Query 032024
Match_columns 148
No_of_seqs 31 out of 33
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 08:33:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032024.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032024hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04949 Transcrip_act: Transc 100.0 2.2E-53 4.8E-58 335.3 10.1 109 17-125 6-115 (159)
2 TIGR01837 PHA_granule_1 poly(h 95.2 0.067 1.4E-06 39.7 5.8 62 51-114 55-116 (118)
3 PF05597 Phasin: Poly(hydroxya 94.8 0.12 2.6E-06 39.7 6.5 62 51-114 68-129 (132)
4 PF10805 DUF2730: Protein of u 87.7 1.5 3.2E-05 31.9 5.0 47 66-114 39-85 (106)
5 PF07956 DUF1690: Protein of U 83.2 3.7 8E-05 31.8 5.5 77 58-137 34-129 (142)
6 PF10241 KxDL: Uncharacterized 78.4 19 0.00042 25.4 7.4 60 40-110 21-80 (88)
7 TIGR00763 lon ATP-dependent pr 75.3 13 0.00028 34.7 7.4 62 45-107 196-260 (775)
8 PF01706 FliG_C: FliG C-termin 74.5 7.1 0.00015 27.8 4.4 46 60-110 56-101 (110)
9 PRK10787 DNA-binding ATP-depen 72.4 9.2 0.0002 36.3 5.8 62 45-107 198-262 (784)
10 PF10186 Atg14: UV radiation r 67.7 53 0.0012 25.5 8.2 42 47-88 62-103 (302)
11 PF01920 Prefoldin_2: Prefoldi 65.3 20 0.00043 24.1 4.8 30 62-91 15-44 (106)
12 PF09325 Vps5: Vps5 C terminal 64.4 32 0.0007 26.1 6.3 55 47-101 138-202 (236)
13 PF10146 zf-C4H2: Zinc finger- 62.8 37 0.0008 28.2 6.9 54 42-99 2-55 (230)
14 PF11414 Suppressor_APC: Adeno 59.1 14 0.0003 26.8 3.3 55 60-114 29-83 (84)
15 cd07625 BAR_Vps17p The Bin/Amp 58.1 37 0.0008 28.2 6.1 61 40-100 132-195 (230)
16 PF09278 MerR-DNA-bind: MerR, 56.2 28 0.0006 21.9 4.0 31 58-88 35-65 (65)
17 PF10186 Atg14: UV radiation r 55.7 95 0.0021 24.1 7.9 48 63-114 57-104 (302)
18 PF00769 ERM: Ezrin/radixin/mo 53.8 42 0.00091 27.6 5.7 77 47-123 15-104 (246)
19 cd07627 BAR_Vps5p The Bin/Amph 51.6 84 0.0018 24.7 6.9 39 61-99 142-180 (216)
20 cd07623 BAR_SNX1_2 The Bin/Amp 51.0 82 0.0018 25.1 6.8 70 42-111 121-199 (224)
21 cd01279 HTH_HspR-like Helix-Tu 51.0 17 0.00037 25.5 2.7 32 64-95 67-98 (98)
22 PF15346 ARGLU: Arginine and g 50.7 46 0.00099 26.6 5.3 43 40-82 61-103 (149)
23 cd07665 BAR_SNX1 The Bin/Amphi 50.2 51 0.0011 27.4 5.7 38 62-99 159-196 (234)
24 PF00804 Syntaxin: Syntaxin; 49.6 70 0.0015 20.7 6.1 54 53-110 19-72 (103)
25 PRK03947 prefoldin subunit alp 49.2 44 0.00096 24.3 4.7 62 62-123 23-123 (140)
26 COG0466 Lon ATP-dependent Lon 47.0 78 0.0017 31.4 7.2 56 49-105 203-261 (782)
27 TIGR01834 PHA_synth_III_E poly 46.3 42 0.00091 29.6 4.9 38 84-121 279-316 (320)
28 PF10226 DUF2216: Uncharacteri 45.9 83 0.0018 26.5 6.3 18 89-106 103-120 (195)
29 PF14379 Myb_CC_LHEQLE: MYB-CC 45.8 44 0.00095 22.7 3.9 30 55-84 9-45 (51)
30 PF05529 Bap31: B-cell recepto 44.5 69 0.0015 24.5 5.3 39 86-124 153-191 (192)
31 PF00804 Syntaxin: Syntaxin; 43.8 73 0.0016 20.7 4.7 56 64-123 12-67 (103)
32 cd07664 BAR_SNX2 The Bin/Amphi 43.6 1.2E+02 0.0027 24.9 7.0 66 42-107 131-205 (234)
33 COG0497 RecN ATPase involved i 43.4 63 0.0014 30.5 5.8 48 95-142 364-431 (557)
34 TIGR00207 fliG flagellar motor 43.4 56 0.0012 28.0 5.1 50 59-114 274-324 (338)
35 PF09712 PHA_synth_III_E: Poly 43.2 16 0.00034 30.9 1.8 31 84-114 262-292 (293)
36 PRK05686 fliG flagellar motor 42.0 58 0.0013 27.5 5.0 48 59-111 277-324 (339)
37 PF14712 Snapin_Pallidin: Snap 39.9 1.2E+02 0.0026 20.6 7.8 72 40-111 6-81 (92)
38 TIGR01795 CM_mono_cladeE monof 39.6 18 0.00039 26.0 1.4 20 94-113 3-22 (94)
39 COG3352 FlaC Putative archaeal 38.9 69 0.0015 26.2 4.7 53 58-114 50-106 (157)
40 COG1605 PheA Chorismate mutase 36.9 25 0.00054 25.1 1.8 24 90-113 4-27 (101)
41 KOG2391 Vacuolar sorting prote 36.6 3.4E+02 0.0074 24.9 9.4 66 41-109 210-275 (365)
42 PRK02224 chromosome segregatio 36.2 1.4E+02 0.0029 27.6 6.6 55 60-114 521-592 (880)
43 PRK13182 racA polar chromosome 36.1 1E+02 0.0022 24.6 5.2 51 61-114 87-145 (175)
44 PF06216 RTBV_P46: Rice tungro 33.7 89 0.0019 28.3 5.0 49 47-95 67-118 (389)
45 TIGR01808 CM_M_hiGC-arch monof 33.0 20 0.00044 24.5 0.7 19 95-113 1-19 (74)
46 PF11932 DUF3450: Protein of u 32.8 1.4E+02 0.003 23.9 5.5 58 62-119 52-112 (251)
47 PRK03918 chromosome segregatio 32.5 1.8E+02 0.0039 26.6 6.8 18 72-89 636-653 (880)
48 PF09551 Spore_II_R: Stage II 32.0 77 0.0017 24.7 3.9 35 55-89 20-61 (130)
49 PRK07194 fliG flagellar motor 31.8 1.1E+02 0.0023 26.2 5.0 46 59-110 271-317 (334)
50 PF08317 Spc7: Spc7 kinetochor 31.8 3.1E+02 0.0068 23.0 9.0 71 37-107 212-289 (325)
51 PRK06285 chorismate mutase; Pr 31.6 25 0.00053 24.9 1.0 20 94-113 7-26 (96)
52 PRK07248 hypothetical protein; 31.3 22 0.00048 24.4 0.7 18 96-113 3-20 (87)
53 TIGR01803 CM-like chorismate m 30.2 22 0.00048 24.3 0.6 17 97-113 2-18 (82)
54 TIGR01807 CM_P2 chorismate mut 30.0 23 0.0005 23.8 0.6 17 97-113 2-18 (76)
55 PF06102 DUF947: Domain of unk 30.0 2.7E+02 0.0058 21.9 6.6 43 58-100 78-120 (168)
56 PRK11032 hypothetical protein; 29.5 91 0.002 25.0 4.0 55 60-117 11-66 (160)
57 PRK01433 hscA chaperone protei 29.1 2.9E+02 0.0062 25.5 7.6 22 97-118 557-579 (595)
58 PRK10622 pheA bifunctional cho 28.9 32 0.00069 30.1 1.4 20 92-111 3-22 (386)
59 KOG3335 Predicted coiled-coil 28.7 1.4E+02 0.0031 24.9 5.1 65 37-120 89-154 (181)
60 PHA02675 ORF104 fusion protein 27.6 1.6E+02 0.0034 22.3 4.7 36 71-106 49-84 (90)
61 PF05377 FlaC_arch: Flagella a 27.4 59 0.0013 22.3 2.2 20 91-110 18-37 (55)
62 TIGR01799 CM_T chorismate muta 27.4 21 0.00046 24.4 0.1 17 97-113 2-18 (83)
63 PRK09239 chorismate mutase; Pr 27.3 37 0.0008 24.8 1.3 19 95-113 11-29 (104)
64 COG4942 Membrane-bound metallo 27.3 2.6E+02 0.0056 25.8 6.9 46 61-113 61-106 (420)
65 TIGR00606 rad50 rad50. This fa 27.1 2.9E+02 0.0062 27.6 7.6 31 94-124 895-925 (1311)
66 PF00038 Filament: Intermediat 27.0 1.3E+02 0.0027 24.2 4.4 64 62-125 71-134 (312)
67 TIGR01805 CM_mono_grmpos monof 27.0 22 0.00047 24.2 0.1 17 97-113 2-18 (81)
68 COG1579 Zn-ribbon protein, pos 26.9 4E+02 0.0086 22.7 7.6 47 74-120 71-122 (239)
69 PRK12595 bifunctional 3-deoxy- 26.7 38 0.00082 29.5 1.5 21 92-112 2-22 (360)
70 COG4026 Uncharacterized protei 26.4 3.8E+02 0.0083 23.8 7.5 62 49-110 143-207 (290)
71 KOG3478 Prefoldin subunit 6, K 26.4 20 0.00043 28.3 -0.2 66 57-129 24-104 (120)
72 PF07321 YscO: Type III secret 25.9 3.2E+02 0.0069 21.5 6.4 60 29-88 62-121 (152)
73 PF12709 Kinetocho_Slk19: Cent 25.8 86 0.0019 23.3 3.0 32 76-111 49-80 (87)
74 COG4353 Uncharacterized conser 25.8 1E+02 0.0022 26.0 3.8 22 72-95 151-172 (192)
75 PRK11199 tyrA bifunctional cho 25.5 38 0.00083 28.8 1.3 22 92-113 1-22 (374)
76 PF15275 PEHE: PEHE domain; PD 25.2 1.5E+02 0.0033 22.0 4.3 30 34-63 23-52 (123)
77 KOG0717 Molecular chaperone (D 25.2 59 0.0013 30.8 2.5 27 68-94 42-68 (508)
78 PRK03918 chromosome segregatio 25.1 3.3E+02 0.0072 25.0 7.2 11 97-107 462-472 (880)
79 KOG3654 Uncharacterized CH dom 25.1 1.4E+02 0.003 29.3 4.9 69 50-130 415-483 (708)
80 PRK11637 AmiB activator; Provi 24.9 3.4E+02 0.0074 23.3 6.9 17 95-111 97-113 (428)
81 PF05841 Apc15p: Apc15p protei 24.9 58 0.0012 24.4 2.0 25 38-62 69-93 (125)
82 KOG0979 Structural maintenance 24.7 1.1E+02 0.0025 31.3 4.5 55 59-120 255-309 (1072)
83 COG4396 Mu-like prophage host- 24.5 1.3E+02 0.0028 24.9 4.1 56 41-105 9-72 (170)
84 TIGR01797 CM_P_1 chorismate mu 24.3 33 0.00071 23.6 0.6 17 97-113 2-18 (83)
85 PF06705 SF-assemblin: SF-asse 24.1 3.8E+02 0.0082 21.5 8.0 75 44-118 59-134 (247)
86 cd04770 HTH_HMRTR Helix-Turn-H 24.0 1.4E+02 0.003 21.1 3.7 30 59-88 79-108 (123)
87 COG1536 FliG Flagellar motor s 23.7 1.6E+02 0.0034 26.0 4.7 51 57-112 275-325 (339)
88 TIGR01801 CM_A chorismate muta 23.4 48 0.001 24.1 1.3 19 95-113 5-23 (102)
89 COG1340 Uncharacterized archae 23.2 3.9E+02 0.0084 23.6 7.0 63 48-110 144-216 (294)
90 PF11239 DUF3040: Protein of u 23.2 80 0.0017 21.7 2.3 19 72-91 5-23 (82)
91 PRK14287 chaperone protein Dna 23.1 1.5E+02 0.0032 25.6 4.4 25 72-96 40-64 (371)
92 PF13166 AAA_13: AAA domain 22.7 5.5E+02 0.012 23.1 7.9 32 99-130 457-493 (712)
93 PRK11637 AmiB activator; Provi 22.7 5E+02 0.011 22.4 7.8 44 41-84 170-216 (428)
94 smart00503 SynN Syntaxin N-ter 22.5 2.4E+02 0.0052 19.0 4.5 19 67-85 16-34 (117)
95 PRK14298 chaperone protein Dna 22.3 1.4E+02 0.0031 25.8 4.1 25 72-96 41-65 (377)
96 PRK01156 chromosome segregatio 22.2 6.1E+02 0.013 23.7 8.4 27 81-108 714-740 (895)
97 TIGR01791 CM_archaeal chorisma 22.2 30 0.00065 23.4 0.1 17 97-113 2-18 (83)
98 PF06476 DUF1090: Protein of u 22.1 3.1E+02 0.0068 20.5 5.4 51 44-111 63-113 (115)
99 PF09236 AHSP: Alpha-haemoglob 22.0 75 0.0016 24.0 2.1 35 59-93 36-78 (89)
100 PF13870 DUF4201: Domain of un 21.9 2.9E+02 0.0063 20.9 5.3 64 48-119 3-74 (177)
101 PRK07075 isochorismate-pyruvat 21.7 52 0.0011 23.8 1.2 16 96-111 10-25 (101)
102 PRK10884 SH3 domain-containing 21.6 4.5E+02 0.0097 21.4 7.6 36 78-113 130-165 (206)
103 PF12840 HTH_20: Helix-turn-he 21.4 56 0.0012 20.6 1.2 13 85-97 4-16 (61)
104 cd02677 MIT_SNX15 MIT: domain 21.3 1.1E+02 0.0025 21.1 2.8 37 37-73 27-65 (75)
105 PF06005 DUF904: Protein of un 21.2 2.5E+02 0.0054 19.6 4.5 53 39-106 13-65 (72)
106 PRK07857 hypothetical protein; 21.1 56 0.0012 24.7 1.3 20 94-113 28-47 (106)
107 PF15035 Rootletin: Ciliary ro 21.0 1.1E+02 0.0023 24.6 2.9 21 67-87 65-92 (182)
108 cd00179 SynN Syntaxin N-termin 21.0 2.4E+02 0.0052 20.0 4.5 26 81-106 42-67 (151)
109 PF14000 Packaging_FI: DNA pac 20.7 2.2E+02 0.0047 22.2 4.5 37 49-90 2-45 (125)
110 COG4847 Uncharacterized protei 20.5 1.9E+02 0.0042 22.4 4.1 38 58-95 62-99 (103)
111 PF04568 IATP: Mitochondrial A 20.4 2.4E+02 0.0051 21.1 4.4 17 94-110 83-99 (100)
112 TIGR02051 MerR Hg(II)-responsi 20.3 1.8E+02 0.0038 21.1 3.7 30 59-88 76-105 (124)
113 TIGR00606 rad50 rad50. This fa 20.2 5.8E+02 0.013 25.6 8.2 38 78-115 774-820 (1311)
114 PF07743 HSCB_C: HSCB C-termin 20.2 1.7E+02 0.0038 19.2 3.4 9 58-66 11-19 (78)
No 1
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=100.00 E-value=2.2e-53 Score=335.34 Aligned_cols=109 Identities=72% Similarity=1.024 Sum_probs=105.5
Q ss_pred hhccCccccccCCCC-CchhHHhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHH
Q 032024 17 LQQSSGNLSFSSSNL-SKDDEEMSRSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKE 95 (148)
Q Consensus 17 ~~~~sg~~s~~~s~~-~~~eEe~srsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKE 95 (148)
+++++|+++++|+++ ++++++|||||||+|+|||+|||+||||||+|||+|||||||+|||||+||+|||+|+||||||
T Consensus 6 ~~~~~~~~~~~g~~~~~~~~e~~s~sals~f~AkEeeIErkKmeVrekVq~~LgrveEetkrLa~ireeLE~l~dP~RkE 85 (159)
T PF04949_consen 6 RVKNSGSISFNGSSMMDDEDEEMSRSALSAFRAKEEEIERKKMEVREKVQAQLGRVEEETKRLAEIREELEVLADPMRKE 85 (159)
T ss_pred hcccCCCCCCCCCcccchhHHHhhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhccchHHH
Confidence 478999999988777 7889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhcccccchhhhhhhccccc
Q 032024 96 VAVVRKKIDSVNKELKPLGHTCQKKTYDNV 125 (148)
Q Consensus 96 Va~VRKkID~vNreLKPLgqtCqKKEkEY~ 125 (148)
|++||||||+|||+|||||++|||||+||.
