Query 031859
Match_columns 151
No_of_seqs 136 out of 1009
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 06:21:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031859.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031859hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4747 Two-component phosphor 99.9 1.4E-22 3.1E-27 146.5 15.8 145 4-149 5-149 (150)
2 PF01627 Hpt: Hpt domain; Int 99.6 2.8E-15 6E-20 99.5 10.0 82 45-128 1-88 (90)
3 COG2198 ArcB FOG: HPt domain [ 99.6 9E-15 2E-19 103.8 12.7 96 37-134 19-117 (122)
4 smart00073 HPT Histidine Phosp 99.5 6.6E-14 1.4E-18 93.0 6.3 85 45-132 2-86 (87)
5 cd00088 HPT Histidine Phosphot 99.4 1.5E-12 3.2E-17 88.0 8.4 64 44-109 2-69 (94)
6 TIGR02956 TMAO_torS TMAO reduc 99.3 1.7E-11 3.7E-16 111.4 11.7 94 37-134 875-968 (968)
7 PRK10618 phosphotransfer inter 99.1 9.7E-10 2.1E-14 100.5 11.0 83 44-128 810-892 (894)
8 PRK11091 aerobic respiration c 99.0 4E-09 8.6E-14 94.5 13.1 101 37-139 677-777 (779)
9 PRK11466 hybrid sensory histid 98.6 2.7E-07 5.8E-12 83.9 11.3 89 38-137 820-908 (914)
10 PRK11107 hybrid sensory histid 98.6 6.2E-07 1.3E-11 81.2 13.5 98 37-136 820-918 (919)
11 COG0643 CheA Chemotaxis protei 98.3 4.9E-06 1.1E-10 74.7 10.1 94 40-133 3-105 (716)
12 PRK10547 chemotaxis protein Ch 98.2 1.4E-05 3.1E-10 71.4 11.2 62 44-105 4-71 (670)
13 PRK09959 hybrid sensory histid 97.5 0.0021 4.6E-08 60.4 13.1 97 37-135 1096-1193(1197)
14 PRK15347 two component system 97.0 0.0043 9.4E-08 56.5 8.9 61 46-110 838-898 (921)
15 TIGR03042 PS_II_psbQ_bact phot 90.8 4.2 9.2E-05 29.7 9.2 73 52-136 46-139 (142)
16 PF07743 HSCB_C: HSCB C-termin 89.3 3.5 7.7E-05 26.4 7.2 44 38-83 24-67 (78)
17 PLN02956 PSII-Q subunit 89.2 6.2 0.00014 30.1 9.3 77 47-128 85-182 (185)
18 cd08323 CARD_APAF1 Caspase act 87.0 3.8 8.2E-05 27.3 6.3 73 3-81 10-83 (86)
19 PF13779 DUF4175: Domain of un 86.7 5.5 0.00012 37.1 9.1 88 34-126 485-572 (820)
20 TIGR02302 aProt_lowcomp conser 85.1 8 0.00017 36.1 9.4 89 34-128 516-604 (851)
21 TIGR00714 hscB Fe-S protein as 80.3 11 0.00024 27.7 7.1 68 57-135 86-153 (157)
22 PRK01356 hscB co-chaperone Hsc 79.0 11 0.00023 28.2 6.6 53 71-132 107-159 (166)
23 PRK03578 hscB co-chaperone Hsc 72.8 22 0.00048 26.7 7.0 75 39-132 93-168 (176)
24 PRK01773 hscB co-chaperone Hsc 70.5 29 0.00063 26.1 7.1 64 39-120 90-153 (173)
25 PF05757 PsbQ: Oxygen evolving 69.8 25 0.00054 27.2 6.8 75 51-127 105-197 (202)
26 PF08900 DUF1845: Domain of un 68.9 37 0.00079 26.4 7.6 56 84-140 32-87 (217)
27 COG3046 Uncharacterized protei 65.3 29 0.00062 30.1 6.7 66 39-110 226-291 (505)
28 TIGR03761 ICE_PFL4669 integrat 60.5 71 0.0015 25.0 7.8 56 85-141 31-86 (216)
29 PRK05014 hscB co-chaperone Hsc 57.9 66 0.0014 24.0 7.0 54 57-120 98-152 (171)
30 cd08326 CARD_CASP9 Caspase act 56.9 50 0.0011 21.7 5.6 62 11-76 18-80 (84)
31 PF05396 Phage_T7_Capsid: Phag 54.6 44 0.00096 23.8 5.2 45 37-83 43-87 (123)
32 COG0783 Dps DNA-binding ferrit 46.5 96 0.0021 22.9 6.2 76 39-136 43-123 (156)
33 PF09537 DUF2383: Domain of un 45.1 93 0.002 20.8 6.2 45 103-147 22-66 (111)
34 PF14615 Rsa3: Ribosome-assemb 43.6 60 0.0013 19.1 3.8 40 44-88 4-45 (47)
35 PF06248 Zw10: Centromere/kine 38.9 2.8E+02 0.0061 24.6 11.3 23 114-136 149-171 (593)
36 PF08858 IDEAL: IDEAL domain; 36.8 76 0.0017 17.5 5.5 35 44-82 3-37 (37)
37 PF09280 XPC-binding: XPC-bind 36.7 69 0.0015 19.7 3.5 37 26-63 8-44 (59)
38 TIGR02719 repress_PhaQ poly-be 36.5 1.1E+02 0.0023 22.2 5.0 62 88-149 54-131 (138)
39 PRK03057 hypothetical protein; 36.4 1.3E+02 0.0029 22.8 5.7 36 47-84 133-174 (180)
40 PRK13916 plasmid segregation p 36.3 59 0.0013 21.8 3.3 30 26-55 19-48 (97)
41 KOG2424 Protein involved in tr 34.0 84 0.0018 24.1 4.2 35 86-125 147-181 (195)
42 PRK03636 hypothetical protein; 33.9 1.7E+02 0.0036 22.2 5.9 28 55-84 148-175 (179)
43 TIGR02284 conserved hypothetic 33.5 1.4E+02 0.0029 21.4 5.2 39 109-147 27-65 (139)
44 PF07014 Hs1pro-1_C: Hs1pro-1 33.2 2.5E+02 0.0054 22.3 9.6 62 43-115 55-116 (261)
45 cd01671 CARD Caspase activatio 32.6 1.3E+02 0.0027 18.7 6.3 62 4-68 9-71 (80)
46 PF04722 Ssu72: Ssu72-like pro 32.4 77 0.0017 24.4 3.9 18 86-103 145-162 (195)
47 PF07304 SRA1: Steroid recepto 31.1 2.1E+02 0.0046 20.9 7.9 83 48-135 64-146 (157)
48 PF06160 EzrA: Septation ring 30.4 3.9E+02 0.0084 23.7 14.2 101 26-129 175-292 (560)
49 COG2991 Uncharacterized protei 30.4 12 0.00026 24.3 -0.7 26 80-106 27-52 (77)
50 PLN02407 diphosphomevalonate d 30.1 91 0.002 26.2 4.2 34 45-80 223-257 (343)
51 KOG1104 Nuclear cap-binding co 29.7 4.7E+02 0.01 24.4 10.3 103 28-139 86-207 (759)
52 TIGR01220 Pmev_kin_Gr_pos phos 28.9 3.1E+02 0.0066 22.7 7.2 56 46-103 246-309 (358)
53 COG3433 Aryl carrier domain [S 28.3 88 0.0019 20.3 3.0 51 45-96 5-55 (74)
54 PF02845 CUE: CUE domain; Int 27.8 1.1E+02 0.0023 17.0 3.1 34 28-61 5-38 (42)
55 PF03670 UPF0184: Uncharacteri 27.8 1.9E+02 0.0041 19.2 5.3 35 107-141 32-66 (83)
56 cd07299 PX_TCGAP The phosphoin 27.5 85 0.0019 22.0 3.1 43 13-55 49-95 (113)
57 PF09577 Spore_YpjB: Sporulati 27.4 1.9E+02 0.0041 22.9 5.4 37 93-129 102-138 (232)
58 cd07278 PX_RICS_like The phosp 26.5 70 0.0015 22.4 2.5 44 12-55 49-96 (114)
59 PF04280 Tim44: Tim44-like dom 26.4 86 0.0019 22.0 3.1 46 47-104 17-62 (147)
60 PF08657 DASH_Spc34: DASH comp 25.9 3.3E+02 0.0072 21.8 6.6 64 73-136 134-201 (259)
61 PF01322 Cytochrom_C_2: Cytoch 25.8 2.1E+02 0.0045 19.5 5.0 38 48-87 78-115 (122)
62 PF14276 DUF4363: Domain of un 25.4 2.3E+02 0.0049 19.4 11.3 83 42-126 16-109 (121)
63 cd07298 PX_RICS The phosphoino 25.3 87 0.0019 22.1 2.8 43 13-55 51-97 (115)
64 PF04837 MbeB_N: MbeB-like, N- 25.2 1.6E+02 0.0036 17.7 7.3 47 93-143 3-49 (52)
65 PF13838 Clathrin_H_link: Clat 25.1 39 0.00085 21.4 1.0 38 98-135 10-47 (66)
66 cd08332 CARD_CASP2 Caspase act 25.1 2.1E+02 0.0045 18.9 6.8 61 13-77 24-85 (90)
67 smart00388 HisKA His Kinase A 25.1 1.3E+02 0.0029 16.6 6.9 55 74-136 5-59 (66)
68 PF06657 Cep57_MT_bd: Centroso 23.7 2E+02 0.0044 18.6 4.2 32 113-144 15-46 (79)
69 PF02153 PDH: Prephenate dehyd 23.6 3.6E+02 0.0078 21.0 7.1 40 37-78 209-255 (258)
70 KOG2280 Vacuolar assembly/sort 23.1 4.8E+02 0.011 24.5 7.7 73 41-124 701-774 (829)
71 PF09686 Plasmid_RAQPRD: Plasm 22.6 92 0.002 20.5 2.4 43 97-139 26-68 (81)
72 TIGR00601 rad23 UV excision re 22.6 2.1E+02 0.0046 24.3 5.2 37 26-63 255-291 (378)
73 TIGR01240 mevDPdecarb diphosph 22.5 1.6E+02 0.0034 24.1 4.3 32 46-79 201-232 (305)
74 KOG3542 cAMP-regulated guanine 22.1 4.7E+02 0.01 24.6 7.4 78 56-135 906-995 (1283)
75 COG4477 EzrA Negative regulato 21.8 5.9E+02 0.013 22.9 13.5 57 8-65 30-87 (570)
76 PF11815 DUF3336: Domain of un 21.7 3.2E+02 0.0068 19.7 5.6 66 55-129 60-126 (145)
77 COG1561 Uncharacterized stress 21.4 4.6E+02 0.01 21.5 11.5 98 45-145 139-242 (290)
78 KOG0796 Spliceosome subunit [R 21.0 4.9E+02 0.011 21.7 10.8 94 43-144 84-178 (319)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.90 E-value=1.4e-22 Score=146.45 Aligned_cols=145 Identities=56% Similarity=0.948 Sum_probs=139.5
Q ss_pred HHHHHHHHHHHHHhhhhccCchHHHHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhh
Q 031859 4 VSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (151)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~ld~~f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (151)
|-+|+..+.+++.+++++|++|++|.+|.+|.++..|.|+.+++..|.+++...+..++.++..+- |+..+..+.|.+|
T Consensus 5 i~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~~-d~k~~~~~~hqlk 83 (150)
T KOG4747|consen 5 IISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCER-DFKKLGSHVHQLK 83 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhHh-HHHHHHHHHHHcc
Confidence 789999999999999999999999999999999999999999999999999999999999997653 9999999999999
Q ss_pred hhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcCCCC
Q 031859 84 GSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQILAAGGSVP 149 (151)
Q Consensus 84 Gss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~~~~~~~~~ 149 (151)
|+|..+||.++...|..+-..|+.++.+++...+++++.++..++..|+.|++.+||.++++|.++
T Consensus 84 gssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~rq~i~~~~~~n 149 (150)
T KOG4747|consen 84 GSSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLERQEILAAGGTN 149 (150)
T ss_pred CchhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 999999999999999999999999999999999999999999999999999999999889888773
No 2
>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=99.64 E-value=2.8e-15 Score=99.50 Aligned_cols=82 Identities=22% Similarity=0.427 Sum_probs=69.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---cCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHH---HHHHHH
Q 031859 45 EVASLFFDDAEKLINSMARAL---EQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREG---CMRCLQ 118 (151)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~---~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~---~~~~~~ 118 (151)
+++..|+++.++.+..|+.++ ..+ |+..+++.+|+|||+++++|+..+..+|..+|..++.++... +...+.
