Query 035509
Match_columns 140
No_of_seqs 108 out of 372
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 03:32:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035509.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035509hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4747 Two-component phosphor 100.0 7.7E-29 1.7E-33 182.2 13.8 135 4-139 6-140 (150)
2 COG2198 ArcB FOG: HPt domain [ 99.7 1.2E-15 2.6E-20 108.9 12.0 95 37-133 20-117 (122)
3 PF01627 Hpt: Hpt domain; Int 99.7 7.5E-16 1.6E-20 102.4 9.6 83 44-128 1-89 (90)
4 smart00073 HPT Histidine Phosp 99.5 1.4E-14 3E-19 96.7 5.7 85 44-131 2-86 (87)
5 cd00088 HPT Histidine Phosphot 99.4 7.9E-13 1.7E-17 89.8 7.8 66 43-108 2-69 (94)
6 TIGR02956 TMAO_torS TMAO reduc 99.4 1.9E-12 4.1E-17 117.4 11.2 93 37-133 876-968 (968)
7 PRK11091 aerobic respiration c 99.1 9.1E-10 2E-14 98.6 11.9 98 37-136 678-775 (779)
8 PRK10618 phosphotransfer inter 98.9 5.6E-09 1.2E-13 96.2 10.2 84 41-126 808-891 (894)
9 PRK11466 hybrid sensory histid 98.6 2E-07 4.4E-12 84.6 10.3 88 37-135 820-907 (914)
10 PRK11107 hybrid sensory histid 98.6 6.3E-07 1.4E-11 81.0 12.5 96 37-134 821-917 (919)
11 COG0643 CheA Chemotaxis protei 97.9 0.0001 2.2E-09 67.0 10.6 80 40-119 4-92 (716)
12 PRK10547 chemotaxis protein Ch 97.9 0.00013 2.8E-09 65.9 10.6 67 43-109 4-79 (670)
13 PRK09959 hybrid sensory histid 97.0 0.021 4.5E-07 53.8 13.7 95 38-134 1098-1193(1197)
14 PRK15347 two component system 96.7 0.0077 1.7E-07 54.8 8.2 62 45-110 838-899 (921)
15 TIGR03042 PS_II_psbQ_bact phot 72.5 37 0.0008 25.2 8.6 73 52-136 47-140 (142)
16 PF13779 DUF4175: Domain of un 72.0 24 0.00051 33.2 8.3 42 83-124 530-571 (820)
17 TIGR02302 aProt_lowcomp conser 71.3 30 0.00065 32.7 8.8 44 84-127 561-604 (851)
18 KOG4747 Two-component phosphor 67.1 51 0.0011 24.7 8.7 59 38-99 12-70 (150)
19 TIGR00984 3a0801s03tim44 mitoc 64.9 23 0.0005 30.4 6.2 80 9-107 213-293 (378)
20 PF14276 DUF4363: Domain of un 60.2 15 0.00034 25.6 3.8 48 78-130 18-65 (121)
21 PLN00061 photosystem II protei 58.8 22 0.00048 26.6 4.5 62 15-80 25-87 (150)
22 PLN02956 PSII-Q subunit 58.1 86 0.0019 24.3 8.3 73 51-128 90-183 (185)
23 TIGR00714 hscB Fe-S protein as 56.1 81 0.0018 23.4 7.8 54 70-132 98-151 (157)
24 cd08323 CARD_APAF1 Caspase act 54.8 51 0.0011 22.2 5.4 65 11-79 17-82 (86)
25 PRK09591 celC cellobiose phosp 54.2 72 0.0016 22.2 6.9 44 96-139 23-66 (104)
26 PRK03636 hypothetical protein; 53.3 46 0.001 25.5 5.6 39 42-82 130-174 (179)
27 PRK03057 hypothetical protein; 52.0 47 0.001 25.5 5.5 37 44-82 131-173 (180)
28 PRK10454 PTS system N,N'-diace 51.8 85 0.0018 22.3 6.9 44 96-139 34-77 (115)
29 PF02845 CUE: CUE domain; Int 51.0 32 0.00069 19.5 3.5 35 26-60 4-38 (42)
30 KOG2424 Protein involved in tr 48.9 32 0.00069 26.8 4.0 36 84-124 146-181 (195)
31 COG2991 Uncharacterized protei 46.3 5 0.00011 26.6 -0.6 20 79-98 27-46 (77)
32 cd00215 PTS_IIA_lac PTS_IIA, P 46.3 95 0.0021 21.3 6.9 43 97-139 19-61 (97)
33 PF03993 DUF349: Domain of Unk 45.9 46 0.001 20.9 4.0 33 94-126 37-69 (77)
34 PRK01356 hscB co-chaperone Hsc 45.5 1.3E+02 0.0028 22.6 7.8 53 70-131 107-159 (166)
35 PF12854 PPR_1: PPR repeat 43.0 25 0.00055 19.0 2.1 21 99-119 13-33 (34)
36 PF11827 DUF3347: Protein of u 42.6 1.4E+02 0.0031 22.4 8.8 80 40-129 44-127 (174)
37 PF05218 DUF713: Protein of un 42.6 1.5E+02 0.0033 22.6 7.0 94 4-98 70-167 (182)
38 PF04722 Ssu72: Ssu72-like pro 41.9 36 0.00077 26.6 3.4 38 85-123 145-183 (195)
39 PF07743 HSCB_C: HSCB C-termin 41.8 91 0.002 19.8 7.0 39 41-81 28-66 (78)
40 PF13812 PPR_3: Pentatricopept 41.7 49 0.0011 16.7 3.1 22 100-121 8-29 (34)
41 COG5490 Uncharacterized conser 40.1 1.6E+02 0.0035 22.1 7.9 66 38-103 24-90 (158)
42 PF01535 PPR: PPR repeat; Int 40.0 43 0.00094 16.5 2.7 23 99-121 6-28 (31)
43 TIGR00823 EIIA-LAC phosphotran 39.8 1.2E+02 0.0027 20.8 6.9 43 97-139 21-63 (99)
44 COG1447 CelC Phosphotransferas 39.3 1.4E+02 0.0029 21.1 6.8 41 99-139 25-65 (105)
45 smart00546 CUE Domain that may 38.1 68 0.0015 18.1 3.5 36 25-60 4-39 (43)
46 PF03847 TFIID_20kDa: Transcri 37.4 1.1E+02 0.0024 19.6 5.1 46 7-63 2-47 (68)
47 COG2178 Predicted RNA-binding 37.3 1.9E+02 0.0041 22.8 6.8 47 90-136 26-72 (204)
48 TIGR00756 PPR pentatricopeptid 37.2 58 0.0013 16.2 2.9 22 100-121 7-28 (35)
49 PF09280 XPC-binding: XPC-bind 35.4 53 0.0011 20.6 2.9 37 25-62 8-44 (59)
50 PRK13916 plasmid segregation p 34.9 61 0.0013 22.2 3.3 27 27-53 21-47 (97)
51 PRK15178 Vi polysaccharide exp 34.4 1.4E+02 0.0031 26.1 6.3 120 8-134 184-306 (434)
52 KOG0796 Spliceosome subunit [R 34.4 2.8E+02 0.0061 23.3 11.0 73 40-121 83-159 (319)
53 PF03194 LUC7: LUC7 N_terminus 34.3 2.4E+02 0.0053 22.6 8.2 82 42-128 84-170 (254)
54 PF04049 APC8: Anaphase promot 33.6 1.3E+02 0.0028 21.9 5.2 83 2-88 5-104 (142)
55 COG0783 Dps DNA-binding ferrit 33.1 2.1E+02 0.0045 21.4 6.8 28 37-64 42-71 (156)
56 KOG3232 Vacuolar assembly/sort 33.0 1.9E+02 0.004 22.5 6.0 37 93-129 95-131 (203)
57 KOG1142 Transcription initiati 32.2 72 0.0016 26.0 3.8 48 7-65 157-204 (258)
58 PLN02407 diphosphomevalonate d 31.4 84 0.0018 26.6 4.3 32 45-78 224-256 (343)
59 PF08900 DUF1845: Domain of un 31.4 2.5E+02 0.0055 21.9 6.9 50 83-133 32-81 (217)
60 PF02631 RecX: RecX family; I 31.0 1.8E+02 0.0039 20.0 5.8 61 15-75 3-63 (121)
61 PRK12791 flbT flagellar biosyn 31.0 2.1E+02 0.0046 20.8 7.4 55 8-73 54-108 (131)
62 PRK03578 hscB co-chaperone Hsc 30.7 2.4E+02 0.0051 21.3 7.8 75 38-131 93-168 (176)
63 smart00388 HisKA His Kinase A 30.3 1.1E+02 0.0023 17.2 7.5 56 74-137 6-61 (66)
64 COG2603 Predicted ATPase [Gene 30.2 2.6E+02 0.0056 23.6 6.8 81 41-125 242-326 (334)
65 PF05227 CHASE3: CHASE3 domain 30.2 1.8E+02 0.0039 19.8 6.6 28 37-65 36-63 (138)
66 PF13326 PSII_Pbs27: Photosyst 30.2 2.3E+02 0.0049 20.9 7.4 86 44-130 44-145 (145)
67 KOG2833 Mevalonate pyrophospha 29.5 1E+02 0.0022 26.3 4.4 29 47-77 225-254 (395)
68 COG3046 Uncharacterized protei 28.8 1.2E+02 0.0025 26.9 4.7 65 39-109 227-291 (505)
69 smart00188 IL10 Interleukin-10 28.3 2.5E+02 0.0053 20.7 9.1 27 28-54 33-59 (137)
70 PF04840 Vps16_C: Vps16, C-ter 28.3 3.4E+02 0.0074 22.4 7.8 83 23-120 180-264 (319)
71 PF08657 DASH_Spc34: DASH comp 27.7 2.5E+02 0.0055 22.7 6.4 62 72-133 134-199 (259)
72 PF02255 PTS_IIA: PTS system, 27.4 2E+02 0.0044 19.5 7.0 42 98-139 19-60 (96)
73 TIGR03761 ICE_PFL4669 integrat 27.2 3.1E+02 0.0066 21.7 6.6 48 85-133 32-79 (216)
74 PF07304 SRA1: Steroid recepto 27.1 2.6E+02 0.0057 20.7 8.4 68 46-129 63-141 (157)
75 PF00726 IL10: Interleukin 10 26.3 1E+02 0.0022 23.4 3.6 33 22-56 61-93 (170)
76 PRK01773 hscB co-chaperone Hsc 26.2 2.9E+02 0.0063 20.8 7.9 74 38-130 90-163 (173)
77 PF04136 Sec34: Sec34-like fam 25.8 2.8E+02 0.006 20.5 8.2 107 27-135 27-143 (157)
78 KOG2580 Mitochondrial import i 25.3 1.9E+02 0.004 25.5 5.4 66 5-80 283-350 (459)
79 PF02153 PDH: Prephenate dehyd 25.2 2.9E+02 0.0063 21.7 6.3 23 53-77 233-255 (258)
80 PF13041 PPR_2: PPR repeat fam 23.9 1.2E+02 0.0027 17.1 3.0 24 98-121 8-31 (50)
81 COG4865 Glutamate mutase epsil 23.9 46 0.001 28.6 1.5 38 15-52 64-101 (485)
82 PRK08818 prephenate dehydrogen 23.4 2.8E+02 0.006 23.6 6.1 41 38-85 226-266 (370)
83 PF08858 IDEAL: IDEAL domain; 23.4 1.5E+02 0.0033 16.6 5.5 25 54-80 12-36 (37)
84 KOG0994 Extracellular matrix g 23.3 8E+02 0.017 25.0 12.5 61 71-131 1551-1615(1758)
85 TIGR03044 PS_II_psb27 photosys 23.1 3.1E+02 0.0068 20.2 7.0 89 43-132 31-134 (135)
86 cd07298 PX_RICS The phosphoino 22.8 83 0.0018 22.5 2.4 37 15-51 54-94 (115)
87 COG1220 HslU ATP-dependent pro 22.6 99 0.0021 26.8 3.2 30 71-100 374-403 (444)
88 PF09731 Mitofilin: Mitochondr 22.3 5.5E+02 0.012 22.7 10.1 114 4-121 430-551 (582)
89 PRK14729 miaA tRNA delta(2)-is 21.7 37 0.00081 28.0 0.5 25 2-26 196-220 (300)
90 PHA02666 hypothetical protein; 21.6 1.2E+02 0.0025 24.5 3.2 52 38-93 203-258 (287)
91 PF03858 Crust_neuro_H: Crusta 21.4 79 0.0017 18.5 1.7 23 70-92 5-27 (41)
92 PF14493 HTH_40: Helix-turn-he 21.4 1.9E+02 0.0041 19.0 3.9 38 38-76 51-88 (91)
93 TIGR01280 xseB exodeoxyribonuc 21.2 2.3E+02 0.005 18.0 5.2 56 1-62 1-57 (67)
94 cd00225 API3 Ascaris pepsin in 20.6 96 0.0021 23.4 2.4 51 30-88 28-78 (159)
95 PRK08582 hypothetical protein; 20.5 1.4E+02 0.003 21.6 3.3 26 39-65 103-128 (139)
96 PF04280 Tim44: Tim44-like dom 20.3 3.1E+02 0.0068 19.1 6.4 55 38-107 12-66 (147)
97 PF03981 Ubiq_cyt_C_chap: Ubiq 20.2 2.3E+02 0.0049 19.9 4.4 58 27-87 21-80 (141)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.96 E-value=7.7e-29 Score=182.25 Aligned_cols=135 Identities=33% Similarity=0.589 Sum_probs=131.5
Q ss_pred hhHHHHHHHHHhcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhcc
Q 035509 4 NPLHQQIATMRQSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKG 83 (140)
Q Consensus 4 ~~l~~~~~~~~~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKG 83 (140)
..++++..++.+|++++|++|++|.+|++|+++..|+||.+++..|++++++.|..|+.|+..+ .|+.+++.+-|.|||
T Consensus 6 ~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~-~d~k~~~~~~hqlkg 84 (150)
T KOG4747|consen 6 ISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCE-RDFKKLGSHVHQLKG 84 (150)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhH-hHHHHHHHHHHHccC
Confidence 3789999999999999999999999999999999999999999999999999999999999975 499999999999999
Q ss_pred chhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 84 LCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 84 SSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
||++|||.++..+|..++.+|+.+|.++|...+++++.||..++++|++|.+++||
T Consensus 85 ssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~rq 140 (150)
T KOG4747|consen 85 SSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLERQ 140 (150)
T ss_pred chhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999987
No 2
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.67 E-value=1.2e-15 Score=108.90 Aligned_cols=95 Identities=19% Similarity=0.371 Sum_probs=85.9
Q ss_pred CChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhc-CCHHHHHHH
Q 035509 37 DDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDN-GNIEGGKAA 115 (140)
Q Consensus 37 ~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~-~~~~~~~~~ 115 (140)
+.|+++.+++..|+++++..+..++.++..+ |+..+.+.||+||||++|+|+.+|+.+|.++|..++. ...+....+
T Consensus 20 ~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~~~~~~~~~~~ 97 (122)
T COG2198 20 GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRSGASLEELEEL 97 (122)
T ss_pred CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHcCCcHHHHHHH
Confidence 5699999999999999999999999999975 8899999999999999999999999999999999998 688999999
Q ss_pred HHHHHHH--HHHHHHHHHHH
Q 035509 116 LEKVKVE--QETLKAKLDSY 133 (140)
Q Consensus 116 l~~l~~e--f~~~~~~L~~~ 133 (140)
+..++.+ ...+...+.++
T Consensus 98 i~~l~~~~~~~~~~~~~~~~ 117 (122)
T COG2198 98 IAELKDELQLDVLALELLTY 117 (122)
T ss_pred HHHHHHHhcchHHHHHHHHH
Confidence 9999999 55555555444
No 3
>PF01627 Hpt: Hpt domain; InterPro: IPR008207 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents a domain present at the N terminus in proteins which undergo autophosphorylation. The group includes, the gliding motility regulatory protein from Myxococcus xanthus and a number of bacterial chemotaxis proteins.; GO: 0004871 signal transducer activity, 0000160 two-component signal transduction system (phosphorelay); PDB: 3KYJ_A 3KYI_A 3IQT_A 1Y6D_A 2LD6_A 1TQG_A 2R25_A 1OXB_A 1QSP_B 1C03_B ....