T Consensus 86 v~~vRkkID~vNreLkpl~~~cqKKEkEyk 115 (159)
T PF04949_consen 86 VEMVRKKIDSVNRELKPLGQSCQKKEKEYK 115 (159)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 999999999999999999999999999996
No 2
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=95.19 E-value=0.067 Score=39.65 Aligned_cols=62 Identities=23% Similarity=0.417 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 51 EEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 51 EEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
++++..--+|+++.+.+.+.+|.-... .+..=|..|+-|++.||..++.|||.+...|..|.
T Consensus 55 e~~~~~~~~~~~~~~~~~~~le~~~~~--~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l~ 116 (118)
T TIGR01837 55 EEVKTALEQTRDQVQRNWDKLEKAFDE--RVEQALNRLNIPSREEIEALSAKIEQLAVQVEELR 116 (118)
T ss_pred HHHhhhHHHHHHHHHhhHHHHHHHHHH--HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555556777777777777765553 56778999999999999999999999999887664
No 3
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=94.83 E-value=0.12 Score=39.70 Aligned_cols=62 Identities=19% Similarity=0.445 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 51 EEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 51 EEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
++++..--.|++++..+++++|.--.. .+..-|..|+=|.++||..+..|||.++++|.-|.
T Consensus 68 ~~~~~~~~~~~~~~~~~~dklE~~fd~--rV~~aL~rLgvPs~~dv~~L~~rId~L~~~v~~l~ 129 (132)
T PF05597_consen 68 DQVKSRVDDVKERATGQWDKLEQAFDE--RVARALNRLGVPSRKDVEALSARIDQLTAQVERLA 129 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455566777777777777764321 13445888999999999999999999999886553
No 4
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=87.73 E-value=1.5 Score=31.89 Aligned_cols=47 Identities=30% Similarity=0.495 Sum_probs=31.7
Q ss_pred HHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 66 AHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 66 aqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
+--.++..-.+||+.+-.+|+.| |++.+|..++..|..+|-+++-|+
T Consensus 39 ~l~~~~~~~~~Rl~~lE~~l~~L--Pt~~dv~~L~l~l~el~G~~~~l~ 85 (106)
T PF10805_consen 39 KLEERLDEHDRRLQALETKLEHL--PTRDDVHDLQLELAELRGELKELS 85 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHHhHHHHHH
Confidence 33344555678999999999988 777777766666665555554443
No 5
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=83.20 E-value=3.7 Score=31.75 Aligned_cols=77 Identities=32% Similarity=0.509 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhhhhHHHHhhHHHHHHHHHh--cc----c--------hhHHHHHHHHHHHhhhhcccccch-----hhhh
Q 032024 58 LEVREKVQAHLGRVEEETKRLATIREELEA--LA----D--------PMRKEVAVVRKKIDSVNKELKPLG-----HTCQ 118 (148)
Q Consensus 58 mEVReKVqaqLGRvEEETkRLA~IrEELE~--la----D--------PmRKEVa~VRKkID~vNreLKPLg-----qtCq 118 (148)
.-|.+||.+.|-++++++. +.+.+-|+. ++ | ..-++|+.+|+|++.. +.|+++. ..|.
T Consensus 34 ~~iq~Rva~eL~~L~~~~~--~~~~~~l~~~~~~ed~~~~~~~lSs~~v~~~i~~L~~kLe~~-~kl~~~~~~~~~~~v~ 110 (142)
T PF07956_consen 34 LHIQERVAEELKRLEEEEL--KKFEEALEKSLLSEDEKDQDPGLSSKSVNEEIEKLREKLEER-KKLRELKEEKNSEEVE 110 (142)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHHHH-HHHHhccccccchhhH
Confidence 3577899999999998873 333333322 22 1 2456788888888843 2222222 2455
Q ss_pred hhccccccccCCCCCCCch
Q 032024 119 KKTYDNVCHRKENTRKPLK 137 (148)
Q Consensus 119 KKEkEY~~~~~~~~~~~~~ 137 (148)
.-..+.+=--+.|.++||.
T Consensus 111 ~aR~~vv~CL~~N~~rPLn 129 (142)
T PF07956_consen 111 KARSAVVRCLRENDGRPLN 129 (142)
T ss_pred HHHHHHHHHHHHCCCCCCc
Confidence 5444444334568888885
No 6
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=78.38 E-value=19 Score=25.38 Aligned_cols=60 Identities=22% Similarity=0.296 Sum_probs=36.7
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhccc
Q 032024 40 RSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 40 rsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreL 110 (148)
...+..|.++-+++.----....++...-.+.++=|+-|. -|++++..|.|||..++..|
T Consensus 21 ~~~l~~ln~tn~~L~~~n~~s~~rl~~~~~~f~~~~~~l~-----------~mK~DLd~i~krir~lk~kl 80 (88)
T PF10241_consen 21 AQTLGRLNKTNEELLNLNDLSQQRLAEARERFARHTKLLK-----------EMKKDLDYIFKRIRSLKAKL 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHH
Confidence 3446677777777655444444333333333333333333 37888999999999998765
No 7
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=75.35 E-value=13 Score=34.67 Aligned_cols=62 Identities=21% Similarity=0.363 Sum_probs=46.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhhhhHHHH---hhHHHHHHHHHhccchhHHHHHHHHHHHhhhh
Q 032024 45 TFRAKEEEIEKKKLEVREKVQAHLGRVEEET---KRLATIREELEALADPMRKEVAVVRKKIDSVN 107 (148)
Q Consensus 45 ~FrAKEEEIERkKmEVReKVqaqLGRvEEET---kRLA~IrEELE~laDPmRKEVa~VRKkID~vN 107 (148)
.+=.+|-|+-+-+.+++.+|+.++.+-..|- ..|..|++||-... .--.|++.+|+||+..+
T Consensus 196 ~lL~~ele~l~l~~~I~~~v~~~~~~~qr~~~Lreqlk~i~~eLg~~~-~~~~~~~~~~~k~~~~~ 260 (775)
T TIGR00763 196 ELLKKELELLKLQNKITKKVEEKMEKTQREYYLREQLKAIKKELGIEK-DDKDELEKLKEKLEELK 260 (775)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCC-CchhHHHHHHHHHHhcC
Confidence 3445567777788899999999998766553 36778999995443 34579999999998766
No 8
>PF01706 FliG_C: FliG C-terminal domain; InterPro: IPR023087 The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour []. The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour []. CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated. The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN []. Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N- or C-termini being less important []. Such clustering suggests that FliG-FliM interaction plays a central role in switching. Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins []. This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring [, ]. FliG is present in about 25 copies per flagellum. This entry represents the C-terminal domain of FliG, the structure of which is known. This domain functions specifically in motor rotation [].; PDB: 3USY_B 3USW_A 3HJL_A 3AJC_A 1LKV_X 1QC7_B.
Probab=74.54 E-value=7.1 Score=27.76 Aligned_cols=46 Identities=24% Similarity=0.444 Sum_probs=33.7
Q ss_pred HHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhccc
Q 032024 60 VREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 60 VReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreL 110 (148)
++++|.+-|+ .++=..|++|++.++.....+|...|+.|=..=|+|
T Consensus 56 ~~~~il~nms-----~r~a~~l~~e~~~~g~v~~~di~~Aq~~iv~~~r~l 101 (110)
T PF01706_consen 56 LREKILSNMS-----KRAAEMLREEMEALGPVRLSDIEEAQREIVEIVRRL 101 (110)
T ss_dssp HHHHHHTTS------HHHHHHHHHHHHHH-S--HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcC-----HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 8899988875 244457999999999999999999999986654444
No 9
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=72.41 E-value=9.2 Score=36.32 Aligned_cols=62 Identities=19% Similarity=0.381 Sum_probs=48.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhhhhHHHH---hhHHHHHHHHHhccchhHHHHHHHHHHHhhhh
Q 032024 45 TFRAKEEEIEKKKLEVREKVQAHLGRVEEET---KRLATIREELEALADPMRKEVAVVRKKIDSVN 107 (148)
Q Consensus 45 ~FrAKEEEIERkKmEVReKVqaqLGRvEEET---kRLA~IrEELE~laDPmRKEVa~VRKkID~vN 107 (148)
.+=.+|-|+-+-+.++.++|+.++.+-..|- ..|..|++|| |..|.--.|++.+|+||+..|
T Consensus 198 ~lL~~Eleil~l~~~I~~~v~~~~~k~q~e~~lreq~~~i~~el-g~~~~~~~~~~~~~~~~~~~~ 262 (784)
T PRK10787 198 AMMESEIDLLQVEKRIRNRVKKQMEKSQREYYLNEQMKAIQKEL-GEMDDAPDENEALKRKIDAAK 262 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcchhhhhhhcccc-cCCCcchhHHHHHHHHHHhcC
Confidence 3446677777888899999999998766553 4678889999 445666679999999998765
No 10
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=67.68 E-value=53 Score=25.46 Aligned_cols=42 Identities=29% Similarity=0.498 Sum_probs=20.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhc
Q 032024 47 RAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEAL 88 (148)
Q Consensus 47 rAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~l 88 (148)
++.-++.+.+-..+++.+..+--+++..-.+++.+++.|+..
T Consensus 62 ~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~ 103 (302)
T PF10186_consen 62 KREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQR 103 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444455555555555555555555555555443
No 11
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=65.34 E-value=20 Score=24.12 Aligned_cols=30 Identities=27% Similarity=0.471 Sum_probs=26.2
Q ss_pred HHHHHHhhhhHHHHhhHHHHHHHHHhccch
Q 032024 62 EKVQAHLGRVEEETKRLATIREELEALADP 91 (148)
Q Consensus 62 eKVqaqLGRvEEETkRLA~IrEELE~laDP 91 (148)
..|.+++..++.+-+++....+||+.+.|.
T Consensus 15 ~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~ 44 (106)
T PF01920_consen 15 QQLEQQIQQLERQLRELELTLEELEKLDDD 44 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTSSTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 357788899999999999999999999877
No 12
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=64.37 E-value=32 Score=26.10 Aligned_cols=55 Identities=27% Similarity=0.543 Sum_probs=41.9
Q ss_pred hhhHHHHHHHHHHH----------HHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHH
Q 032024 47 RAKEEEIEKKKLEV----------REKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRK 101 (148)
Q Consensus 47 rAKEEEIERkKmEV----------ReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRK 101 (148)
..-+.++.+++-.+ -+||......+++..+|...+..+++.+++-+++|+...-+
T Consensus 138 ~~a~~~l~kkk~~~~kl~~~~~~~~~k~~~~~~ei~~~~~~~~~~~~~~~~is~~~k~E~~rf~~ 202 (236)
T PF09325_consen 138 QNAEKELQKKKAQLEKLKASGKNRQDKVEQAENEIEEAERRVEQAKDEFEEISENIKKELERFEK 202 (236)
T ss_pred HHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33355555555443 27888888889999999999999999999999999876543
No 13
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=62.82 E-value=37 Score=28.19 Aligned_cols=54 Identities=30% Similarity=0.359 Sum_probs=39.6
Q ss_pred HHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHH
Q 032024 42 ALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVV 99 (148)
Q Consensus 42 AlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~V 99 (148)
+|.-.+.|-.+.++.|-+|. ..++.+|.|.+.|.+.+.|.+.|-+--+.=|+.+
T Consensus 2 ~i~~ir~K~~~lek~k~~i~----~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeL 55 (230)
T PF10146_consen 2 KIKEIRNKTLELEKLKNEIL----QEVESLENEEKCLEEYRKEMEELLQERMAHVEEL 55 (230)
T ss_pred cHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677888888888776665 4567789999999999888887766555444443
No 14
>PF11414 Suppressor_APC: Adenomatous polyposis coli tumour suppressor protein; PDB: 1M5I_A.
