Query 032209
Match_columns 145
No_of_seqs 105 out of 961
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 11:03:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032209.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032209hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4747 Two-component phosphor 99.8 1.3E-19 2.9E-24 130.8 15.1 134 4-138 5-138 (150)
2 PF01627 Hpt: Hpt domain; Int 99.7 1.6E-15 3.4E-20 100.2 10.5 83 45-129 1-89 (90)
3 COG2198 ArcB FOG: HPt domain [ 99.6 5.7E-15 1.2E-19 104.4 12.8 96 37-134 19-117 (122)
4 smart00073 HPT Histidine Phosp 99.5 6.4E-14 1.4E-18 92.7 6.5 85 45-132 2-86 (87)
5 cd00088 HPT Histidine Phosphot 99.4 6.4E-13 1.4E-17 89.4 8.0 64 44-109 2-69 (94)
6 TIGR02956 TMAO_torS TMAO reduc 99.3 1.3E-11 2.8E-16 111.5 12.0 94 37-134 875-968 (968)
7 PRK10618 phosphotransfer inter 99.2 2.7E-10 5.9E-15 103.6 11.1 83 44-128 810-892 (894)
8 PRK11091 aerobic respiration c 99.0 4.1E-09 8.9E-14 93.8 13.4 100 37-138 677-776 (779)
9 PRK11107 hybrid sensory histid 98.7 4.9E-07 1.1E-11 81.3 15.0 97 37-135 820-917 (919)
10 PRK11466 hybrid sensory histid 98.7 3.1E-07 6.6E-12 83.0 13.6 89 37-136 819-907 (914)
11 COG0643 CheA Chemotaxis protei 98.1 2.4E-05 5.1E-10 70.1 10.2 94 40-133 3-105 (716)
12 PRK10547 chemotaxis protein Ch 98.0 7.4E-05 1.6E-09 66.6 10.2 64 43-106 3-72 (670)
13 PRK09959 hybrid sensory histid 97.6 0.0011 2.5E-08 61.8 13.2 97 37-135 1096-1193(1197)
14 PRK15347 two component system 97.0 0.0044 9.5E-08 56.1 9.0 62 46-111 838-899 (921)
15 TIGR03042 PS_II_psbQ_bact phot 94.8 0.46 1E-05 34.7 9.1 74 52-137 46-140 (142)
16 PLN02956 PSII-Q subunit 92.6 1.7 3.8E-05 33.0 9.2 81 44-129 82-183 (185)
17 PF07743 HSCB_C: HSCB C-termin 92.0 0.94 2E-05 29.0 6.4 45 38-84 24-68 (78)
18 PF13779 DUF4175: Domain of un 90.8 1.9 4.2E-05 39.8 9.1 88 36-128 487-574 (820)
19 TIGR02302 aProt_lowcomp conser 89.3 3.1 6.7E-05 38.6 9.2 88 35-128 517-604 (851)
20 cd08323 CARD_APAF1 Caspase act 89.1 2.4 5.3E-05 28.2 6.4 73 3-81 10-83 (86)
21 TIGR00714 hscB Fe-S protein as 87.8 3.5 7.5E-05 30.4 7.1 21 95-115 114-134 (157)
22 PRK01356 hscB co-chaperone Hsc 86.9 3.6 7.7E-05 30.6 6.8 25 95-119 123-147 (166)
23 PF05757 PsbQ: Oxygen evolving 80.2 8.5 0.00019 29.7 6.6 76 51-128 105-198 (202)
24 PRK03578 hscB co-chaperone Hsc 77.6 16 0.00034 27.5 7.2 12 71-82 115-126 (176)
25 PRK01773 hscB co-chaperone Hsc 76.9 17 0.00038 27.2 7.3 47 61-117 104-150 (173)
26 KOG1104 Nuclear cap-binding co 71.6 67 0.0014 29.6 10.6 102 28-138 86-206 (759)
27 COG3046 Uncharacterized protei 67.7 29 0.00063 30.0 7.2 67 39-111 226-292 (505)
28 PRK05014 hscB co-chaperone Hsc 63.0 50 0.0011 24.5 7.1 21 95-115 127-147 (171)
29 cd08326 CARD_CASP9 Caspase act 60.8 43 0.00094 21.9 5.8 62 12-77 19-81 (84)
30 PF05396 Phage_T7_Capsid: Phag 59.4 51 0.0011 23.5 6.2 47 37-85 43-89 (123)
31 PF14276 DUF4363: Domain of un 57.1 22 0.00048 24.5 4.1 32 45-78 19-50 (121)
32 PF07445 priB_priC: Primosomal 53.0 86 0.0019 23.3 6.9 63 4-79 8-72 (173)
33 PF06248 Zw10: Centromere/kine 53.0 1.6E+02 0.0035 26.0 12.0 24 115-138 150-173 (593)
34 PF14276 DUF4363: Domain of un 51.4 77 0.0017 21.7 11.5 34 93-126 27-60 (121)
35 PF08900 DUF1845: Domain of un 49.6 71 0.0015 24.7 6.2 53 85-137 33-91 (217)
36 cd01671 CARD Caspase activatio 47.9 67 0.0014 20.0 6.4 62 4-68 9-71 (80)
37 COG0783 Dps DNA-binding ferrit 46.6 95 0.0021 22.9 6.2 79 37-136 41-123 (156)
38 PF07426 Dynactin_p22: Dynacti 46.5 1.2E+02 0.0027 22.6 10.4 66 71-136 95-168 (174)