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 578999999999999999999 777 999999999999999999999999999999999999987665 344444
Q ss_pred HHHHHHHHHH
Q 031859 119 QVSHEYTMLK 128 (151)
Q Consensus 119 ~l~~~~~~l~ 128 (151)
.+...++++.
T Consensus 79 ~l~~~l~~l~ 88 (90)
T PF01627_consen 79 ELEAMLEQLR 88 (90)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHh
Confidence 4444444443
No 3
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.63 E-value=9e-15 Score=103.77 Aligned_cols=96 Identities=22% Similarity=0.390 Sum_probs=86.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhh-cCHHHHHH
Q 031859 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDA-QNREGCMR 115 (151)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~-~~~~~~~~ 115 (151)
+++++++.+++..|+++.+..+..+..++..+ |+..+.+.+|+|||+|+++|+..|...|..||..++. ...+....
T Consensus 19 g~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~~~~~~~~~~ 96 (122)
T COG2198 19 GGDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRSGASLEELEE 96 (122)
T ss_pred CCChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHcCCcHHHHHH
Confidence 46799999999999999999999999999999 9999999999999999999999999999999999998 56778888
Q ss_pred HHHHHHHH--HHHHHHHHHHH
Q 031859 116 CLQQVSHE--YTMLKSKLQTL 134 (151)
Q Consensus 116 ~~~~l~~~--~~~l~~~L~~~ 134 (151)
++.++... +......+.++
T Consensus 97 ~i~~l~~~~~~~~~~~~~~~~ 117 (122)
T COG2198 97 LIAELKDELQLDVLALELLTY 117 (122)
T ss_pred HHHHHHHHhcchHHHHHHHHH
Confidence 88888888 55555555444
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=99.49 E-value=6.6e-14 Score=93.02 Aligned_cols=85 Identities=21% Similarity=0.331 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH
Q 031859 45 EVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEY 124 (151)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~ 124 (151)
+++..|+++.+..+..|..+...+ |+..+.+.+|+|||+|+++|+..|..+|..+|..++...... ....+.+...+
T Consensus 2 e~~~~f~~~~~~~l~~l~~~~~~~--~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~~~~-~~~~~~l~~~~ 78 (87)
T smart00073 2 EELAEFLQSLEEGLLELEKALDAQ--DVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAARSGE-VELTPDLLDLL 78 (87)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCHh--HHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHHcCC-CCCCHHHHHHH
Confidence 578999999999999999999888 999999999999999999999999999999999887643322 24566677777
Q ss_pred HHHHHHHH
Q 031859 125 TMLKSKLQ 132 (151)
Q Consensus 125 ~~l~~~L~ 132 (151)
.++...|.
T Consensus 79 ~~~~~~l~ 86 (87)
T smart00073 79 LELVDVLK 86 (87)
T ss_pred HHHHHHHc
Confidence 76666553
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=99.41 E-value=1.5e-12 Score=87.97 Aligned_cols=64 Identities=31% Similarity=0.533 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHc----CCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcC
Q 031859 44 VEVASLFFDDAEKLINSMARALE----QPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN 109 (151)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~----~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~ 109 (151)
.+++..|+++.++.+..|..++. .+ |+..+.+.+|+|||+|+++|+..|..+|..+|.+++.+.
T Consensus 2 ~~l~~~f~~~~~~~l~~l~~~~~~~~~~~--d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~lE~~~~~~~ 69 (94)
T cd00088 2 EELLELFLEEAEELLEELERALLELEDAE--DLNEIFRAAHTLKGSAASLGLQRLAQLAHQLEDLLDALR 69 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCHH--HHHHHHHHHHhhhhHHhcCChHHHHHHHHHHHHHHHHHH
Confidence 47889999999999999999998 77 999999999999999999999999999999999998753
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=99.31 E-value=1.7e-11 Score=111.36 Aligned_cols=94 Identities=18% Similarity=0.307 Sum_probs=87.3
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHH
Q 031859 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRC 116 (151)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~ 116 (151)
..+++.+.+++..|+++.+..+..|..++..+ |+..++..+|+|||+++++|+..|..+|..||.+++.++.. ...
T Consensus 875 ~~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~~--~~~ 950 (968)
T TIGR02956 875 VLGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGALE--LSD 950 (968)
T ss_pred hcCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCcc--hhH
Confidence 45678899999999999999999999999999 99999999999999999999999999999999999988773 467
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 031859 117 LQQVSHEYTMLKSKLQTL 134 (151)
Q Consensus 117 ~~~l~~~~~~l~~~L~~~ 134 (151)
+.+++..|.++..+|++|
T Consensus 951 ~~~l~~~~~~~~~~l~~~ 968 (968)
T TIGR02956 951 IDEIKQAWQASKTALDQW 968 (968)
T ss_pred HHHHHHHHHHHHHHHHhC
Confidence 899999999999999875
No 7
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=99.07 E-value=9.7e-10 Score=100.54 Aligned_cols=83 Identities=16% Similarity=0.292 Sum_probs=76.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH
Q 031859 44 VEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHE 123 (151)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~ 123 (151)
..+...|++..+.++..|..++..+ |+..+...+|+|||+++++|+..+.++|..||+.++.++..++...+.+|...
T Consensus 810 s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~~i~~~i~~id~~ 887 (894)
T PRK10618 810 SDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEPGIENYISDIDSF 887 (894)
T ss_pred hhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChHHHHHHHHHHHHH
Confidence 3466899999999999999999999 99999999999999999999999999999999999999998888888888887
Q ss_pred HHHHH
Q 031859 124 YTMLK 128 (151)
Q Consensus 124 ~~~l~ 128 (151)
+.++.
T Consensus 888 v~~ll 892 (894)
T PRK10618 888 VKSLL 892 (894)
T ss_pred HHHHh
Confidence 77654
No 8
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.03 E-value=4e-09 Score=94.49 Aligned_cols=101 Identities=13% Similarity=0.214 Sum_probs=93.1
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHH
Q 031859 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRC 116 (151)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~ 116 (151)
..+...+...+..|....+..+..|..++..+ |+..+...+|+|||+++++|+..|.++|..+|.....+..+.....
T Consensus 677 ~~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~ 754 (779)
T PRK11091 677 LVGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAWWDNVQDW 754 (779)
T ss_pred hcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccccHHHHHHH
Confidence 33566788889999999999999999999999 9999999999999999999999999999999998888888888999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031859 117 LQQVSHEYTMLKSKLQTLFRMEQ 139 (151)
Q Consensus 117 ~~~l~~~~~~l~~~L~~~~~~~~ 139 (151)
+.++..+|+...+.|+.|+...+
T Consensus 755 ~~~l~~~~~~~~~~~~~~~~~~~ 777 (779)
T PRK11091 755 VEELKNEWRHDVEVLKAWLAQAE 777 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999998654
No 9
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.65 E-value=2.7e-07 Score=83.87 Aligned_cols=89 Identities=21% Similarity=0.242 Sum_probs=72.6
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 031859 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCL 117 (151)
Q Consensus 38 ~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~ 117 (151)
.+...+.+++..|.++....+..+..+...+ |+..+++.+|+|||+++++|+..+..+|..+|.++...
T Consensus 820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~~~--------- 888 (914)
T PRK11466 820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPLSA--------- 888 (914)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCCc---------
Confidence 3456688899999999999999999999999 99999999999999999999999999999999876432
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 031859 118 QQVSHEYTMLKSKLQTLFRM 137 (151)
Q Consensus 118 ~~l~~~~~~l~~~L~~~~~~ 137 (151)
..+...+.+...+|+.|++.
T Consensus 889 ~~~~~~~~~~~~~~~~~~~~ 908 (914)
T PRK11466 889 PLPHEEITRSVAALEAWLAK 908 (914)
T ss_pred hhHHHHHHHHHHHHHHHHHh
Confidence 22345555555566666543
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.64 E-value=6.2e-07 Score=81.21 Aligned_cols=98 Identities=19% Similarity=0.276 Sum_probs=84.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhc-CHHHHHH
Q 031859 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ-NREGCMR 115 (151)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~-~~~~~~~ 115 (151)
.+.+....+++..|.+..+.....|..++... |+..+...+|++||+++++|+..+.++|..+|..++.+ ....+..
T Consensus 820 ~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~ 897 (919)
T PRK11107 820 AGKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGTSVEDLEP 897 (919)
T ss_pred CCCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCChhhHHH
Confidence 45678888999999999999999999999999 99999999999999999999999999999999999876 4456667
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 031859 116 CLQQVSHEYTMLKSKLQTLFR 136 (151)
Q Consensus 116 ~~~~l~~~~~~l~~~L~~~~~ 136 (151)
.+.++..++.++..++..|+.
T Consensus 898 ~~~~~~~~~~~~~~~~~~~~~ 918 (919)
T PRK11107 898 ELLELLDEMENVARAAKKVLS 918 (919)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 777777777777777776653
No 11
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=98.30 E-value=4.9e-06 Score=74.75 Aligned_cols=94 Identities=20% Similarity=0.289 Sum_probs=67.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH---cCCCCCH---HHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHH---HhhcCH
Q 031859 40 PDFVVEVASLFFDDAEKLINSMARAL---EQPCVDF---KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSF---CDAQNR 110 (151)
Q Consensus 40 ~~~~~~ll~~F~~~~~~~l~~L~~a~---~~~~~D~---~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a---~~~~~~ 110 (151)
.....+++..|+.+.++.+..|+..+ +..+.|. ..+.+.+|+|||+|+++|+..+.++|+.+|+. .+.+..
T Consensus 3 ~~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~ 82 (716)
T COG0643 3 SMDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGEL 82 (716)
T ss_pred hhHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCc
Confidence 34577899999999999999999754 3322243 57899999999999999999999999999985 455544
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031859 111 EGCMRCLQQVSHEYTMLKSKLQT 133 (151)
Q Consensus 111 ~~~~~~~~~l~~~~~~l~~~L~~ 133 (151)
.--...+..+-.+.+.+...++.
T Consensus 83 ~~~~~l~d~~l~~~D~l~~~~~~ 105 (716)
T COG0643 83 ELTSELLDLLLEALDALEEMLDA 105 (716)
T ss_pred cCcHHHHHHHhhhhHHHHHHHHh
Confidence 33234444444444444444443
No 12
>PRK10547 chemotaxis protein CheA; Provisional
Probab=98.22 E-value=1.4e-05 Score=71.36 Aligned_cols=62 Identities=19% Similarity=0.409 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH---cCCCCC---HHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHH
Q 031859 44 VEVASLFFDDAEKLINSMARAL---EQPCVD---FKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFC 105 (151)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~---~~~~~D---~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~ 105 (151)
.+++..|++++.+.++.|+..+ +..+.| ...+.+.+|+|||+|+.+|+..+..+|+.+|...
T Consensus 4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~ll 71 (670)
T PRK10547 4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLL 71 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHH
Confidence 5788999999999999888874 333224 3578999999999999999999999999999875
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.50 E-value=0.0021 Score=60.41 Aligned_cols=97 Identities=13% Similarity=0.245 Sum_probs=77.7
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcC-HHHHHH
Q 031859 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN-REGCMR 115 (151)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~-~~~~~~ 115 (151)
..+...+.+++..+.......+..+..+...+ |...+..++|+++|++..+|+..|...|.++|......+ ...+..