Probab=59.06 E-value=14 Score=26.77 Aligned_cols=55 Identities=24% Similarity=0.268 Sum_probs=39.2
Q ss_pred HHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 60 VREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 60 VReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
.|+--+.||..|-+--+.|-....--+-.+|..+.-..-.+-+|-.||++|.-|.
T Consensus 29 ~r~Wy~~qL~~vq~rq~~Lg~~~~~~~~~~d~~~~~L~~~~~~Iqevn~~l~~l~ 83 (84)
T PF11414_consen 29 ERDWYQQQLQSVQERQRHLGRNGTQFDFQMDLHREQLEFLLAQIQEVNRCLFGLI 83 (84)
T ss_dssp HHHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHHHHHHHHHHHHH--S
T ss_pred HHHHHHHHHHHHHHHHHHhCccccccCcccccccchhhHHHHHHHHHHHHHHHhc
Confidence 4777888999999999999888887778889999999999999999999987654
No 15
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=58.10 E-value=37 Score=28.19 Aligned_cols=61 Identities=21% Similarity=0.212 Sum_probs=52.0
Q ss_pred HHHHhhhhhhHHHHHHHHHH--H-HHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHH
Q 032024 40 RSALTTFRAKEEEIEKKKLE--V-REKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVR 100 (148)
Q Consensus 40 rsAlS~FrAKEEEIERkKmE--V-ReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VR 100 (148)
..|-+.-+.|.+..+|-|+- + .+||..-+.-+++.++.-......++.+++-|+.|+...=
T Consensus 132 ~qAq~~~~~K~~~~~rlk~s~~i~~~KvdeA~~~l~eA~~~e~~l~~k~~rIs~nm~~E~~rf~ 195 (230)
T cd07625 132 IQAQQNTKSKQEAARRLKAKRDINPLKVDEAIRQLEEATKHEHDLSLKLKRITGNMLIERKEWT 195 (230)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567778888888888873 3 5799999999999999999999999999999999987653
No 16
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=56.21 E-value=28 Score=21.89 Aligned_cols=31 Identities=29% Similarity=0.491 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhhhhHHHHhhHHHHHHHHHhc
Q 032024 58 LEVREKVQAHLGRVEEETKRLATIREELEAL 88 (148)
Q Consensus 58 mEVReKVqaqLGRvEEETkRLA~IrEELE~l 88 (148)
-.+.+-+..++..+++....|+.++..|+.|
T Consensus 35 ~~~~~~l~~~~~~i~~~i~~L~~~~~~L~~l 65 (65)
T PF09278_consen 35 ADRRALLEEKLEEIEEQIAELQALRAQLEHL 65 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4455778888899999999999999988764
No 17
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=55.69 E-value=95 Score=24.06 Aligned_cols=48 Identities=27% Similarity=0.475 Sum_probs=27.5
Q ss_pred HHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 63 KVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 63 KVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
.++..-..+++...|++.|+++++.+ ++++..-|++|+.....|....
T Consensus 57 ~~~~~~~~~~~~~~r~~~l~~~i~~~----~~~i~~~r~~l~~~~~~l~~~~ 104 (302)
T PF10186_consen 57 EIQQLKREIEELRERLERLRERIERL----RKRIEQKRERLEELRESLEQRR 104 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445666666777777766653 5555666666665555554433
No 18
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=53.83 E-value=42 Score=27.59 Aligned_cols=77 Identities=22% Similarity=0.384 Sum_probs=48.0
Q ss_pred hhhHHHHHHHHHHHHH------HHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHH-------HHHhhhhcccccc
Q 032024 47 RAKEEEIEKKKLEVRE------KVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVR-------KKIDSVNKELKPL 113 (148)
Q Consensus 47 rAKEEEIERkKmEVRe------KVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VR-------KkID~vNreLKPL 113 (148)
..-+++..+-..++.+ .+..++.++|+|..+|...+.+++.+-.-++.+..+-- .+|+.+..++.-|
T Consensus 15 ~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~~eEk~~Le~e~~e~~~~i~~l 94 (246)
T PF00769_consen 15 RQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQEEEKEQLEQELREAEAEIARL 94 (246)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555544 34677888999999999998888877766666544433 3666666666666
Q ss_pred hhhhhhhccc
Q 032024 114 GHTCQKKTYD 123 (148)
Q Consensus 114 gqtCqKKEkE 123 (148)
-..-++|+.|
T Consensus 95 ~ee~~~ke~E 104 (246)
T PF00769_consen 95 EEESERKEEE 104 (246)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 6666655554
No 19
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=51.62 E-value=84 Score=24.74 Aligned_cols=39 Identities=23% Similarity=0.504 Sum_probs=36.1
Q ss_pred HHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHH
Q 032024 61 REKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVV 99 (148)
Q Consensus 61 ReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~V 99 (148)
.+||...-..+++...+......+.|.+++-+++||...
T Consensus 142 ~~K~~~~~~ei~~~e~~~~~a~~~~e~is~~~k~El~rF 180 (216)
T cd07627 142 QEKLNSLLSELEEAERRASELKKEFEEVSELIKSELERF 180 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 588888889999999999999999999999999999986
No 20
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=51.04 E-value=82 Score=25.08 Aligned_cols=70 Identities=11% Similarity=0.297 Sum_probs=45.8
Q ss_pred HHhhhhhhHHHHHHHHHHH--------HHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHH-HHHHhhhhcccc
Q 032024 42 ALTTFRAKEEEIEKKKLEV--------REKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVV-RKKIDSVNKELK 111 (148)
Q Consensus 42 AlS~FrAKEEEIERkKmEV--------ReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~V-RKkID~vNreLK 111 (148)
|+..++.-+.++.+++..+ -|||..----|.+...+......+.+.+++-+++|+... +.|+...+.-|.
T Consensus 121 a~~~~q~a~~~l~kkr~~~~Kl~~~~~~~K~~~~~~ev~~~e~~~~~a~~~fe~is~~~k~El~rF~~erv~dfk~~l~ 199 (224)
T cd07623 121 VWQNWQNAQQTLTKKREAKAKLELSGRTDKLDQAQQEIKEWEAKVDRGQKEFEEISKTIKKEIERFEKNRVKDFKDIII 199 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555555554431 245554455566667788899999999999999999987 556665555444
No 21
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=51.00 E-value=17 Score=25.52 Aligned_cols=32 Identities=28% Similarity=0.174 Sum_probs=25.3
Q ss_pred HHHHhhhhHHHHhhHHHHHHHHHhccchhHHH
Q 032024 64 VQAHLGRVEEETKRLATIREELEALADPMRKE 95 (148)
Q Consensus 64 VqaqLGRvEEETkRLA~IrEELE~laDPmRKE 95 (148)
+.+.+..++.--.+|..+.+||-++|.|-|||
T Consensus 67 ~l~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 98 (98)
T cd01279 67 IIELYPQVLLLQCRSCEHATELIGCAKPCRKE 98 (98)
T ss_pred HHHhhhHHHHHHHHHHHHHHHHHhcccccccC
Confidence 33455666767778889999999999999986
No 22
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=50.72 E-value=46 Score=26.59 Aligned_cols=43 Identities=37% Similarity=0.466 Sum_probs=37.8
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHH
Q 032024 40 RSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIR 82 (148)
Q Consensus 40 rsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~Ir 82 (148)
..+|+-++.+|++.-+++-++-.-+...--.||++-+++|.=+
T Consensus 61 ~~~l~e~r~keEeer~~~eELe~ileen~rkvEEAQrk~aeEr 103 (149)
T PF15346_consen 61 EEALEEARRKEEEERKKREELEKILEENRRKVEEAQRKLAEER 103 (149)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999999999988889999888887654
No 23
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=50.16 E-value=51 Score=27.38 Aligned_cols=38 Identities=24% Similarity=0.375 Sum_probs=30.5
Q ss_pred HHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHH
Q 032024 62 EKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVV 99 (148)
Q Consensus 62 eKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~V 99 (148)
||++.-..-|.+..++..+.+.+.+.+++-||+||...
T Consensus 159 dK~~~a~~Ev~e~e~k~~~a~~~fe~is~~ik~El~rF 196 (234)
T cd07665 159 DKLQQAKDEIAEWESRVTQYERDFERISATVRKEVIRF 196 (234)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56665566667777888889999999999999999765
No 24
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=49.61 E-value=70 Score=20.75 Aligned_cols=54 Identities=20% Similarity=0.427 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhccc
Q 032024 53 IEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 53 IERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreL 110 (148)
|...=-+++......|...-.+ ..+++||+.|++-..+-...++++|..+....
T Consensus 19 i~~~~~~l~~l~~~~l~~~~~d----~~~~~el~~l~~~i~~~~~~~~~~lk~l~~~~ 72 (103)
T PF00804_consen 19 IKEKLNELRKLHKKILSSPDQD----SELKRELDELTDEIKQLFQKIKKRLKQLSKDN 72 (103)
T ss_dssp HHHHHHHHHHHHHHHHTSSSHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcCCCCcc----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3334444455555556555533 67788888888888888888888888877664
No 25
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=49.23 E-value=44 Score=24.35 Aligned_cols=62 Identities=24% Similarity=0.392 Sum_probs=37.8
Q ss_pred HHHHHHhhhhHHHHhhHHHHHHHHHhccc---------------------------------------hhHHHHHHHHHH
Q 032024 62 EKVQAHLGRVEEETKRLATIREELEALAD---------------------------------------PMRKEVAVVRKK 102 (148)
Q Consensus 62 eKVqaqLGRvEEETkRLA~IrEELE~laD---------------------------------------PmRKEVa~VRKk 102 (148)
+.++++++.++.....+....+.|+.|.. +.-.=+..+.||
T Consensus 23 ~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~~~~e~lvplg~~~yv~~~v~~~~kV~v~lG~g~~vE~~~~eA~~~l~~~ 102 (140)
T PRK03947 23 EALQQQLEELQASINELDTAKETLEELKSKGEGKETLVPIGAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEILDKR 102 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCeEEEEcCCCcEEEEEecCCCeEEEEcCCCEEEEecHHHHHHHHHHH
Confidence 35666666676666666666677766653 334445556666
Q ss_pred Hhhhhcccccchhhhhhhccc
Q 032024 103 IDSVNKELKPLGHTCQKKTYD 123 (148)
Q Consensus 103 ID~vNreLKPLgqtCqKKEkE 123 (148)
|+.++..++-|-+...++.+.
T Consensus 103 ~~~l~~~~~~l~~~l~~~~~~ 123 (140)
T PRK03947 103 KEELEKALEKLEEALQKLASR 123 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 666666666666655555443
No 26
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=46.97 E-value=78 Score=31.40 Aligned_cols=56 Identities=29% Similarity=0.439 Sum_probs=42.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhHHHH---hhHHHHHHHHHhccchhHHHHHHHHHHHhh
Q 032024 49 KEEEIEKKKLEVREKVQAHLGRVEEET---KRLATIREELEALADPMRKEVAVVRKKIDS 105 (148)
Q Consensus 49 KEEEIERkKmEVReKVqaqLGRvEEET---kRLA~IrEELE~laDPmRKEVa~VRKkID~ 105 (148)
+|-++-+-..+++.||..|+..-.-|- .-|..|++||-...|.- .||+.+|+||+.
T Consensus 203 ~ei~~~~~ek~I~~kVk~~meK~QREyyL~EQlKaIqkELG~~~d~~-~e~~~~~~kie~ 261 (782)
T COG0466 203 KEIDLLQLEKRIRKKVKEQMEKSQREYYLREQLKAIQKELGEDDDDK-DEVEELREKIEK 261 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccch-hHHHHHHHHHhh
Confidence 344444566778999999998766653 46888999998776655 999999999984
No 27
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=46.30 E-value=42 Score=29.60 Aligned_cols=38 Identities=24% Similarity=0.346 Sum_probs=32.1
Q ss_pred HHHhccchhHHHHHHHHHHHhhhhcccccchhhhhhhc
Q 032024 84 ELEALADPMRKEVAVVRKKIDSVNKELKPLGHTCQKKT 121 (148)
Q Consensus 84 ELE~laDPmRKEVa~VRKkID~vNreLKPLgqtCqKKE 121 (148)
=|+.|.=|+|.||..|-|+|..+-|+++-|...-...+
T Consensus 279 ~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l~ 316 (320)
T TIGR01834 279 LLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDLE 316 (320)
T ss_pred HHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 47899999999999999999999999998876554443
No 28
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=45.87 E-value=83 Score=26.49 Aligned_cols=18 Identities=39% Similarity=0.554 Sum_probs=15.2
Q ss_pred cchhHHHHHHHHHHHhhh
Q 032024 89 ADPMRKEVAVVRKKIDSV 106 (148)
Q Consensus 89 aDPmRKEVa~VRKkID~v 106 (148)
|+-||+||+.--+||-.+
T Consensus 103 a~vmr~eV~~Y~~KL~eL 120 (195)
T PF10226_consen 103 ASVMRQEVAQYQQKLKEL 120 (195)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 567999999999988766
No 29
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=45.85 E-value=44 Score=22.70 Aligned_cols=30 Identities=30% Similarity=0.555 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHhh-------hhHHHHhhHHHHHHH
Q 032024 55 KKKLEVREKVQAHLG-------RVEEETKRLATIREE 84 (148)
Q Consensus 55 RkKmEVReKVqaqLG-------RvEEETkRLA~IrEE 84 (148)
+..|||-.+++.||. |+|+..|.|..|.+.