Probab=99.66 E-value=7.5e-16 Score=102.37 Aligned_cols=83 Identities=17% Similarity=0.368 Sum_probs=72.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHh---hcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHH---HHHHHH
Q 035509 44 DTVSLYFQETTKIIATLEEEF---VKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEG---GKAALE 117 (140)
Q Consensus 44 ~Li~~fl~d~~~~l~~l~~Al---~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~---~~~~l~ 117 (140)
+|++.|++++++.+..|+.++ ..+ |++.+++.+|+|||+++++|+.+++.+|..+|..++.++.+. +...+.
T Consensus 1 ell~~f~~~~~~~~~~l~~~~~~~~~~--d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~ 78 (90)
T PF01627_consen 1 ELLDIFLEEAPEDLEQLEQALQALEQE--DWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLD 78 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSSHHC--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHh--hHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence 589999999999999999999 644 999999999999999999999999999999999999998888 566666
Q ss_pred HHHHHHHHHHH
Q 035509 118 KVKVEQETLKA 128 (140)
Q Consensus 118 ~l~~ef~~~~~ 128 (140)
.+...++++.+
T Consensus 79 ~l~~~l~~l~~ 89 (90)
T PF01627_consen 79 ELEAMLEQLRQ 89 (90)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhC
Confidence 66666555543
No 4
>smart00073 HPT Histidine Phosphotransfer domain. Contains an active histidine residue that mediates phosphotransfer reactions. Domain detected only in eubacteria. This alignment is an extension to that shown in the Cell structure paper.
Probab=99.53 E-value=1.4e-14 Score=96.73 Aligned_cols=85 Identities=16% Similarity=0.175 Sum_probs=73.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHH
Q 035509 44 DTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQ 123 (140)
Q Consensus 44 ~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef 123 (140)
+++..|+++.+..+..|+.++.. .|+..+++.+|+||||++|+|+..|..+|..+|..++... ++...+...+...|
T Consensus 2 e~~~~f~~~~~~~l~~l~~~~~~--~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~-~~~~~~~~~l~~~~ 78 (87)
T smart00073 2 EELAEFLQSLEEGLLELEKALDA--QDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR-SGEVELTPDLLDLL 78 (87)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCH--hHHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHH
Confidence 67899999999999999999974 4999999999999999999999999999999999888644 44446778888888
Q ss_pred HHHHHHHH
Q 035509 124 ETLKAKLD 131 (140)
Q Consensus 124 ~~~~~~L~ 131 (140)
..+...|.
T Consensus 79 ~~~~~~l~ 86 (87)
T smart00073 79 LELVDVLK 86 (87)
T ss_pred HHHHHHHc
Confidence 88777664
No 5
>cd00088 HPT Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is modulated by phosphorylation and dephosphorylation of a conserved aspartic acid residue; two-component proteins are abundant in most eubacteria; In E. coli there are 62 two-component proteins involved in a variety of processes such as chemotaxis, osmoregulation, metabolism and transport 1; also present in both Gram positive and Gram negative pathogenic bacteria where they regulate basic housekeeping functions and control expression of toxins and other proteins important for pathogenesis; in archaea and eukaryotes, two-component pathways constitute a very small number of all signaling systems; in fungi they mediate environmental stress responses and, in pathogenic yeast, hyphal development. In Dictyostelium and in plants, they are i
Probab=99.42 E-value=7.9e-13 Score=89.80 Aligned_cols=66 Identities=21% Similarity=0.404 Sum_probs=59.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhhc--CCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCC
Q 035509 43 EDTVSLYFQETTKIIATLEEEFVK--DPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGN 108 (140)
Q Consensus 43 ~~Li~~fl~d~~~~l~~l~~Al~~--~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~ 108 (140)
.+++..|+++.+..+..|..++.+ .+.|+..++..+|+||||++++|+.+|..+|..+|..++.+.
T Consensus 2 ~~l~~~f~~~~~~~l~~l~~~~~~~~~~~d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~lE~~~~~~~ 69 (94)
T cd00088 2 EELLELFLEEAEELLEELERALLELEDAEDLNEIFRAAHTLKGSAASLGLQRLAQLAHQLEDLLDALR 69 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhHHhcCChHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999999981 123999999999999999999999999999999999988753
No 6
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=99.40 E-value=1.9e-12 Score=117.41 Aligned_cols=93 Identities=17% Similarity=0.247 Sum_probs=87.6
Q ss_pred CChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHH
Q 035509 37 DDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAAL 116 (140)
Q Consensus 37 ~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l 116 (140)
.|++.+.+++..|+++++..+..|..++..+ |+..+++.+|.|||+++++||.+++.+|..+|..++.++. ....+
T Consensus 876 ~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~--~~~~~ 951 (968)
T TIGR02956 876 LGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGAL--ELSDI 951 (968)
T ss_pred cCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCc--chhHH
Confidence 5788999999999999999999999999865 9999999999999999999999999999999999999988 46889
Q ss_pred HHHHHHHHHHHHHHHHH
Q 035509 117 EKVKVEQETLKAKLDSY 133 (140)
Q Consensus 117 ~~l~~ef~~~~~~L~~~ 133 (140)
+.++..|..+..+|++|
T Consensus 952 ~~l~~~~~~~~~~l~~~ 968 (968)
T TIGR02956 952 DEIKQAWQASKTALDQW 968 (968)
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 99999999999999875
No 7
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.10 E-value=9.1e-10 Score=98.58 Aligned_cols=98 Identities=13% Similarity=0.166 Sum_probs=92.5
Q ss_pred CChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHH
Q 035509 37 DDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAAL 116 (140)
Q Consensus 37 ~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l 116 (140)
.++..+...+..|.+..+..+..|..++..+ |+..+...||.+||+++++|+..++.+|..+|.....+.++....++
T Consensus 678 ~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~ 755 (779)
T PRK11091 678 VGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAWWDNVQDWV 755 (779)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccccHHHHHHHH
Confidence 4677888999999999999999999999865 99999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 035509 117 EKVKVEQETLKAKLDSYFQL 136 (140)
Q Consensus 117 ~~l~~ef~~~~~~L~~~l~~ 136 (140)
++++.+|.....+|+.|+.-
T Consensus 756 ~~l~~~~~~~~~~~~~~~~~ 775 (779)
T PRK11091 756 EELKNEWRHDVEVLKAWLAQ 775 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999874
No 8
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=98.93 E-value=5.6e-09 Score=96.18 Aligned_cols=84 Identities=14% Similarity=0.173 Sum_probs=77.3
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Q 035509 41 FAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVK 120 (140)
Q Consensus 41 fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~ 120 (140)
+...+...|++..|.-+..|..++.++ |+.++.+.||.|||+++++|+..++.+|.+||..++.++..++...+.+|.
T Consensus 808 ~~s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~~i~~~i~~id 885 (894)
T PRK10618 808 HASDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEPGIENYISDID 885 (894)
T ss_pred hhhhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChHHHHHHHHHHH
Confidence 344567899999999999999999976 999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHH
Q 035509 121 VEQETL 126 (140)
Q Consensus 121 ~ef~~~ 126 (140)
..+.++
T Consensus 886 ~~v~~l 891 (894)
T PRK10618 886 SFVKSL 891 (894)
T ss_pred HHHHHH
Confidence 876654
No 9
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.64 E-value=2e-07 Score=84.56 Aligned_cols=88 Identities=13% Similarity=0.181 Sum_probs=70.8
Q ss_pred CChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHH
Q 035509 37 DDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAAL 116 (140)
Q Consensus 37 ~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l 116 (140)
.+++.+.+++..|.+.++..+..++.+...+ |+..++..||.+||+++++|+..++.+|.++|..+...
T Consensus 820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~~~--------- 888 (914)
T PRK11466 820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPLSA--------- 888 (914)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCCc---------
Confidence 4667788999999999999999999998865 89999999999999999999999999999999975432
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035509 117 EKVKVEQETLKAKLDSYFQ 135 (140)
Q Consensus 117 ~~l~~ef~~~~~~L~~~l~ 135 (140)
..+..++.+...+|+.++.
T Consensus 889 ~~~~~~~~~~~~~~~~~~~ 907 (914)
T PRK11466 889 PLPHEEITRSVAALEAWLA 907 (914)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 1233444445555555543
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.61 E-value=6.3e-07 Score=80.98 Aligned_cols=96 Identities=17% Similarity=0.271 Sum_probs=82.1
Q ss_pred CChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcC-CHHHHHHH
Q 035509 37 DDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNG-NIEGGKAA 115 (140)
Q Consensus 37 ~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~-~~~~~~~~ 115 (140)
+.++...+++..|.++.+..+..|..++... |...++..+|.+||+++++|+.++..+|..+|..++.+ ..+.....
T Consensus 821 ~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~ 898 (919)
T PRK11107 821 GKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGTSVEDLEPE 898 (919)
T ss_pred CCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCChhhHHHH
Confidence 4567888999999999999999999999865 89999999999999999999999999999999998876 45666666
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035509 116 LEKVKVEQETLKAKLDSYF 134 (140)
Q Consensus 116 l~~l~~ef~~~~~~L~~~l 134 (140)
+..+..++.++..++.+++
T Consensus 899 ~~~~~~~~~~~~~~~~~~~ 917 (919)
T PRK11107 899 LLELLDEMENVARAAKKVL 917 (919)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 7777777777777766654
No 11
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.91 E-value=0.0001 Score=66.99 Aligned_cols=80 Identities=21% Similarity=0.348 Sum_probs=61.5
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhh---cCCCCH---HHHHHHhhhhccchhhcChHHHHHHHHHHHHH---hhcCCHH
Q 035509 40 AFAEDTVSLYFQETTKIIATLEEEFV---KDPIDY---NALEKCLHDFKGLCVSIGASKVLIEVNKARAC---CDNGNIE 110 (140)
Q Consensus 40 ~fv~~Li~~fl~d~~~~l~~l~~Al~---~~~~D~---~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~---~~~~~~~ 110 (140)
.-..++.+.|++++++++..|..++- ..+.|. .++.+.||+|||+++.+|...++.+|-.+|.. .|.|...
T Consensus 4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~~ 83 (716)
T COG0643 4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGELE 83 (716)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCcc
Confidence 34568899999999999999998654 223344 47788999999999999999999999999984 6666554
Q ss_pred HHHHHHHHH
Q 035509 111 GGKAALEKV 119 (140)
Q Consensus 111 ~~~~~l~~l 119 (140)
--..++..+
T Consensus 84 ~~~~l~d~~ 92 (716)
T COG0643 84 LTSELLDLL 92 (716)
T ss_pred CcHHHHHHH
Confidence 333444433
No 12
>PRK10547 chemotaxis protein CheA; Provisional
Probab=97.88 E-value=0.00013 Score=65.90 Aligned_cols=67 Identities=19% Similarity=0.361 Sum_probs=55.4
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhh---cCCCC---HHHHHHHhhhhccchhhcChHHHHHHHHHHHHH---hhcCCH
Q 035509 43 EDTVSLYFQETTKIIATLEEEFV---KDPID---YNALEKCLHDFKGLCVSIGASKVLIEVNKARAC---CDNGNI 109 (140)
Q Consensus 43 ~~Li~~fl~d~~~~l~~l~~Al~---~~~~D---~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~---~~~~~~ 109 (140)
.+++..|++++.++|+.|+..+- ..+.| ...+-+.+|++||+|+.+|...+..+|-.+|.. .|.|..
T Consensus 4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~lld~vR~g~l 79 (670)
T PRK10547 4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLLDEARRGEM 79 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHHHHHHCCCC
Confidence 47889999999999999998864 33335 346778999999999999999999999999985 555643
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=96.98 E-value=0.021 Score=53.81 Aligned_cols=95 Identities=14% Similarity=0.195 Sum_probs=74.2
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCC-HHHHHHHH
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGN-IEGGKAAL 116 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~-~~~~~~~l 116 (140)
....+.+++..+...+...+..+..+...+ |...++.++|.+||++..+|+..+...|.++|......+ .+.....+
T Consensus 1098 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~~~~l~~~~ 1175 (1197)
T PRK09959 1098 DLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDSKPEILQLL 1175 (1197)
T ss_pred CHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCchHHHHHHH
Confidence 446778888999999999888888888866 889999999999999999999999999999998876554 34455556
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 035509 117 EKVKVEQETLKAKLDSYF 134 (140)
Q Consensus 117 ~~l~~ef~~~~~~L~~~l 134 (140)
..+..........++.++
T Consensus 1176 ~~~~~~~~~~~~~~~~~~ 1193 (1197)
T PRK09959 1176 NSVKEHIAELDQEIAVFC 1193 (1197)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 655555555555555443
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.70 E-value=0.0077 Score=54.75 Aligned_cols=62 Identities=21% Similarity=0.313 Sum_probs=51.6
Q ss_pred HHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHH
Q 035509 45 TVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIE 110 (140)
Q Consensus 45 Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~ 110 (140)
+-..+.+.....+..+..++..+ | .++..+|.+||+++++|+.++...|.++|..++.+...