T Consensus 1096 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~~~~l~~ 1173 (1197)
T PRK09959 1096 ANDLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDSKPEILQ 1173 (1197)
T ss_pred CCCHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCchHHHHH
Confidence 34567788899999999999998888889999 999999999999999999999999999999998876554 344555
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 031859 116 CLQQVSHEYTMLKSKLQTLF 135 (151)
Q Consensus 116 ~~~~l~~~~~~l~~~L~~~~ 135 (151)
.+..+..........+..|+
T Consensus 1174 ~~~~~~~~~~~~~~~~~~~~ 1193 (1197)
T PRK09959 1174 LLNSVKEHIAELDQEIAVFC 1193 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 56666655555555555554
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.98 E-value=0.0043 Score=56.47 Aligned_cols=61 Identities=16% Similarity=0.316 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCH
Q 031859 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR 110 (151)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~ 110 (151)
+...+.+.....+..+..++..+ | .+.+.+|++||+++.+|+..+...|.++|..++.+..
T Consensus 838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~ 898 (921)
T PRK15347 838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEI 898 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCC
Confidence 34455566677888888888887 5 8999999999999999999999999999999887643
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=90.77 E-value=4.2 Score=29.73 Aligned_cols=73 Identities=11% Similarity=0.183 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHH---------------------HHHHHHHHHHHHHhhcCH
Q 031859 52 DDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGAL---------------------RVKNVCIAFRSFCDAQNR 110 (151)
Q Consensus 52 ~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~---------------------~L~~~c~~LE~a~~~~~~ 110 (151)
....+.+.+|+..++++ ||..++...|. .++.++.. .|.+-..+|-.+++..+.
T Consensus 46 ~~~~~r~~eLk~lI~kk--~W~~vrn~irg---p~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD~AA~~kd~ 120 (142)
T TIGR03042 46 EAAKDRLPELASLVAKE--DWVFTRNLIHG---PMGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLDEAARLQDG 120 (142)
T ss_pred HHHHHhhHHHHHHHhhc--chHHHHHHHhc---cHHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence 34667888899999999 99999998875 33334322 223333333344444443
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 111 EGCMRCLQQVSHEYTMLKSKLQTLFR 136 (151)
Q Consensus 111 ~~~~~~~~~l~~~~~~l~~~L~~~~~ 136 (151)
.+....|.++...+++|++
T Consensus 121 -------~~a~k~Y~~av~~~dafl~ 139 (142)
T TIGR03042 121 -------PQAQKAYQKAAADFDAYLD 139 (142)
T ss_pred -------HHHHHHHHHHHHHHHHHHh
Confidence 3445666777777777765
No 16
>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=89.26 E-value=3.5 Score=26.38 Aligned_cols=44 Identities=18% Similarity=0.326 Sum_probs=36.2
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhh
Q 031859 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (151)
Q Consensus 38 ~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (151)
++.+-+..+....-.........|..++..+ ||..++..+++||
T Consensus 24 ~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kLk 67 (78)
T PF07743_consen 24 DDEAELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKLK 67 (78)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHHH
Confidence 5557788888888888888888899999888 9999999999885
No 17
>PLN02956 PSII-Q subunit
Probab=89.16 E-value=6.2 Score=30.08 Aligned_cols=77 Identities=8% Similarity=0.063 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcH---------------------HHHHHHHHHHHHHH
Q 031859 47 ASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGA---------------------LRVKNVCIAFRSFC 105 (151)
Q Consensus 47 l~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa---------------------~~L~~~c~~LE~a~ 105 (151)
...=+.+..+.+-.|+..++++ +|..++...| |.++.|+- ..|.+-..+|..++
T Consensus 85 A~ar~k~~A~~l~~LK~LI~k~--~W~yvrn~LR---gp~s~Lr~DL~~Ii~slpp~Drk~a~~La~~LFd~l~~LD~AA 159 (185)
T PLN02956 85 AESGVRGHAENLLRVKALIESE--SWKEAQKALR---RSASNLKQDLYAIIQAKPGKDRPQLRRLYSDLFNSVTKLDYAA 159 (185)
T ss_pred HHHHHHHHHHHHHHHHHHhhhc--cHHHHHHHHH---ccHHHHHHHHHHHHHhcCHhHhHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566777888899999999 9998888766 45555542 45556666667777
Q ss_pred hhcCHHHHHHHHHHHHHHHHHHH
Q 031859 106 DAQNREGCMRCLQQVSHEYTMLK 128 (151)
Q Consensus 106 ~~~~~~~~~~~~~~l~~~~~~l~ 128 (151)
+..+..++...+......++.+.
T Consensus 160 R~kd~~~a~k~Y~~tva~lD~Vl 182 (185)
T PLN02956 160 RDKDETRVWEYYENIVASLDDIF 182 (185)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHH
Confidence 77776666666665555555544
No 18
>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=87.00 E-value=3.8 Score=27.33 Aligned_cols=73 Identities=11% Similarity=0.195 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHHHHhhhhccCchHHHHHHHhccc-cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHh
Q 031859 3 VVSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQ 81 (151)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~ld~~f~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~ 81 (151)
+++.|. +.+....++.+|+++.. ....++. ....+-...++.....-.+.-+..+..++... .|..++.+.|.
T Consensus 10 L~~dL~--v~~ild~L~~~gvlt~~--~~e~I~~~~t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~~ 83 (86)
T cd08323 10 LEKDIK--TSYIMDHMISDGVLTLD--EEEKVKSKATQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLHD 83 (86)
T ss_pred HHHHcc--HHHHHHHHHhcCCCCHH--HHHHHHcCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHhc
Confidence 355555 56678889999999966 5555553 34466688999999999999999999999765 58888877663
No 19
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=86.66 E-value=5.5 Score=37.05 Aligned_cols=88 Identities=9% Similarity=0.135 Sum_probs=62.6
Q ss_pred ccccCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHH
Q 031859 34 LQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGC 113 (151)
Q Consensus 34 L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~ 113 (151)
|+.+.+.+-+.+++..+.+-..+.+..|.+-.... -..- ..+..-+.+.+++-..|.+....||..+++|+.+++
T Consensus 485 L~~gAs~eEI~rLm~eLR~A~~~ym~~LAeq~~~~---~~~~--~~p~~~~~~~~~~~~dL~~mmd~ie~la~~G~~~~A 559 (820)
T PF13779_consen 485 LERGASDEEIARLMQELREAMQDYMQALAEQAQRN---PQQQ--DQPPDQGNSQMMSQQDLQRMMDRIEELARSGRMDEA 559 (820)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhHhC---cccc--cCcccchhhhccCHHHHHHHHHHHHHHHHcCCHHHH
Confidence 33445666677777777777777777776655443 1110 112224677889999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 031859 114 MRCLQQVSHEYTM 126 (151)
Q Consensus 114 ~~~~~~l~~~~~~ 126 (151)
...+.++.+-++.
T Consensus 560 ~q~L~qlq~mmen 572 (820)
T PF13779_consen 560 RQLLEQLQQMMEN 572 (820)
T ss_pred HHHHHHHHHHHHh
Confidence 8888888765554
No 20
>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=85.08 E-value=8 Score=36.14 Aligned_cols=89 Identities=11% Similarity=0.182 Sum_probs=65.6
Q ss_pred ccccCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHH
Q 031859 34 LQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGC 113 (151)
Q Consensus 34 L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~ 113 (151)
|+.+.+.+-+.++...+.+-.++.+.+|.+-....+ +-.. -..-+.+.+++-..|.+....||..+++|+.+++
T Consensus 516 L~~gAsdeEI~~Lm~eLR~Am~~ym~~LAeq~~~~~-~~~~-----~~~~~~~~~l~~~dLq~Mmd~ieela~~G~~~~A 589 (851)
T TIGR02302 516 LERGASDEEIKQLTDKLRAAMQTYMRQLAQQLRNNP-QQLA-----RPLDPNTKVLRQQDLQNMMDQIENLARSGDRDQA 589 (851)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCc-cccc-----ccCCccccccCHHHHHHHHHHHHHHHHcCCHHHH
Confidence 445556777888888888888888888876554431 1001 1112345789999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 031859 114 MRCLQQVSHEYTMLK 128 (151)
Q Consensus 114 ~~~~~~l~~~~~~l~ 128 (151)
..++.+|.+-++.++
T Consensus 590 ~qlL~qlq~mmenlq 604 (851)
T TIGR02302 590 KQLLSQLQQMMNNLQ 604 (851)
T ss_pred HHHHHHHHHHHHHHh
Confidence 888888887777665
No 21
>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=80.28 E-value=11 Score=27.74 Aligned_cols=68 Identities=13% Similarity=0.113 Sum_probs=40.3
Q ss_pred HHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 57 LINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLF 135 (151)
Q Consensus 57 ~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~ 135 (151)
..+.+..+-..+ |...+..+.+.++ ..+..+...++.+...++.+.+...+..++ -|..+...+..+.
T Consensus 86 ~rE~lee~~~~~--d~~~L~~l~~~~~--------~~~~~~~~~l~~~~~~~d~~~A~~~~~kLk-y~~kl~~~i~~~~ 153 (157)
T TIGR00714 86 LREELDEIEQAK--DEARLESFIKRVK--------KMFQTRHQLLVEQLDNQTWAAAADYTRKLR-FLDKLRSSAEQLE 153 (157)
T ss_pred HHHHHHHHHhCC--CHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 334444444445 6667777776654 345666667777777777776666555543 4455555555554
No 22
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=78.99 E-value=11 Score=28.17 Aligned_cols=53 Identities=17% Similarity=0.107 Sum_probs=30.1
Q ss_pred CHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 71 DFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQ 132 (151)
Q Consensus 71 D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~ 132 (151)
|...+..+...++.. +..+...|+.+...++.+.+...+.+|+ -|.++...++
T Consensus 107 ~~~~L~~l~~~~~~~--------~~~~~~~l~~~f~~~d~~~A~~~~~~L~-y~~kl~~~i~ 159 (166)
T PRK01356 107 LFSDLEKIKNKYELM--------YKNEIDSLKQAFEEQNLSDATIKTSKLK-YIGTLLNKLQ 159 (166)
T ss_pred CHHHHHHHHHHHHHH--------HHHHHHHHHHHHhcCCHHHHHHHHHHHH-HHHHHHHHHH
Confidence 455666666665533 3456666666676677776666555543 3444444443
No 23
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=72.83 E-value=22 Score=26.71 Aligned_cols=75 Identities=12% Similarity=0.271 Sum_probs=39.0
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhh-cCHHHHHHHH
Q 031859 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDA-QNREGCMRCL 117 (151)
Q Consensus 39 ~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~-~~~~~~~~~~ 117 (151)
+|+|+.++++ + -+.|..+-..+ |...+..+...++. .+..+...++.+... ++...+...+
T Consensus 93 d~~fLme~mE-~-------rE~lee~~~~~--d~~~L~~l~~e~~~--------~~~~~~~~l~~~~~~~~d~~~A~~~~ 154 (176)
T PRK03578 93 PPAFLMQQME-W-------REAIEDARAAR--DVDALDALLAELRD--------ERRERYAELGALLDSRGDDQAAAEAV 154 (176)
T ss_pred CHHHHHHHHH-H-------HHHHHHhhccC--CHHHHHHHHHHHHH--------HHHHHHHHHHHHHHccccHHHHHHHH
Confidence 5666666543 2 22233333445 66777777776643 444555556655544 6665555554
Q ss_pred HHHHHHHHHHHHHHH
Q 031859 118 QQVSHEYTMLKSKLQ 132 (151)
Q Consensus 118 ~~l~~~~~~l~~~L~ 132 (151)
..++ -|.++...+.
T Consensus 155 ~kL~-y~~kl~~ei~ 168 (176)
T PRK03578 155 RQLM-FIEKLAQEIG 168 (176)
T ss_pred HHHH-HHHHHHHHHH
Confidence 4443 3344444443
No 24
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=70.52 E-value=29 Score=26.06 Aligned_cols=64 Identities=8% Similarity=0.140 Sum_probs=38.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHH
Q 031859 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQ 118 (151)
Q Consensus 39 ~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~ 118 (151)
+|+|+.++++ .-+.|..+-+.+ |...+..+...++ ..+..+...++.+...++.+.+...+.