T Consensus 9 r~QmEvQrrLhEQLEvQr~Lqlrieaqgkyl~~ilek 45 (51)
T PF14379_consen 9 RMQMEVQRRLHEQLEVQRHLQLRIEAQGKYLQSILEK 45 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 467899989988888 889999999888764
No 30
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=44.46 E-value=69 Score=24.55 Aligned_cols=39 Identities=13% Similarity=0.283 Sum_probs=27.4
Q ss_pred HhccchhHHHHHHHHHHHhhhhcccccchhhhhhhcccc
Q 032024 86 EALADPMRKEVAVVRKKIDSVNKELKPLGHTCQKKTYDN 124 (148)
Q Consensus 86 E~laDPmRKEVa~VRKkID~vNreLKPLgqtCqKKEkEY 124 (148)
+.-.++.-.|++...+.|+..+.++.-|-.-+..-++||
T Consensus 153 ~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ey 191 (192)
T PF05529_consen 153 KEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKEY 191 (192)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 344456667777777777777777777777777777776
No 31
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=43.78 E-value=73 Score=20.68 Aligned_cols=56 Identities=14% Similarity=0.409 Sum_probs=36.5
Q ss_pred HHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchhhhhhhccc
Q 032024 64 VQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGHTCQKKTYD 123 (148)
Q Consensus 64 VqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgqtCqKKEkE 123 (148)
|+..|-.++.....|...-..+-.-.| .+ ..+++.||.+..+++-+.+.|.++=+.
T Consensus 12 i~~~i~~i~~~~~~l~~l~~~~l~~~~---~d-~~~~~el~~l~~~i~~~~~~~~~~lk~ 67 (103)
T PF00804_consen 12 IREDIDKIKEKLNELRKLHKKILSSPD---QD-SELKRELDELTDEIKQLFQKIKKRLKQ 67 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTSSS---HH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCC---cc-hhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555556555555444444 33 778888888888888888888876444
No 32
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=43.59 E-value=1.2e+02 Score=24.92 Aligned_cols=66 Identities=15% Similarity=0.323 Sum_probs=42.6
Q ss_pred HHhhhhhhHHHHHHHHHHH--------HHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHH-HHHHhhhh
Q 032024 42 ALTTFRAKEEEIEKKKLEV--------REKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVV-RKKIDSVN 107 (148)
Q Consensus 42 AlS~FrAKEEEIERkKmEV--------ReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~V-RKkID~vN 107 (148)
++..+++-+.++.+|+-.+ -||++.----|.+.-.+..+.+.+.|.+++-+|+||... +.|++...
T Consensus 131 ~~~~~~~a~~~L~kkr~~~~Kl~~~~k~dK~~~~~~ev~~~e~~~~~a~~~fe~Is~~~k~El~rFe~er~~dfk 205 (234)
T cd07664 131 CWQKWQDAQVTLQKKREAEAKLQYANKPDKLQQAKDEIKEWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFK 205 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566677777766442 133333333444555677888999999999999999987 45555433
No 33
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=43.42 E-value=63 Score=30.55 Aligned_cols=48 Identities=35% Similarity=0.436 Sum_probs=32.8
Q ss_pred HHHHHHHHH-----hhhhcccccchh-----hhhhhcc----------ccccccCCCCCCCchhHHHh
Q 032024 95 EVAVVRKKI-----DSVNKELKPLGH-----TCQKKTY----------DNVCHRKENTRKPLKPLMKR 142 (148)
Q Consensus 95 EVa~VRKkI-----D~vNreLKPLgq-----tCqKKEk----------EY~~~~~~~~~~~~~~~~~~ 142 (148)
.+...|++. +.|+.+||+|+- +++=+.. .-+|+-..|.-.|++||+|-
T Consensus 364 ~Ls~~R~~~A~~L~~~v~~eL~~L~Me~a~F~ve~~~~~~~~t~~G~d~VeF~istNpG~~~~PL~Kv 431 (557)
T COG0497 364 ALSAIRKKAAKELEKEVTAELKALAMEKARFTVELKPLEESPTADGADKVEFLISTNPGEPLKPLAKV 431 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEeccCCCCCCcCCcceEEEEEeCCCCCCCccHHhh
Confidence 455566665 468889999874 2222221 24678888999999999984
No 34
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=43.38 E-value=56 Score=27.96 Aligned_cols=50 Identities=30% Similarity=0.450 Sum_probs=39.2
Q ss_pred HHHHHHHHHhhhhHHHHhhH-HHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 59 EVREKVQAHLGRVEEETKRL-ATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 59 EVReKVqaqLGRvEEETkRL-A~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
++|++++.-+. +|. ..|++|++.||-.--+||+..|+.|=.+=|+|--=|
T Consensus 274 e~~~~il~nmS------~R~a~~l~ee~~~~GpV~~sdvE~Aq~~Iv~~~r~L~~~G 324 (338)
T TIGR00207 274 PLREKFLNNMS------QRAAEILKEDMEFLGPVRLKDVEEAQKKIVSIVRKLEETG 324 (338)
T ss_pred HHHHHHHHHhh------HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence 47777777663 444 467999999999999999999999988877774333
No 35
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=43.25 E-value=16 Score=30.91 Aligned_cols=31 Identities=29% Similarity=0.479 Sum_probs=27.7
Q ss_pred HHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 84 ELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 84 ELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
=|+.|.=|+|.||..|-|+|..+=|+++-|.
T Consensus 262 ~L~~l~lPTr~evd~l~k~l~eLrre~r~Lk 292 (293)
T PF09712_consen 262 YLRSLNLPTRSEVDELYKRLHELRREVRALK 292 (293)
T ss_pred HHHHCCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 4788999999999999999999999988663
No 36
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=41.98 E-value=58 Score=27.50 Aligned_cols=48 Identities=31% Similarity=0.461 Sum_probs=38.0
Q ss_pred HHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccc
Q 032024 59 EVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELK 111 (148)
Q Consensus 59 EVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLK 111 (148)
++|+++...+. .+.=..|++||+.||=.-..||+..|+.|=.+=|+|-
T Consensus 277 ~~~~~il~nmS-----~R~a~~l~eel~~~g~v~~~dve~Aq~~I~~~~r~l~ 324 (339)
T PRK05686 277 ELREKFLSNMS-----KRAAEMLREDLEALGPVRLSDVEEAQKKIVQIARRLA 324 (339)
T ss_pred HHHHHHHHhcC-----HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHH
Confidence 47888877774 2334568999999999899999999999977766663
No 37
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=39.95 E-value=1.2e+02 Score=20.56 Aligned_cols=72 Identities=15% Similarity=0.385 Sum_probs=43.4
Q ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHH---hc-cchhHHHHHHHHHHHhhhhcccc
Q 032024 40 RSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELE---AL-ADPMRKEVAVVRKKIDSVNKELK 111 (148)
Q Consensus 40 rsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE---~l-aDPmRKEVa~VRKkID~vNreLK 111 (148)
..=+++|...=+++...=-+++..=..-+..++.+...|..+.+-.. .| -+|-..=+..+||++..+|.-+.
T Consensus 6 ~Gl~~~l~P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~y~~KL~~ikkrm~~l~~~l~ 81 (92)
T PF14712_consen 6 EGLLSLLEPDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDPYVKKLVNIKKRMSNLHERLQ 81 (92)
T ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 33344555544445444445555444457788888988988877322 12 34556667777777777776544
No 38
>TIGR01795 CM_mono_cladeE monofunctional chorismate mutase, alpha proteobacterial type. The alpha proteobacterial members are trusted because the pathways of CM are evident and there is only one plausible CM in the genome. In S. coelicolor, however, there is another aparrent monofunctional CM.
Probab=39.61 E-value=18 Score=25.96 Aligned_cols=20 Identities=20% Similarity=0.479 Sum_probs=15.8
Q ss_pred HHHHHHHHHHhhhhcccccc
Q 032024 94 KEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 94 KEVa~VRKkID~vNreLKPL 113 (148)
++++.+|+.||.++++|=-|
T Consensus 3 ~~L~~lR~~ID~ID~qLv~L 22 (94)
T TIGR01795 3 AELKALRQSIDNIDAAVIHM 22 (94)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 46778899999999987544
No 39
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=38.91 E-value=69 Score=26.20 Aligned_cols=53 Identities=28% Similarity=0.510 Sum_probs=32.8
Q ss_pred HHHHHHHHHHhhhh----HHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccch
Q 032024 58 LEVREKVQAHLGRV----EEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 58 mEVReKVqaqLGRv----EEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLg 114 (148)
|+.=+.|..+||++ +--.|-++.|++|||.|- +++.+|-+-...|-+++-|++
T Consensus 50 mer~~~ieNdlg~~~~~~~g~kk~~~~~~eelerLe----~~iKdl~~lye~Vs~d~Npf~ 106 (157)
T COG3352 50 MERMTDIENDLGKVKIEIEGQKKQLQDIKEELERLE----ENIKDLVSLYELVSRDFNPFM 106 (157)
T ss_pred HHHHHHHHhhcccccccccchhhhHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhhhHH
Confidence 55556677777744 344667777777777653 455555555666666666654
No 40
>COG1605 PheA Chorismate mutase [Amino acid transport and metabolism]
Probab=36.95 E-value=25 Score=25.12 Aligned_cols=24 Identities=33% Similarity=0.547 Sum_probs=19.5
Q ss_pred chhHHHHHHHHHHHhhhhcccccc
Q 032024 90 DPMRKEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 90 DPmRKEVa~VRKkID~vNreLKPL 113 (148)
.++.-+++.+|..||.++++|=.|
T Consensus 4 ~~~~~~L~~lR~~Id~iD~~ll~L 27 (101)
T COG1605 4 TIMMEELEELREEIDEIDRELLDL 27 (101)
T ss_pred hhHHhHHHHHHHHHHHHHHHHHHH
Confidence 456778899999999999987554
No 41
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.59 E-value=3.4e+02 Score=24.93 Aligned_cols=66 Identities=23% Similarity=0.360 Sum_probs=38.4
Q ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcc
Q 032024 41 SALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKE 109 (148)
Q Consensus 41 sAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNre 109 (148)
|-+|....|=..--+.+|+=--..|+-|-|-|||- +.+-.+|+.+---+-.++..+-+-||.+|+-
T Consensus 210 svisa~~eklR~r~eeeme~~~aeq~slkRt~EeL---~~G~~kL~~~~etLEqq~~~L~~niDIL~~k 275 (365)
T KOG2391|consen 210 SVISAVREKLRRRREEEMERLQAEQESLKRTEEEL---NIGKQKLVAMKETLEQQLQSLQKNIDILKSK 275 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH---HhhHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence 44444433322222233333445677788888874 4455555555555567888888888888753
No 42
>PRK02224 chromosome segregation protein; Provisional
Probab=36.15 E-value=1.4e+02 Score=27.63 Aligned_cols=55 Identities=24% Similarity=0.401 Sum_probs=33.4
Q ss_pred HHHHHHHHhhhhHHHHhhHHHHHHHHHhccchh-----------------HHHHHHHHHHHhhhhcccccch
Q 032024 60 VREKVQAHLGRVEEETKRLATIREELEALADPM-----------------RKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 60 VReKVqaqLGRvEEETkRLA~IrEELE~laDPm-----------------RKEVa~VRKkID~vNreLKPLg 114 (148)
+.+.+...+-++++...++..+.++++.+-+-. ..++..+.+++..++.+|.-|.
T Consensus 521 l~~~~~~~~e~le~~~~~~~~l~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~le 592 (880)
T PRK02224 521 LEELIAERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLE 592 (880)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455556667777777777777777662222 2355666666666666665554
No 43
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=36.13 E-value=1e+02 Score=24.60 Aligned_cols=51 Identities=25% Similarity=0.471 Sum_probs=34.3
Q ss_pred HHHHHHHhhhhHHHHhhHHHHHHHHHhccchh--------HHHHHHHHHHHhhhhcccccch
Q 032024 61 REKVQAHLGRVEEETKRLATIREELEALADPM--------RKEVAVVRKKIDSVNKELKPLG 114 (148)
Q Consensus 61 ReKVqaqLGRvEEETkRLA~IrEELE~laDPm--------RKEVa~VRKkID~vNreLKPLg 114 (148)
.+-+..|+-.|++ +++++.+-|+.+||-. |+|++.+.++|..+---|+-+-
T Consensus 87 ~~lLe~~~~~l~~---ri~eLe~~l~~kad~vvsYqll~hr~e~ee~~~~l~~le~~~~~~e 145 (175)
T PRK13182 87 FEQLEAQLNTITR---RLDELERQLQQKADDVVSYQLLQHRREMEEMLERLQKLEARLKKLE 145 (175)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666554 8888888999999864 7777777777766554444333
No 44
>PF06216 RTBV_P46: Rice tungro bacilliform virus P46 protein; InterPro: IPR009347 This family consists of several Rice tungro bacilliform virus P46 proteins. The function of this family is unknown.
Probab=33.70 E-value=89 Score=28.31 Aligned_cols=49 Identities=24% Similarity=0.355 Sum_probs=40.0
Q ss_pred hhhHHHHHHHHHH---HHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHH
Q 032024 47 RAKEEEIEKKKLE---VREKVQAHLGRVEEETKRLATIREELEALADPMRKE 95 (148)
Q Consensus 47 rAKEEEIERkKmE---VReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKE 95 (148)
--+|-||+--+.| ++|.|------+++--.||++.++-||||-.|..|-
T Consensus 67 y~~e~e~~sy~~e~~~l~~qvs~l~~~~~~~r~~~~~~~~~~eglrep~kkp 118 (389)
T PF06216_consen 67 YNKEFERQSYSNEWISLNDQVSHLQHQNSEQRQQIREMREIIEGLREPVKKP 118 (389)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCC
Confidence 3578888888876 577776656678888899999999999999998753
No 45
>TIGR01808 CM_M_hiGC-arch monofunctional chorismate mutase, high GC gram positive type. This model represents the monofunctional chorismate mutase from high GC gram-positive bacteria and archaea. Trusted annotations from Corynebacterium and Pyrococcus are aparrently the sole chorismate mutase enzymes in their respective genomes. This is coupled with the presence in those genomes of the enzymes of the chorismate pathways both up- and downstream of chorismate mutase.
Probab=32.98 E-value=20 Score=24.54 Aligned_cols=19 Identities=32% Similarity=0.632 Sum_probs=15.0
Q ss_pred HHHHHHHHHhhhhcccccc
Q 032024 95 EVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 95 EVa~VRKkID~vNreLKPL 113 (148)
|+..+|..||.++++|--|
T Consensus 1 ~l~~lR~~ID~ID~~ii~L 19 (74)
T TIGR01808 1 EIDTLREEIDRLDAEILAL 19 (74)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 4677899999999987554
No 46
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=32.83 E-value=1.4e+02 Score=23.94 Aligned_cols=58 Identities=24% Similarity=0.395 Sum_probs=45.4
Q ss_pred HHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhh---cccccchhhhhh
Q 032024 62 EKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVN---KELKPLGHTCQK 119 (148)
Q Consensus 62 eKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vN---reLKPLgqtCqK 119 (148)
....+.+..++.|...|....+.|+..-+-.+++++.+-..|+.+. ++|.|+-..-..