T Consensus 838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~~ 899 (921)
T PRK15347 838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEIL 899 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCCC
Confidence 44555566678888888888754 4 89999999999999999999999999999998877543
No 15
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=72.50 E-value=37 Score=25.19 Aligned_cols=73 Identities=14% Similarity=0.203 Sum_probs=43.8
Q ss_pred hHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHH---------------------HHHHHHHHHhhcCCHH
Q 035509 52 ETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVL---------------------IEVNKARACCDNGNIE 110 (140)
Q Consensus 52 d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~---------------------~lc~~lE~~~~~~~~~ 110 (140)
.+.+++.++...++++ ||..++...| |+.+.++-.-.. +--..|-.+++.+|
T Consensus 47 ~~~~r~~eLk~lI~kk--~W~~vrn~ir---gp~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD~AA~~kd-- 119 (142)
T TIGR03042 47 AAKDRLPELASLVAKE--DWVFTRNLIH---GPMGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLDEAARLQD-- 119 (142)
T ss_pred HHHHhhHHHHHHHhhc--chHHHHHHHh---ccHHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHHHHHHhcC--
Confidence 3667777888888765 7888885544 666665532211 11122222333333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 111 GGKAALEKVKVEQETLKAKLDSYFQL 136 (140)
Q Consensus 111 ~~~~~l~~l~~ef~~~~~~L~~~l~~ 136 (140)
-.+.+..|.++.+.|+.|+++
T Consensus 120 -----~~~a~k~Y~~av~~~dafl~~ 140 (142)
T TIGR03042 120 -----GPQAQKAYQKAAADFDAYLDL 140 (142)
T ss_pred -----HHHHHHHHHHHHHHHHHHHhh
Confidence 335567788888888888875
No 16
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=72.01 E-value=24 Score=33.24 Aligned_cols=42 Identities=12% Similarity=0.242 Sum_probs=37.7
Q ss_pred cchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 035509 83 GLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQE 124 (140)
Q Consensus 83 GSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~ 124 (140)
+.+.+++..-|.....+||+..++|+.+.+.++|+++++-.+
T Consensus 530 ~~~~~~~~~dL~~mmd~ie~la~~G~~~~A~q~L~qlq~mme 571 (820)
T PF13779_consen 530 GNSQMMSQQDLQRMMDRIEELARSGRMDEARQLLEQLQQMME 571 (820)
T ss_pred hhhhccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 556789999999999999999999999999999998887554
No 17
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=71.33 E-value=30 Score=32.71 Aligned_cols=44 Identities=9% Similarity=0.135 Sum_probs=38.3
Q ss_pred chhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHH
Q 035509 84 LCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLK 127 (140)
Q Consensus 84 SSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~ 127 (140)
.+.+++-.-|......||+..++|+.+.+.++|+++++-.+...
T Consensus 561 ~~~~l~~~dLq~Mmd~ieela~~G~~~~A~qlL~qlq~mmenlq 604 (851)
T TIGR02302 561 NTKVLRQQDLQNMMDQIENLARSGDRDQAKQLLSQLQQMMNNLQ 604 (851)
T ss_pred cccccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence 35779999999999999999999999999999999887655443
No 18
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=67.09 E-value=51 Score=24.70 Aligned_cols=59 Identities=10% Similarity=0.058 Sum_probs=47.6
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHH
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNK 99 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~ 99 (140)
-.+|-..|+..++.| ..+.+|.+......+|+ -..-..|.||+|+.-||-.+.+-.|..
T Consensus 12 ~~d~~~sl~~qgild--~qF~qlq~lqD~~~p~f-v~ev~~~fF~~s~~~i~~~r~ald~~~ 70 (150)
T KOG4747|consen 12 VSDYTKSLFDQGILD--SQFLQLQELQDDSSPDF-VEEVVGLFFEDSERLINNLRLALDCER 70 (150)
T ss_pred HHHHHHHHHHHHhhH--HHHHHHHHHhcccCccH-HHHHHHHHHHHHHHHHHHHHHHHhhHh
Confidence 346778888888888 77889998887655555 455677999999999999999999984
No 19
>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.
Probab=64.93 E-value=23 Score=30.36 Aligned_cols=80 Identities=13% Similarity=0.287 Sum_probs=58.0
Q ss_pred HHHHHHhcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHH-HHHHHHHhhcCCCCHHHHHHHhhhhccchhh
Q 035509 9 QIATMRQSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKI-IATLEEEFVKDPIDYNALEKCLHDFKGLCVS 87 (140)
Q Consensus 9 ~~~~~~~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~-l~~l~~Al~~~~~D~~~l~~~aH~LKGSSas 87 (140)
++...+.++|.+.=+-..+.+++.+. |.|- +..|+..+... +..|-.|...+ |.+.|+.+++.
T Consensus 213 kv~~~~~~lF~ete~a~~l~eIk~~D----PsFd---~~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~lse------- 276 (378)
T TIGR00984 213 KIGGVFSGMFSETEVSEVLTEFKKID----PTFD---KEHFLRFLREYIVPEILEAYVKG--DLEVLKSWCSE------- 276 (378)
T ss_pred hhhhhhhcccCCCHHHHHHHHHHHhC----CCCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhhCH-------
Confidence 44456666888887777788888884 5554 46788888888 68899999976 99999987643
Q ss_pred cChHHHHHHHHHHHHHhhcC
Q 035509 88 IGASKVLIEVNKARACCDNG 107 (140)
Q Consensus 88 iGA~~l~~lc~~lE~~~~~~ 107 (140)
......|..+++....|
T Consensus 277 ---~vy~~f~a~I~qr~~~G 293 (378)
T TIGR00984 277 ---APFSVYATVVKEYKKMG 293 (378)
T ss_pred ---HHHHHHHHHHHHHHHCC
Confidence 35556666777766665
No 20
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=60.18 E-value=15 Score=25.60 Aligned_cols=48 Identities=10% Similarity=0.113 Sum_probs=31.8
Q ss_pred hhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHH
Q 035509 78 LHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKL 130 (140)
Q Consensus 78 aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L 130 (140)
.|.+++++ ..+...+..+++..+.++++.+...++.+...|.+.+..+
T Consensus 18 ~~~l~~~~-----~~i~~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~ 65 (121)
T PF14276_consen 18 NNYLNNST-----DSIEEQLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRW 65 (121)
T ss_pred HhhhhhHH-----HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchhe
Confidence 35555554 3445667777777777777777777777777777665553
No 21
>PLN00061 photosystem II protein Psb27; Provisional
Probab=58.83 E-value=22 Score=26.59 Aligned_cols=62 Identities=15% Similarity=0.293 Sum_probs=43.9
Q ss_pred hcccchhhhHHHHHHHHhcccCCChh-HHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhh
Q 035509 15 QSFLDEEILNDQFIQLESMATEDDPA-FAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHD 80 (140)
Q Consensus 15 ~~~~~~~~lD~~f~~L~~L~~~~~~~-fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~ 80 (140)
+.-.++|+++ .+..|.|++..- -=..|=..|.+|+-..+..|+++|+.++.|-..+++.+..
T Consensus 25 ~~~~~~~~~~----~~~~~fdp~e~tksg~~Lpg~Y~kdtr~VV~tLresl~l~p~D~~~~~~aa~~ 87 (150)
T PLN00061 25 KVEEGEGVVG----AIKSLFDPNEKTKSGKKLPKAYLKSAREVVKTLRESLKEDPKDEAKFRRTADA 87 (150)
T ss_pred cccccccHHH----HHHHhcCccccccccccCchHHHHHHHHHHHHHHHHHccCCcchHHHHHHHHH
Confidence 3445667777 777777664321 1135678999999999999999999766687777665444
No 22
>PLN02956 PSII-Q subunit
Probab=58.11 E-value=86 Score=24.30 Aligned_cols=73 Identities=7% Similarity=0.095 Sum_probs=46.6
Q ss_pred HhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcC---------------------hHHHHHHHHHHHHHhhcCCH
Q 035509 51 QETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIG---------------------ASKVLIEVNKARACCDNGNI 109 (140)
Q Consensus 51 ~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiG---------------------A~~l~~lc~~lE~~~~~~~~ 109 (140)
..+.+-|-.|+..|+.+ +|.-++.. |.|+++.++ |..|.+--.+|..+++.++.
T Consensus 90 k~~A~~l~~LK~LI~k~--~W~yvrn~---LRgp~s~Lr~DL~~Ii~slpp~Drk~a~~La~~LFd~l~~LD~AAR~kd~ 164 (185)
T PLN02956 90 RGHAENLLRVKALIESE--SWKEAQKA---LRRSASNLKQDLYAIIQAKPGKDRPQLRRLYSDLFNSVTKLDYAARDKDE 164 (185)
T ss_pred HHHHHHHHHHHHHhhhc--cHHHHHHH---HHccHHHHHHHHHHHHHhcCHhHhHHHHHHHHHHHHHHHHHHHHHhcCCH
Confidence 34455556777777755 77777754 446666665 34455555667777888877
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035509 110 EGGKAALEKVKVEQETLKA 128 (140)
Q Consensus 110 ~~~~~~l~~l~~ef~~~~~ 128 (140)
..+....+.....|+.+.+
T Consensus 165 ~~a~k~Y~~tva~lD~Vl~ 183 (185)
T PLN02956 165 TRVWEYYENIVASLDDIFS 183 (185)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 7776666666666665554
No 23
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=56.06 E-value=81 Score=23.35 Aligned_cols=54 Identities=15% Similarity=0.143 Sum_probs=35.9
Q ss_pred CHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 70 DYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDS 132 (140)
Q Consensus 70 D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~ 132 (140)
|...+..+.+.++ .++..+...++.+-..++++.+...+.+++= |..+...+..
T Consensus 98 d~~~L~~l~~~~~--------~~~~~~~~~l~~~~~~~d~~~A~~~~~kLky-~~kl~~~i~~ 151 (157)
T TIGR00714 98 DEARLESFIKRVK--------KMFQTRHQLLVEQLDNQTWAAAADYTRKLRF-LDKLRSSAEQ 151 (157)
T ss_pred CHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 5667777666655 4667777777777777888888877776654 4444444443
No 24
>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1. Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effect
Probab=54.78 E-value=51 Score=22.16 Aligned_cols=65 Identities=12% Similarity=0.222 Sum_probs=47.2
Q ss_pred HHHHhcccchhhhHHH-HHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhh
Q 035509 11 ATMRQSFLDEEILNDQ-FIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLH 79 (140)
Q Consensus 11 ~~~~~~~~~~~~lD~~-f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH 79 (140)
..++..+..+|+++.. .+.++.-. ...+=...||++-..-++.-......|+... .|+.+..+.|
T Consensus 17 ~~ild~L~~~gvlt~~~~e~I~~~~--t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~ 82 (86)
T cd08323 17 SYIMDHMISDGVLTLDEEEKVKSKA--TQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLH 82 (86)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHcCC--ChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHh
Confidence 4567778888898865 77777642 3355667888888888888888888888742 4777776655
No 25
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=54.20 E-value=72 Score=22.22 Aligned_cols=44 Identities=20% Similarity=0.174 Sum_probs=35.5
Q ss_pred HHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 96 EVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 96 lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
.|.+.=..+++|+++.+..++..-+.+|..+...=..+++-|.+
T Consensus 23 ~~~eAl~~ak~gdf~~A~~~l~eA~~~l~~AH~~qt~liq~Ea~ 66 (104)
T PRK09591 23 EVHEAFAAMREGNFDLAEQKLNQSNEELLEAHHAQTKLLQEYAS 66 (104)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34444556899999999999999999999998887777776654
No 26
>PRK03636 hypothetical protein; Provisional
Probab=53.28 E-value=46 Score=25.52 Aligned_cols=39 Identities=10% Similarity=0.309 Sum_probs=29.9
Q ss_pred HHHHHHHHHHh------HHHHHHHHHHHhhcCCCCHHHHHHHhhhhc
Q 035509 42 AEDTVSLYFQE------TTKIIATLEEEFVKDPIDYNALEKCLHDFK 82 (140)
Q Consensus 42 v~~Li~~fl~d------~~~~l~~l~~Al~~~~~D~~~l~~~aH~LK 82 (140)
...+++.+++. -.+++..|.+||+.+ |-+++.+++..||
T Consensus 130 ~~~~ae~~L~~~~~~~r~~~L~~~ID~ALd~~--D~e~F~~Ls~~l~ 174 (179)
T PRK03636 130 DRLLAEQFLEQSVFQFRREKLLKQIDEALDRR--DKEAFHRLSDELN 174 (179)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence 34555666665 467889999999976 8999999888776
No 27
>PRK03057 hypothetical protein; Provisional
Probab=51.96 E-value=47 Score=25.53 Aligned_cols=37 Identities=8% Similarity=0.298 Sum_probs=28.6
Q ss_pred HHHHHHHHh------HHHHHHHHHHHhhcCCCCHHHHHHHhhhhc
Q 035509 44 DTVSLYFQE------TTKIIATLEEEFVKDPIDYNALEKCLHDFK 82 (140)
Q Consensus 44 ~Li~~fl~d------~~~~l~~l~~Al~~~~~D~~~l~~~aH~LK 82 (140)
..++.|++. -.++...|..||..+ |.+.+.++++.||
T Consensus 131 ~~ae~~L~~~~~~~~~~~L~~~ID~ALd~~--D~e~F~~Lt~~L~ 173 (180)
T PRK03057 131 KETEQVLDEVLKRNEVSRLRMQIDQALDRK--DMEEFQRLTEKLK 173 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHH
Confidence 456666666 566778899999976 8899988887775
No 28
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=51.78 E-value=85 Score=22.34 Aligned_cols=44 Identities=9% Similarity=0.083 Sum_probs=35.9
Q ss_pred HHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 96 EVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 96 lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
.|-+.=..+++|+++.+..++..-+..|.++...=..+++-|.+
T Consensus 34 ~~~eAl~~Ak~gdfe~A~~~l~eA~e~l~~AH~~qt~Liq~Ea~ 77 (115)
T PRK10454 34 LAYAALKQAKQGDFAAAKAMMDQSRMALNEAHLVQTKLIEGDQG 77 (115)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444456999999999999999999999998887787776654
No 29
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=50.96 E-value=32 Score=19.52 Aligned_cols=35 Identities=20% Similarity=0.173 Sum_probs=26.3
Q ss_pred HHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHH
Q 035509 26 QFIQLESMATEDDPAFAEDTVSLYFQETTKIIATL 60 (140)
Q Consensus 26 ~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l 60 (140)
.+..|++|.+.-+++++..++..+-.+.+..+..|
T Consensus 4 ~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~L 38 (42)
T PF02845_consen 4 MVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDAL 38 (42)
T ss_dssp HHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 36788899888888888888887777777666554
No 30
>KOG2424 consensus Protein involved in transcription start site selection [Transcription]
Probab=48.85 E-value=32 Score=26.78 Aligned_cols=36 Identities=17% Similarity=0.179 Sum_probs=24.5
Q ss_pred chhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 035509 84 LCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQE 124 (140)
Q Consensus 84 SSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~ 124 (140)
.-|.+||..+.++|..++. ++.+ ....++.|-.+|+
T Consensus 146 EdA~~Gaf~I~elcq~l~~--~s~d---~Ed~ideil~~~e 181 (195)
T KOG2424|consen 146 EDATLGAFLILELCQCLQA--QSDD---LEDNIDEILLEFE 181 (195)
T ss_pred HhhhhhHHHHHHHHHHHHh--cccc---HHHHHHHHHHHHH
Confidence 3578999999999999997 3333 3444444444443
No 31
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.32 E-value=5 Score=26.56 Aligned_cols=20 Identities=25% Similarity=0.345 Sum_probs=18.0
Q ss_pred hhhccchhhcChHHHHHHHH
Q 035509 79 HDFKGLCVSIGASKVLIEVN 98 (140)
Q Consensus 79 H~LKGSSasiGA~~l~~lc~ 98 (140)
-++|||++-|+|..+...|.
