOG0412|consen 411 MKKFLNNSRVLTKMQELIRNYLLLEEYFML-ESVQKAIKLDEYEDAGQLTSSMVDDVFYIVRKCIRRALSTSSIDSLCAF 489 (773)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhcccccccCCcchhhhhhhHHHHHHHHHHHHHhcccHHHHHHH
Confidence 344444444556788999999999999721 12222222221 1333456889999999999999999999
Q ss_pred HHhcCchhhhccccchhc-hHHHHHHHHHhcCChHHHHHHHHHhcCCC
Q 027339 82 VNDLNPEILDTNPQLFFH-LQQQRLIELIRNGKVEEALEFAQEELAPR 128 (224)
Q Consensus 82 ~~~~~~~l~~~~~~l~F~-L~~q~fiEli~~~~~~~Al~~~r~~l~p~ 128 (224)
+++.-+.+... |. +.+++.- -++ +....|.++++..+.-.
T Consensus 490 iN~~~~~l~nd-----f~~~L~~kLr-s~~-~~~~sa~N~i~s~lq~~ 530 (773)
T KOG0412|consen 490 INEATALLDND-----FLVALQSKLR-SIQ-GGAASALNIIQSSLQAG 530 (773)
T ss_pred HHHHHHHhcch-----HHHHHHHHHH-Hhh-hhhhhHHHHHHHHHHHH
Confidence 99855544321 22 2222222 222 34667777777766543
No 79
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=22.52 E-value=59 Score=26.24 Aligned_cols=45 Identities=16% Similarity=0.234 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCH
Q 027339 25 MNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNV 75 (224)
Q Consensus 25 l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~ 75 (224)
-..+|++||-++|-.-||..+.++.|+.-.. --+++..+..+|.+
T Consensus 5 ~~~~i~~~l~~~~~~~~a~~i~k~l~i~k~~------vNr~LY~L~~~~~v 49 (183)
T PHA02701 5 CASLILTLLSSSGDKLPAKRIAKELGISKHE------ANRCLYRLLESDAV 49 (183)
T ss_pred HHHHHHHHHHhcCCCCcHHHHHHHhCccHHH------HHHHHHHHhhcCcE
Confidence 3578999999999779999999999987421 12345555555544
No 80
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=22.30 E-value=5.1e+02 Score=22.30 Aligned_cols=17 Identities=18% Similarity=0.055 Sum_probs=10.4
Q ss_pred HHHHcCCHHHHHHHHHh
Q 027339 68 KAVQCGNVEDAIEKVND 84 (224)
Q Consensus 68 ~~I~~g~~~~Ai~~~~~ 84 (224)
-....|++++|++....
T Consensus 150 ~~~~~g~~~~A~~~~~~ 166 (389)
T PRK11788 150 IYQQEKDWQKAIDVAER 166 (389)
T ss_pred HHHHhchHHHHHHHHHH
Confidence 34556777777666554
No 81
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=22.27 E-value=75 Score=32.15 Aligned_cols=46 Identities=15% Similarity=0.156 Sum_probs=41.7
Q ss_pred CHHHHHHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHHHhCCC
Q 027339 7 TREEWEKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRMESGTE 52 (224)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~ 52 (224)
+..+|--+...+.++.+++-.+|.+||...|+..+|..+.+|+.++
T Consensus 840 ~~~~~v~~~aq~sfp~~elL~li~~HL~ss~L~~~a~vl~~ea~LP 885 (1516)
T KOG1832|consen 840 TTQEMVTPLAQESFPSNELLSLIKKHLASSTLEMPAPVLQQEAPLP 885 (1516)
T ss_pred hHHhhhhhhhhccCCHHHHHHHHHHHHhhcccCCchhhhhccCCCC
Confidence 3457888888999999999999999999999999999999998875
No 82
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=21.93 E-value=4.3e+02 Score=26.12 Aligned_cols=60 Identities=18% Similarity=0.303 Sum_probs=41.4
Q ss_pred HHHHHH-HHHcCCHHHHHHHHHhcCchhhhcc--ccchhchHHHHHHH----HHhcCChHHHHHHHHH
Q 027339 63 RMAVKK-AVQCGNVEDAIEKVNDLNPEILDTN--PQLFFHLQQQRLIE----LIRNGKVEEALEFAQE 123 (224)
Q Consensus 63 r~~I~~-~I~~g~~~~Ai~~~~~~~~~l~~~~--~~l~F~L~~q~fiE----li~~~~~~~Al~~~r~ 123 (224)