T Consensus 52 ~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~ 112 (251)
T PF11932_consen 52 QELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMID 112 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456667778888889999999999999999999999998887764 677776554443
No 47
>PRK03918 chromosome segregation protein; Provisional
Probab=32.52 E-value=1.8e+02 Score=26.60 Aligned_cols=18 Identities=50% Similarity=0.724 Sum_probs=9.7
Q ss_pred HHHHhhHHHHHHHHHhcc
Q 032024 72 EEETKRLATIREELEALA 89 (148)
Q Consensus 72 EEETkRLA~IrEELE~la 89 (148)
++-..+|+.+.++++.+.
T Consensus 636 ~~l~~~i~~l~~~~~~l~ 653 (880)
T PRK03918 636 AETEKRLEELRKELEELE 653 (880)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333445556666666664
No 48
>PF09551 Spore_II_R: Stage II sporulation protein R (spore_II_R); InterPro: IPR014202 This entry is designated stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species. SpoIIR is a signalling protein that links the activation of sigma E to the transcriptional activity of sigma F during sporulation [, ].
Probab=32.03 E-value=77 Score=24.72 Aligned_cols=35 Identities=31% Similarity=0.331 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHhhhh-------HHHHhhHHHHHHHHHhcc
Q 032024 55 KKKLEVREKVQAHLGRV-------EEETKRLATIREELEALA 89 (148)
Q Consensus 55 RkKmEVReKVqaqLGRv-------EEETkRLA~IrEELE~la 89 (148)
..|..|||.|-+.|... ++.-..+..-..|||..|
T Consensus 20 ~lKl~VRD~Vl~~l~~~~~~~~~~~ea~~~i~~~~~~Ie~~A 61 (130)
T PF09551_consen 20 ALKLKVRDAVLEYLSPWLSQAKSKEEAREVIRENLPEIEQIA 61 (130)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHhHHHHHHHH
Confidence 46889999999888743 444444444455555444
No 49
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=31.82 E-value=1.1e+02 Score=26.19 Aligned_cols=46 Identities=24% Similarity=0.337 Sum_probs=35.3
Q ss_pred HHHHHHHHHhhhhHHHHhhH-HHHHHHHHhccchhHHHHHHHHHHHhhhhccc
Q 032024 59 EVREKVQAHLGRVEEETKRL-ATIREELEALADPMRKEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 59 EVReKVqaqLGRvEEETkRL-A~IrEELE~laDPmRKEVa~VRKkID~vNreL 110 (148)
++|++|..-+. +|. ..|++||+.||=.-..||+..|+.|=.+=|+|
T Consensus 271 e~r~~il~nmS------~Raa~~l~eele~~gpV~~sdvE~Aq~~Iv~~~r~L 317 (334)
T PRK07194 271 ALRQAILRVMP------KRQAQALEAQIERLGPVPLSRVEQARKEIMALVREL 317 (334)
T ss_pred HHHHHHHHHcc------HHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHH
Confidence 46666665553 444 46899999999989999999999997766665
No 50
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=31.81 E-value=3.1e+02 Score=23.05 Aligned_cols=71 Identities=21% Similarity=0.285 Sum_probs=42.9
Q ss_pred HhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHh-------ccchhHHHHHHHHHHHhhhh
Q 032024 37 EMSRSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEA-------LADPMRKEVAVVRKKIDSVN 107 (148)
Q Consensus 37 e~srsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~-------laDPmRKEVa~VRKkID~vN 107 (148)
+.-|..|+...++=++..+.-.+++..+++--+.+++-+...++...++.. --..++.||..++.+++.+=
T Consensus 212 ~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk~~~~~Le 289 (325)
T PF08317_consen 212 EALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLKAKVDALE 289 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence 444555555555444444445555666666666666666665555555443 33468889999999888754
No 51
>PRK06285 chorismate mutase; Provisional
Probab=31.56 E-value=25 Score=24.87 Aligned_cols=20 Identities=30% Similarity=0.634 Sum_probs=14.4
Q ss_pred HHHHHHHHHHhhhhcccccc
Q 032024 94 KEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 94 KEVa~VRKkID~vNreLKPL 113 (148)
++++.+|+.||.++++|-.|
T Consensus 7 ~~L~elR~~ID~ID~~iv~L 26 (96)
T PRK06285 7 KRLNEIRKRIDEIDEQIIDL 26 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45667888888888877554
No 52
>PRK07248 hypothetical protein; Provisional
Probab=31.25 E-value=22 Score=24.40 Aligned_cols=18 Identities=28% Similarity=0.619 Sum_probs=14.6
Q ss_pred HHHHHHHHhhhhcccccc
Q 032024 96 VAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 96 Va~VRKkID~vNreLKPL 113 (148)
++.+|+.||.++++|-.|
T Consensus 3 L~~lR~~ID~iD~~i~~L 20 (87)
T PRK07248 3 LEEIRQEIDQIDDQLVAL 20 (87)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 567899999999988665
No 53
>TIGR01803 CM-like chorismate mutase related enzymes. This subfamily includes two enzymes which are variants on the mechanism of chorismate mutase and are likely to have evolved from an ancestral chorismate mutase enzyme. 4-amino-4-deoxy-chorismate mutase produces amino-deoxy-prephenate which is subsequently converted to para-dimethylamino-phenylalanine, a component of the natural product pristinamycin. Isochorismate-pyruvate lyase presumably catalyzes the same type of 2+2+2 cyclo-rearrangement as chorismate mutase, but acting on isochorismate, this results in two broken bonds instead of one broken and one made. The product of this reaction is salicylate (2-hydroxy-benzoate) which is also incorporated into various natural products.
Probab=30.21 E-value=22 Score=24.28 Aligned_cols=17 Identities=29% Similarity=0.407 Sum_probs=12.7
Q ss_pred HHHHHHHhhhhcccccc
Q 032024 97 AVVRKKIDSVNKELKPL 113 (148)
Q Consensus 97 a~VRKkID~vNreLKPL 113 (148)
+.+|++||.++++|=-|
T Consensus 2 ~~lR~~ID~ID~~lv~L 18 (82)
T TIGR01803 2 ADIREAIDRIDLALVQA 18 (82)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45788899988887443
No 54
>TIGR01807 CM_P2 chorismate mutase domain of proteobacterial P-protein, clade 2. This model represents one of two separate clades of the chorismate mutase domain of the gamma and beta and epsilon proteobacterial "P-protein" which contains an N-terminal chorismate mutase domain and a C-terminal prephenate dehydratase domain. It is also found in Aquifex aolicus.
Probab=30.03 E-value=23 Score=23.80 Aligned_cols=17 Identities=29% Similarity=0.561 Sum_probs=13.0
Q ss_pred HHHHHHHhhhhcccccc
Q 032024 97 AVVRKKIDSVNKELKPL 113 (148)
Q Consensus 97 a~VRKkID~vNreLKPL 113 (148)
..+|..||.++++|=.|
T Consensus 2 ~~lR~~ID~iD~~iv~L 18 (76)
T TIGR01807 2 EELRNKIDAIDDRILDL 18 (76)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45788899998887554
No 55
>PF06102 DUF947: Domain of unknown function (DUF947); InterPro: IPR009292 This is a family of eukaryotic proteins with unknown function.
Probab=29.97 E-value=2.7e+02 Score=21.90 Aligned_cols=43 Identities=26% Similarity=0.281 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHH
Q 032024 58 LEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVR 100 (148)
Q Consensus 58 mEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VR 100 (148)
.+-++.++..|.+++...+.......+-+.+.+-..+|.+.|.
T Consensus 78 ~~~~e~lk~~L~~~~~q~~~~~~~~~~~e~~~~~kk~E~e~v~ 120 (168)
T PF06102_consen 78 PEEREELKRELQRMESQLKARKRKDREREVKKEHKKEEREKVK 120 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677899999999999999998888888888877777776654
No 56
>PRK11032 hypothetical protein; Provisional
Probab=29.52 E-value=91 Score=24.96 Aligned_cols=55 Identities=18% Similarity=0.369 Sum_probs=41.8
Q ss_pred HHHHHHHHhhhhHHHHhhH-HHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchhhh
Q 032024 60 VREKVQAHLGRVEEETKRL-ATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGHTC 117 (148)
Q Consensus 60 VReKVqaqLGRvEEETkRL-A~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgqtC 117 (148)
+=++|...|...+++.+.+ ...++=+...+|=++.|++-|. +-|.|+|+-++++-
T Consensus 11 ll~~v~~~l~~~~~~l~~~ve~a~~~~~~~~elT~dEl~lv~---~ylkRDL~ef~~~~ 66 (160)
T PRK11032 11 LVASLTERLRNGERDIDALVESARKRVDAAGELTRDEVDLIT---RAVRRDLEEFARSY 66 (160)
T ss_pred HHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH---HHHHHHHHHHHHHH
Confidence 3467777888888776665 6667777788888999999885 56788888888754
No 57
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=29.14 E-value=2.9e+02 Score=25.46 Aligned_cols=22 Identities=9% Similarity=0.297 Sum_probs=17.7
Q ss_pred HHHHHHHhhhhccccc-chhhhh
Q 032024 97 AVVRKKIDSVNKELKP-LGHTCQ 118 (148)
Q Consensus 97 a~VRKkID~vNreLKP-LgqtCq 118 (148)
..+++.++.+...|+| |.+-|.
T Consensus 557 ~~~~~~~~~~~~~~~~~~~~~~~ 579 (595)
T PRK01433 557 ILINNSIKEFKSKIKKSMDTKLN 579 (595)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 5778888888888888 777775
No 58
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=28.93 E-value=32 Score=30.13 Aligned_cols=20 Identities=20% Similarity=0.415 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHhhhhcccc
Q 032024 92 MRKEVAVVRKKIDSVNKELK 111 (148)
Q Consensus 92 mRKEVa~VRKkID~vNreLK 111 (148)
+.++++.+|+.||.++++|=
T Consensus 3 ~~~~L~~lR~~ID~ID~~ii 22 (386)
T PRK10622 3 SENPLLALREKISALDEKLL 22 (386)
T ss_pred chhHHHHHHHHHHHHHHHHH
Confidence 45667777777777777763
No 59
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=28.72 E-value=1.4e+02 Score=24.88 Aligned_cols=65 Identities=26% Similarity=0.311 Sum_probs=41.5
Q ss_pred HhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchh-
Q 032024 37 EMSRSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGH- 115 (148)
Q Consensus 37 e~srsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgq- 115 (148)
|.||.+... +-|||.-+.-.||.|++|+..=. =.+-|++.++.++.++...-.+|+|+-+
T Consensus 89 Ey~R~~~~e-~~kee~~~~e~~elr~~~~~l~~------------------~i~~~~~~~~~L~~~l~~~~~el~~~~q~ 149 (181)
T KOG3335|consen 89 EYWRQARKE-RKKEEKRKQEIMELRLKVEKLEN------------------AIAELTKFFSQLHSKLNKPESELKPIRQA 149 (181)
T ss_pred hhHHhhhcc-hhhHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHcCccccccccccC
Confidence 456666544 33566667777888877754322 2344667777777778888888888754
Q ss_pred hhhhh
Q 032024 116 TCQKK 120 (148)
Q Consensus 116 tCqKK 120 (148)
+|.-+
T Consensus 150 ~p~~~ 154 (181)
T KOG3335|consen 150 PPNPG 154 (181)
T ss_pred CCCCC
Confidence 45433
No 60
>PHA02675 ORF104 fusion protein; Provisional
Probab=27.58 E-value=1.6e+02 Score=22.34 Aligned_cols=36 Identities=17% Similarity=0.275 Sum_probs=28.7
Q ss_pred hHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhh
Q 032024 71 VEEETKRLATIREELEALADPMRKEVAVVRKKIDSV 106 (148)
Q Consensus 71 vEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~v 106 (148)
+.+.-+.+..+---||--+|-.|+-.-.+=||||.-
T Consensus 49 i~~cC~~~~~~L~RLE~H~ETLRk~Ml~L~KKIDVQ 84 (90)
T PHA02675 49 ITDCCRETGARLDRLERHLETLREALLKLNTKIDVQ 84 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccee
Confidence 445566677777778888999999999999999963
No 61
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=27.41 E-value=59 Score=22.35 Aligned_cols=20 Identities=10% Similarity=0.420 Sum_probs=10.0
Q ss_pred hhHHHHHHHHHHHhhhhccc
Q 032024 91 PMRKEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 91 PmRKEVa~VRKkID~vNreL 110 (148)
-.|+|...||+-|+.+|.-+
T Consensus 18 tvk~en~~i~~~ve~i~env 37 (55)
T PF05377_consen 18 TVKKENEEISESVEKIEENV 37 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555433
No 62
>TIGR01799 CM_T chorismate mutase domain of T-protein. This model represents the chorismate mutase domain of the gamma proteobacterial "T-protein" which consists of an N-terminal chorismate mutase domain and a C-terminal prephenate dehydrogenase domain.