T Consensus 90 d~~fLme~ME--------~rE~lee~~~~~--d~~~L~~l~~~v~--------~~~~~~~~~l~~~~~~~d~~~A~~~~~ 151 (173)
T PRK01773 90 DMAFLMQQME--------WREQLEEIEQQQ--DEDALTAFSKEIK--------QEQQAILTELSTALNSQQWQQASQIND 151 (173)
T ss_pred CHHHHHHHHH--------HHHHHHhhcccC--CHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 5566555532 233344444455 7777777777655 345666777777777777776665544
Q ss_pred HH
Q 031859 119 QV 120 (151)
Q Consensus 119 ~l 120 (151)
++
T Consensus 152 rL 153 (173)
T PRK01773 152 RL 153 (173)
T ss_pred HH
Confidence 44
No 25
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=69.84 E-value=25 Score=27.22 Aligned_cols=75 Identities=9% Similarity=0.082 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHhHh--------hhhhhhhhc----------HHHHHHHHHHHHHHHhhcCHHH
Q 031859 51 FDDAEKLINSMARALEQPCVDFKQVDSHVHQ--------LKGSSSSIG----------ALRVKNVCIAFRSFCDAQNREG 112 (151)
Q Consensus 51 ~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~--------LKGss~~lG----------a~~L~~~c~~LE~a~~~~~~~~ 112 (151)
+.+..+.|..++..+++. .|..++...|. |+......+ +..|+.-..+|..+++..+..+
T Consensus 105 ik~sa~~L~~lk~lIdk~--sW~~v~~~LRlka~~Lr~DL~~liss~p~~~kk~l~~La~~lf~~ie~LD~Aar~K~~~~ 182 (202)
T PF05757_consen 105 IKESAKRLLSLKELIDKK--SWPYVRNYLRLKAGYLRYDLNTLISSKPKDEKKALTDLANKLFDNIEELDYAARSKDVPE 182 (202)
T ss_dssp HHHHHHHHCCCHHHHHTT---HHHHHHHHHCCCCCHHHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHH
T ss_pred HHHHHHHHHHHHHHHhhc--cHHHHHHHHHHHHhHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Confidence 467777888899999998 89998888775 222222222 2456667777777788777766
Q ss_pred HHHHHHHHHHHHHHH
Q 031859 113 CMRCLQQVSHEYTML 127 (151)
Q Consensus 113 ~~~~~~~l~~~~~~l 127 (151)
+..++......++++
T Consensus 183 a~~~Y~~t~~~Ldev 197 (202)
T PF05757_consen 183 AEKYYADTVKALDEV 197 (202)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 655555555444444
No 26
>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=68.92 E-value=37 Score=26.41 Aligned_cols=56 Identities=13% Similarity=0.069 Sum_probs=38.6
Q ss_pred hhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 84 GSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQ 140 (151)
Q Consensus 84 Gss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~ 140 (151)
|..+.+|.......+..|...+...|. -+...+-++++.+..+.+.+++..+..++
T Consensus 32 ~~~~I~Gm~~~~~~~~~i~~~a~~DdP-yAD~~L~~iEe~i~~~~~~l~~~~~~l~~ 87 (217)
T PF08900_consen 32 GKPAIIGMPGFASRLNRIWRDARQDDP-YADWWLLRIEEKINEARQELQELIARLDA 87 (217)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHhcCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334899999999999999999887764 23345556666666666555555554444
No 27
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=65.33 E-value=29 Score=30.07 Aligned_cols=66 Identities=18% Similarity=0.086 Sum_probs=57.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCH
Q 031859 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR 110 (151)
Q Consensus 39 ~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~ 110 (151)
.++-....+..|+++.-..+-.-+.++... |+- +=|++-+.+.|+|.-.=.++|+..+.+-+.++.
T Consensus 226 tr~~A~~~L~~Fi~~~L~nFG~yQDam~~d--~~~----L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~i 291 (505)
T COG3046 226 TRTQALRALKHFIADRLPNFGSYQDAMSAD--DPH----LWHSLLSFALNIGLLTPLEVIRAALKAYREGDI 291 (505)
T ss_pred CHHHHHHHHHHHHHHhhhcCCcHHHHHhcC--Cch----hHHHHHHHHhhccCCCHHHHHHHHHHhhccCCC
Confidence 566778889999999988888888888777 554 889999999999999999999999999888754
No 28
>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=60.52 E-value=71 Score=24.98 Aligned_cols=56 Identities=9% Similarity=0.102 Sum_probs=39.7
Q ss_pred hhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031859 85 SSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQI 141 (151)
Q Consensus 85 ss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~ 141 (151)
-.+++|.......+..|..++...|. =+...+.++++.+..+...|++..+...+.
T Consensus 31 ~~~IiGl~~f~s~~~~i~~~a~~DdP-yAD~~Ll~~E~~l~~~~~~l~~~~~~l~~~ 86 (216)
T TIGR03761 31 KPGIIGMPGFISRLNRINQASEQDDP-YADWALLRIEEKLLSARQEMQALLQRLDDL 86 (216)
T ss_pred CCCCcCcHHHHHHHHHHHHHHHcCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35689999999999999999987764 233456666666666666666665555544
No 29
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=57.85 E-value=66 Score=23.96 Aligned_cols=54 Identities=11% Similarity=0.151 Sum_probs=27.5
Q ss_pred HHHHHHHHHcCCCCCH-HHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Q 031859 57 LINSMARALEQPCVDF-KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQV 120 (151)
Q Consensus 57 ~l~~L~~a~~~~~~D~-~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l 120 (151)
.-+.|..+-... |. ..+..+...++. .+.++...++.+...++.+.+...+..+
T Consensus 98 ~rE~le~~~~~~--d~~~~l~~l~~~~~~--------~~~~~~~~l~~~~~~~d~~~A~~~~~~L 152 (171)
T PRK05014 98 LREELEDIEQSK--DPEAALESFIKRVKK--------MFKTRLQQMVEQLDNEAWDAAADTVRKL 152 (171)
T ss_pred HHHHHHhhcccc--CHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhCCHHHHHHHHHHH
Confidence 334444444444 52 336666665543 3445555555555566666555544443
No 30
>cd08326 CARD_CASP9 Caspase activation and recruitment domain of Caspase-9. Caspase activation and recruitment domain (CARD) similar to that found in caspase-9 (CASP9, MCH6, APAF3), which interacts with the CARD of apoptotic protease-activating factor 1 (APAF-1). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Initiator caspases are the first to be activated following death- or inflammation-inducing signals. Caspase-9 is the initiator caspase associated with the intrinsic or mitochondrial pathway of apoptosis, induced by many pro-apoptotic signals. Together with APAF-1, it forms the heptameric 'apoptosome' in response to the release of cytochrome c from mitochondria. Activated caspase-9 cleaves and activates downstream effector caspases, like caspase-3, caspase-6, and caspase-7, resulting in apoptosis. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apopt
Probab=56.91 E-value=50 Score=21.70 Aligned_cols=62 Identities=11% Similarity=0.087 Sum_probs=41.2
Q ss_pred HHHHHHhhhhccCchHHHHHHHhccc-cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Q 031859 11 FIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVD 76 (151)
Q Consensus 11 ~~~~~~~~~~~~~ld~~f~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~ 76 (151)
+-+-..-++..||+... ....+.. ....+-...++.....-.+.-+..+-.++... .+..++
T Consensus 18 ~~~v~~~L~~~~Vlt~~--~~e~I~~~~tr~~q~~~LLd~L~~RG~~AF~~F~~aL~~~--~~~~LA 80 (84)
T cd08326 18 PKYLWDHLLSRGVFTPD--MIEEIQAAGSRRDQARQLLIDLETRGKQAFPAFLSALRET--GQTDLA 80 (84)
T ss_pred HHHHHHHHHhcCCCCHH--HHHHHHcCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CchHHH
Confidence 44566677888888855 4444443 44566677888888888888888888887654 344443
No 31
>PF05396 Phage_T7_Capsid: Phage T7 capsid assembly protein; InterPro: IPR008768 This family contains the capsid assembly protein (scaffolding protein) of bacteriophage T7.; GO: 0019069 viral capsid assembly
Probab=54.58 E-value=44 Score=23.83 Aligned_cols=45 Identities=13% Similarity=0.127 Sum_probs=32.2
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhh
Q 031859 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (151)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (151)
.|+++-+..|+.-....++..++.++.+++.+ |...++.+.--+.
T Consensus 43 AGG~e~f~~i~~~~~~~~~~~~ea~~~Ai~~~--dla~vk~~vn~~~ 87 (123)
T PF05396_consen 43 AGGEEGFAAIMSHAEANSPAAAEAFNEAIESG--DLATVKAAVNLAG 87 (123)
T ss_pred hcCHHHHHHHHHHHHhCCHHHHHHHHHHHHhC--CHHHHHHHHHHHH
Confidence 46677777776666666788888888888888 7777776654443
No 32
>COG0783 Dps DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]
Probab=46.53 E-value=96 Score=22.95 Aligned_cols=76 Identities=12% Similarity=0.296 Sum_probs=46.2
Q ss_pred ChHH--HHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhc---CHHHH
Q 031859 39 SPDF--VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ---NREGC 113 (151)
Q Consensus 39 ~~~~--~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~---~~~~~ 113 (151)
||.| +.++++.+.++....+..+.+-+ ..+|..++.....-++..+-.+ + ..+
T Consensus 43 G~~F~~lHe~~ee~y~el~~~~DeiAERi---------------------~~LGg~p~~t~~~~~~~s~ike~~~~-~~~ 100 (156)
T COG0783 43 GPNFFALHEKLEELYEELAEHVDEIAERI---------------------RALGGVPLGTLSEYLKLSSIKEEPGD-YTA 100 (156)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHcCCCCcccHHHHHHhCCCcccCCC-CCH
Confidence 5666 56777777777766666655433 2366666666666666655322 2 345
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031859 114 MRCLQQVSHEYTMLKSKLQTLFR 136 (151)
Q Consensus 114 ~~~~~~l~~~~~~l~~~L~~~~~ 136 (151)
..++..+...|..+...+++-+.
T Consensus 101 ~~~l~~l~~~~~~l~~~~r~~~~ 123 (156)
T COG0783 101 REMLKELVEDYEYLIKELRKGIE 123 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 66677777777776666665544
No 33
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=45.11 E-value=93 Score=20.84 Aligned_cols=45 Identities=13% Similarity=0.063 Sum_probs=28.1
Q ss_pred HHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcCC
Q 031859 103 SFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQILAAGGS 147 (151)
Q Consensus 103 ~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~~~~~~~ 147 (151)
.++..-....+...+.++.....+....|+.++...+-.++.+|+
T Consensus 22 ~a~~~~~~~~lk~~f~~~~~~~~~~~~~L~~~i~~~Gg~p~~~gs 66 (111)
T PF09537_consen 22 KAAEKAEDPELKSLFQEFAQERQQHAEELQAEIQELGGEPEESGS 66 (111)
T ss_dssp HHHHH--SHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--H----H
T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcccC
Confidence 333333335677888888999999999999998888776665443
No 34
>PF14615 Rsa3: Ribosome-assembly protein 3
Probab=43.58 E-value=60 Score=19.11 Aligned_cols=40 Identities=15% Similarity=0.241 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCH--HHHHHHhHhhhhhhhh
Q 031859 44 VEVASLFFDDAEKLINSMARALEQPCVDF--KQVDSHVHQLKGSSSS 88 (151)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~~~~~D~--~~l~~~aH~LKGss~~ 88 (151)
...+....++..+++.+|+. +. || ..+.-++|.||..+..
T Consensus 4 ~~yl~~~t~efgdDLd~lR~---~~--dF~~~sl~~Li~aL~~G~~~ 45 (47)
T PF14615_consen 4 NFYLQRLTDEFGDDLDELRK---AP--DFTDKSLPLLIDALQQGTDM 45 (47)
T ss_pred HHHHHHHHHHHHHHHHHHhc---CC--CCCchhHHHHHHHHHhcccc
Confidence 34555666666777788884 33 44 5788999999987653
No 35
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=38.91 E-value=2.8e+02 Score=24.61 Aligned_cols=23 Identities=26% Similarity=0.497 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031859 114 MRCLQQVSHEYTMLKSKLQTLFR 136 (151)
Q Consensus 114 ~~~~~~l~~~~~~l~~~L~~~~~ 136 (151)
...+..|+.+|...+..|...+.