.+.|.+ .|..|+|++|.+..+.+ |++...- +.-.|.--.-+|+| .++.|...||+....+
T Consensus 776 ~ksiVqlHve~~~W~eAFalAe~h-Pe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQ 842 (1081)
T KOG1538|consen 776 LKSLVQLHVETQRWDEAFALAEKH-PEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQ 842 (1081)
T ss_pred HHHHhhheeecccchHhHhhhhhC-ccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHH
Confidence 344444 78899999999998765 5554431 34455666667888 4667888888887764
No 83
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=21.51 E-value=1.3e+02 Score=22.23 Aligned_cols=24 Identities=13% Similarity=0.123 Sum_probs=20.6
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHhc
Q 027339 62 DRMAVKKAVQCGNVEDAIEKVNDL 85 (224)
Q Consensus 62 ~r~~I~~~I~~g~~~~Ai~~~~~~ 85 (224)
....+.+.|.+|+++.|++++...
T Consensus 73 ~~~~~~~~l~~g~~~~a~~ll~~~ 96 (115)
T PF12793_consen 73 LEQQAEELLEQGKYEQALQLLDFD 96 (115)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhC
Confidence 466788899999999999999843
No 84
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=21.40 E-value=1.8e+02 Score=21.42 Aligned_cols=13 Identities=15% Similarity=0.115 Sum_probs=6.3
Q ss_pred ChHHHHHHHHHHH
Q 027339 21 RKEDMNKLVMNFL 33 (224)
Q Consensus 21 ~~~~l~~lI~~yL 33 (224)
+..--+.+|.-|.
T Consensus 40 ~~~~~~~li~ly~ 52 (140)
T smart00299 40 NPALQTKLIELYA 52 (140)
T ss_pred chhHHHHHHHHHH
Confidence 3444445555554
No 85
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=21.39 E-value=2.1e+02 Score=23.27 Aligned_cols=61 Identities=21% Similarity=0.340 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHhcCc--hhhh-----------ccccchhchHHHHHHHHHhcCChHHHHHHHHH
Q 027339 61 TDRMAVKKAVQCGNVEDAIEKVNDLNP--EILD-----------TNPQLFFHLQQQRLIELIRNGKVEEALEFAQE 123 (224)
Q Consensus 61 ~~r~~I~~~I~~g~~~~Ai~~~~~~~~--~l~~-----------~~~~l~F~L~~q~fiEli~~~~~~~Al~~~r~ 123 (224)
.+|...|++|+.|.=+-|+-.+.+.+- .|+. .-++++|.....++++=++.|+ +||.-.++
T Consensus 41 ~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~GN--~~lkkl~~ 114 (209)
T KOG2910|consen 41 AERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQGN--EALKKLQQ 114 (209)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 356677788888887877766653321 2322 2378999999999999888763 45544443
No 86
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=21.26 E-value=3.6e+02 Score=22.31 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHhcCc
Q 027339 59 TITDRMAVKKAVQCGNVEDAIEKVNDLNP 87 (224)
Q Consensus 59 ~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~ 87 (224)
.+.+-..|.++|..||.+.|-..+.+|--
T Consensus 197 ~~~~H~~I~~AI~~~D~~~A~~am~~hl~ 225 (241)
T COG2186 197 VLEEHRAIVDAIAAGDPDAAREAMRAHLE 225 (241)
T ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 47788999999999999999888876643
No 87
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=21.21 E-value=1e+02 Score=26.43 Aligned_cols=21 Identities=29% Similarity=0.401 Sum_probs=11.9
Q ss_pred HHHHHHHcCCHHHHHHHHHhc
Q 027339 65 AVKKAVQCGNVEDAIEKVNDL 85 (224)
Q Consensus 65 ~I~~~I~~g~~~~Ai~~~~~~ 85 (224)
+|++++..||.++|+++|-+.