Probab=27.36 E-value=21 Score=24.41 Aligned_cols=17 Identities=41% Similarity=0.556 Sum_probs=13.3
Q ss_pred HHHHHHHhhhhcccccc
Q 032024 97 AVVRKKIDSVNKELKPL 113 (148)
Q Consensus 97 a~VRKkID~vNreLKPL 113 (148)
+.+|+.||.++++|-.|
T Consensus 2 ~~lR~~ID~ID~~il~L 18 (83)
T TIGR01799 2 EDLRGEIDGVDQELLHL 18 (83)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45888999999888654
No 63
>PRK09239 chorismate mutase; Provisional
Probab=27.33 E-value=37 Score=24.83 Aligned_cols=19 Identities=32% Similarity=0.599 Sum_probs=14.5
Q ss_pred HHHHHHHHHhhhhcccccc
Q 032024 95 EVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 95 EVa~VRKkID~vNreLKPL 113 (148)
.++.+|+.||.++++|=-|
T Consensus 11 ~L~~lR~~ID~ID~eIv~L 29 (104)
T PRK09239 11 ELAALRQSIDNIDAALIHM 29 (104)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3567889999999887544
No 64
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=27.28 E-value=2.6e+02 Score=25.82 Aligned_cols=46 Identities=33% Similarity=0.496 Sum_probs=33.7
Q ss_pred HHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccc
Q 032024 61 REKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 61 ReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPL 113 (148)
+.+++.+|..+|.+..+| ..+|-..+| ++..++|+|+..|..|.-|
T Consensus 61 ~~kL~~~lk~~e~~i~~~---~~ql~~s~~----~l~~~~~~I~~~~~~l~~l 106 (420)
T COG4942 61 RAKLEKQLKSLETEIASL---EAQLIETAD----DLKKLRKQIADLNARLNAL 106 (420)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHh----HHHHHHhhHHHHHHHHHHH
Confidence 568899999999876555 444444443 5677889999998888755
No 65
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.06 E-value=2.9e+02 Score=27.63 Aligned_cols=31 Identities=19% Similarity=0.304 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhhhhcccccchhhhhhhcccc
Q 032024 94 KEVAVVRKKIDSVNKELKPLGHTCQKKTYDN 124 (148)
Q Consensus 94 KEVa~VRKkID~vNreLKPLgqtCqKKEkEY 124 (148)
.++..++..|..+..+|-||-..-.+...+|
T Consensus 895 ~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 925 (1311)
T TIGR00606 895 TEVQSLIREIKDAKEQDSPLETFLEKDQQEK 925 (1311)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence 5556666666666666666655555544444
No 66
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=26.98 E-value=1.3e+02 Score=24.24 Aligned_cols=64 Identities=19% Similarity=0.189 Sum_probs=32.8
Q ss_pred HHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchhhhhhhccccc
Q 032024 62 EKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGHTCQKKTYDNV 125 (148)
Q Consensus 62 eKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgqtCqKKEkEY~ 125 (148)
.+++.+++.+..+...+-.-.++.-..-.-+..|+..+||-+|..+...-.|-.-++--..|+.
T Consensus 71 a~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~ 134 (312)
T PF00038_consen 71 ARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELE 134 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHH
Confidence 3445555555555555544444444444555556666666665555544444444444433333
No 67
>TIGR01805 CM_mono_grmpos monofunctional chorismate mutase, gram positive-type, clade 2. This model represents a clade of chorismate mutase proteins/domains from gram positive species. The sequence from Enterococcus is fused to the C-terminus of an aparrent acetyltransferase, and the seuence from Clostridium acetobutylicum (but not perfringens) is fused to the N-terminus of shikimate-5-dehydrogenase, another enzyme of the chorismate pathway. All the other members of this clade are mono-functional. Members of this clade from Streptococcus and Lactococcus have been found which represent the sole chorismate mutase domain in their respective genomes which also exhibit evidence of the enzymes of both the upstream and downstream branches of the chorismate pathways.
Probab=26.96 E-value=22 Score=24.19 Aligned_cols=17 Identities=41% Similarity=0.714 Sum_probs=13.3
Q ss_pred HHHHHHHhhhhcccccc
Q 032024 97 AVVRKKIDSVNKELKPL 113 (148)
Q Consensus 97 a~VRKkID~vNreLKPL 113 (148)
+.+|+.||.++++|-.|
T Consensus 2 ~~lR~~Id~iD~~i~~L 18 (81)
T TIGR01805 2 ELIRKKIDEIDDKLVVL 18 (81)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45788899988888665
No 68
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=26.90 E-value=4e+02 Score=22.67 Aligned_cols=47 Identities=26% Similarity=0.432 Sum_probs=23.3
Q ss_pred HHhhHHHHHHHHHhccc-----hhHHHHHHHHHHHhhhhcccccchhhhhhh
Q 032024 74 ETKRLATIREELEALAD-----PMRKEVAVVRKKIDSVNKELKPLGHTCQKK 120 (148)
Q Consensus 74 ETkRLA~IrEELE~laD-----PmRKEVa~VRKkID~vNreLKPLgqtCqKK 120 (148)
...|++..++-|-+..| -+-.|+...-.++.+++.+|-+|-.--.+.
T Consensus 71 ~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l 122 (239)
T COG1579 71 IRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKL 122 (239)
T ss_pred HHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555544433332 123456666666666666666554433333
No 69
>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed
Probab=26.70 E-value=38 Score=29.48 Aligned_cols=21 Identities=38% Similarity=0.594 Sum_probs=13.7
Q ss_pred hHHHHHHHHHHHhhhhccccc
Q 032024 92 MRKEVAVVRKKIDSVNKELKP 112 (148)
Q Consensus 92 mRKEVa~VRKkID~vNreLKP 112 (148)
|..+++.+|+.||.++++|=-
T Consensus 2 ~~~~L~~lR~~ID~ID~eIl~ 22 (360)
T PRK12595 2 MNEELEQLRKEIDEINLQLLE 22 (360)
T ss_pred chhHHHHHHHHHHHHHHHHHH
Confidence 345566777777777777643
No 70
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=26.41 E-value=3.8e+02 Score=23.83 Aligned_cols=62 Identities=26% Similarity=0.348 Sum_probs=39.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhH---HHHHHHHHHHhhhhccc
Q 032024 49 KEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMR---KEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 49 KEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmR---KEVa~VRKkID~vNreL 110 (148)
|=+|.-.-|-++++....-=|-+|+=-.||..|+-|+-.|-.-.+ -||.-++||.|.+--.+
T Consensus 143 kl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~ 207 (290)
T COG4026 143 KLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGV 207 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcccc
Confidence 334444556666666655556666666677777666555544333 38999999998776553
No 71
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=26.36 E-value=20 Score=28.27 Aligned_cols=66 Identities=24% Similarity=0.404 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccch-----------hHHHH----HHHHHHHhhhhcccccchhhhhhhc
Q 032024 57 KLEVREKVQAHLGRVEEETKRLATIREELEALADP-----------MRKEV----AVVRKKIDSVNKELKPLGHTCQKKT 121 (148)
Q Consensus 57 KmEVReKVqaqLGRvEEETkRLA~IrEELE~laDP-----------mRKEV----a~VRKkID~vNreLKPLgqtCqKKE 121 (148)
-++-|.+...||+--. -..+||.-|+.- .+.|. +-|+||||-++.|||-+-..---.+
T Consensus 24 ~~~~rqkle~qL~Enk-------~V~~Eldlle~d~~VYKliGpvLvkqel~EAr~nV~kRlefI~~Eikr~e~~i~d~q 96 (120)
T KOG3478|consen 24 YVESRQKLETQLQENK-------IVLEELDLLEEDSNVYKLIGPVLVKQELEEARTNVGKRLEFISKEIKRLENQIRDSQ 96 (120)
T ss_pred HHHHHHHHHHHHhhhH-------HHHHHHHHhcccchHHHHhcchhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777776321 234455544321 12333 4588999999999999888877788
Q ss_pred cccccccC
Q 032024 122 YDNVCHRK 129 (148)
Q Consensus 122 kEY~~~~~ 129 (148)
+++.-||.
T Consensus 97 ~e~~k~R~ 104 (120)
T KOG3478|consen 97 EEFEKQRE 104 (120)
T ss_pred HHHHHHHH
Confidence 88777763
No 72
>PF07321 YscO: Type III secretion protein YscO; InterPro: IPR009929 This family contains the bacterial type III secretion protein YscO, which is approximately 150 residues long. YscO has been shown to be required for high-level expression and secretion of the anti-host proteins V antigen and Yops in Yersinia pestis [].
Probab=25.94 E-value=3.2e+02 Score=21.48 Aligned_cols=60 Identities=23% Similarity=0.352 Sum_probs=36.3
Q ss_pred CCCCchhHHhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhc
Q 032024 29 SNLSKDDEEMSRSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEAL 88 (148)
Q Consensus 29 s~~~~~eEe~srsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~l 88 (148)
..++-++=+.++.-++.|+.+|-+++..--+..+.|....-.+++.-+-+.+-+...+-|
T Consensus 62 ~~v~~kele~~~~qv~~Lr~~e~~le~~~~~a~~~~~~e~~~l~~a~~~~~~a~r~~eKf 121 (152)
T PF07321_consen 62 KVVSLKELEKWQQQVASLREREAELEQQLAEAEEQLEQERQALEEARKQLQQARRQQEKF 121 (152)
T ss_pred hHhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555667788888888888888876655555555554444444444444444444433
No 73
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=25.81 E-value=86 Score=23.26 Aligned_cols=32 Identities=28% Similarity=0.495 Sum_probs=22.9
Q ss_pred hhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccc
Q 032024 76 KRLATIREELEALADPMRKEVAVVRKKIDSVNKELK 111 (148)
Q Consensus 76 kRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLK 111 (148)
+++..+..++.++ ..||..+++++|..|.|=+
T Consensus 49 k~v~~L~~e~~~l----~~E~e~L~~~l~~e~~Ek~ 80 (87)
T PF12709_consen 49 KKVDELENENKAL----KRENEQLKKKLDTEREEKQ 80 (87)
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 3555555566554 5689999999999987743
No 74
>COG4353 Uncharacterized conserved protein [Function unknown]
Probab=25.76 E-value=1e+02 Score=26.00 Aligned_cols=22 Identities=55% Similarity=0.786 Sum_probs=17.6
Q ss_pred HHHHhhHHHHHHHHHhccchhHHH
Q 032024 72 EEETKRLATIREELEALADPMRKE 95 (148)
Q Consensus 72 EEETkRLA~IrEELE~laDPmRKE 95 (148)
|++.+-|+.||+|+|.+ -.|+|
T Consensus 151 e~~~R~le~~r~e~enf--i~~~e 172 (192)
T COG4353 151 EEGIRQLETIREEIENF--IIRKE 172 (192)
T ss_pred HHHHHHHHHHHHHHHHH--Hhhcc
Confidence 67788899999999987 45554
No 75
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=25.54 E-value=38 Score=28.83 Aligned_cols=22 Identities=41% Similarity=0.626 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHhhhhcccccc
Q 032024 92 MRKEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 92 mRKEVa~VRKkID~vNreLKPL 113 (148)
|..+++.+|+.||.++++|--|
T Consensus 1 ~~~~L~~lR~~ID~iD~~iv~L 22 (374)
T PRK11199 1 MVAELTALRDQIDEVDKQLLEL 22 (374)
T ss_pred CchHHHHHHHHHHHHHHHHHHH
Confidence 3445677888888888877554
No 76
>PF15275 PEHE: PEHE domain; PDB: 2Y0N_G 2Y0M_B.
Probab=25.23 E-value=1.5e+02 Score=22.00 Aligned_cols=30 Identities=27% Similarity=0.316 Sum_probs=20.8
Q ss_pred hhHHhhHHHHhhhhhhHHHHHHHHHHHHHH
Q 032024 34 DDEEMSRSALTTFRAKEEEIEKKKLEVREK 63 (148)
Q Consensus 34 ~eEe~srsAlS~FrAKEEEIERkKmEVReK 63 (148)
+.|.+|-.|+..=++|=||.|||+-.+...
T Consensus 23 e~EdlSDe~f~~RH~k~Ee~ERkRw~~~~~ 52 (123)
T PF15275_consen 23 EVEDLSDEAFLKRHEKYEERERKRWDWQRI 52 (123)
T ss_dssp ------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccCCCHHHHHHHhHHHHHHHHHHHHHHHh
Confidence 478999999999999999999998776443
No 77
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=25.19 E-value=59 Score=30.78 Aligned_cols=27 Identities=33% Similarity=0.587 Sum_probs=23.9
Q ss_pred hhhhHHHHhhHHHHHHHHHhccchhHH
Q 032024 68 LGRVEEETKRLATIREELEALADPMRK 94 (148)
Q Consensus 68 LGRvEEETkRLA~IrEELE~laDPmRK 94 (148)
=-|+||.|.+.+.|+.--|+|+||--+
T Consensus 42 pd~ieeat~~F~~i~aAYeVLSdp~eR 68 (508)
T KOG0717|consen 42 PDRIEEATQQFQLIQAAYEVLSDPQER 68 (508)
T ss_pred CccHHHHHHHHHHHHHHHHHhcChHhh
Confidence 357999999999999999999999643
No 78
>PRK03918 chromosome segregation protein; Provisional
Probab=25.09 E-value=3.3e+02 Score=24.96 Aligned_cols=11 Identities=9% Similarity=0.395 Sum_probs=4.1
Q ss_pred HHHHHHHhhhh
Q 032024 97 AVVRKKIDSVN 107 (148)
Q Consensus 97 a~VRKkID~vN 107 (148)
..+++.|..++
T Consensus 462 ~~l~~~~~~l~ 472 (880)
T PRK03918 462 KRIEKELKEIE 472 (880)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 79
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=25.05 E-value=1.4e+02 Score=29.29 Aligned_cols=69 Identities=36% Similarity=0.440 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchhhhhhhccccccccC
Q 032024 50 EEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGHTCQKKTYDNVCHRK 129 (148)
Q Consensus 50 EEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgqtCqKKEkEY~~~~~ 129 (148)
|-|.|-|+-|.|.+.+..--+.|||.-|-.+||+|.+. ||-. |-+|..+ -|||-. =+||-+.-..||.
T Consensus 415 eae~e~kreearrkaeeer~~keee~arrefirqey~r-----rkql----klmed~d-v~kpr~--k~kk~rpks~hr~ 482 (708)
T KOG3654|consen 415 EAEKEQKREEARRKAEEERAPKEEEVARREFIRQEYER-----RKQL----KLMEDLD-VLKPRA--KGKKGRPKSRHRS 482 (708)
T ss_pred HHHHHHHHHHHHHhhHhhhcchhhhhhHHHHHHHHHHH-----HHHH----HHHHhhc-ccCCCC--CCCCCCCCccccc
Confidence 44667777888888888888889998888999999763 3332 2344455 678876 5788888777776
Q ss_pred C
Q 032024 130 E 130 (148)
Q Consensus 130 ~ 130 (148)
.
T Consensus 483 ~ 483 (708)
T KOG3654|consen 483 G 483 (708)
T ss_pred c
Confidence 4
No 80
>PRK11637 AmiB activator; Provisional
Probab=24.90 E-value=3.4e+02 Score=23.34 Aligned_cols=17 Identities=24% Similarity=0.460 Sum_probs=6.8
Q ss_pred HHHHHHHHHhhhhcccc
Q 032024 95 EVAVVRKKIDSVNKELK 111 (148)
Q Consensus 95 EVa~VRKkID~vNreLK 111 (148)
+++.+..+|+.++.+|.