T Consensus 27 k~I~GSCGGi~alGi~K~Cd 46 (77)
T COG2991 27 KSIKGSCGGIAALGIEKVCD 46 (77)
T ss_pred cccccccccHHhhccchhcC
Confidence 57999999999999998887
No 32
>cd00215 PTS_IIA_lac PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. This family of proteins normally function as a homotrimer, stabilized by a centrally located metal ion. Separation into subunits is thought to occur after phosphorylation.
Probab=46.29 E-value=95 Score=21.30 Aligned_cols=43 Identities=12% Similarity=0.110 Sum_probs=35.0
Q ss_pred HHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 97 VNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 97 c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
|.+.=..+++|+++.+..++.+-+.+|.++...=..+++-|.+
T Consensus 19 ~~eAl~~a~~g~fe~A~~~l~ea~~~l~~AH~~qt~liq~ea~ 61 (97)
T cd00215 19 ALEALKAAKEGDFAEAEELLEEANDSLNEAHHAQTKLLQQEAS 61 (97)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3344456999999999999999999999998887777776654
No 33
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=45.91 E-value=46 Score=20.87 Aligned_cols=33 Identities=9% Similarity=0.189 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHH
Q 035509 94 LIEVNKARACCDNGNIEGGKAALEKVKVEQETL 126 (140)
Q Consensus 94 ~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~ 126 (140)
..+|.+++.+....++......+..|.++|..+
T Consensus 37 ~~Li~~~~~l~~~~d~~~~~~~~k~l~~~Wk~i 69 (77)
T PF03993_consen 37 EALIEEAEALAESEDWKEAAEEIKELQQEWKEI 69 (77)
T ss_pred HHHHHHHHHhcccccHHHHHHHHHHHHHHHHHc
Confidence 457788888877777777777777777777543
No 34
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=45.48 E-value=1.3e+02 Score=22.55 Aligned_cols=53 Identities=21% Similarity=0.253 Sum_probs=33.2
Q ss_pred CHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 70 DYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLD 131 (140)
Q Consensus 70 D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~ 131 (140)
|...+......++. ++..+...++.+-..++++.+...+.+|+= |.++...++
T Consensus 107 ~~~~L~~l~~~~~~--------~~~~~~~~l~~~f~~~d~~~A~~~~~~L~y-~~kl~~~i~ 159 (166)
T PRK01356 107 LFSDLEKIKNKYEL--------MYKNEIDSLKQAFEEQNLSDATIKTSKLKY-IGTLLNKLQ 159 (166)
T ss_pred CHHHHHHHHHHHHH--------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHHHHHHHH
Confidence 44556666666653 455666777777777888888877777654 344444333
No 35
>PF12854 PPR_1: PPR repeat
Probab=43.03 E-value=25 Score=18.99 Aligned_cols=21 Identities=10% Similarity=0.381 Sum_probs=17.4
Q ss_pred HHHHHhhcCCHHHHHHHHHHH
Q 035509 99 KARACCDNGNIEGGKAALEKV 119 (140)
Q Consensus 99 ~lE~~~~~~~~~~~~~~l~~l 119 (140)
-+..+|+.|..+.+..+++++
T Consensus 13 lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 13 LIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHhC
Confidence 356679999999999998875
No 36
>PF11827 DUF3347: Protein of unknown function (DUF3347); InterPro: IPR021782 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.
Probab=42.64 E-value=1.4e+02 Score=22.38 Aligned_cols=80 Identities=14% Similarity=0.209 Sum_probs=54.7
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHH-HHHHHHHHHHhh---cCCHHHHHHH
Q 035509 40 AFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKV-LIEVNKARACCD---NGNIEGGKAA 115 (140)
Q Consensus 40 ~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l-~~lc~~lE~~~~---~~~~~~~~~~ 115 (140)
+.+..|+.-|+ .|..||..+ |.......|=.|..+-..+....+ ......+..... ..+++..+..
T Consensus 44 ~~l~~v~~~Yl--------~lk~ALv~d--d~~~a~~aA~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~di~~qR~~ 113 (174)
T PF11827_consen 44 DSLQQVLNAYL--------ALKDALVAD--DLKAAKAAAKALLAALKAVDMAELSASLAKALMEAAEDAKEHDIEHQREA 113 (174)
T ss_pred HHHHHHHHHHH--------HHHHHHHhc--CHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHhhhhCCHHHHHHH
Confidence 45566666664 799999976 899999999999888888876643 333444444332 2277777777
Q ss_pred HHHHHHHHHHHHHH
Q 035509 116 LEKVKVEQETLKAK 129 (140)
Q Consensus 116 l~~l~~ef~~~~~~ 129 (140)
|..|...+-.+...
T Consensus 114 F~~lS~~~~~l~~~ 127 (174)
T PF11827_consen 114 FESLSEAMIDLVKA 127 (174)
T ss_pred HHHHHHHHHHHHHh
Confidence 77777766555444
No 37
>PF05218 DUF713: Protein of unknown function (DUF713); InterPro: IPR007883 This family contains proteins of unknown function from Caenorhabditis species.
Probab=42.57 E-value=1.5e+02 Score=22.60 Aligned_cols=94 Identities=11% Similarity=0.162 Sum_probs=59.8
Q ss_pred hhHHHHHHHHHhcccch-hhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhc---CCCCHHHHHHHhh
Q 035509 4 NPLHQQIATMRQSFLDE-EILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVK---DPIDYNALEKCLH 79 (140)
Q Consensus 4 ~~l~~~~~~~~~~~~~~-~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~---~~~D~~~l~~~aH 79 (140)
..++.++..|.+++... ..+-..|..|..|.+.-......+++...+.+....|-.+-..+.. +..+|..++..-=
T Consensus 70 ~~~~~E~~~l~~~v~~a~~~l~~~f~~L~~L~~~~~D~iFlkvLqK~i~~va~~L~~il~~l~~~~~~~~~~~~L~~~~s 149 (182)
T PF05218_consen 70 EDLQSEISNLHKSVMSAYNMLENAFENLKKLSEKFPDKIFLKVLQKCISDVANKLLEILESLDELENDKDWFQKLREAFS 149 (182)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHH
Confidence 34666677766666554 4455678999999765444444588888888888888787777642 2335667776666
Q ss_pred hhccchhhcChHHHHHHHH
Q 035509 80 DFKGLCVSIGASKVLIEVN 98 (140)
Q Consensus 80 ~LKGSSasiGA~~l~~lc~ 98 (140)
.|+.|+ =-.-.+|..+|.
T Consensus 150 ~l~~~~-IptT~~Lr~ic~ 167 (182)
T PF05218_consen 150 RLDPSD-IPTTSQLRRICK 167 (182)
T ss_pred cCCccc-CCCHHHHHHHhc
Confidence 666532 234445555554
No 38
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=41.87 E-value=36 Score=26.62 Aligned_cols=38 Identities=16% Similarity=0.136 Sum_probs=24.6
Q ss_pred hhhcChHHHHHHHHHHHHHhhcCCHH-HHHHHHHHHHHHH
Q 035509 85 CVSIGASKVLIEVNKARACCDNGNIE-GGKAALEKVKVEQ 123 (140)
Q Consensus 85 SasiGA~~l~~lc~~lE~~~~~~~~~-~~~~~l~~l~~ef 123 (140)
.|.+||..+.++|..|+. ....+++ .+..++...+..+
T Consensus 145 eA~~Ga~~ileLc~~l~~-~~~~d~e~~i~~il~~fe~k~ 183 (195)
T PF04722_consen 145 EATIGAFLILELCQMLEE-EASEDLEDEIDEILQEFEEKH 183 (195)
T ss_dssp HHHHHHHHHHHHHHHHH---TSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHh-hccccHHHHHHHHHHHHHHHc
Confidence 578999999999999997 2333443 3445555555543
No 39
>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=41.76 E-value=91 Score=19.82 Aligned_cols=39 Identities=18% Similarity=0.261 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhh
Q 035509 41 FAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDF 81 (140)
Q Consensus 41 fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~L 81 (140)
=+..+....-.....++..|..++... |+.......+.|
T Consensus 28 ~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kL 66 (78)
T PF07743_consen 28 ELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKL 66 (78)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHH
Confidence 333444444444444455555555422 555555444444
No 40
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=41.66 E-value=49 Score=16.73 Aligned_cols=22 Identities=23% Similarity=0.505 Sum_probs=17.9
Q ss_pred HHHHhhcCCHHHHHHHHHHHHH
Q 035509 100 ARACCDNGNIEGGKAALEKVKV 121 (140)
Q Consensus 100 lE~~~~~~~~~~~~~~l~~l~~ 121 (140)
+..+++.|+.+.+..++..++.
T Consensus 8 l~a~~~~g~~~~a~~~~~~M~~ 29 (34)
T PF13812_consen 8 LRACAKAGDPDAALQLFDEMKE 29 (34)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH
Confidence 5567888999999888888775
No 41
>COG5490 Uncharacterized conserved protein [Function unknown]
Probab=40.14 E-value=1.6e+02 Score=22.13 Aligned_cols=66 Identities=12% Similarity=0.075 Sum_probs=48.3
Q ss_pred ChhHHHHHHHHHH-HhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHH
Q 035509 38 DPAFAEDTVSLYF-QETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARAC 103 (140)
Q Consensus 38 ~~~fv~~Li~~fl-~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~ 103 (140)
+++-+...+..|- .+.++-.............+.+++...+-+=+..+.++|+.....+=...|..
T Consensus 24 da~~f~d~f~~Faekgveqs~~a~a~~~th~~knleAleasv~aa~~ga~~Lg~kt~a~lr~~ae~~ 90 (158)
T COG5490 24 DADKFMDMFRRFAEKGVEQSKEAYAKIKTHHEKNLEALEASVEAAAAGATSLGLKTIAALRDNAEEI 90 (158)
T ss_pred chHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHhhHHHHhHHHHHHHHHHHHHH
Confidence 3444457778887 55666666666665543457889999999999999999999988877777664
No 42
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=39.96 E-value=43 Score=16.49 Aligned_cols=23 Identities=13% Similarity=0.358 Sum_probs=18.3
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHH
Q 035509 99 KARACCDNGNIEGGKAALEKVKV 121 (140)
Q Consensus 99 ~lE~~~~~~~~~~~~~~l~~l~~ 121 (140)
=+..+++.|+.+++...+.++.+
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 6 LISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHccchHHHHHHHHHHHhH
Confidence 35677888999999888888764
No 43
>TIGR00823 EIIA-LAC phosphotransferase system enzyme II, lactose-specific, factor III. operon. While the Lac permeases consist of two polypeptide chains (IIA and IICB), the Chb permease of E. coli consists of three (IIA, IIB and IIC). In B. subtilis, a PTS permease similar to the Chb permease of E. coli is believed to transport lichenan (a b-1,3;1,4 glucan) degradation products, oligosaccharides of 2-4 glucose units. This model is specific for the IIA subunit of the Lac PTS family.
Probab=39.78 E-value=1.2e+02 Score=20.79 Aligned_cols=43 Identities=12% Similarity=0.091 Sum_probs=34.5
Q ss_pred HHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 97 VNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 97 c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
|.+.=..+++|+++.+..++..-+..|..+...=..+++-|..
T Consensus 21 ~~eAl~~a~~gdfe~A~~~l~eA~~~l~~AH~~qt~liq~ea~ 63 (99)
T TIGR00823 21 ALEALKAAKAGDFAKARALVEQAGMCLNEAHLAQTSLLAQEAG 63 (99)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3344456899999999999999999999998887777776643
No 44
>COG1447 CelC Phosphotransferase system cellobiose-specific component IIA [Carbohydrate transport and metabolism]
Probab=39.28 E-value=1.4e+02 Score=21.10 Aligned_cols=41 Identities=10% Similarity=0.119 Sum_probs=34.9
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 99 KARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 99 ~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
+-=.+++.|+++.+...++.-+.++..+...=+.+++-|..
T Consensus 25 eAl~~Ak~g~f~~A~~~i~eA~~~l~eAH~~QT~Liq~eA~ 65 (105)
T COG1447 25 EALKAAKEGDFEEAEELIQEANDALNEAHHVQTKLIQKEAS 65 (105)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 33456999999999999999999999999888888887654
No 45
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=38.13 E-value=68 Score=18.14 Aligned_cols=36 Identities=14% Similarity=0.147 Sum_probs=26.6
Q ss_pred HHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHH
Q 035509 25 DQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATL 60 (140)
Q Consensus 25 ~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l 60 (140)
+.+..|.+|.+.-+++.+...+..+-.+.+..+..|
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~L 39 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNL 39 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 447788888888888888777777766766666554
No 46
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=37.37 E-value=1.1e+02 Score=19.57 Aligned_cols=46 Identities=7% Similarity=0.156 Sum_probs=27.7
Q ss_pred HHHHHHHHhcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHH
Q 035509 7 HQQIATMRQSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEE 63 (140)
Q Consensus 7 ~~~~~~~~~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~A 63 (140)
+++|..+++.+.-...+|+. -.+++.++.+.|++++-..--.+.+-
T Consensus 2 K~~l~~Lv~~iDp~~~ld~~-----------vee~Ll~laddFv~~v~~~ac~lAKh 47 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDPD-----------VEELLLELADDFVDDVVSFACRLAKH 47 (68)
T ss_dssp HHHHHHHHHCC-SS----HH-----------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCCCCCHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46777888887555556633 23567788888888877766666554
No 47
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=37.31 E-value=1.9e+02 Score=22.77 Aligned_cols=47 Identities=21% Similarity=0.256 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 90 ASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQL 136 (140)
Q Consensus 90 A~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~ 136 (140)
+..+...|...-.....|+++.+...+.++......+++.|..|-.+
T Consensus 26 sRei~r~s~~aI~~~H~~~~eeA~~~l~~a~~~v~~Lk~~l~~~pel 72 (204)
T COG2178 26 SREIVRLSGEAIFLLHRGDFEEAEKKLKKASEAVEKLKRLLAGFPEL 72 (204)
T ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 46677888888888888999999888888888888888777766543
No 48
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=37.20 E-value=58 Score=16.20 Aligned_cols=22 Identities=14% Similarity=0.329 Sum_probs=18.0
Q ss_pred HHHHhhcCCHHHHHHHHHHHHH
Q 035509 100 ARACCDNGNIEGGKAALEKVKV 121 (140)
Q Consensus 100 lE~~~~~~~~~~~~~~l~~l~~ 121 (140)
+..+++.|..+.+..++..++.