T Consensus 149 ~~i~~~Lk~e~~~lr~~L~~~L~ 171 (593)
T PF06248_consen 149 LKILKLLKDEYSELRENLQYQLS 171 (593)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666666666655555444
No 36
>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=36.79 E-value=76 Score=17.49 Aligned_cols=35 Identities=20% Similarity=0.209 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhh
Q 031859 44 VEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQL 82 (151)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~L 82 (151)
.+.+..|..+ .....|..|+..+ |-+.+.+++..|
T Consensus 3 ~~~~~~~~~~--~L~~~ID~ALd~~--D~e~F~~Ls~eL 37 (37)
T PF08858_consen 3 DESLREFRKE--QLLELIDEALDNR--DKEWFYELSEEL 37 (37)
T ss_dssp HHHHHHHHHH--HHHHHHHHHHHTT---HHHHHHHHHHH
T ss_pred HHHHHHHHHH--HHHHHHHHHHHcC--CHHHHHHHHhhC
Confidence 3444444444 3778899999999 998888877543
No 37
>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=36.72 E-value=69 Score=19.69 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=28.3
Q ss_pred HHHHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR 63 (151)
Q Consensus 26 ~~f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~ 63 (151)
.+|.++..+- ..+|+++..++...-.++++.+..+.+
T Consensus 8 Pqf~~lR~~v-q~NP~lL~~lLqql~~~nP~l~q~I~~ 44 (59)
T PF09280_consen 8 PQFQQLRQLV-QQNPQLLPPLLQQLGQSNPQLLQLIQQ 44 (59)
T ss_dssp HHHHHHHHHH-HC-GGGHHHHHHHHHCCSHHHHHHHHH
T ss_pred hHHHHHHHHH-HHCHHHHHHHHHHHhccCHHHHHHHHH
Confidence 6677887765 456888999988888888888877765
No 38
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor. Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family (see pfam03551).
Probab=36.53 E-value=1.1e+02 Score=22.22 Aligned_cols=62 Identities=11% Similarity=0.116 Sum_probs=47.9
Q ss_pred hhcHHHHHHHHHHHHHHHhh-------cC---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcCCCC
Q 031859 88 SIGALRVKNVCIAFRSFCDA-------QN---------REGCMRCLQQVSHEYTMLKSKLQTLFRMEQQILAAGGSVP 149 (151)
Q Consensus 88 ~lGa~~L~~~c~~LE~a~~~-------~~---------~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~~~~~~~~~ 149 (151)
.+.-..|+.....||..+-- +. ++.-...+.....+|..+...++.++...+-.-|+.+|-|
T Consensus 54 ~v~~GtLYp~L~RLE~~GlI~~~~~~~~~gp~RK~Y~LTe~Gr~~L~~~~~~w~~~~~~l~~ll~~~~~~~~~~~~~~ 131 (138)
T TIGR02719 54 SVDQGNVYRTLRKLEKDNLISSQWDTSAEGPAKRIYSLTDAGEQYLSMCANSFEHYQNMLDSFFHLYTDAFFPFSSSP 131 (138)
T ss_pred CCCcChHHHHHHHHHHCCCEEEEeeecCCCCCcEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCC
Confidence 46667789999999976321 10 1223567888999999999999999999999999888876
No 39
>PRK03057 hypothetical protein; Provisional
Probab=36.38 E-value=1.3e+02 Score=22.79 Aligned_cols=36 Identities=19% Similarity=0.382 Sum_probs=27.3
Q ss_pred HHHHHHH------HHHHHHHHHHHHcCCCCCHHHHHHHhHhhhh
Q 031859 47 ASLFFDD------AEKLINSMARALEQPCVDFKQVDSHVHQLKG 84 (151)
Q Consensus 47 l~~F~~~------~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKG 84 (151)
++.|++. .......|..|+..+ |.+.+.++++.|+-
T Consensus 133 ae~~L~~~~~~~~~~~L~~~ID~ALd~~--D~e~F~~Lt~~L~~ 174 (180)
T PRK03057 133 TEQVLDEVLKRNEVSRLRMQIDQALDRK--DMEEFQRLTEKLKK 174 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHH
Confidence 4555555 455778899999999 99988888887753
No 40
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=36.25 E-value=59 Score=21.77 Aligned_cols=30 Identities=10% Similarity=0.246 Sum_probs=25.3
Q ss_pred HHHHHHHhccccCChHHHHHHHHHHHHHHH
Q 031859 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAE 55 (151)
Q Consensus 26 ~~f~~L~~L~~~~~~~~~~~ll~~F~~~~~ 55 (151)
+.|.-|..+-++.-+.|++++++.|+++..
T Consensus 19 ~iF~FL~~~P~GT~~~~iR~~L~rYI~~~G 48 (97)
T PRK13916 19 QIFDFLENVPRGTKTAHIREALRRYIEEIG 48 (97)
T ss_pred HHHHHHHHCCCCCccHHHHHHHHHHHHhcC
Confidence 347778888888889999999999999863
No 41
>KOG2424 consensus Protein involved in transcription start site selection [Transcription]
Probab=33.99 E-value=84 Score=24.09 Aligned_cols=35 Identities=11% Similarity=0.436 Sum_probs=23.7
Q ss_pred hhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHH
Q 031859 86 SSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYT 125 (151)
Q Consensus 86 s~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~ 125 (151)
-+++||..+.++|..|+. ++.+ +...+.+|-..|+
T Consensus 147 dA~~Gaf~I~elcq~l~~--~s~d---~Ed~ideil~~~e 181 (195)
T KOG2424|consen 147 DATLGAFLILELCQCLQA--QSDD---LEDNIDEILLEFE 181 (195)
T ss_pred hhhhhHHHHHHHHHHHHh--cccc---HHHHHHHHHHHHH
Confidence 467999999999999996 3333 3345555554444
No 42
>PRK03636 hypothetical protein; Provisional
Probab=33.85 E-value=1.7e+02 Score=22.22 Aligned_cols=28 Identities=25% Similarity=0.389 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHcCCCCCHHHHHHHhHhhhh
Q 031859 55 EKLINSMARALEQPCVDFKQVDSHVHQLKG 84 (151)
Q Consensus 55 ~~~l~~L~~a~~~~~~D~~~l~~~aH~LKG 84 (151)
.+.+.+|..|+..+ |-+.+.+++..||-
T Consensus 148 ~~L~~~ID~ALd~~--D~e~F~~Ls~~l~~ 175 (179)
T PRK03636 148 EKLLKQIDEALDRR--DKEAFHRLSDELNQ 175 (179)
T ss_pred HHHHHHHHHHHHcC--CHHHHHHHHHHHHH
Confidence 55788999999999 99999998887763
No 43
>TIGR02284 conserved hypothetical protein. Members of this protein family are found mostly in the Proteobacteria, although one member is found in the the marine planctomycete Pirellula sp. strain 1. The function is unknown.
Probab=33.54 E-value=1.4e+02 Score=21.37 Aligned_cols=39 Identities=15% Similarity=0.125 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcCC
Q 031859 109 NREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQILAAGGS 147 (151)
Q Consensus 109 ~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~~~~~~~ 147 (151)
+.+.+...+.++...-......|+.++...+..++.+|+
T Consensus 27 ~~~~lk~~f~~~~~~~~~~~~eL~~~v~~lGg~p~~~gs 65 (139)
T TIGR02284 27 KDPELATLFRRIAGEKSAIVSELQQVVASLGGKPEDHGS 65 (139)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCc
Confidence 334667777777887788888888888777776665554
No 44
>PF07014 Hs1pro-1_C: Hs1pro-1 protein C-terminus; InterPro: IPR009743 This entry represents the C terminus (approximately 270 residues) of a number of plant Hs1pro-1 proteins, which are believed to confer nematode resistance [].
Probab=33.22 E-value=2.5e+02 Score=22.33 Aligned_cols=62 Identities=15% Similarity=0.259 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHH
Q 031859 43 VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMR 115 (151)
Q Consensus 43 ~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~ 115 (151)
..+|++.++.-+...+..+...++.+ +|+...+-++.+ .++-++..++|..-.--|.+++-.
T Consensus 55 ~hQIlEsWi~~a~~LL~ri~~~i~~~--~~ekAa~dc~~v---------ERiWKLL~eieDlhllMDPdDFlr 116 (261)
T PF07014_consen 55 THQILESWIHVARKLLERIEERIEAR--DFEKAASDCWIV---------ERIWKLLAEIEDLHLLMDPDDFLR 116 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcc--cHHHHHhHHHHH---------HHHHHHHHHHHHHHHhcCHHHHHH
Confidence 78999999999999999999999999 999998888874 677888888887766666665433
No 45
>cd01671 CARD Caspase activation and recruitment domain: a protein-protein interaction domain. Caspase activation and recruitment domains (CARDs) are death domains (DDs) found associated with caspases. Caspases are aspartate-specific cysteine proteases with functions in apoptosis, immune signaling, inflammation, and host-defense mechanisms. In addition to caspases, proteins containing CARDs include adaptor proteins such as RAIDD, CARD9, and RIG-I-like helicases, which can form mutliprotein complexes and play important roles in mediating the signals to induce immune and inflammatory responses. In general, 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 Effector Domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=32.59 E-value=1.3e+02 Score=18.73 Aligned_cols=62 Identities=16% Similarity=0.328 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHhhhhccCchHH-HHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Q 031859 4 VSQLQKQFIDFSSSLYREGYVDDQ-FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQP 68 (151)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~ld~~-f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~ 68 (151)
|++| ...-.....+...+++... ...+.. .....+-...++.....-.+.....+-.++...
T Consensus 9 v~~l-~~~~~il~~L~~~~vlt~~e~~~i~~--~~~~~~k~~~Lld~l~~kg~~af~~F~~~L~~~ 71 (80)
T cd01671 9 VKDL-LDVEDVLDHLLSDGVLTEEEYEKIRS--ESTRQDKARKLLDILPRKGPKAFQSFLQALQET 71 (80)
T ss_pred HHHH-ccHHHHHHHHHHcCCCCHHHHHHHHc--CCChHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 4555 4555667777888888854 444433 223566677888888888888888888887765
No 46
>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=32.37 E-value=77 Score=24.44 Aligned_cols=18 Identities=22% Similarity=0.571 Sum_probs=15.4
Q ss_pred hhhhcHHHHHHHHHHHHH
Q 031859 86 SSSIGALRVKNVCIAFRS 103 (151)
Q Consensus 86 s~~lGa~~L~~~c~~LE~ 103 (151)
-+++|+..+.++|..||.
T Consensus 145 eA~~Ga~~ileLc~~l~~ 162 (195)
T PF04722_consen 145 EATIGAFLILELCQMLEE 162 (195)
T ss_dssp HHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 466999999999999996
No 47
>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=31.14 E-value=2.1e+02 Score=20.94 Aligned_cols=83 Identities=16% Similarity=0.157 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHH
Q 031859 48 SLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTML 127 (151)
Q Consensus 48 ~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l 127 (151)
...++|..+.|.-|...++.+ ++..= ...+|.--|..|-... +..+.+|-......+.+++...+-.++..+...