T Consensus 97 ~i~~~~~ei~~l~~eI~ 113 (428)
T PRK11637 97 TLNQLNKQIDELNASIA 113 (428)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444444333
No 81
>PF05841 Apc15p: Apc15p protein; InterPro: IPR008402 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. Members of this family are components of the anaphase-promoting complex homologous to subunit Apc15/MND2 [].; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0031145 anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process, 0005680 anaphase-promoting complex
Probab=24.85 E-value=58 Score=24.36 Aligned_cols=25 Identities=32% Similarity=0.607 Sum_probs=23.1
Q ss_pred hhHHHHhhhhhhHHHHHHHHHHHHH
Q 032024 38 MSRSALTTFRAKEEEIEKKKLEVRE 62 (148)
Q Consensus 38 ~srsAlS~FrAKEEEIERkKmEVRe 62 (148)
..++.|+.|.+.|+.+++++.-||-
T Consensus 69 ~~~~~l~~L~~~e~~~~~r~~~Ir~ 93 (125)
T PF05841_consen 69 SSRSSLARLSMEEQQLERRKQNIRN 93 (125)
T ss_pred ccccchhhhhHHHHHHHHHHHHHHH
Confidence 6889999999999999999999985
No 82
>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=24.71 E-value=1.1e+02 Score=31.30 Aligned_cols=55 Identities=29% Similarity=0.432 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchhhhhhh
Q 032024 59 EVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGHTCQKK 120 (148)
Q Consensus 59 EVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgqtCqKK 120 (148)
.+++++..+|--++++.+-++--.+|||. |++..+.+|+.+-++|.--+..|+.+
T Consensus 255 ~~~~r~k~~~r~l~k~~~pi~~~~eeLe~-------~~~et~~~~s~~~~~~~e~~~k~~~~ 309 (1072)
T KOG0979|consen 255 QAKDRAKKELRKLEKEIKPIEDKKEELES-------EKKETRSKISQKQRELNEALAKVQEK 309 (1072)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhHHh-------HHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555556666666666666555565554 88889999999999988888777654
No 83
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=24.51 E-value=1.3e+02 Score=24.94 Aligned_cols=56 Identities=30% Similarity=0.532 Sum_probs=42.3
Q ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHH--------HHHHHHHhccchhHHHHHHHHHHHhh
Q 032024 41 SALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLA--------TIREELEALADPMRKEVAVVRKKIDS 105 (148)
Q Consensus 41 sAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA--------~IrEELE~laDPmRKEVa~VRKkID~ 105 (148)
-|...|+.+|| |-. --.+||.+-.|.+||+ .|-++.-.-+.||.+|+..+-|+|..
T Consensus 9 ~A~~a~q~~ee--------V~~-~Ir~iGDlqRE~~RLeTemnDk~aai~e~Yapq~~~lk~EI~~L~k~vq~ 72 (170)
T COG4396 9 PAIEAAQDKEE--------VTA-FIRQIGDLQREVKRLETEMNDKKAAIEEEYAPQAAPLKAEIMSLTKRVQA 72 (170)
T ss_pred hHHhccccHHH--------HHH-HHHHHHHHHHHHHHHHHHhcchHhHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 45556666554 222 2347999999999985 57888888889999999999999874
No 84
>TIGR01797 CM_P_1 chorismate mutase domain of proteobacterial P-protein, clade 1. This model represents the chorismate mutase domain of the gamma and beta proteobacterial "P-protein" which contains an N-terminal chorismate mutase domain and a C-terminal prephenate dehydratase domain.
Probab=24.30 E-value=33 Score=23.56 Aligned_cols=17 Identities=29% Similarity=0.558 Sum_probs=12.5
Q ss_pred HHHHHHHhhhhcccccc
Q 032024 97 AVVRKKIDSVNKELKPL 113 (148)
Q Consensus 97 a~VRKkID~vNreLKPL 113 (148)
+.+|+.||.++++|=-|
T Consensus 2 ~~lR~~ID~ID~~lv~L 18 (83)
T TIGR01797 2 LALREKISAIDEKLLKL 18 (83)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45788888888887543
No 85
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=24.08 E-value=3.8e+02 Score=21.47 Aligned_cols=75 Identities=20% Similarity=0.337 Sum_probs=54.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHh-hhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccchhhhh
Q 032024 44 TTFRAKEEEIEKKKLEVREKVQAHL-GRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKPLGHTCQ 118 (148)
Q Consensus 44 S~FrAKEEEIERkKmEVReKVqaqL-GRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPLgqtCq 118 (148)
..+++--..++..-..+.++|++++ .+++.-..+|..|-..+..|.+-+.-|....+..|+..+..|.--=..|+
T Consensus 59 E~~~~lq~~~e~~i~~~~~~v~~~~~~~~~~~~~~l~~L~~ri~~L~~~i~ee~~~r~~~ie~~~~~l~~~l~~l~ 134 (247)
T PF06705_consen 59 ESNKKLQSKFEEQINNMQERVENQISEKQEQLQSRLDSLNDRIEALEEEIQEEKEERPQDIEELNQELVRELNELQ 134 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 3444444455555566667776654 46677778889999999999999999999999999998887765444443
No 86
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.98 E-value=1.4e+02 Score=21.14 Aligned_cols=30 Identities=37% Similarity=0.558 Sum_probs=21.2
Q ss_pred HHHHHHHHHhhhhHHHHhhHHHHHHHHHhc
Q 032024 59 EVREKVQAHLGRVEEETKRLATIREELEAL 88 (148)
Q Consensus 59 EVReKVqaqLGRvEEETkRLA~IrEELE~l 88 (148)
++.+-++.++..++++..+|..++..|+.+
T Consensus 79 ~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~ 108 (123)
T cd04770 79 EVRALLEEKLAEVEAKIAELQALRAELAGL 108 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777777777777777777777654
No 87
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=23.65 E-value=1.6e+02 Score=25.96 Aligned_cols=51 Identities=25% Similarity=0.369 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhccccc
Q 032024 57 KLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELKP 112 (148)
Q Consensus 57 KmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLKP 112 (148)
.-++||||+.-++ .|+...|++|++.++==--++|...+|.|=.+=|.|--
T Consensus 275 ~~~lrekilsnms-----kR~~e~i~~el~~~gpi~~~dve~aq~~il~~~r~l~~ 325 (339)
T COG1536 275 SEELREKILSNMS-----KRAAEMLKEELEFLGPVRLSDVETAQKAILNIVRRLAE 325 (339)
T ss_pred CHHHHHHHHHhcc-----HHHHHHHHHHhhccCCccHHHHHHHHHHHHHHHHHHHH
Confidence 3478999988774 35566789999999875668999999998776665543
No 88
>TIGR01801 CM_A chorismate mutase domain of gram positive AroA protein. This model represents a small clade of chorismate mutase domains N-terminally fused to the first enzyme in the chorismate pathway, 2-dehydro-3-deoxyphosphoheptanoate aldolase (DAHP synthetase, AroA) which are found in some gram positive species and Deinococcus. Only in Deinococcus, where this domain is the sole CM domain in the genome can a trusted assignment of function be made. In the other species there is at least one other trusted CM domain present. The similarity between the Deinococcus gene and the others in this clade is sufficiently strong (~44% identity), that the whole clade can be trusted to be functional. The possibility exists, however, that in the gram positive species the fusion to the first enzyme in the pathway has evolved a separate, regulatory role.
Probab=23.45 E-value=48 Score=24.11 Aligned_cols=19 Identities=21% Similarity=0.517 Sum_probs=13.3
Q ss_pred HHHHHHHHHhhhhcccccc
Q 032024 95 EVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 95 EVa~VRKkID~vNreLKPL 113 (148)
+++.+|..||.++++|=-|
T Consensus 5 ~L~~lR~~ID~ID~eIl~L 23 (102)
T TIGR01801 5 SLEDLRAEVDQLNRQILAL 23 (102)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 3667788888888876443
No 89
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=23.20 E-value=3.9e+02 Score=23.63 Aligned_cols=63 Identities=32% Similarity=0.435 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccch----------hHHHHHHHHHHHhhhhccc
Q 032024 48 AKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADP----------MRKEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 48 AKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDP----------mRKEVa~VRKkID~vNreL 110 (148)
.++=+.-++.+++-++++.-+-.+.+.-.-+..|++++..|+|- +=++..-|||++|..+.++
T Consensus 144 ~k~le~~~k~~e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ 216 (294)
T COG1340 144 RKELEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEF 216 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 90
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=23.18 E-value=80 Score=21.65 Aligned_cols=19 Identities=47% Similarity=0.775 Sum_probs=14.9
Q ss_pred HHHHhhHHHHHHHHHhccch
Q 032024 72 EEETKRLATIREELEALADP 91 (148)
Q Consensus 72 EEETkRLA~IrEELE~laDP 91 (148)
|+|-++|++|-+.|.. .||
T Consensus 5 e~E~r~L~eiEr~L~~-~DP 23 (82)
T PF11239_consen 5 EHEQRRLEEIERQLRA-DDP 23 (82)
T ss_pred HHHHHHHHHHHHHHHh-cCc
Confidence 6788999999999854 344
No 91
>PRK14287 chaperone protein DnaJ; Provisional
Probab=23.09 E-value=1.5e+02 Score=25.57 Aligned_cols=25 Identities=20% Similarity=0.531 Sum_probs=20.0
Q ss_pred HHHHhhHHHHHHHHHhccchhHHHH
Q 032024 72 EEETKRLATIREELEALADPMRKEV 96 (148)
Q Consensus 72 EEETkRLA~IrEELE~laDPmRKEV 96 (148)
.++..+.++|.+.-|.|+||..+.+
T Consensus 40 ~~~~~~f~~i~~Ay~~L~d~~kR~~ 64 (371)
T PRK14287 40 PDAEDKFKEVKEAYDTLSDPQKKAH 64 (371)
T ss_pred hhHHHHHHHHHHHHHHhCcHhHHHH
Confidence 4455688999999999999986543
No 92
>PF13166 AAA_13: AAA domain
Probab=22.71 E-value=5.5e+02 Score=23.06 Aligned_cols=32 Identities=28% Similarity=0.347 Sum_probs=22.2
Q ss_pred HHHHHhhhhcccccchhh-----hhhhccccccccCC
Q 032024 99 VRKKIDSVNKELKPLGHT-----CQKKTYDNVCHRKE 130 (148)
Q Consensus 99 VRKkID~vNreLKPLgqt-----CqKKEkEY~~~~~~ 130 (148)
+..=+|.+|.+|+-||.+ +......|.++|..
T Consensus 457 ~~~~~~~iN~~L~~~g~~~~~l~~~~~~~~y~l~~~~ 493 (712)
T PF13166_consen 457 TEPAADRINEELKRLGFSNFSLEIVDDDKGYKLQRKG 493 (712)
T ss_pred hHHHHHHHHHHHHHhCCCCeEEEEecCCCeEEEEECC
Confidence 344458899999999733 22235679999964
No 93
>PRK11637 AmiB activator; Provisional
Probab=22.70 E-value=5e+02 Score=22.36 Aligned_cols=44 Identities=20% Similarity=0.385 Sum_probs=25.8
Q ss_pred HHHhhhhhhHHHHHHHHHHHHH---HHHHHhhhhHHHHhhHHHHHHH
Q 032024 41 SALTTFRAKEEEIEKKKLEVRE---KVQAHLGRVEEETKRLATIREE 84 (148)
Q Consensus 41 sAlS~FrAKEEEIERkKmEVRe---KVqaqLGRvEEETkRLA~IrEE 84 (148)
..|..|.+..++++..+.++.+ .+...+...+.+-..|.....|
T Consensus 170 ~~l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e 216 (428)
T PRK11637 170 ETIAELKQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNE 216 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566777777777777766643 3344555555555555554444
No 94
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=22.48 E-value=2.4e+02 Score=19.04 Aligned_cols=19 Identities=21% Similarity=0.529 Sum_probs=7.4
Q ss_pred HhhhhHHHHhhHHHHHHHH
Q 032024 67 HLGRVEEETKRLATIREEL 85 (148)
Q Consensus 67 qLGRvEEETkRLA~IrEEL 85 (148)
.|-.+..-...|......+
T Consensus 16 ~I~~i~~~v~~l~~l~~~~ 34 (117)
T smart00503 16 NIQKISQNVAELQKLHEEL 34 (117)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333343333333
No 95
>PRK14298 chaperone protein DnaJ; Provisional
Probab=22.26 E-value=1.4e+02 Score=25.79 Aligned_cols=25 Identities=16% Similarity=0.361 Sum_probs=20.0
Q ss_pred HHHHhhHHHHHHHHHhccchhHHHH
Q 032024 72 EEETKRLATIREELEALADPMRKEV 96 (148)
Q Consensus 72 EEETkRLA~IrEELE~laDPmRKEV 96 (148)
.+...++++|.+.-|.|+||..+.+
T Consensus 41 ~~~~~~f~~i~~Ay~vL~d~~kR~~ 65 (377)
T PRK14298 41 PDAEEKFKEISEAYAVLSDAEKRAQ 65 (377)
T ss_pred hhHHHHHHHHHHHHHHhcchHhhhh
Confidence 3455688999999999999986544
No 96
>PRK01156 chromosome segregation protein; Provisional
Probab=22.23 E-value=6.1e+02 Score=23.72 Aligned_cols=27 Identities=7% Similarity=0.383 Sum_probs=11.7
Q ss_pred HHHHHHhccchhHHHHHHHHHHHhhhhc
Q 032024 81 IREELEALADPMRKEVAVVRKKIDSVNK 108 (148)
Q Consensus 81 IrEELE~laDPmRKEVa~VRKkID~vNr 108 (148)
+.++|+.+.+ ...++..+++.|+.+++
T Consensus 714 l~eel~~~~~-~~~~l~~~~~~~~~l~~ 740 (895)
T PRK01156 714 LSDRINDINE-TLESMKKIKKAIGDLKR 740 (895)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 4444444333 22234555555554433
No 97
>TIGR01791 CM_archaeal chorismate mutase, archaeal type. This model represents a clade of archaeal chorismate mutases. Chorismate mutase catalyzes the conversion of chorismate into prephenate which is subsequently converted into either phenylalanine or tyrosine. In Sulfolobus this gene is found as a fusion with prephenate dehydrogenase (although the non-TIGR annotation contains a typographical error indicating it as a dehydratase) which is the next enzyme in the tyrosine biosynthesis pathway. The Archaeoglobus gene contains an N-terminal prephenate dehydrogenase domain and a C-terminal prephenate dehydratase domain followed by a regulatory amino acid-binding ACT domain. The Thermoplasma volcanium gene is adjacent to prephenate dehydratase.