T Consensus 1 ~I~~~Ll~G~~~~Av~~al~~ 21 (284)
T PF12931_consen 1 KIQQLLLVGNREEAVELALDN 21 (284)
T ss_dssp HHHHHHHTT-HHHHHHHHHHT
T ss_pred CHHHHHhCCCHHHHHHHHHHC
Confidence 356666666666666665543
No 88
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=21.14 E-value=3e+02 Score=19.25 Aligned_cols=57 Identities=16% Similarity=0.240 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHH
Q 027339 24 DMNKLVMNFLVTEGYVDAAEKFRMESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKV 82 (224)
Q Consensus 24 ~l~~lI~~yL~~~Gy~~ta~~l~~e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~ 82 (224)
...+.+.+.|...+-.+.+..|..+.=.+ ...+.++.|..|...+..|....+++-.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~l~t~--~e~~~Ls~R~~I~~ll~~G~S~~eIA~~ 59 (88)
T TIGR02531 3 ELLDELFDAILTLKNREECYRFFDDIATI--NEIQSLAQRLQVAKMLKQGKTYSDIEAE 59 (88)
T ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHhCCH--HHHHhhhHHHHHHHHHHCCCCHHHHHHH
Confidence 34567788888888888888888765322 2345678889999999999766665543
No 89
>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=21.08 E-value=95 Score=21.20 Aligned_cols=28 Identities=32% Similarity=0.601 Sum_probs=24.0
Q ss_pred CCChHHHHHHHHHHHHHhCHHHHHHHHH
Q 027339 19 KIRKEDMNKLVMNFLVTEGYVDAAEKFR 46 (224)
Q Consensus 19 ~~~~~~l~~lI~~yL~~~Gy~~ta~~l~ 46 (224)
.++-.++..+|.+.|..+|+.+.|..+.
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 5677899999999999999888887764
No 90
>PLN03077 Protein ECB2; Provisional
Probab=20.94 E-value=8.2e+02 Score=24.20 Aligned_cols=104 Identities=23% Similarity=0.303 Sum_probs=58.9
Q ss_pred HHHHhcCCCChHHHHHHHHHHHHHhCHHHHHHHHHH--HhCCCCCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCchh
Q 027339 12 EKKLNDVKIRKEDMNKLVMNFLVTEGYVDAAEKFRM--ESGTEPDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNPEI 89 (224)
Q Consensus 12 ~~~~~~~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~~--e~~~~~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~~l 89 (224)
.+.++....+....+.+|..|..+--..++...|.+ +.|+.|... ++ ..-|..+-..|++++|.++.+.....