T Consensus 7 i~~~~~~~~~~~a~~~~~~M~~ 28 (35)
T TIGR00756 7 IDGLCKAGRVEEALELFKEMLE 28 (35)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH
Confidence 5567889999999998888765
No 49
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=35.39 E-value=53 Score=20.55 Aligned_cols=37 Identities=16% Similarity=0.331 Sum_probs=28.5
Q ss_pred HHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHH
Q 035509 25 DQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEE 62 (140)
Q Consensus 25 ~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~ 62 (140)
++|.+++++-. .+|+.+..++...-..-|..+..|.+
T Consensus 8 Pqf~~lR~~vq-~NP~lL~~lLqql~~~nP~l~q~I~~ 44 (59)
T PF09280_consen 8 PQFQQLRQLVQ-QNPQLLPPLLQQLGQSNPQLLQLIQQ 44 (59)
T ss_dssp HHHHHHHHHHH-C-GGGHHHHHHHHHCCSHHHHHHHHH
T ss_pred hHHHHHHHHHH-HCHHHHHHHHHHHhccCHHHHHHHHH
Confidence 56888888765 58888888888888888887776654
No 50
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=34.95 E-value=61 Score=22.17 Aligned_cols=27 Identities=22% Similarity=0.356 Sum_probs=23.7
Q ss_pred HHHHHhcccCCChhHHHHHHHHHHHhH
Q 035509 27 FIQLESMATEDDPAFAEDTVSLYFQET 53 (140)
Q Consensus 27 f~~L~~L~~~~~~~fv~~Li~~fl~d~ 53 (140)
|+=|..+.+..-|.||.+++..|+++.
T Consensus 21 F~FL~~~P~GT~~~~iR~~L~rYI~~~ 47 (97)
T PRK13916 21 FDFLENVPRGTKTAHIREALRRYIEEI 47 (97)
T ss_pred HHHHHHCCCCCccHHHHHHHHHHHHhc
Confidence 778999988777899999999999875
No 51
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=34.41 E-value=1.4e+02 Score=26.09 Aligned_cols=120 Identities=12% Similarity=0.035 Sum_probs=77.7
Q ss_pred HHHHHHHhcccchhhhHHH-HHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchh
Q 035509 8 QQIATMRQSFLDEEILNDQ-FIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCV 86 (140)
Q Consensus 8 ~~~~~~~~~~~~~~~lD~~-f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSa 86 (140)
+.++.+|+++.+-++=... +-.|+-- .-+|+....+-..-+..+++.+.+|-.-+.. ++++.+-..++.+-.
T Consensus 184 E~l~~Yy~~~V~V~~D~~sGIi~l~V~--AF~PedA~~ia~aLL~~sE~~VN~Ls~rar~-----D~v~~Ae~ev~~Ae~ 256 (434)
T PRK15178 184 DDPYRYYLSKVSVAVDIQQGMLRLNVK--ARSAKQAEFFAQRILSFAEQHVNTVSARMQK-----ERILWLENDVKSAQE 256 (434)
T ss_pred HHHHHHHHhceEEeecCCCCeEEEEEE--ecCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH
Confidence 4566666666554433211 2222211 2478899999999999999999999988764 377777777777766
Q ss_pred hcChHHHHHHHHHHHH--HhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 87 SIGASKVLIEVNKARA--CCDNGNIEGGKAALEKVKVEQETLKAKLDSYF 134 (140)
Q Consensus 87 siGA~~l~~lc~~lE~--~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l 134 (140)
.+.+.+.+-..-+=+. .-+.........++..|+.+...++..|..+.
T Consensus 257 rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~aeL~~L~ 306 (434)
T PRK15178 257 NLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAEYAQLM 306 (434)
T ss_pred HHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555544433332222 12223444567889999999999888887654
No 52
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=34.40 E-value=2.8e+02 Score=23.32 Aligned_cols=73 Identities=16% Similarity=0.280 Sum_probs=47.0
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhhcC---CCCHHHHH-HHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHH
Q 035509 40 AFAEDTVSLYFQETTKIIATLEEEFVKD---PIDYNALE-KCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAA 115 (140)
Q Consensus 40 ~fv~~Li~~fl~d~~~~l~~l~~Al~~~---~~D~~~l~-~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~ 115 (140)
+|+ +.|..|+.|+...+...++-++.. ..+..+.. ...|.| -..+..+-.++|.++.+|+.+.+..+
T Consensus 83 d~~-~~l~~~v~d~~rri~~~kerL~e~~ee~~~e~~~k~~~v~~l--------~e~I~~~l~~~E~LG~eG~Veeaq~~ 153 (319)
T KOG0796|consen 83 DAL-EILERFVADVDRRIEKAKERLAETVEERSEEAARKAEKVHEL--------EEKIGKLLEKAEELGEEGNVEEAQKA 153 (319)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH--------HHHHHHHHHHHHHHhhcCCHHHHHHH
Confidence 455 888899999999988887777632 00100000 111111 15566677788889999999998877
Q ss_pred HHHHHH
Q 035509 116 LEKVKV 121 (140)
Q Consensus 116 l~~l~~ 121 (140)
+..++.
T Consensus 154 ~~e~E~ 159 (319)
T KOG0796|consen 154 MKEVEE 159 (319)
T ss_pred HHHHHH
Confidence 766655
No 53
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=34.28 E-value=2.4e+02 Score=22.57 Aligned_cols=82 Identities=15% Similarity=0.190 Sum_probs=47.7
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHH--hhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 035509 42 AEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKC--LHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKV 119 (140)
Q Consensus 42 v~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~--aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l 119 (140)
+.+.+..|+.|+.+.|..=..-+...+.+-...... +=.+..= -..+..+-.+.|.++.+|+.+.+..++..+
T Consensus 84 ~~~~L~~~i~d~drrI~~~k~RL~~~~~~~~~~~~~~~~~~i~~l-----~~~I~~ll~~aE~LGeeG~VdeA~~~~~~~ 158 (254)
T PF03194_consen 84 FLRYLQRLIRDCDRRIERAKERLEQTQEEQAKEADEEKAEKIDEL-----DEKIGELLKEAEELGEEGDVDEAQKLMEEV 158 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhhhHHHHHHHH-----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 347888999999999987776666422111111100 0011111 123566777889999999999887665544
Q ss_pred ---HHHHHHHHH
Q 035509 120 ---KVEQETLKA 128 (140)
Q Consensus 120 ---~~ef~~~~~ 128 (140)
+.+-..+..
T Consensus 159 e~Lk~ek~~le~ 170 (254)
T PF03194_consen 159 EKLKEEKEELEK 170 (254)
T ss_pred HHHHHHHHHHHh
Confidence 444444444
No 54
>PF04049 APC8: Anaphase promoting complex subunit 8 / Cdc23 ; InterPro: IPR007192 The anaphase-promoting complex is composed of eight protein subunits, including BimE (APC1), CDC27 (APC3), CDC16 (APC6), and CDC23 (APC8). This entry is for CDC23.; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0005680 anaphase-promoting complex
Probab=33.64 E-value=1.3e+02 Score=21.90 Aligned_cols=83 Identities=6% Similarity=0.099 Sum_probs=49.2
Q ss_pred CChhHHHHHHHHHhcccchhhhHHH-HH--HHHhcccCCC-------------hhHHH-HHHHHHHHhHHHHHHHHHHHh
Q 035509 2 ENNPLHQQIATMRQSFLDEEILNDQ-FI--QLESMATEDD-------------PAFAE-DTVSLYFQETTKIIATLEEEF 64 (140)
Q Consensus 2 ~~~~l~~~~~~~~~~~~~~~~lD~~-f~--~L~~L~~~~~-------------~~fv~-~Li~~fl~d~~~~l~~l~~Al 64 (140)
++..++.+|..-++-..+.|+++.. |. .|-.|.+... +.+-. .......+..+.-.=-+..++
T Consensus 5 ~~~~ir~~L~~a~~~~s~RgL~~saKWaaElL~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~d~yllAksy 84 (142)
T PF04049_consen 5 DLKEIRSELRQAIRECSERGLYQSAKWAAELLNGLPPPWRDDTPDDPSSSPSSSQLSPSSPSEDQLESKEYDKYLLAKSY 84 (142)
T ss_pred hHHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHcCCCCcccccccccccCCCccccCCCChhhhhhhhhHHHHHHHHHHH
Confidence 3567888999999999999999955 32 4666652111 11110 011111111222222355555
Q ss_pred hcCCCCHHHHHHHhhhhccchhhc
Q 035509 65 VKDPIDYNALEKCLHDFKGLCVSI 88 (140)
Q Consensus 65 ~~~~~D~~~l~~~aH~LKGSSasi 88 (140)
- |...++++||.||+..+..
T Consensus 85 F----D~kEy~RaA~~L~~~~s~~ 104 (142)
T PF04049_consen 85 F----DCKEYDRAAHVLKDCKSPK 104 (142)
T ss_pred h----chhHHHHHHHHHccCCCch
Confidence 4 7899999999999988443
No 55
>COG0783 Dps DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]
Probab=33.08 E-value=2.1e+02 Score=21.40 Aligned_cols=28 Identities=14% Similarity=0.408 Sum_probs=14.4
Q ss_pred CChhHH--HHHHHHHHHhHHHHHHHHHHHh
Q 035509 37 DDPAFA--EDTVSLYFQETTKIIATLEEEF 64 (140)
Q Consensus 37 ~~~~fv--~~Li~~fl~d~~~~l~~l~~Al 64 (140)
.||+|. .++.+.+.++....++++.+-+
T Consensus 42 ~G~~F~~lHe~~ee~y~el~~~~DeiAERi 71 (156)
T COG0783 42 KGPNFFALHEKLEELYEELAEHVDEIAERI 71 (156)
T ss_pred eCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477764 3444444555555555554443
No 56
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.00 E-value=1.9e+02 Score=22.51 Aligned_cols=37 Identities=16% Similarity=0.140 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHH
Q 035509 93 VLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAK 129 (140)
Q Consensus 93 l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~ 129 (140)
++.+|+.++..-+..|++.+.+++++.+..|..+-..
T Consensus 95 M~gVvK~md~alktmNLekis~~MDkFE~qFedldvq 131 (203)
T KOG3232|consen 95 MAGVVKSMDSALKTMNLEKISQLMDKFEKQFEDLDVQ 131 (203)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhhhhhH
Confidence 6789999999999999999999999999999876544
No 57
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=32.17 E-value=72 Score=26.00 Aligned_cols=48 Identities=8% Similarity=0.082 Sum_probs=32.1
Q ss_pred HHHHHHHHhcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhh
Q 035509 7 HQQIATMRQSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFV 65 (140)
Q Consensus 7 ~~~~~~~~~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~ 65 (140)
+++|.++++.+.-.+.||+. -.+|+.++.+.|+++....--.|.+-=.
T Consensus 157 k~kl~dLvqqId~~~~LD~d-----------VedlLleiADdFV~sii~~sC~LAKHRK 204 (258)
T KOG1142|consen 157 KRKLDDLVQQIDGTTKLDDD-----------VEDLLLEIADDFVSSIIHRSCKLAKHRK 204 (258)
T ss_pred ccchhHHHHhhcCcccccHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 35677788877777777732 3456778888888777766666655433
No 58
>PLN02407 diphosphomevalonate decarboxylase
Probab=31.40 E-value=84 Score=26.60 Aligned_cols=32 Identities=22% Similarity=0.275 Sum_probs=26.8
Q ss_pred HHHHHHHh-HHHHHHHHHHHhhcCCCCHHHHHHHh
Q 035509 45 TVSLYFQE-TTKIIATLEEEFVKDPIDYNALEKCL 78 (140)
Q Consensus 45 Li~~fl~d-~~~~l~~l~~Al~~~~~D~~~l~~~a 78 (140)
+....++. +++.+..|++|+..+ ||.++.+.+
T Consensus 224 ~~~~w~~~~~~~~~~~~~~Ai~~~--Df~~~gei~ 256 (343)
T PLN02407 224 LLQHRAKEVVPKRILQMEEAIKNR--DFASFAKLT 256 (343)
T ss_pred hHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHH
Confidence 46677787 899999999999976 999887764
No 59
>PF08900 DUF1845: Domain of unknown function (DUF1845); InterPro: IPR014996 Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=31.38 E-value=2.5e+02 Score=21.88 Aligned_cols=50 Identities=12% Similarity=0.088 Sum_probs=32.9
Q ss_pred cchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 83 GLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSY 133 (140)
Q Consensus 83 GSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 133 (140)
|..+=+|.......+..+...+...|. -+..+|-+|++....+...++..
T Consensus 32 ~~~~I~Gm~~~~~~~~~i~~~a~~DdP-yAD~~L~~iEe~i~~~~~~l~~~ 81 (217)
T PF08900_consen 32 GKPAIIGMPGFASRLNRIWRDARQDDP-YADWWLLRIEEKINEARQELQEL 81 (217)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHhcCCc-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 444789999999999999998777653 24444445555555444444433
No 60
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=30.97 E-value=1.8e+02 Score=19.99 Aligned_cols=61 Identities=20% Similarity=0.268 Sum_probs=34.3
Q ss_pred hcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHH
Q 035509 15 QSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALE 75 (140)
Q Consensus 15 ~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~ 75 (140)
..-+++..|+..++.|.+..=-++..|....+...+.....--..|+..|.+..+|-+.+.
T Consensus 3 ~kg~~~e~I~~vi~~l~~~gyidD~~ya~~~v~~~~~~~~~G~~~I~~~L~~kGi~~~~i~ 63 (121)
T PF02631_consen 3 RKGFSEEAIEEVIDRLKELGYIDDERYAESYVRSRLRRKGKGPRRIRQKLKQKGIDREIIE 63 (121)
T ss_dssp HTT--HHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHTT--HHHHH
T ss_pred ccCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcccccccHHHHHHHHHHHCCChHHHH
Confidence 4456778888888888887666677888888888875333333344455544334443333
No 61
>PRK12791 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=30.96 E-value=2.1e+02 Score=20.82 Aligned_cols=55 Identities=7% Similarity=0.056 Sum_probs=33.3
Q ss_pred HHHHHHHhcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHH
Q 035509 8 QQIATMRQSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNA 73 (140)
Q Consensus 8 ~~~~~~~~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~ 73 (140)
+|+|+.+|.|+-.+--+..-..+. ..+.+++..| .++...+..+..++..+ +|.+
T Consensus 54 rrlYf~vQ~m~l~~~~~~~~~~~~--------~~~~~l~~~~-p~~~~~l~~~~~~v~~g--~~Y~ 108 (131)
T PRK12791 54 KRVYLCVQLMYLSNDIPAYHGTYL--------GLIRELIEAV-PSAWPIIEAINNHILNG--DLYK 108 (131)
T ss_pred HHHHHHHHHHHhCCchHHHHHHHH--------HHHHHHHHHh-HHHHHHHHHHHHHHhCC--CHHH
Confidence 477888887765442221111111 1355677777 67888888888888866 5554
No 62
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=30.74 E-value=2.4e+02 Score=21.33 Aligned_cols=75 Identities=19% Similarity=0.259 Sum_probs=44.7
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhc-CCHHHHHHHH
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDN-GNIEGGKAAL 116 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~-~~~~~~~~~l 116 (140)
+|+|+.++++. .+.|.+ +-.. .|...+......++ .++..+...+..+-.. ++++.+...+
T Consensus 93 d~~fLme~mE~-----rE~lee---~~~~--~d~~~L~~l~~e~~--------~~~~~~~~~l~~~~~~~~d~~~A~~~~ 154 (176)
T PRK03578 93 PPAFLMQQMEW-----REAIED---ARAA--RDVDALDALLAELR--------DERRERYAELGALLDSRGDDQAAAEAV 154 (176)
T ss_pred CHHHHHHHHHH-----HHHHHH---hhcc--CCHHHHHHHHHHHH--------HHHHHHHHHHHHHHHccccHHHHHHHH
Confidence 57888777652 222332 2222 26677777776663 5667777777776655 8888887766
Q ss_pred HHHHHHHHHHHHHHH
Q 035509 117 EKVKVEQETLKAKLD 131 (140)
Q Consensus 117 ~~l~~ef~~~~~~L~ 131 (140)
.+++= |.++...+.