Probab=22.23 E-value=30 Score=23.37 Aligned_cols=17 Identities=24% Similarity=0.528 Sum_probs=12.8
Q ss_pred HHHHHHHhhhhcccccc
Q 032024 97 AVVRKKIDSVNKELKPL 113 (148)
Q Consensus 97 a~VRKkID~vNreLKPL 113 (148)
+.+|+.||.++++|-.|
T Consensus 2 ~~lR~~Id~iD~~i~~L 18 (83)
T TIGR01791 2 EELRQEIEEIDKSILDL 18 (83)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45788888888887655
No 98
>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli.
Probab=22.06 E-value=3.1e+02 Score=20.54 Aligned_cols=51 Identities=27% Similarity=0.407 Sum_probs=32.1
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhhhcccc
Q 032024 44 TTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSVNKELK 111 (148)
Q Consensus 44 S~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~vNreLK 111 (148)
+++.....+|+.++.+|.++= +++.+. ..=||| .-|+-=++|++....+|+
T Consensus 63 ~l~~e~q~ki~~~~~kV~ere--------------~eL~eA-~~~G~~--~KI~K~~~KL~ea~~eL~ 113 (115)
T PF06476_consen 63 GLKAERQQKIAEKQQKVAERE--------------AELKEA-QAKGDS--DKIAKRQKKLAEAKAELK 113 (115)
T ss_pred hhhHHHHHHHHHHHHHHHHHH--------------HHHHHH-HHhCCH--HHHHHHHHHHHHHHHHHh
Confidence 356667777877777776542 122221 222788 567777778888888775
No 99
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=21.98 E-value=75 Score=24.01 Aligned_cols=35 Identities=29% Similarity=0.461 Sum_probs=25.6
Q ss_pred HHHHHHHHH--------hhhhHHHHhhHHHHHHHHHhccchhH
Q 032024 59 EVREKVQAH--------LGRVEEETKRLATIREELEALADPMR 93 (148)
Q Consensus 59 EVReKVqaq--------LGRvEEETkRLA~IrEELE~laDPmR 93 (148)
-|.|-|.-- .|--.|--|-|.++++||.+||.|.=
T Consensus 36 vV~DwvnfYINYy~~~~~GeqqeqdrAlqel~qeL~tla~pFL 78 (89)
T PF09236_consen 36 VVNDWVNFYINYYKKQMTGEQQEQDRALQELQQELNTLANPFL 78 (89)
T ss_dssp HHHHHHHHHHHHHHTT--SSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 456665433 35666777889999999999999963
No 100
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=21.85 E-value=2.9e+02 Score=20.93 Aligned_cols=64 Identities=30% Similarity=0.378 Sum_probs=39.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchh--------HHHHHHHHHHHhhhhcccccchhhhhh
Q 032024 48 AKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPM--------RKEVAVVRKKIDSVNKELKPLGHTCQK 119 (148)
Q Consensus 48 AKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPm--------RKEVa~VRKkID~vNreLKPLgqtCqK 119 (148)
++..+|++-.... -..+.+|++++. --...|.|||.+ .=|+....+|||.=|.||.-|-..|.+
T Consensus 3 ~k~~~i~~~Rl~~-~~lk~~l~k~~~-------ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~ 74 (177)
T PF13870_consen 3 QKRNEISKLRLKN-ITLKHQLAKLEE-------QLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGK 74 (177)
T ss_pred hHHHHHHHHHHHH-HHHHHHHHHHHH-------HHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444433332 123445555444 334455566554 468889999999999999999888765
No 101
>PRK07075 isochorismate-pyruvate lyase; Reviewed
Probab=21.73 E-value=52 Score=23.75 Aligned_cols=16 Identities=19% Similarity=0.538 Sum_probs=10.7
Q ss_pred HHHHHHHHhhhhcccc
Q 032024 96 VAVVRKKIDSVNKELK 111 (148)
Q Consensus 96 Va~VRKkID~vNreLK 111 (148)
++.+|..||.++++|=
T Consensus 10 L~~lR~~ID~ID~~iv 25 (101)
T PRK07075 10 LDDIREAIDRLDRDII 25 (101)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4457777777777653
No 102
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.60 E-value=4.5e+02 Score=21.43 Aligned_cols=36 Identities=19% Similarity=0.342 Sum_probs=23.7
Q ss_pred HHHHHHHHHhccchhHHHHHHHHHHHhhhhcccccc
Q 032024 78 LATIREELEALADPMRKEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 78 LA~IrEELE~laDPmRKEVa~VRKkID~vNreLKPL 113 (148)
+.+.-.+|+.=-+-++.|++..+.++|.++.++.-+
T Consensus 130 ~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~ 165 (206)
T PRK10884 130 SDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDK 165 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334455555556888888999988887776544
No 103
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=21.36 E-value=56 Score=20.59 Aligned_cols=13 Identities=38% Similarity=0.700 Sum_probs=10.5
Q ss_pred HHhccchhHHHHH
Q 032024 85 LEALADPMRKEVA 97 (148)
Q Consensus 85 LE~laDPmRKEVa 97 (148)
+.+|+||.|-+|=
T Consensus 4 ~~aL~~p~R~~Il 16 (61)
T PF12840_consen 4 FKALSDPTRLRIL 16 (61)
T ss_dssp HHHHTSHHHHHHH
T ss_pred HHHhCCHHHHHHH
Confidence 5789999998763
No 104
>cd02677 MIT_SNX15 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in sorting nexin 15 and related proteins. The molecular function of the MIT domain is unclear.
Probab=21.30 E-value=1.1e+02 Score=21.05 Aligned_cols=37 Identities=22% Similarity=0.361 Sum_probs=27.3
Q ss_pred HhhHHHHhhhhh--hHHHHHHHHHHHHHHHHHHhhhhHH
Q 032024 37 EMSRSALTTFRA--KEEEIEKKKLEVREKVQAHLGRVEE 73 (148)
Q Consensus 37 e~srsAlS~FrA--KEEEIERkKmEVReKVqaqLGRvEE 73 (148)
..=+.||..|.. |-|-=+.+|.-||.||..-|.|+|+
T Consensus 27 ~~Y~~~i~~~~~~~k~e~~~~~k~~ir~K~~eYl~RAE~ 65 (75)
T cd02677 27 EFYRAGVDLLLKGVQGDSSPERREAVKRKIAEYLKRAEE 65 (75)
T ss_pred HHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 344566766654 3334467899999999999999997
No 105
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=21.17 E-value=2.5e+02 Score=19.60 Aligned_cols=53 Identities=21% Similarity=0.258 Sum_probs=27.3
Q ss_pred hHHHHhhhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHHHHHHHHHHhhh
Q 032024 39 SRSALTTFRAKEEEIEKKKLEVREKVQAHLGRVEEETKRLATIREELEALADPMRKEVAVVRKKIDSV 106 (148)
Q Consensus 39 srsAlS~FrAKEEEIERkKmEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKEVa~VRKkID~v 106 (148)
-..|+.++.+-..||+.-|.+ ...|..=.++|..--.-++.|-..+.-||+.+
T Consensus 13 i~~aveti~~Lq~e~eeLke~---------------n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~L 65 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEK---------------NNELKEENEELKEENEQLKQERNAWQERLRSL 65 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH---------------HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666555555554443 22333333444444444456666666666654
No 106
>PRK07857 hypothetical protein; Provisional
Probab=21.15 E-value=56 Score=24.69 Aligned_cols=20 Identities=30% Similarity=0.562 Sum_probs=15.8
Q ss_pred HHHHHHHHHHhhhhcccccc
Q 032024 94 KEVAVVRKKIDSVNKELKPL 113 (148)
Q Consensus 94 KEVa~VRKkID~vNreLKPL 113 (148)
..+..+|+.||.++++|--|
T Consensus 28 ~~L~~lR~eID~ID~eIl~L 47 (106)
T PRK07857 28 AEIDELREEIDRLDAEILAL 47 (106)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 46778999999999887544
No 107
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=20.99 E-value=1.1e+02 Score=24.56 Aligned_cols=21 Identities=48% Similarity=0.639 Sum_probs=15.6
Q ss_pred HhhhhHHHHhhHHH-------HHHHHHh
Q 032024 67 HLGRVEEETKRLAT-------IREELEA 87 (148)
Q Consensus 67 qLGRvEEETkRLA~-------IrEELE~ 87 (148)
-|+|+|||..|-+. +|+.||.
T Consensus 65 ~l~rLeEEqqR~~~L~qvN~lLReQLEq 92 (182)
T PF15035_consen 65 ALIRLEEEQQRSEELAQVNALLREQLEQ 92 (182)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 78888888888877 6666654
No 108
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=20.98 E-value=2.4e+02 Score=20.04 Aligned_cols=26 Identities=23% Similarity=0.521 Sum_probs=11.8
Q ss_pred HHHHHHhccchhHHHHHHHHHHHhhh
Q 032024 81 IREELEALADPMRKEVAVVRKKIDSV 106 (148)
Q Consensus 81 IrEELE~laDPmRKEVa~VRKkID~v 106 (148)
++..|+.+.+-+.+=+..++.+|+.+
T Consensus 42 ~~~~l~~~~~~~~~~~~~ik~~lk~l 67 (151)
T cd00179 42 LKQELESLVQEIKKLAKEIKGKLKEL 67 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445444444444444444444433
No 109
>PF14000 Packaging_FI: DNA packaging protein FI
Probab=20.66 E-value=2.2e+02 Score=22.24 Aligned_cols=37 Identities=38% Similarity=0.603 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh-------hHHHHhhHHHHHHHHHhccc
Q 032024 49 KEEEIEKKKLEVREKVQAHLGR-------VEEETKRLATIREELEALAD 90 (148)
Q Consensus 49 KEEEIERkKmEVReKVqaqLGR-------vEEETkRLA~IrEELE~laD 90 (148)
|||-|.|.+ -+-.+||| +-|=+.|+|+.-|||...+|
T Consensus 2 Kee~l~RL~-----eLa~~LGRE~d~SGSaAeiaqRVAEwEEEl~~~~~ 45 (125)
T PF14000_consen 2 KEENLARLR-----ELAAQLGREPDMSGSAAEIAQRVAEWEEELDDSSD 45 (125)
T ss_pred hHHHHHHHH-----HHHHHhCcCCCccccHHHHHHHHHHHHHHHhcccC
Confidence 555555543 35678887 67788999999999995444
No 110
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.51 E-value=1.9e+02 Score=22.36 Aligned_cols=38 Identities=32% Similarity=0.386 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhhhhHHHHhhHHHHHHHHHhccchhHHH
Q 032024 58 LEVREKVQAHLGRVEEETKRLATIREELEALADPMRKE 95 (148)
Q Consensus 58 mEVReKVqaqLGRvEEETkRLA~IrEELE~laDPmRKE 95 (148)
..|+-++-+.+..-|+...+..++|+++|.||--.-|+
T Consensus 62 ~ivllkel~~~Aeseeake~irq~rq~~EklAg~lTkk 99 (103)
T COG4847 62 LIVLLKELAVIAESEEAKESIRQVRQEVEKLAGDLTKK 99 (103)
T ss_pred HHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666666777778888999999999999998544443
No 111
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=20.36 E-value=2.4e+02 Score=21.11 Aligned_cols=17 Identities=35% Similarity=0.608 Sum_probs=9.2
Q ss_pred HHHHHHHHHHhhhhccc
Q 032024 94 KEVAVVRKKIDSVNKEL 110 (148)
Q Consensus 94 KEVa~VRKkID~vNreL 110 (148)
+|+...+|.||.+...|
T Consensus 83 ~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 83 EEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 45555566666555443
No 112
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=20.32 E-value=1.8e+02 Score=21.11 Aligned_cols=30 Identities=30% Similarity=0.325 Sum_probs=21.3
Q ss_pred HHHHHHHHHhhhhHHHHhhHHHHHHHHHhc
Q 032024 59 EVREKVQAHLGRVEEETKRLATIREELEAL 88 (148)
Q Consensus 59 EVReKVqaqLGRvEEETkRLA~IrEELE~l 88 (148)
.+++-++.++..++++...|..++..|+.+
T Consensus 76 ~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 105 (124)
T TIGR02051 76 EMYELASRKLKSVQAKMADLLRIERLLEEL 105 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666777777777777777777777655
No 113
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.22 E-value=5.8e+02 Score=25.58 Aligned_cols=38 Identities=24% Similarity=0.211 Sum_probs=27.9
Q ss_pred HHHHHHHH---Hhccchh------HHHHHHHHHHHhhhhcccccchh
Q 032024 78 LATIREEL---EALADPM------RKEVAVVRKKIDSVNKELKPLGH 115 (148)
Q Consensus 78 LA~IrEEL---E~laDPm------RKEVa~VRKkID~vNreLKPLgq 115 (148)
|..+..++ +.|..++ .+|+..+++.|+.+..++.+.+.
T Consensus 774 l~~~~~~~~~~esL~~~v~~i~r~~~ei~~l~~qie~l~~~l~~~~~ 820 (1311)
T TIGR00606 774 LGTIMPEEESAKVCLTDVTIMERFQMELKDVERKIAQQAAKLQGSDL 820 (1311)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 34444444 6666666 88999999999998888887776
No 114
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=20.17 E-value=1.7e+02 Score=19.20 Aligned_cols=9 Identities=33% Similarity=0.785 Sum_probs=4.6
Q ss_pred HHHHHHHHH
Q 032024 58 LEVREKVQA 66 (148)
Q Consensus 58 mEVReKVqa 66 (148)
||+||.+..
T Consensus 11 mE~rE~le~ 19 (78)
T PF07743_consen 11 MELREELEE 19 (78)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 555555543
Done!