T Consensus 64 kr~~~D~~KRL~iLfd~ln~g--~Ls~~--v~~~L~~L~~aL~~~d-~~~A~~Ih~~L~t~h~~E~~~WmvGVKRLI~~~ 138 (157)
T PF07304_consen 64 KRVVDDIEKRLNILFDHLNNG--KLSKP--VVDKLHQLAQALQARD-YDAADEIHVDLMTDHVDECGNWMVGVKRLIAMA 138 (157)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT---S-HH--HHHHHHHHHHHHHHT--HHHHHHHHHHHHHSSHHHHTTTHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHhcC--CCCHH--HHHHHHHHHHHHHcCC-HHHHHHHHHHHHhccHHHhhhHHHHHHHHHHHH
Confidence 344567777777777777665 43221 1112111122222222 222333333333455556666666666666665
Q ss_pred HHHHHHHH
Q 031859 128 KSKLQTLF 135 (151)
Q Consensus 128 ~~~L~~~~ 135 (151)
+..-..-+
T Consensus 139 r~~~~~~~ 146 (157)
T PF07304_consen 139 RNLPPELL 146 (157)
T ss_dssp HHHH----
T ss_pred HhcCcccc
Confidence 55443333
No 48
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=30.43 E-value=3.9e+02 Score=23.73 Aligned_cols=101 Identities=8% Similarity=0.149 Sum_probs=44.5
Q ss_pred HHHHHHHhccccCChHHHHHHH----------HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcH----
Q 031859 26 DQFSQLHKLQDESSPDFVVEVA----------SLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGA---- 91 (151)
Q Consensus 26 ~~f~~L~~L~~~~~~~~~~~ll----------~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa---- 91 (151)
..|++...|-..||..-..+++ ...++..|..+..+..-+... +.++..--..++..--.+.-
T Consensus 175 ~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~q---l~eL~~gy~~m~~~gy~l~~~~i~ 251 (560)
T PF06160_consen 175 EEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQ---LEELKEGYREMEEEGYYLEHLDIE 251 (560)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHH---HHHHHHHHHHHHHCCCCCCCCCHH
Confidence 4466666655555554444432 333444444444444433332 44444444444444333333
Q ss_pred ---HHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHH
Q 031859 92 ---LRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKS 129 (151)
Q Consensus 92 ---~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~ 129 (151)
..+.+.+.........++.+.+...+..+...+..+-.
T Consensus 252 ~~i~~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd 292 (560)
T PF06160_consen 252 EEIEQIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYD 292 (560)
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH
Confidence 22233333333334445555555555544444444333
No 49
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.38 E-value=12 Score=24.28 Aligned_cols=26 Identities=38% Similarity=0.694 Sum_probs=19.8
Q ss_pred HhhhhhhhhhcHHHHHHHHHHHHHHHh
Q 031859 80 HQLKGSSSSIGALRVKNVCIAFRSFCD 106 (151)
Q Consensus 80 H~LKGss~~lGa~~L~~~c~~LE~a~~ 106 (151)
-.+|||++-+++-.+.+.|. =++-|.
T Consensus 27 k~I~GSCGGi~alGi~K~Cd-C~~pCD 52 (77)
T COG2991 27 KSIKGSCGGIAALGIEKVCD-CDEPCD 52 (77)
T ss_pred cccccccccHHhhccchhcC-CCCchH
Confidence 36899999999999988887 243443
No 50
>PLN02407 diphosphomevalonate decarboxylase
Probab=30.06 E-value=91 Score=26.15 Aligned_cols=34 Identities=18% Similarity=0.169 Sum_probs=28.7
Q ss_pred HHHHHHHHH-HHHHHHHHHHHHcCCCCCHHHHHHHhH
Q 031859 45 EVASLFFDD-AEKLINSMARALEQPCVDFKQVDSHVH 80 (151)
Q Consensus 45 ~ll~~F~~~-~~~~l~~L~~a~~~~~~D~~~l~~~aH 80 (151)
.++...++. +++++..|+.++..+ ||..+.+++=
T Consensus 223 p~~~~w~~~~~~~~~~~~~~Ai~~~--Df~~~gei~e 257 (343)
T PLN02407 223 PLLQHRAKEVVPKRILQMEEAIKNR--DFASFAKLTC 257 (343)
T ss_pred hhHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHHH
Confidence 456677787 899999999999999 9999887763
No 51
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=29.73 E-value=4.7e+02 Score=24.44 Aligned_cols=103 Identities=12% Similarity=0.126 Sum_probs=74.1
Q ss_pred HHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhh--hhhcHHHHHHHHHHHHHHH
Q 031859 28 FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSS--SSIGALRVKNVCIAFRSFC 105 (151)
Q Consensus 28 f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss--~~lGa~~L~~~c~~LE~a~ 105 (151)
+..|-.|-..-+..|..+++.-|+.+.. ..+..+ +|.+++-++|.|---+ ..+-+..|..+...+=.++
T Consensus 86 yaTLvgllN~kn~~fg~~~v~~~~~~~q-------~sl~~~--~~n~ar~llrfL~dL~~~~vl~~~sli~l~esl~~~~ 156 (759)
T KOG1104|consen 86 YATLVGLLNLKNFNFGGEFVEYMIEELQ-------ESLKSG--NWNEARYLLRFLSDLSNCHVLQADSLINLFESLLDAA 156 (759)
T ss_pred HHHHHHHHhccchhhHHHHHHHHHHHHH-------HHhhcC--ChHHHHHHHHHHHHHhcCCccChHHHHHHHHHHHHHH
Confidence 3344443334467777777777766554 667888 9999999999998766 8888999888888887777
Q ss_pred hhcCHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 106 DAQNREGCM-----------------RCLQQVSHEYTMLKSKLQTLFRMEQ 139 (151)
Q Consensus 106 ~~~~~~~~~-----------------~~~~~l~~~~~~l~~~L~~~~~~~~ 139 (151)
...+...++ +.-...+.+++++-..++.|+...+
T Consensus 157 ~e~~~Pqvr~D~~v~~vLs~lPw~g~el~e~~~~~~e~ll~~ie~Yl~~R~ 207 (759)
T KOG1104|consen 157 IEENVPQVRRDYYVYCVLSSLPWFGRELNEKKPTEMEELLVYIEIYLKKRK 207 (759)
T ss_pred HhhcCcchhhhHHHHHHHhccchhhhhhcccchHHHHHHHHHHHHHHHHhc
Confidence 665544332 2334456788899999999988766
No 52
>TIGR01220 Pmev_kin_Gr_pos phosphomevalonate kinase, ERG8-type, Gram-positive branch. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found - the animal type and this ERG8 type. This model represents the low GC Gram-positive organism forms of the ERG8 type of phosphomevalonate kinase.
Probab=28.89 E-value=3.1e+02 Score=22.74 Aligned_cols=56 Identities=16% Similarity=0.330 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhh------c--HHHHHHHHHHHHH
Q 031859 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSI------G--ALRVKNVCIAFRS 103 (151)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~l------G--a~~L~~~c~~LE~ 103 (151)
....|++...+...++..+++.+ |+..+.++.+.-.+.-..+ | -..+.+++...+.
T Consensus 246 ~~~~~l~~~~~i~~~~~~al~~~--d~~~lg~~~~~~~~lL~~l~~~~~~~vs~~~l~~li~~a~~ 309 (358)
T TIGR01220 246 SYQRFLETSTDCVESAITAFETG--DITSLQKEIRRNRQELARLDDEVGVGIETEKLKALCDAAEA 309 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHHhhcccCCCcCCHHHHHHHHHHhh
Confidence 34567888888888899999999 9987776655544444333 3 4555555555554
No 53
>COG3433 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=28.29 E-value=88 Score=20.29 Aligned_cols=51 Identities=6% Similarity=0.135 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHH
Q 031859 45 EVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKN 96 (151)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~ 96 (151)
+.+...+.+.++.+..=+..+..| .|--.+-.++|+.|---+.+++..|++
T Consensus 5 ~~~~~Ll~e~~~~l~dqeNLi~~G-LDSiR~M~L~~~wR~~G~~i~F~~La~ 55 (74)
T COG3433 5 EQIAELLGESVEELDDQENLIDYG-LDSIRMMALLERWRKRGADIDFAQLAA 55 (74)
T ss_pred HHHHHHHcCChhhcCchhhHHHhc-hhHHHHHHHHHHHHHcCCcccHHHHHh
Confidence 333444444444444434444444 366778888898888888888887765
No 54
>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=27.85 E-value=1.1e+02 Score=16.99 Aligned_cols=34 Identities=18% Similarity=0.248 Sum_probs=20.2
Q ss_pred HHHHHhccccCChHHHHHHHHHHHHHHHHHHHHH
Q 031859 28 FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSM 61 (151)
Q Consensus 28 f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L 61 (151)
+.+|.+|...-+++++..++...-.+.+..+..|
T Consensus 5 v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~L 38 (42)
T PF02845_consen 5 VQQLQEMFPDLDREVIEAVLQANNGDVEAAIDAL 38 (42)
T ss_dssp HHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 4566666666667777776666655555555444
No 55
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=27.79 E-value=1.9e+02 Score=19.21 Aligned_cols=35 Identities=23% Similarity=0.379 Sum_probs=22.2
Q ss_pred hcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031859 107 AQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQI 141 (151)
Q Consensus 107 ~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~ 141 (151)
....+.+..++..|+..-..+...|+.++...||+
T Consensus 32 ns~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~ 66 (83)
T PF03670_consen 32 NSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQI 66 (83)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 33445556666666666666777777777766654
No 56
>cd07299 PX_TCGAP The phosphoinositide binding Phox Homology domain of Tc10/Cdc42 GTPase-activating protein. 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. TCGAP (Tc10/Cdc42 GTPase-activating protein) contains N-terminal PX and Src Homology 3 (SH3) domains, a central Rho GAP domain, and C-terminal proline-rich regions. It is widely expressed in the brain where it is involved in regulating the outgrowth of axons and dendrites and is regulated by the protein tyrosine kinase Fyn. It interacts with cdc42 and TC10beta through its GAP domain and with phosphatidylinositol-(4,5)-bisphosphate [PI(4,5)P2] through its PX domain. It is translocated to the plasma membrane in adipocytes in response to insulin and may be involved in the regulation of insulin-stimulated glucose transport. TCGAP has also been named sorting nexins 26 (SNX26). SNXs
Probab=27.54 E-value=85 Score=21.96 Aligned_cols=43 Identities=16% Similarity=0.202 Sum_probs=31.2
Q ss_pred HHHHhhhhccCchHHHHHHHhccc----cCChHHHHHHHHHHHHHHH
Q 031859 13 DFSSSLYREGYVDDQFSQLHKLQD----ESSPDFVVEVASLFFDDAE 55 (151)
Q Consensus 13 ~~~~~~~~~~~ld~~f~~L~~L~~----~~~~~~~~~ll~~F~~~~~ 55 (151)
-......+..|-|-.|++|.+|.. ....+.+..++..|+.-..
T Consensus 49 r~LD~~LHrCiyDRr~S~L~eL~~~~~l~~~~~~~~~~l~~YL~RlS 95 (113)
T cd07299 49 RTLDAHLHRCIFDRRFSQLLELPPLCEIGDRLQILTPLLSEYLNRLT 95 (113)
T ss_pred HHHHHHHHHHHHhhhhhhhhccCccccccchHHHHHHHHHHHHHHHH
Confidence 345677888999999999999884 2334567778887776543
No 57
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=27.36 E-value=1.9e+02 Score=22.87 Aligned_cols=37 Identities=8% Similarity=0.224 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHH
Q 031859 93 RVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKS 129 (151)
Q Consensus 93 ~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~ 129 (151)
.+.+....|++++..++...+...++.+.+.|..++.
T Consensus 102 ~i~~~~~~mk~a~~~~~~~~f~~~~n~f~~~y~~I~P 138 (232)
T PF09577_consen 102 PIMEDFQRMKQAAQKGDKEAFRASLNEFLSHYELIRP 138 (232)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhcc
Confidence 4566666777777777776666666666666655443
No 58
>cd07278 PX_RICS_like The phosphoinositide binding Phox Homology domain of PX-RICS-like proteins. 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. Members of this family include PX-RICS, TCGAP (Tc10/Cdc42 GTPase-activating protein), and similar proteins. They contain N-terminal PX and Src Homology 3 (SH3) domains, a central Rho GAP domain, and C-terminal extensions. They act as Rho GTPase-activating proteins. PX-RICS is the main isoform expressed during neural development. It 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 of PX-RICS specifically binds phosphatidylinositol 3-phosphate (PI3P), PI4P, and PI5P. TCGAP is widely expressed in the brain where it is involved in regulating the outgrowth of axons and d
Probab=26.54 E-value=70 Score=22.45 Aligned_cols=44 Identities=20% Similarity=0.277 Sum_probs=32.6
Q ss_pred HHHHHhhhhccCchHHHHHHHhccccC----ChHHHHHHHHHHHHHHH
Q 031859 12 IDFSSSLYREGYVDDQFSQLHKLQDES----SPDFVVEVASLFFDDAE 55 (151)
Q Consensus 12 ~~~~~~~~~~~~ld~~f~~L~~L~~~~----~~~~~~~ll~~F~~~~~ 55 (151)
+.+.-...+..|-|-.|++|.+|.... .++.+..++..|+.-..