T Consensus 155 ~kL~y-~~kl~~ei~ 168 (176)
T PRK03578 155 RQLMF-IEKLAQEIG 168 (176)
T ss_pred HHHHH-HHHHHHHHH
Confidence 66553 334443333
No 63
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=30.31 E-value=1.1e+02 Score=17.15 Aligned_cols=56 Identities=16% Similarity=0.148 Sum_probs=33.2
Q ss_pred HHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 035509 74 LEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLV 137 (140)
Q Consensus 74 l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~ 137 (140)
+...+|.+|.+=++|. ..|..+.. ...+.+. ...+..+..+...+..-++.++.+-
T Consensus 6 ~~~i~Hel~~pl~~i~-----~~~~~l~~--~~~~~~~-~~~~~~~~~~~~~~~~~v~~l~~~~ 61 (66)
T smart00388 6 LANLSHELRTPLTAIR-----GYLELLED--TELSEEQ-REYLETILRSAERLLRLINDLLDLS 61 (66)
T ss_pred HHHHHHhccCcHHHHH-----HHHHHHHh--CCCChHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899997665442 22333333 1122233 6777888887777777777666553
No 64
>COG2603 Predicted ATPase [General function prediction only]
Probab=30.19 E-value=2.6e+02 Score=23.60 Aligned_cols=81 Identities=14% Similarity=0.143 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHH----HHHhhcCCHHHHHHHH
Q 035509 41 FAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKA----RACCDNGNIEGGKAAL 116 (140)
Q Consensus 41 fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~l----E~~~~~~~~~~~~~~l 116 (140)
=|.++++.|...-... +-..++.. ..-|.++. +-|+|-++---+|-.++..++..+ .+....|+.++-..++
T Consensus 242 rv~RIi~ey~~kkh~~--df~~~~~~-~~~~~~~~-l~~~l~~~~~r~~~qr~~~l~~~~~~~~~~q~~~~~~d~~~~~i 317 (334)
T COG2603 242 RVERIIEEYFKKKHKH--DFTHAVGD-EQGWQAYS-LHHGLSAIKRRLGLQRYNELAARLDAALTEQLTTGSTDGHLAWI 317 (334)
T ss_pred HHHHHHHHHHHHhhhh--hhhhhhcc-chhHHHHH-HhhhHHHHHHHHhHHHHHHHHHHHHHHHHhcCCcCCccchHHHH
Confidence 3667788886654321 22233332 12366666 669999999999999998888764 4557778889999999
Q ss_pred HHHHHHHHH
Q 035509 117 EKVKVEQET 125 (140)
Q Consensus 117 ~~l~~ef~~ 125 (140)
..+..||-.
T Consensus 318 ~~~~~e~~d 326 (334)
T COG2603 318 VPLLEEYYD 326 (334)
T ss_pred HHHHHHHHH
Confidence 888888755
No 65
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=30.17 E-value=1.8e+02 Score=19.76 Aligned_cols=28 Identities=21% Similarity=0.242 Sum_probs=18.5
Q ss_pred CChhHHHHHHHHHHHhHHHHHHHHHHHhh
Q 035509 37 DDPAFAEDTVSLYFQETTKIIATLEEEFV 65 (140)
Q Consensus 37 ~~~~fv~~Li~~fl~d~~~~l~~l~~Al~ 65 (140)
|+|.|+ +-......+.+..+..|+..+.
T Consensus 36 gd~~~l-~~y~~~~~~~~~~l~~L~~l~~ 63 (138)
T PF05227_consen 36 GDPEFL-EPYQEARARLEKALAQLRQLVQ 63 (138)
T ss_dssp --HHHH-HHHHHHHHHHHHHHHHHHHHTT
T ss_pred CCHhhh-chHHHHHHHHHHHHHHHHHHhc
Confidence 677776 4455557777888888887764
No 66
>PF13326 PSII_Pbs27: Photosystem II Pbs27; PDB: 2KND_A 2KMF_A 2Y6X_A.
Probab=30.16 E-value=2.3e+02 Score=20.91 Aligned_cols=86 Identities=16% Similarity=0.110 Sum_probs=54.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhcc-----------chhhcChHHHHHHHHHHHH----HhhcCC
Q 035509 44 DTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKG-----------LCVSIGASKVLIEVNKARA----CCDNGN 108 (140)
Q Consensus 44 ~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKG-----------SSasiGA~~l~~lc~~lE~----~~~~~~ 108 (140)
.+-..|.+|+-..+..|+.+|..+ .|.+..++.+-.+|- ..+--|-.....+-..|.. +...|+
T Consensus 44 ~l~~~Y~~dt~~vv~~lr~~l~l~-~d~~~~~~~~~~ar~~in~~vs~YRr~~~v~g~~Sf~~m~tAln~LaghY~s~g~ 122 (145)
T PF13326_consen 44 GLTGDYVKDTRAVVKTLREALELD-KDDPNRAEAAAEARELINDYVSRYRRGPSVSGLPSFTTMYTALNALAGHYSSYGN 122 (145)
T ss_dssp S--S-CHHHHHHHHHHHHHHHCS--TT-TTHHHHHHHHHHHHHHHHCCCCCCHHCCTSHHHHHHHHHHHHHHHHCHHHTT
T ss_pred cccchHHHHHHHHHHHHHHHHcCC-CCCccHHHHHHHHHHHHHHHHHHhCCCCCcCCcchHHHHHHHHHHHHHHHHhCCC
Confidence 344679999999999999999864 466666666666553 3333443444444444443 345565
Q ss_pred H-HHHHHHHHHHHHHHHHHHHHH
Q 035509 109 I-EGGKAALEKVKVEQETLKAKL 130 (140)
Q Consensus 109 ~-~~~~~~l~~l~~ef~~~~~~L 130 (140)
. +--..+.++|.++|.++..+|
T Consensus 123 raPlP~k~k~rll~el~~Ae~aL 145 (145)
T PF13326_consen 123 RAPLPEKLKERLLKELDQAEKAL 145 (145)
T ss_dssp S-S--HHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHhcC
Confidence 5 445678889999999888765
No 67
>KOG2833 consensus Mevalonate pyrophosphate decarboxylase [Lipid transport and metabolism]
Probab=29.55 E-value=1e+02 Score=26.34 Aligned_cols=29 Identities=14% Similarity=0.284 Sum_probs=23.3
Q ss_pred HHHHHh-HHHHHHHHHHHhhcCCCCHHHHHHH
Q 035509 47 SLYFQE-TTKIIATLEEEFVKDPIDYNALEKC 77 (140)
Q Consensus 47 ~~fl~d-~~~~l~~l~~Al~~~~~D~~~l~~~ 77 (140)
.-=++. .|++|.+|++|+.+. ||+.+.++
T Consensus 225 qhRi~~vVP~Ri~~m~eaI~~r--DF~~FA~l 254 (395)
T KOG2833|consen 225 QHRIESVVPQRIQQMREAIRER--DFESFAKL 254 (395)
T ss_pred HHHHHhhhHHHHHHHHHHHHhc--CHHHHHHH
Confidence 333444 799999999999976 99999876
No 68
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=28.85 E-value=1.2e+02 Score=26.87 Aligned_cols=65 Identities=15% Similarity=0.232 Sum_probs=53.6
Q ss_pred hhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCH
Q 035509 39 PAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNI 109 (140)
Q Consensus 39 ~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~ 109 (140)
+.=....+.-|+++.-..+..-+.|+..+ |. . +=||+=|++-|||...=.++|+..+.+=+.|+.
T Consensus 227 r~~A~~~L~~Fi~~~L~nFG~yQDam~~d--~~-~---L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~i 291 (505)
T COG3046 227 RTQALRALKHFIADRLPNFGSYQDAMSAD--DP-H---LWHSLLSFALNIGLLTPLEVIRAALKAYREGDI 291 (505)
T ss_pred HHHHHHHHHHHHHHhhhcCCcHHHHHhcC--Cc-h---hHHHHHHHHhhccCCCHHHHHHHHHHhhccCCC
Confidence 34456788999999999999999998865 32 3 459999999999999999999999988777744
No 69
>smart00188 IL10 Interleukin-10 family. Interleukin-10 inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells.
Probab=28.26 E-value=2.5e+02 Score=20.71 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=22.5
Q ss_pred HHHHhcccCCChhHHHHHHHHHHHhHH
Q 035509 28 IQLESMATEDDPAFAEDTVSLYFQETT 54 (140)
Q Consensus 28 ~~L~~L~~~~~~~fv~~Li~~fl~d~~ 54 (140)
+-|+.++++.|.-|+.+|+.-|++++=
T Consensus 33 ~ll~~~k~~~gC~~l~ell~FYLd~V~ 59 (137)
T smart00188 33 SLLEDFKGYLGCQALSEMIQFYLEEVM 59 (137)
T ss_pred HHHHHhCCCcchHHHHHHHHHHHHHHH
Confidence 356677778889999999999998874
No 70
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=28.25 E-value=3.4e+02 Score=22.39 Aligned_cols=83 Identities=23% Similarity=0.216 Sum_probs=51.6
Q ss_pred hHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHH--HHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHH
Q 035509 23 LNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIA--TLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKA 100 (140)
Q Consensus 23 lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~--~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~l 100 (140)
|++++..|..+ |...-+..|...|-= ++++.- .|+..+.. .||+.+...+.+=|+ -||-..+.+.|..
T Consensus 180 l~~Ti~~li~~---~~~k~A~kl~k~Fkv-~dkrfw~lki~aLa~~--~~w~eL~~fa~skKs---PIGyepFv~~~~~- 249 (319)
T PF04840_consen 180 LNDTIRKLIEM---GQEKQAEKLKKEFKV-PDKRFWWLKIKALAEN--KDWDELEKFAKSKKS---PIGYEPFVEACLK- 249 (319)
T ss_pred HHHHHHHHHHC---CCHHHHHHHHHHcCC-cHHHHHHHHHHHHHhc--CCHHHHHHHHhCCCC---CCChHHHHHHHHH-
Confidence 45555666665 445567778888743 333332 33444444 499999999987554 4999999999964
Q ss_pred HHHhhcCCHHHHHHHHHHHH
Q 035509 101 RACCDNGNIEGGKAALEKVK 120 (140)
Q Consensus 101 E~~~~~~~~~~~~~~l~~l~ 120 (140)
.|+...+..++.++.
T Consensus 250 -----~~~~~eA~~yI~k~~ 264 (319)
T PF04840_consen 250 -----YGNKKEASKYIPKIP 264 (319)
T ss_pred -----CCCHHHHHHHHHhCC
Confidence 333444445544433
No 71
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=27.74 E-value=2.5e+02 Score=22.68 Aligned_cols=62 Identities=10% Similarity=0.105 Sum_probs=47.3
Q ss_pred HHHHHHhhhhccchhh----cChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 72 NALEKCLHDFKGLCVS----IGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSY 133 (140)
Q Consensus 72 ~~l~~~aH~LKGSSas----iGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 133 (140)
...++.+|.+..++-= +|=..+-.+|+.++..|..=...++...+..+.+.|..+...+..|
T Consensus 134 ~~~~~~avA~vlG~~m~~e~~~d~dvevLL~~ae~L~~vYP~~ga~eki~~Lr~~y~~l~~~i~~l 199 (259)
T PF08657_consen 134 KQRRNTAVALVLGGVMHEEIVEDVDVEVLLRGAEKLCNVYPLPGAREKIAALRQRYNQLSNSIAYL 199 (259)
T ss_pred HHHHHHHHHHhccCcccccccccCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666655555421 4556677889999999888788899999999999999999888765
No 72
>PF02255 PTS_IIA: PTS system, Lactose/Cellobiose specific IIA subunit; InterPro: IPR003188 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIA PTS system enzymes. This family of proteins normally function as a homotrimer, stabilised by a centrally located metal ion []. Separation into subunits is thought to occur after phosphorylation.; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 3L8R_D 2E2A_B 1E2A_C 3K1S_C 2LRK_C 2LRL_A 2WY2_A 1WCR_A 2WWV_C.
Probab=27.44 E-value=2e+02 Score=19.51 Aligned_cols=42 Identities=14% Similarity=0.120 Sum_probs=32.6
Q ss_pred HHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035509 98 NKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSYFQLVKQ 139 (140)
Q Consensus 98 ~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~~ 139 (140)
.+-=..++.|+++.+..++.+-+.++.++...=..+++-|..
T Consensus 19 ~eAl~~a~~~~fe~A~~~l~~a~~~l~~AH~~qt~llq~ea~ 60 (96)
T PF02255_consen 19 MEALKAAREGDFEEAEELLKEADEELLKAHKIQTELLQQEAN 60 (96)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 333345889999999999999999999998887777776643
No 73
>TIGR03761 ICE_PFL4669 integrating conjugative element protein, PFL_4669 family. Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=27.24 E-value=3.1e+02 Score=21.67 Aligned_cols=48 Identities=10% Similarity=0.151 Sum_probs=31.5
Q ss_pred hhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 85 CVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKVEQETLKAKLDSY 133 (140)
Q Consensus 85 SasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 133 (140)
.+=+|..++...+..|...+.+.|. =+..+|-++++....+...+++.
T Consensus 32 ~~IiGl~~f~s~~~~i~~~a~~DdP-yAD~~Ll~~E~~l~~~~~~l~~~ 79 (216)
T TIGR03761 32 PGIIGMPGFISRLNRINQASEQDDP-YADWALLRIEEKLLSARQEMQAL 79 (216)
T ss_pred CCCcCcHHHHHHHHHHHHHHHcCCc-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3459999999999999998877654 23444445555555444444433
No 74
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=27.13 E-value=2.6e+02 Score=20.67 Aligned_cols=68 Identities=9% Similarity=-0.013 Sum_probs=38.7
Q ss_pred HHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHH-----------HhhcCCHHHHHH
Q 035509 46 VSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARA-----------CCDNGNIEGGKA 114 (140)
Q Consensus 46 i~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~-----------~~~~~~~~~~~~ 114 (140)
-...++|+.++|.-|...++++...-.. -.+|..+|..|+. .--..+.+.|..