T Consensus 544 ~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~--T~--~~ll~a~~~~g~v~ea~~~f~~M~~~- 618 (857)
T PLN03077 544 WNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV--TF--ISLLCACSRSGMVTQGLEYFHSMEEK- 618 (857)
T ss_pred HHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc--cH--HHHHHHHhhcChHHHHHHHHHHHHHH-
Confidence 334444455556667777766544444455555553 456665322 22 22355677889999999988754311
Q ss_pred hhccccchhchHHHHHHH-HHhcCChHHHHHHHHH
Q 027339 90 LDTNPQLFFHLQQQRLIE-LIRNGKVEEALEFAQE 123 (224)
Q Consensus 90 ~~~~~~l~F~L~~q~fiE-li~~~~~~~Al~~~r~ 123 (224)
....+++ -+.--.+. +.+.|+.++|.++.++
T Consensus 619 ~gi~P~~---~~y~~lv~~l~r~G~~~eA~~~~~~ 650 (857)
T PLN03077 619 YSITPNL---KHYACVVDLLGRAGKLTEAYNFINK 650 (857)
T ss_pred hCCCCch---HHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 0111221 12233444 4567899999999986
No 91
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=20.88 E-value=1.2e+02 Score=22.15 Aligned_cols=25 Identities=24% Similarity=0.351 Sum_probs=19.8
Q ss_pred HHHHHHHHHcCCHHHHHHHHHhcCc
Q 027339 63 RMAVKKAVQCGNVEDAIEKVNDLNP 87 (224)
Q Consensus 63 r~~I~~~I~~g~~~~Ai~~~~~~~~ 87 (224)
-..+..+|..|++++|.+.+.+..|
T Consensus 42 ip~~i~~i~~g~~~~A~~~i~~~np 66 (111)
T PF14691_consen 42 IPEYIRLIREGNFKEAYELIREDNP 66 (111)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHH-T
T ss_pred HHHHHHHHHCCCHHHHHHHHHHhCC
Confidence 4667889999999999999987665
No 92
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=20.67 E-value=3.9e+02 Score=26.35 Aligned_cols=36 Identities=17% Similarity=0.258 Sum_probs=29.0
Q ss_pred HHHHHhc-CCCChHHHHHHHHHHHHHhCHHHHHHHHH
Q 027339 11 WEKKLND-VKIRKEDMNKLVMNFLVTEGYVDAAEKFR 46 (224)
Q Consensus 11 ~~~~~~~-~~~~~~~l~~lI~~yL~~~Gy~~ta~~l~ 46 (224)
+.+.+.+ -.++-.++..+|...|...|+.++|+++.
T Consensus 46 Ve~~l~~~~~isve~Iqd~Ve~~L~~~g~~~vAkaYI 82 (711)
T PRK09263 46 IASRVEGRDEVDIEEIQDAVENQLMAGPYKALARAYI 82 (711)
T ss_pred HHHHhccCCCCCHHHHHHHHHHHHHhcChHHHHHHHH
Confidence 3444432 25888999999999999999999999985
No 93
>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=1e+02 Score=26.70 Aligned_cols=51 Identities=14% Similarity=-0.020 Sum_probs=33.1
Q ss_pred CHHHHHHHHHHHhCCC----CCCCHHhHHHHHHHHHHHHcCCHHHHHHHHHhcCc
Q 027339 37 GYVDAAEKFRMESGTE----PDIDLATITDRMAVKKAVQCGNVEDAIEKVNDLNP 87 (224)
Q Consensus 37 Gy~~ta~~l~~e~~~~----~~~~~~~~~~r~~I~~~I~~g~~~~Ai~~~~~~~~ 87 (224)
|-.+..+.+.++.|+. +....+..-.-..||++|.+||++.|-+++...+.
T Consensus 116 G~~~~L~~~~~~~g~~v~~~~~~~~~~~ISST~IR~~l~~G~i~~A~~lLGr~y~ 170 (288)
T TIGR00083 116 GDFLLLQLFGNTTIFCVIVKQLFCQDIRISSSAIRQALKNGDLELANKLLGRPYF 170 (288)
T ss_pred CCHHHHHHhccccCcEEEEeccccCCCeECHHHHHHHHHcCCHHHHHHhhhhhhc
Confidence 4557777777776643 11110011123569999999999999999987653
No 94
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=20.12 E-value=1.2e+02 Score=21.30 Aligned_cols=29 Identities=24% Similarity=0.266 Sum_probs=22.7
Q ss_pred HHHHHHHHHcCCHHHHHHHHHhcCchhhh
Q 027339 63 RMAVKKAVQCGNVEDAIEKVNDLNPEILD 91 (224)
Q Consensus 63 r~~I~~~I~~g~~~~Ai~~~~~~~~~l~~ 91 (224)
.+.+..+|..||.++|...+...++.+.+
T Consensus 32 iKk~~~ai~~~~~~~a~~~~~~a~s~iDk 60 (88)
T PRK00239 32 IKKVEAAIAAGDKEAAEEALKAAQSKIDK 60 (88)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 45677788899999999998877766543
Done!