T Consensus 49 fr~LD~~LHrCiyDRr~S~L~eL~~~~~~~~~~~~~~~~l~~YL~RlS 96 (114)
T cd07278 49 FRMLDKHLHQCIYDRKFSQLTELPEECIEKREQQNLHQVLSDYLKRLS 96 (114)
T ss_pred HHHHHHHHHHHHHhhhhhccccCCccccccchHHHHHHHHHHHHHHHH
Confidence 345667788899999999999998532 45678888888876543
No 59
>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=26.41 E-value=86 Score=21.98 Aligned_cols=46 Identities=9% Similarity=0.188 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHH
Q 031859 47 ASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSF 104 (151)
Q Consensus 47 l~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a 104 (151)
...|+..+.+.+..+..|...+ |...++.++. -.-+..++..+...
T Consensus 17 ~~~F~~~ak~~f~~i~~A~~~~--D~~~l~~~~t----------~~~~~~~~~~i~~~ 62 (147)
T PF04280_consen 17 PAAFLEEAKEAFLPIQEAWAKG--DLEALRPLLT----------EELYERLQAEIKAR 62 (147)
T ss_dssp HHHHHHHHHHTHHHHHHHHHHT---HHHHHHHB-----------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHhC----------HHHHHHHHHHHHHH
Confidence 4678899999999999999999 9999887743 34455555555554
No 60
>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=25.91 E-value=3.3e+02 Score=21.82 Aligned_cols=64 Identities=14% Similarity=0.144 Sum_probs=42.6
Q ss_pred HHHHHHhHhhhhhhhhh----cHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 73 KQVDSHVHQLKGSSSSI----GALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFR 136 (151)
Q Consensus 73 ~~l~~~aH~LKGss~~l----Ga~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~ 136 (151)
...+..+|.+..++-.+ |=..+--+|..+|..|..=...++...+.++...|..+...+..|-+
T Consensus 134 ~~~~~~avA~vlG~~m~~e~~~d~dvevLL~~ae~L~~vYP~~ga~eki~~Lr~~y~~l~~~i~~lE~ 201 (259)
T PF08657_consen 134 KQRRNTAVALVLGGVMHEEIVEDVDVEVLLRGAEKLCNVYPLPGAREKIAALRQRYNQLSNSIAYLEA 201 (259)
T ss_pred HHHHHHHHHHhccCcccccccccCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555555555444333 44456678888888887766667778888888888877777665543
No 61
>PF01322 Cytochrom_C_2: Cytochrome C'; InterPro: IPR002321 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class II includes the high-spin cytC' and a number of low-spin cytochromes, e.g. cyt c-556. The haem-attachment site is close to the C terminus. The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000-fold smaller than other high-spin haemoproteins []. This, coupled with its relatively low redox potential, makes it unlikely that cytC' is a terminal oxidase. Thus cytC' probably functions as an electron transfer protein []. The 3D structures of a number of cytC' have been determined. The molecule usually exists as a dimer, each monomer folding as a four-alpha-helix bundle incorporating a covalently-bound haem group at the core []. The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0005746 mitochondrial respiratory chain; PDB: 1BBH_A 2J9B_B 2J8W_A 1JAF_B 3ZTM_A 2XLD_A 2XL6_A 1E86_A 2YLD_A 2YKZ_A ....
Probab=25.85 E-value=2.1e+02 Score=19.53 Aligned_cols=38 Identities=13% Similarity=0.162 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhh
Q 031859 48 SLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSS 87 (151)
Q Consensus 48 ~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~ 87 (151)
..+..........|..+...+ |...+......+.++|.
T Consensus 78 ~~~~~~~~~aa~~L~~aa~~~--d~~~~~~a~~~v~~~C~ 115 (122)
T PF01322_consen 78 KQLAQAFQKAAAALAAAAKSG--DLAAIKAAFGEVGKSCK 115 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT--SHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHH
Confidence 334444445556677777667 77777777666665554
No 62
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=25.43 E-value=2.3e+02 Score=19.38 Aligned_cols=83 Identities=12% Similarity=0.199 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhh--------hcH---HHHHHHHHHHHHHHhhcCH
Q 031859 42 FVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSS--------IGA---LRVKNVCIAFRSFCDAQNR 110 (151)
Q Consensus 42 ~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~--------lGa---~~L~~~c~~LE~a~~~~~~ 110 (151)
+....+..+.++....++.+.+.+..+ ||+......=.+...-.. +-- ..+.....++..+...++.
T Consensus 16 ~~~~~l~~~~~~i~~~l~~i~~~i~~~--dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~i~~sl~rl~~~i~~~dk 93 (121)
T PF14276_consen 16 FSNNYLNNSTDSIEEQLEQIEEAIENE--DWEKAYKETEELEKEWDKNKKRWSILIEHQEIDNIDISLARLKGYIEAKDK 93 (121)
T ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHhhchheeeeecHHHHHHHHHHHHHHHHHHHCCCH
Confidence 345556777888889999999999999 999887766555443221 221 2333344444445555555
Q ss_pred HHHHHHHHHHHHHHHH
Q 031859 111 EGCMRCLQQVSHEYTM 126 (151)
Q Consensus 111 ~~~~~~~~~l~~~~~~ 126 (151)
..+...+..++..+..
T Consensus 94 ~~~l~el~~lk~~i~~ 109 (121)
T PF14276_consen 94 SESLAELAELKELIEH 109 (121)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5544444444444443
No 63
>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=25.27 E-value=87 Score=22.05 Aligned_cols=43 Identities=21% Similarity=0.276 Sum_probs=31.9
Q ss_pred HHHHhhhhccCchHHHHHHHhcccc----CChHHHHHHHHHHHHHHH
Q 031859 13 DFSSSLYREGYVDDQFSQLHKLQDE----SSPDFVVEVASLFFDDAE 55 (151)
Q Consensus 13 ~~~~~~~~~~~ld~~f~~L~~L~~~----~~~~~~~~ll~~F~~~~~ 55 (151)
-......+..|-|-.|++|.+|... ..++++..++..|+.-..
T Consensus 51 r~LD~~LHrCvyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~RlS 97 (115)
T cd07298 51 RVLDKHLHLCIYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLSRLS 97 (115)
T ss_pred HHHHHHHHHHHHhhhhhccccCCCcccccccHHHHHHHHHHHHHHHH
Confidence 3456677888999999999998842 246788888888876543
No 64
>PF04837 MbeB_N: MbeB-like, N-term conserved region; InterPro: IPR006922 This family consists of Mbe/Mob proteins defined by an N-terminal conserved region. These proteins are essential for specific plasmid transfer.
Probab=25.19 E-value=1.6e+02 Score=17.68 Aligned_cols=47 Identities=13% Similarity=0.191 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 031859 93 RVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQQILA 143 (151)
Q Consensus 93 ~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~~~~~ 143 (151)
.+..++..+|+..+. ++...=..++.+|.+....+..-+....+.+.
T Consensus 3 ~il~LA~~feqkske----qa~ste~~vk~af~~~E~~l~~~L~~s~~~is 49 (52)
T PF04837_consen 3 EILNLAKDFEQKSKE----QAESTEQMVKNAFEQHEKSLSAALKESEQKIS 49 (52)
T ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhh
Confidence 467788888887765 33444567788888888888888876666544
No 65
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=25.14 E-value=39 Score=21.40 Aligned_cols=38 Identities=5% Similarity=0.049 Sum_probs=18.4
Q ss_pred HHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 98 CIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLF 135 (151)
Q Consensus 98 c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~ 135 (151)
+.+++.....|+..++......-..-+-+..+.+++|-
T Consensus 10 ~~~F~~l~~~g~y~eAA~~AA~sP~giLRt~~Ti~rFk 47 (66)
T PF13838_consen 10 VQQFNELFSQGQYEEAAKVAANSPRGILRTPETINRFK 47 (66)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHSGGGTT-SHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHhCccchhcCHHHHHHHH
Confidence 44555555555555554444444444455555555554
No 66
>cd08332 CARD_CASP2 Caspase activation and recruitment domain of Caspase-2. Caspase activation and recruitment domain (CARD) similar to that found in caspase-2. Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Caspase-2 (also known as ICH1, NEDD2, or CASP2) is one of the most evolutionarily conserved caspases, and plays a role in apoptosis, DNA damage response, cell cycle regulation, and tumor suppression. It is localized in the nucleus and exhibits properties of both an initiator and an effector caspase. 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
Probab=25.11 E-value=2.1e+02 Score=18.85 Aligned_cols=61 Identities=11% Similarity=0.154 Sum_probs=36.7
Q ss_pred HHHHhhhhccCchHH-HHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHH
Q 031859 13 DFSSSLYREGYVDDQ-FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDS 77 (151)
Q Consensus 13 ~~~~~~~~~~~ld~~-f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~ 77 (151)
+-..-+...|++.+. ...|... ....+-...++.....-++.-+..+-.++... .+..++.
T Consensus 24 ~v~~~L~~~gvlt~~~~~~I~~~--~t~~~k~~~Lld~L~~RG~~AF~~F~~aL~~~--~~~~La~ 85 (90)
T cd08332 24 ELLIHLLQKDILTDSMAESIMAK--PTSFSQNVALLNLLPKRGPRAFSAFCEALRET--SQEHLCD 85 (90)
T ss_pred HHHHHHHHcCCCCHHHHHHHHcC--CCcHHHHHHHHHHHHHhChhHHHHHHHHHHhc--ChHHHHH
Confidence 345556667777744 3344332 23455567777777777777777777777654 4544444
No 67
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=25.08 E-value=1.3e+02 Score=16.61 Aligned_cols=55 Identities=13% Similarity=0.146 Sum_probs=26.4
Q ss_pred HHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 74 QVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFR 136 (151)
Q Consensus 74 ~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~ 136 (151)
-+..++|.+|..-+.+. ..+..+.. ...+... ...+..+.....++..-++....
T Consensus 5 ~~~~i~Hel~~pl~~i~-----~~~~~l~~--~~~~~~~-~~~~~~~~~~~~~~~~~v~~l~~ 59 (66)
T smart00388 5 FLANLSHELRTPLTAIR-----GYLELLED--TELSEEQ-REYLETILRSAERLLRLINDLLD 59 (66)
T ss_pred HHHHHHHhccCcHHHHH-----HHHHHHHh--CCCChHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667899885444332 22222222 1112222 45556666666665555554443
No 68
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=23.68 E-value=2e+02 Score=18.59 Aligned_cols=32 Identities=19% Similarity=0.195 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHh
Q 031859 113 CMRCLQQVSHEYTMLKSKLQTLFRMEQQILAA 144 (151)
Q Consensus 113 ~~~~~~~l~~~~~~l~~~L~~~~~~~~~~~~~ 144 (151)
+...+..++++|...+-.++..-+.+++.-++
T Consensus 15 Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s 46 (79)
T PF06657_consen 15 LSEVLKALQDEFGHMKMEHQELQDEYKQMDPS 46 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 34455555566655555555555555554443
No 69
>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=23.60 E-value=3.6e+02 Score=21.04 Aligned_cols=40 Identities=23% Similarity=0.317 Sum_probs=25.9
Q ss_pred cCChHHHHHHH-------HHHHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 031859 37 ESSPDFVVEVA-------SLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (151)
Q Consensus 37 ~~~~~~~~~ll-------~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (151)
..+|.++.+++ ...++...+.+..++.+++++ |.+.+.++
T Consensus 209 ~~~p~l~~~I~~~N~~~~~~~l~~~~~~L~~l~~~l~~~--d~~~l~~~ 255 (258)
T PF02153_consen 209 SSDPELWADIFLSNPENLLEALDEFIKELNELREALEAG--DEEELEEL 255 (258)
T ss_dssp GS-HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHTT--SHHHHHHH
T ss_pred cCChHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHH
Confidence 34566665553 344555566677788888888 88887764
No 70
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.06 E-value=4.8e+02 Score=24.51 Aligned_cols=73 Identities=14% Similarity=0.203 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Q 031859 41 DFVVEVASLFFD-DAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQ 119 (151)
Q Consensus 41 ~~~~~ll~~F~~-~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~ 119 (151)
.-..++...|.= |-.=-.-.+......+ ||+++...|-+-|+ -+|..++.+.|.. .++.+++...++.