T Consensus 63 ~kr~~~D~~KRL~iLfd~ln~g~Ls~~v----------------~~~L~~L~~aL~~~d~~~A~~Ih~~L~t~h~~E~~~ 126 (157)
T PF07304_consen 63 KKRVVDDIEKRLNILFDHLNNGKLSKPV----------------VDKLHQLAQALQARDYDAADEIHVDLMTDHVDECGN 126 (157)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHT-S-HHH----------------HHHHHHHHHHHHHT-HHHHHHHHHHHHHSSHHHHTT
T ss_pred chhHHHHHHHHHHHHHHHHhcCCCCHHH----------------HHHHHHHHHHHHcCCHHHHHHHHHHHHhccHHHhhh
Confidence 3445689999999999988865332221 1345555655543 111234556666
Q ss_pred HHHHHHHHHHHHHHH
Q 035509 115 ALEKVKVEQETLKAK 129 (140)
Q Consensus 115 ~l~~l~~ef~~~~~~ 129 (140)
|+..+|+-...+++.
T Consensus 127 WmvGVKRLI~~~r~~ 141 (157)
T PF07304_consen 127 WMVGVKRLIAMARNL 141 (157)
T ss_dssp THHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhc
Confidence 666666655555544
No 75
>PF00726 IL10: Interleukin 10 This family is a subset of the SCOP family; InterPro: IPR020443 Interleukin-10 (IL-10) is a protein that inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells. Structurally, IL-10 is a protein of about 160 amino acids that contains four conserved cysteines involved in disulphide bonds []. IL-10 is highly similar to the Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4) BCRF1 protein which inhibits the synthesis of gamma-interferon and to Equid herpesvirus 2 (Equine herpesvirus 2) protein E7. It is also similar, but to a lesser degree, with human protein mda-7 [], a protein which has antiproliferative properties in human melanoma cells. Mda-7 only contains two of the four cysteines of IL-10.; PDB: 1VLK_A 1Y6N_L 1Y6M_L 2ILK_A 1LK3_A 2H24_A 1J7V_L 1ILK_A 1Y6K_L 1INR_A ....
Probab=26.32 E-value=1e+02 Score=23.42 Aligned_cols=33 Identities=15% Similarity=0.331 Sum_probs=23.9
Q ss_pred hhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHH
Q 035509 22 ILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKI 56 (140)
Q Consensus 22 ~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~ 56 (140)
+++.. -|+.+.+..+.-++.+|++-|++.+=..
T Consensus 61 Ll~~~--ll~~~k~~~~C~~~~~lL~FYLd~Vfp~ 93 (170)
T PF00726_consen 61 LLDKS--LLQDFKGPDGCCFLSELLRFYLDRVFPN 93 (170)
T ss_dssp SSTHH--HHHHHHSTTHHHHHHHHHHHHHHTHHHH
T ss_pred hccHH--HHHhcCCCCccHHHHHHHHHHHHHHccc
Confidence 45544 2556666788899999999999876443
No 76
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=26.20 E-value=2.9e+02 Score=20.85 Aligned_cols=74 Identities=14% Similarity=0.160 Sum_probs=44.6
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHH
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALE 117 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~ 117 (140)
+|+|+.++++. .+.| ..+-.. .|..++..+...++ .++..+...++.+-..++++.+...+.
T Consensus 90 d~~fLme~ME~-----rE~l---ee~~~~--~d~~~L~~l~~~v~--------~~~~~~~~~l~~~~~~~d~~~A~~~~~ 151 (173)
T PRK01773 90 DMAFLMQQMEW-----REQL---EEIEQQ--QDEDALTAFSKEIK--------QEQQAILTELSTALNSQQWQQASQIND 151 (173)
T ss_pred CHHHHHHHHHH-----HHHH---Hhhccc--CCHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 56777666652 2222 222222 26777777766654 467777888888878889998877655
Q ss_pred HHHHHHHHHHHHH
Q 035509 118 KVKVEQETLKAKL 130 (140)
Q Consensus 118 ~l~~ef~~~~~~L 130 (140)
+++= |.++...+
T Consensus 152 rL~y-~~kl~~ei 163 (173)
T PRK01773 152 RLRF-IKKLIIEI 163 (173)
T ss_pred HHHH-HHHHHHHH
Confidence 5543 33333333
No 77
>PF04136 Sec34: Sec34-like family ; InterPro: IPR007265 Sec34 and Sec35 form a sub-complex in a seven-protein complex that includes Dor1. This complex is thought to be important for tethering vesicles to the Golgi [].; GO: 0006886 intracellular protein transport, 0005801 cis-Golgi network, 0016020 membrane
Probab=25.82 E-value=2.8e+02 Score=20.49 Aligned_cols=107 Identities=10% Similarity=0.174 Sum_probs=73.5
Q ss_pred HHHHHhcccCCChhHHHHHHHHHHHhHHHHH------HHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHH
Q 035509 27 FIQLESMATEDDPAFAEDTVSLYFQETTKII------ATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKA 100 (140)
Q Consensus 27 f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l------~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~l 100 (140)
.+.|..|.+ .-..|..=-..|-+.|++++ ..+.++|...=.=|..+......|.++..+|--.....+-..|
T Consensus 27 ~~~l~~l~~--~~~~Vs~kT~~l~~~ce~Ll~eq~~L~~~ae~I~~~L~yF~~Ld~itr~Ln~p~~sV~~~~F~~~L~~L 104 (157)
T PF04136_consen 27 LDQLDELQE--QYNSVSEKTNSLHEACEQLLEEQTRLEELAEEISEKLQYFEELDPITRRLNSPGSSVNSDSFKPMLSRL 104 (157)
T ss_pred HHHHHHHHH--HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhHHHHHHHHcCCCCcccchHHHHHHHHH
Confidence 555666642 22345454555666665544 3455555432223678888889999999998888877777777
Q ss_pred HHH----hhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 101 RAC----CDNGNIEGGKAALEKVKVEQETLKAKLDSYFQ 135 (140)
Q Consensus 101 E~~----~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~ 135 (140)
..+ ....++.++...+.+.++...++...+..|+-
T Consensus 105 D~cl~Fl~~h~~fkea~~Y~~rf~q~ltRAl~lIk~y~~ 143 (157)
T PF04136_consen 105 DECLEFLEEHPNFKEAEVYLIRFRQCLTRALTLIKNYVV 143 (157)
T ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 664 45568888899999999999998888887764
No 78
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.32 E-value=1.9e+02 Score=25.49 Aligned_cols=66 Identities=17% Similarity=0.378 Sum_probs=44.2
Q ss_pred hHHHHHHHHHhcccchhhhHHHHHHHHhcccC-CChhHHHHHHHHHHHhHHHHH-HHHHHHhhcCCCCHHHHHHHhhh
Q 035509 5 PLHQQIATMRQSFLDEEILNDQFIQLESMATE-DDPAFAEDTVSLYFQETTKII-ATLEEEFVKDPIDYNALEKCLHD 80 (140)
Q Consensus 5 ~l~~~~~~~~~~~~~~~~lD~~f~~L~~L~~~-~~~~fv~~Li~~fl~d~~~~l-~~l~~Al~~~~~D~~~l~~~aH~ 80 (140)
.++.++.+.++.+++.-=.-+.+.++..+.+. +.|+|+ .++++.| .++-+|...+ |.+-|...+|.
T Consensus 283 dvtdki~~~~~g~fsktE~Sev~tei~~iDPsF~~~~Fl--------r~~ee~IiPnVLeAyvkG--D~evLK~wcse 350 (459)
T KOG2580|consen 283 DVTDKITDVDGGLFSKTEMSEVLTEIKKIDPSFDKEDFL--------RECEEYIIPNVLEAYVKG--DLEVLKKWCSE 350 (459)
T ss_pred HHHHhhhhcccccchhhHHHHHHHHHHhcCCCCCcHHHH--------HHHHHhhhHHHHHHHHhc--cHHHHHHHHhh
Confidence 35567777777777776666678888888553 334555 3444433 4477777766 89999998874
No 79
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=25.20 E-value=2.9e+02 Score=21.68 Aligned_cols=23 Identities=26% Similarity=0.264 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHhhcCCCCHHHHHHH
Q 035509 53 TTKIIATLEEEFVKDPIDYNALEKC 77 (140)
Q Consensus 53 ~~~~l~~l~~Al~~~~~D~~~l~~~ 77 (140)
-.+.|..++.++.++ |.+.|.+.
T Consensus 233 ~~~~L~~l~~~l~~~--d~~~l~~~ 255 (258)
T PF02153_consen 233 FIKELNELREALEAG--DEEELEEL 255 (258)
T ss_dssp HHHHHHHHHHHHHTT--SHHHHHHH
T ss_pred HHHHHHHHHHHHHcC--CHHHHHHH
Confidence 356677788888865 77777753
No 80
>PF13041 PPR_2: PPR repeat family
Probab=23.93 E-value=1.2e+02 Score=17.08 Aligned_cols=24 Identities=17% Similarity=0.343 Sum_probs=19.6
Q ss_pred HHHHHHhhcCCHHHHHHHHHHHHH
Q 035509 98 NKARACCDNGNIEGGKAALEKVKV 121 (140)
Q Consensus 98 ~~lE~~~~~~~~~~~~~~l~~l~~ 121 (140)
.-+..+++.|+.+.+..++.+++.
T Consensus 8 ~li~~~~~~~~~~~a~~l~~~M~~ 31 (50)
T PF13041_consen 8 TLISGYCKAGKFEEALKLFKEMKK 31 (50)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHH
Confidence 346677999999999999998875
No 81
>COG4865 Glutamate mutase epsilon subunit [Amino acid transport and metabolism]
Probab=23.88 E-value=46 Score=28.65 Aligned_cols=38 Identities=16% Similarity=0.260 Sum_probs=31.4
Q ss_pred hcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHh
Q 035509 15 QSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQE 52 (140)
Q Consensus 15 ~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d 52 (140)
|+-.-..+||+.+.-|.-|+++|+.||+...|+.|-.+
T Consensus 64 Qpragv~lLdehielL~tl~eeGqADlLp~tIDSyTR~ 101 (485)
T COG4865 64 QPRAGVALLDEHIELLKTLQEEGQADLLPSTIDSYTRL 101 (485)
T ss_pred ccccCcchHHHHHHHHHHHHHhccccccchhhhhhhhh
Confidence 34444577999999999999999999999999998544
No 82
>PRK08818 prephenate dehydrogenase; Provisional
Probab=23.41 E-value=2.8e+02 Score=23.57 Aligned_cols=41 Identities=12% Similarity=0.171 Sum_probs=28.0
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccch
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLC 85 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSS 85 (140)
++ .+.+.++.| .+.+..+++++.++ |...+.+..|.+.-+-
T Consensus 226 N~-~i~~~l~~~----~~~L~~l~~~i~~~--D~~~~~~~~~~f~~a~ 266 (370)
T PRK08818 226 NP-YVGEMLDRL----LAQLQELRALVAQG--DDAARARFRAQFLHAN 266 (370)
T ss_pred CH-HHHHHHHHH----HHHHHHHHHHHHcC--CHHHHHHHHHHHHHHH
Confidence 55 566667777 56677888888865 8888877766555443
No 83
>PF08858 IDEAL: IDEAL domain; InterPro: IPR014957 This entry represents the C-terminal domain of Bacteriophage SPP1, p90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. his domain may also be referred to as the IDEAL domain, after the sequence of the most conserved region of the domain.; PDB: 3DO9_A.
Probab=23.39 E-value=1.5e+02 Score=16.60 Aligned_cols=25 Identities=8% Similarity=0.193 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhcCCCCHHHHHHHhhh
Q 035509 54 TKIIATLEEEFVKDPIDYNALEKCLHD 80 (140)
Q Consensus 54 ~~~l~~l~~Al~~~~~D~~~l~~~aH~ 80 (140)
+++...|..|+..+ |-..+..++..
T Consensus 12 ~~L~~~ID~ALd~~--D~e~F~~Ls~e 36 (37)
T PF08858_consen 12 EQLLELIDEALDNR--DKEWFYELSEE 36 (37)
T ss_dssp HHHHHHHHHHHHTT---HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcC--CHHHHHHHHhh
Confidence 56788899999976 88888887654
No 84
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=23.26 E-value=8e+02 Score=24.97 Aligned_cols=61 Identities=15% Similarity=0.075 Sum_probs=35.8
Q ss_pred HHHHHHHhhhhccchhhc-ChHHHHHHHHHHHHHh-h--cCCHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 71 YNALEKCLHDFKGLCVSI-GASKVLIEVNKARACC-D--NGNIEGGKAALEKVKVEQETLKAKLD 131 (140)
Q Consensus 71 ~~~l~~~aH~LKGSSasi-GA~~l~~lc~~lE~~~-~--~~~~~~~~~~l~~l~~ef~~~~~~L~ 131 (140)
..+.+..||.+|+++-.| +|...+..+...-+-+ + ..+...+.++|.+++++-..+...+.
T Consensus 1551 A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~ 1615 (1758)
T KOG0994|consen 1551 AERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLAT 1615 (1758)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446677888999887654 4555555444322211 1 12555667788888777765555443
No 85
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=23.14 E-value=3.1e+02 Score=20.17 Aligned_cols=89 Identities=15% Similarity=0.025 Sum_probs=56.4
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhh-----------ccchhhcChHHHHHHHHHHHHH----hhcC
Q 035509 43 EDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDF-----------KGLCVSIGASKVLIEVNKARAC----CDNG 107 (140)
Q Consensus 43 ~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~L-----------KGSSasiGA~~l~~lc~~lE~~----~~~~ 107 (140)
..|-..|.+|+-..+..|+.+|+-+ .|-+......... .+-..--|-.....+-..|+.. ...+
T Consensus 31 ~~Ltg~Y~~DT~~Vi~tlr~~i~lp-kd~p~~~~a~~~ar~~indyvsrYRr~~~v~g~~SFttm~TALNsLAGHY~sy~ 109 (135)
T TIGR03044 31 TRLTGDYVEDTLAVIQTLREAIDLP-DDDPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALNSLAGHYKSYA 109 (135)
T ss_pred ccccchHHHHHHHHHHHHHHHHcCC-CCCccHHHHHHHHHHHHHHHHHHhcCCCCcCCcccHHHHHHHHHHHHHHhccCC
Confidence 3577899999999999999999852 3444333333332 3333444555555555555543 2223
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Q 035509 108 NIEGGKAALEKVKVEQETLKAKLDS 132 (140)
Q Consensus 108 ~~~~~~~~l~~l~~ef~~~~~~L~~ 132 (140)
+-+--..+-++|.+||.++..+|.+
T Consensus 110 ~rPlPeklk~Rl~~El~~AE~al~R 134 (135)
T TIGR03044 110 NRPLPEKLKERLEKELKKAEKALLR 134 (135)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 4444467888899999998888753
No 86
>cd07298 PX_RICS The phosphoinositide binding Phox Homology domain of PX-RICS. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. RICS is a Rho GTPase-activating protein for cdc42 and Rac1. It is implicated in the regulation of postsynaptic signaling and neurite outgrowth. An N-terminal splicing variant of RICS containing additional PX and Src Homology 3 (SH3) domains, also called PX-RICS, is the main isoform expressed during neural development. PX-RICS is involved in neural functions including axon and dendrite extension, postnatal remodeling, and fine-tuning of neural circuits during early brain development. The PX domain is involved in targeting of proteins to PI-enriched membranes, and may also be involved in protein-protein interaction. The PX domain of PX-RICS specifically binds phosphatidylinositol 3-phosphate (PI3P), PI4P, and
Probab=22.77 E-value=83 Score=22.53 Aligned_cols=37 Identities=22% Similarity=0.372 Sum_probs=26.4
Q ss_pred hcccchhhhHHHHHHHHhcccCC----ChhHHHHHHHHHHH
Q 035509 15 QSFLDEEILNDQFIQLESMATED----DPAFAEDTVSLYFQ 51 (140)
Q Consensus 15 ~~~~~~~~lD~~f~~L~~L~~~~----~~~fv~~Li~~fl~ 51 (140)
.++.+.=+-|..|++|.+|.+.+ +|+++..++..|+.