T Consensus 701 k~a~ql~~~FkipdKr~~wLk~~aLa~~~--kweeLekfAkskks---PIGy~PFVe~c~~------~~n~~EA~KYipr 769 (829)
T KOG2280|consen 701 KRAEQLKSDFKIPDKRLWWLKLTALADIK--KWEELEKFAKSKKS---PIGYLPFVEACLK------QGNKDEAKKYIPR 769 (829)
T ss_pred HHHHHHHHhcCCcchhhHHHHHHHHHhhh--hHHHHHHHHhccCC---CCCchhHHHHHHh------cccHHHHhhhhhc
Confidence 335555555532 2222233466677788 99999999988776 7999999998854 4455555555555
Q ss_pred HHHHH
Q 031859 120 VSHEY 124 (151)
Q Consensus 120 l~~~~ 124 (151)
+...-
T Consensus 770 v~~l~ 774 (829)
T KOG2280|consen 770 VGGLQ 774 (829)
T ss_pred cCChH
Confidence 44433
No 71
>PF09686 Plasmid_RAQPRD: Plasmid protein of unknown function (Plasmid_RAQPRD); InterPro: IPR019110 This entry identifies a family of proteins, around 100 amino acids in length, that include a predicted signal sequence and a perfectly conserved motif, RAQPRD, towards the C terminus. They are found in the Pseudomonas putida TOL plasmid pWW0 and in cryptic plasmid regions of Salmonella enterica subsp. enterica serovar Typhi and Pseudomonas syringae pv. tomato str. DC3000. The function of these proteins is unknown.
Probab=22.63 E-value=92 Score=20.50 Aligned_cols=43 Identities=2% Similarity=0.025 Sum_probs=29.2
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 97 VCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRMEQ 139 (151)
Q Consensus 97 ~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~~~~~~ 139 (151)
+...-+..+.+.......--+.++...+..++.-++.|+.-.+
T Consensus 26 ~~~rA~~~a~~~~~~R~~FdY~rl~~Dl~~ir~GI~~YL~psR 68 (81)
T PF09686_consen 26 LLERAEAQANQSPSSRYYFDYPRLRADLERIRAGIQDYLNPSR 68 (81)
T ss_pred HHHHHHHhccCCCCCceeecHHHHHHHHHHHHHHHHHHcCccc
Confidence 3334444444333334445688999999999999999998666
No 72
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.60 E-value=2.1e+02 Score=24.26 Aligned_cols=37 Identities=16% Similarity=0.390 Sum_probs=29.4
Q ss_pred HHHHHHHhccccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR 63 (151)
Q Consensus 26 ~~f~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~ 63 (151)
.+|.+|+.+- ..+|+++..|+...-+.+++.++.|.+
T Consensus 255 pqf~~lR~~v-q~NP~~L~~lLqql~~~nP~l~q~I~~ 291 (378)
T TIGR00601 255 PQFQQLRQVV-QQNPQLLPPLLQQIGQENPQLLQQISQ 291 (378)
T ss_pred HHHHHHHHHH-HHCHHHHHHHHHHHHhhCHHHHHHHHH
Confidence 5688887765 456899999988888888888887765
No 73
>TIGR01240 mevDPdecarb diphosphomevalonate decarboxylase. Alternate names: mevalonate diphosphate decarboxylase; pyrophosphomevalonate decarboxylase
Probab=22.50 E-value=1.6e+02 Score=24.09 Aligned_cols=32 Identities=9% Similarity=0.175 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHh
Q 031859 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHV 79 (151)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (151)
++...+++...++..|..++..+ ||+.+.+.+
T Consensus 201 ~~~~~v~~~~~~l~~~~~ai~~~--D~~~~g~~~ 232 (305)
T TIGR01240 201 LFKEWIEHVVPDFEVXRKAIKTK--DFATFGKET 232 (305)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhc--cHHHHHHHH
Confidence 45677788888899999999999 998887765
No 74
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=22.06 E-value=4.7e+02 Score=24.64 Aligned_cols=78 Identities=17% Similarity=0.264 Sum_probs=48.7
Q ss_pred HHHHHHHHHHcCCCCCH---HHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHH-----Hhhc-CHHH---HHHHHHHHHHH
Q 031859 56 KLINSMARALEQPCVDF---KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSF-----CDAQ-NREG---CMRCLQQVSHE 123 (151)
Q Consensus 56 ~~l~~L~~a~~~~~~D~---~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a-----~~~~-~~~~---~~~~~~~l~~~ 123 (151)
..+..+++.+++. -| .++..-.|.+|-.--+=.+..++.-|++.-+. .-+| +... +...++.+.+.
T Consensus 906 ~~LkrFE~l~NqE--tfWVAsEIltE~nqlKRmKiIKhFIKiAlhCReckNFNSMFAIiSGLnla~VaRLr~tWEklpsK 983 (1283)
T KOG3542|consen 906 PKLKRFEQLFNQE--TFWVASEILTERNQLKRMKIIKHFIKIALHCRECKNFNSMFAIISGLNLAAVARLRSTWEKLPSK 983 (1283)
T ss_pred ccHHHHHHHhhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHhcCchHHHHHHhhhHhhccHH
Confidence 3455666666554 33 57888899999999999999999999887753 2333 3322 22334445555
Q ss_pred HHHHHHHHHHHH
Q 031859 124 YTMLKSKLQTLF 135 (151)
Q Consensus 124 ~~~l~~~L~~~~ 135 (151)
|.+..+.|+..+
T Consensus 984 Yek~lqdlqdlf 995 (1283)
T KOG3542|consen 984 YEKMLQDLQDLF 995 (1283)
T ss_pred HHHHHHHHHHhh
Confidence 555555555443
No 75
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=21.82 E-value=5.9e+02 Score=22.90 Aligned_cols=57 Identities=14% Similarity=0.093 Sum_probs=42.5
Q ss_pred HHHHHHHHHhhhhccCchHHHHHHHhcc-ccCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031859 8 QKQFIDFSSSLYREGYVDDQFSQLHKLQ-DESSPDFVVEVASLFFDDAEKLINSMARAL 65 (151)
Q Consensus 8 ~~~~~~~~~~~~~~~~ld~~f~~L~~L~-~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~ 65 (151)
=..+-+|++.+++.|+.|+. +.+..|. .|-...++..+-..+.+-+...+..++..+
T Consensus 30 I~~LEe~K~el~~lPv~dEi-~kVK~L~L~GQTe~~Fe~Wrq~W~di~~~~fadvEE~l 87 (570)
T COG4477 30 IDKLEERKNELLNLPVNDEI-SKVKKLHLTGQTETKFEEWRQKWDDIVTNSFADVEEHL 87 (570)
T ss_pred HHHHHHHHHHHHcCCchhHH-HHHhcCcccCccHHHHHHHHHHHHHHHHhhcccHHHHH
Confidence 34678999999999999963 3666666 466677788887777777777777776654
No 76
>PF11815 DUF3336: Domain of unknown function (DUF3336); InterPro: IPR021771 This family of proteins is characterised by an N-terminal domain that is found adjacent to the patatin/phospholipase A2-related domain (see PF01734 from PFAM). The family of proteins, which contain these two domains, have been characterised in Saccharomyces cerevisiae (Baker's yeast) as a bifunctional enzyme with triacylglycerol lipase and lysophosphatidic acid acyltransferase or lysophosphatidylethanolamine acyltransferase activity. They are generally involved in triacylglycerol mobilisation and localized to lipid particles [, ].
Probab=21.71 E-value=3.2e+02 Score=19.70 Aligned_cols=66 Identities=12% Similarity=0.138 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHcCCCCCHHHHHHHhH-hhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHH
Q 031859 55 EKLINSMARALEQPCVDFKQVDSHVH-QLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKS 129 (151)
Q Consensus 55 ~~~l~~L~~a~~~~~~D~~~l~~~aH-~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~~~~~~l~~ 129 (151)
...+..|+.+-..+ |...+..+.. .|+..-|+||-..|+.-|. .|...-+.+.+.++..++..+..
T Consensus 60 ~~rl~~L~~aR~~~--d~~~l~~~Lr~~l~RNlggi~n~~LY~~s~-------~GTK~lIe~Yi~ev~~~L~~l~~ 126 (145)
T PF11815_consen 60 RERLRELREARQSG--DIEALMFLLRTGLHRNLGGIGNPRLYSHSY-------SGTKRLIEEYIDEVVRCLEYLAE 126 (145)
T ss_pred HHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCccccCCHHHHHHcc-------ccchHHHHHHHHHHHHHHHHHHh
Confidence 34677788888888 8877655444 3555666677777766543 34444455555555555555444
No 77
>COG1561 Uncharacterized stress-induced protein [Function unknown]
Probab=21.42 E-value=4.6e+02 Score=21.51 Aligned_cols=98 Identities=12% Similarity=0.114 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHH------HH
Q 031859 45 EVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRC------LQ 118 (151)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~------~~ 118 (151)
+.+..|+..-..-=..|...+... ...+.+..-.++.-+-++=.....++...|..+..+-+.+.+..- =.
T Consensus 139 ~AL~~l~~~R~~EG~~L~~~l~~~---L~~ie~~v~~v~~~~P~~~~~~~~~l~~ri~~~~~~~d~~rl~qE~al~a~K~ 215 (290)
T COG1561 139 EALDDLIEMREREGAALKADLLQR---LDAIEELVEKVESLMPEILEWYRERLVARLNEAQDQLDEDRLEQEVALLAQKA 215 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHh
Confidence 334444444444444455555554 667777777777666777777777777777766644443332211 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHhc
Q 031859 119 QVSHEYTMLKSKLQTLFRMEQQILAAG 145 (151)
Q Consensus 119 ~l~~~~~~l~~~L~~~~~~~~~~~~~~ 145 (151)
.+..++.++..++..+..-....+|+|
T Consensus 216 DI~EEldRL~sHv~~~~~iL~~~g~vG 242 (290)
T COG1561 216 DIAEELDRLKSHVKEFRNILEKGGPVG 242 (290)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence 566777777777777766665555543
No 78
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=21.05 E-value=4.9e+02 Score=21.66 Aligned_cols=94 Identities=9% Similarity=0.137 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCC-CHHHHHHHhHhhhhhhhhhcHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Q 031859 43 VVEVASLFFDDAEKLINSMARALEQPCV-DFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVS 121 (151)
Q Consensus 43 ~~~ll~~F~~~~~~~l~~L~~a~~~~~~-D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~~~~l~ 121 (151)
+.++|..|+.+++..+...++-+..... -.+....-+-++..- -..+..+..++|.++..|+.+++..++..+.
T Consensus 84 ~~~~l~~~v~d~~rri~~~kerL~e~~ee~~~e~~~k~~~v~~l-----~e~I~~~l~~~E~LG~eG~Veeaq~~~~e~E 158 (319)
T KOG0796|consen 84 ALEILERFVADVDRRIEKAKERLAETVEERSEEAARKAEKVHEL-----EEKIGKLLEKAEELGEEGNVEEAQKAMKEVE 158 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH-----HHHHHHHHHHHHHHhhcCCHHHHHHHHHHHH
Confidence 5667788888888776665544432100 001111111111111 1556677888888999999988776665554
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHh
Q 031859 122 HEYTMLKSKLQTLFRMEQQILAA 144 (151)
Q Consensus 122 ~~~~~l~~~L~~~~~~~~~~~~~ 144 (151)
..-. ..+..-....+.+.|.
T Consensus 159 ~lk~---~e~e~~~~~~~~~~~~ 178 (319)
T KOG0796|consen 159 ELKA---KEKEEAEESYNTTMPG 178 (319)
T ss_pred HHHH---HHHHHHHHHHccCcch
Confidence 4333 1344334444444443
Done!