T Consensus 54 D~~LHrCvyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~ 94 (115)
T cd07298 54 DKHLHLCIYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLS 94 (115)
T ss_pred HHHHHHHHHhhhhhccccCCCcccccccHHHHHHHHHHHHH
Confidence 44555566777788899887642 46788888888864
No 87
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=22.60 E-value=99 Score=26.80 Aligned_cols=30 Identities=10% Similarity=0.152 Sum_probs=25.8
Q ss_pred HHHHHHHhhhhccchhhcChHHHHHHHHHH
Q 035509 71 YNALEKCLHDFKGLCVSIGASKVLIEVNKA 100 (140)
Q Consensus 71 ~~~l~~~aH~LKGSSasiGA~~l~~lc~~l 100 (140)
.+++...|...-.++-||||.||..+...+
T Consensus 374 I~~iAeiA~~vN~~~ENIGARRLhTvlErl 403 (444)
T COG1220 374 IKRIAEIAYQVNEKTENIGARRLHTVLERL 403 (444)
T ss_pred HHHHHHHHHHhcccccchhHHHHHHHHHHH
Confidence 347888889999999999999999988764
No 88
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=22.28 E-value=5.5e+02 Score=22.67 Aligned_cols=114 Identities=14% Similarity=0.215 Sum_probs=64.7
Q ss_pred hhHHHHHHHHHhcccchhhhHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhh--
Q 035509 4 NPLHQQIATMRQSFLDEEILNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDF-- 81 (140)
Q Consensus 4 ~~l~~~~~~~~~~~~~~~~lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~L-- 81 (140)
.++..+|..+.....+..+|+..++.|...-...|-.-...|...| ..... .++.+.--++.+-.-+.+..-.+
T Consensus 430 ~p~~~el~~l~~~~~~d~~v~~~l~~l~~~a~~~Gv~s~~~L~~rf-~~v~~---~~r~~~l~~~~~~g~~~~~~s~~~S 505 (582)
T PF09731_consen 430 RPFEDELRALKELAPDDELVDAALSSLPPEAAQRGVPSEAQLRNRF-ERVAP---EVRRASLVPPEGAGLLGHLLSYLFS 505 (582)
T ss_pred CCHHHHHHHHHHhCCCChHHHHHHHhcCHHHhhCCCCCHHHHHHHH-HHHHH---HHHHHHhcCCCCCCHHHHHHHHHHh
Confidence 3455555555555555556665555555544332322333566666 22222 23333222233444555444443
Q ss_pred ------ccchhhcChHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHH
Q 035509 82 ------KGLCVSIGASKVLIEVNKARACCDNGNIEGGKAALEKVKV 121 (140)
Q Consensus 82 ------KGSSasiGA~~l~~lc~~lE~~~~~~~~~~~~~~l~~l~~ 121 (140)
||...+.....+-.+-...|.+-+.|+++.+...+..|+.
T Consensus 506 ~l~~~~~~~~~~~~~~d~~~ilarae~~l~~gdL~~A~~~~~~L~g 551 (582)
T PF09731_consen 506 LLLFRPKGGEVDPEGDDVESILARAEYYLERGDLDKAARELNQLKG 551 (582)
T ss_pred eeeeecCCCCCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence 3422234666677888889999999999999888888877
No 89
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=21.72 E-value=37 Score=28.00 Aligned_cols=25 Identities=12% Similarity=0.258 Sum_probs=21.9
Q ss_pred CChhHHHHHHHHHhcccchhhhHHH
Q 035509 2 ENNPLHQQIATMRQSFLDEEILNDQ 26 (140)
Q Consensus 2 ~~~~l~~~~~~~~~~~~~~~~lD~~ 26 (140)
+-+.|...+..=+..|++.|++|+.
T Consensus 196 ~r~~L~~rI~~Rv~~Ml~~GlieEv 220 (300)
T PRK14729 196 PMEEMKSRIISRVNNMIDCGLLSEI 220 (300)
T ss_pred CHHHHHHHHHHHHHHHHHCCHHHHH
Confidence 4567899999999999999999965
No 90
>PHA02666 hypothetical protein; Provisional
Probab=21.63 E-value=1.2e+02 Score=24.48 Aligned_cols=52 Identities=15% Similarity=0.358 Sum_probs=37.7
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhcc----chhhcChHHH
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKG----LCVSIGASKV 93 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKG----SSasiGA~~l 93 (140)
.|++- .=|-+.+.|-+.+|..|++.|.. .+.-.++..|.-|+ -++|||-..|
T Consensus 203 kpNLQ-~DIcTLC~DIEtQLSALEKSLES---ElnFYrrYIqDTKsLLatRAANIgsKAL 258 (287)
T PHA02666 203 KPNLQ-SDICTLCHDIETQLSALEKSLES---ELNFYRRYIQDTKSLLATRAANIGSKAL 258 (287)
T ss_pred CCchh-hHHHHhhhhHHHHHHHHHHHHHH---HHHHHHHHHHhHHHHHHHHhhcccccee
Confidence 34443 56778889999999999999986 46667788887775 4667775544
No 91
>PF03858 Crust_neuro_H: Crustacean neurohormone H; InterPro: IPR005558 Arthropod express a family of neuropeptides [] which so far consist of the following types of neurohormones: Crustacean hyperglycemic hormone (CHH). CHH is primarily involved in blood sugar regulation, but also plays a role in the control of molting and reproduction. Molt-inhibiting hormone (MIH). MIH inhibits Y-organs where molting hormone (ecdysteroid) is secreted. A molting cycle is initiated when MIH secretion diminishes or stops. Gonad-inhibiting hormone (GIH), also known as vitellogenesis-inhibiting hormone (VIH) because of its role in inhibiting vitellogenesis in female animals. Mandibular organ-inhibiting hormone (MOIH). MOIH represses the synthesis of methyl farnesoate, the precursor of insect juvenile hormone III in the mandibular organ. Ion transport peptide (ITP) from locust. ITP stimulates salt and water reabsorption and inhibits acid secretion in the ileum of the locust. Caenorhabditis elegans hypothetical protein ZC168.2. These neurohormones are peptides of 70 to 80 residues which are processed from larger size precursors. They contain six conserved cysteines that are involved in disulphide bonds, as shown in the following schematic representation. Crustacean neurohormone H proteins are referred to as precursor-related peptides as they are typically co-transcribed and translated with the CHH neurohormone (IPR001166 from INTERPRO). However, in some species this neuropeptide is synthesized as a separate protein. Furthermore, neurohormone H can undergo proteolysis to give rise to 5 different neuropeptides [].
Probab=21.42 E-value=79 Score=18.54 Aligned_cols=23 Identities=17% Similarity=0.284 Sum_probs=18.5
Q ss_pred CHHHHHHHhhhhccchhhcChHH
Q 035509 70 DYNALEKCLHDFKGLCVSIGASK 92 (140)
Q Consensus 70 D~~~l~~~aH~LKGSSasiGA~~ 92 (140)
-|-++.++.-+|||++.+.++..
T Consensus 5 G~GRMerLLaSlrg~~~s~~plg 27 (41)
T PF03858_consen 5 GFGRMERLLASLRGSADSSTPLG 27 (41)
T ss_pred chhhHHHHHHHHhccCCCCcchh
Confidence 47789999999999988776643
No 92
>PF14493 HTH_40: Helix-turn-helix domain
Probab=21.36 E-value=1.9e+02 Score=18.95 Aligned_cols=38 Identities=5% Similarity=0.019 Sum_probs=26.2
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHH
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEK 76 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~ 76 (140)
+++....+...|-......|..+.+++.. ..||..+|-
T Consensus 51 ~~e~~~~I~~~~~~~~~~~lk~i~e~l~~-~~sy~~iRl 88 (91)
T PF14493_consen 51 SEEEIKQIEDAIEKLGSEKLKPIKEALPG-DYSYFEIRL 88 (91)
T ss_pred CHHHHHHHHHHHHHcCcccHHHHHHHCCC-CCCHHHHHH
Confidence 34456666666666566788888888875 478888763
No 93
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=21.21 E-value=2.3e+02 Score=17.96 Aligned_cols=56 Identities=9% Similarity=0.145 Sum_probs=36.4
Q ss_pred CCChhHHHHHHHHHhcccchhh-hHHHHHHHHhcccCCChhHHHHHHHHHHHhHHHHHHHHHH
Q 035509 1 MENNPLHQQIATMRQSFLDEEI-LNDQFIQLESMATEDDPAFAEDTVSLYFQETTKIIATLEE 62 (140)
Q Consensus 1 ~~~~~l~~~~~~~~~~~~~~~~-lD~~f~~L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~ 62 (140)
|+++.--.+|.+.++.+.+..+ ||+. ..+... |-.++ .-....++++++.+..|..
T Consensus 1 ~sfEe~l~~Le~Iv~~LE~~~l~Lees----l~lyee-G~~L~-k~c~~~L~~ae~kv~~l~~ 57 (67)
T TIGR01280 1 LSFEEALSELEQIVQKLESGDLALEEA----LNLFER-GMALA-RRCEKKLAQAEQRVRKLLK 57 (67)
T ss_pred CCHHHHHHHHHHHHHHHHCCCCCHHHH----HHHHHH-HHHHH-HHHHHHHHHHHHHHHHHHh
Confidence 5667777888888888887766 6633 233322 33333 6677778888887777654
No 94
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=20.59 E-value=96 Score=23.36 Aligned_cols=51 Identities=10% Similarity=0.239 Sum_probs=36.1
Q ss_pred HHhcccCCChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhc
Q 035509 30 LESMATEDDPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSI 88 (140)
Q Consensus 30 L~~L~~~~~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasi 88 (140)
|++|-.++ ...+..|.+|+...=.++++++..+ -+.++..-|+=|++++++
T Consensus 28 lReLt~~E-----q~el~~y~~d~~~yK~~~k~~l~er---~~~~~~~~~~~~~~~~~~ 78 (159)
T cd00225 28 LRELTPDE-----QQELAQYVEDVADYKEEVKQALKER---QEGLKLRRAGKKKKAVTL 78 (159)
T ss_pred eeeCCHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH---HHhhhhhhhccccccccc
Confidence 45564333 3566789999999999999999865 345665567777775544
No 95
>PRK08582 hypothetical protein; Provisional
Probab=20.53 E-value=1.4e+02 Score=21.64 Aligned_cols=26 Identities=12% Similarity=0.377 Sum_probs=21.9
Q ss_pred hhHHHHHHHHHHHhHHHHHHHHHHHhh
Q 035509 39 PAFAEDTVSLYFQETTKIIATLEEEFV 65 (140)
Q Consensus 39 ~~fv~~Li~~fl~d~~~~l~~l~~Al~ 65 (140)
++| ...+..|+.||++.|.+|+.-..
T Consensus 103 ~~f-e~~l~~flk~s~~~~~~l~~~~~ 128 (139)
T PRK08582 103 EDF-EQKMSRFLKDSEDRLTSIKRNTE 128 (139)
T ss_pred cCH-HHHHHHHHHHHHHHHHHHHhhcc
Confidence 355 58999999999999999987654
No 96
>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [].; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0005744 mitochondrial inner membrane presequence translocase complex; PDB: 2CW9_A 2FXT_A 3QK9_A.
Probab=20.26 E-value=3.1e+02 Score=19.10 Aligned_cols=55 Identities=20% Similarity=0.327 Sum_probs=37.6
Q ss_pred ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhhcChHHHHHHHHHHHHHhhcC
Q 035509 38 DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVSIGASKVLIEVNKARACCDNG 107 (140)
Q Consensus 38 ~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lc~~lE~~~~~~ 107 (140)
.|+|- ...|+..+.+.+..|..|...+ |...++.+ ++-.-+..++.++......|
T Consensus 12 dp~Fd---~~~F~~~ak~~f~~i~~A~~~~--D~~~l~~~----------~t~~~~~~~~~~i~~~~~~g 66 (147)
T PF04280_consen 12 DPGFD---PAAFLEEAKEAFLPIQEAWAKG--DLEALRPL----------LTEELYERLQAEIKARRSRG 66 (147)
T ss_dssp -TT-----HHHHHHHHHHTHHHHHHHHHHT---HHHHHHH----------B-HHHHHHHHHHHHHHHHTT
T ss_pred CCCCC---HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHH----------hCHHHHHHHHHHHHHHHHcC
Confidence 45554 5678888999999999999976 89998876 44556667777777664443
No 97
>PF03981 Ubiq_cyt_C_chap: Ubiquinol-cytochrome C chaperone ; InterPro: IPR021150 Saccharomyces cerevisiae ubiquinol-cytochrome C chaperone is required for assembly of coenzyme QF-2-cytochrome C reductase. It appears to be found in a number of different organisms including Homo sapiens, Caenorhabditis elegans and Rhizobium meliloti. This entry also contains bacterial proteins belonging to the UPF0174 family.
Probab=20.24 E-value=2.3e+02 Score=19.86 Aligned_cols=58 Identities=10% Similarity=0.201 Sum_probs=37.6
Q ss_pred HHHHHhcccCC--ChhHHHHHHHHHHHhHHHHHHHHHHHhhcCCCCHHHHHHHhhhhccchhh
Q 035509 27 FIQLESMATED--DPAFAEDTVSLYFQETTKIIATLEEEFVKDPIDYNALEKCLHDFKGLCVS 87 (140)
Q Consensus 27 f~~L~~L~~~~--~~~fv~~Li~~fl~d~~~~l~~l~~Al~~~~~D~~~l~~~aH~LKGSSas 87 (140)
|--+..|+.++ +..+-..|++.|++|+...+.++.-- +. .--..++++...+-|....
T Consensus 21 ~l~~~RLk~~~~~~~~~~q~l~~~~~~d~~~~l~~~gv~-d~--~~~k~~k~l~~~~~g~~~a 80 (141)
T PF03981_consen 21 WLVLRRLKAEGKEGKELEQALFDKFFEDMDERLREMGVG-DL--SVGKRMKKLQEQFYGRLLA 80 (141)
T ss_pred HHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHhcCc-ch--hhhHHHHHHHHHHHHHHHH
Confidence 44455565555 66788999999999999999877541 10 0134566666666665543
Done!