39 PRK13916 plasmid segregation p 46.3 35 0.00076 22.8 3.4 30 26-55 19-48 (97)
40 KOG3202 SNARE protein TLG1/Syn 43.2 1.6E+02 0.0036 23.2 12.9 121 3-136 85-208 (235)
41 COG2991 Uncharacterized protei 42.8 5.1 0.00011 25.9 -0.9 19 81-99 28-46 (77)
42 PRK11199 tyrA bifunctional cho 42.3 1.9E+02 0.0041 24.0 8.1 49 52-102 318-366 (374)
43 TIGR03761 ICE_PFL4669 integrat 41.6 1.3E+02 0.0027 23.5 6.4 52 85-136 31-88 (216)
44 cd07298 PX_RICS The phosphoino 40.6 45 0.00098 23.4 3.4 44 12-55 50-97 (115)
45 KOG2280 Vacuolar assembly/sort 40.5 1.7E+02 0.0036 27.3 7.8 82 32-124 692-774 (829)
46 cd07299 PX_TCGAP The phosphoin 40.1 54 0.0012 22.9 3.7 44 12-55 48-95 (113)
47 PLN02407 diphosphomevalonate d 39.1 52 0.0011 27.5 4.2 32 46-79 224-256 (343)
48 KOG3192 Mitochondrial J-type c 38.3 1.7E+02 0.0037 21.9 6.5 29 93-121 127-155 (168)
49 PF04840 Vps16_C: Vps16, C-ter 37.5 2.3E+02 0.0049 23.2 10.5 75 37-122 190-265 (319)
50 PF09280 XPC-binding: XPC-bind 37.1 75 0.0016 19.5 3.7 37 26-63 8-44 (59)
51 cd08332 CARD_CASP2 Caspase act 36.4 1.3E+02 0.0027 19.9 7.1 61 14-78 25-86 (90)
52 PF08858 IDEAL: IDEAL domain; 35.4 81 0.0018 17.4 5.5 35 43-81 2-36 (37)
53 PRK10093 primosomal replicatio 35.1 2E+02 0.0042 21.7 7.4 35 46-82 41-75 (171)
54 PF14399 Transpep_BrtH: NlpC/p 34.7 2.3E+02 0.0049 22.3 8.4 16 41-56 240-255 (317)
55 cd05136 RasGAP_DAB2IP The DAB2 34.2 1.3E+02 0.0029 24.6 5.8 49 95-143 15-63 (309)
56 cd07625 BAR_Vps17p The Bin/Amp 34.1 2.3E+02 0.005 22.2 11.0 68 71-139 137-206 (230)
57 PF14615 Rsa3: Ribosome-assemb 33.9 1E+02 0.0022 18.1 4.0 40 46-88 6-45 (47)
58 cd07278 PX_RICS_like The phosp 32.9 62 0.0013 22.7 3.1 45 12-56 49-97 (114)
59 PF11815 DUF3336: Domain of un 32.5 1.9E+02 0.0041 20.8 7.1 67 54-129 59-126 (145)
60 PF05470 eIF-3c_N: Eukaryotic 32.2 3.8E+02 0.0082 24.1 9.3 97 38-136 16-122 (595)
61 PF06367 Drf_FH3: Diaphanous F 31.6 2.1E+02 0.0046 21.0 6.6 28 39-66 84-111 (197)
62 PF07014 Hs1pro-1_C: Hs1pro-1 31.5 2.7E+02 0.0057 22.1 9.6 67 42-119 54-120 (261)
63 TIGR00444 mazG MazG family pro 30.8 2.7E+02 0.0059 22.1 6.9 90 40-132 73-172 (248)
64 PRK03636 hypothetical protein; 30.8 2E+02 0.0042 21.8 5.8 38 43-84 138-175 (179)
65 KOG2424 Protein involved in tr 30.3 1E+02 0.0022 23.6 4.2 35 86-125 147-181 (195)
66 PF04280 Tim44: Tim44-like dom 30.3 63 0.0014 22.6 3.0 46 47-104 17-62 (147)
67 PRK03057 hypothetical protein; 29.9 2E+02 0.0044 21.7 5.8 28 54-83 146-173 (180)
68 COG3433 Aryl carrier domain [S 29.8 79 0.0017 20.5 3.0 49 47-96 7-55 (74)
69 PF04722 Ssu72: Ssu72-like pro 29.7 78 0.0017 24.3 3.5 18 86-103 145-162 (195)
70 PF04400 DUF539: Protein of un 29.4 5.6 0.00012 23.3 -2.1 19 81-99 7-25 (45)
71 TIGR01220 Pmev_kin_Gr_pos phos 28.6 3.4E+02 0.0073 22.4 7.6 56 46-103 246-309 (358)
72 PF13628 DUF4142: Domain of un 28.3 2.1E+02 0.0045 19.9 7.9 52 26-79 70-122 (139)
73 TIGR01240 mevDPdecarb diphosph 27.8 1.1E+02 0.0023 24.9 4.3 32 46-79 201-232 (305)
74 PF02153 PDH: Prephenate dehyd 27.7 2.9E+02 0.0064 21.4 7.1 28 49-78 228-255 (258)
75 PF14689 SPOB_a: Sensor_kinase 27.6 1.5E+02 0.0032 18.0 6.1 45 43-89 12-56 (62)
76 PRK14154 heat shock protein Gr 27.2 3E+02 0.0064 21.3 8.0 63 71-133 81-149 (208)
77 PLN02999 photosystem II oxygen 26.6 2.5E+02 0.0055 21.4 5.7 40 92-131 150-189 (190)
78 PF04136 Sec34: Sec34-like fam 26.4 2.6E+02 0.0056 20.4 10.3 85 58-142 61-149 (157)
79 PF09577 Spore_YpjB: Sporulati 26.1 2.1E+02 0.0045 22.6 5.4 39 93-131 102-140 (232)
80 KOG2716 Polymerase delta-inter 25.9 65 0.0014 25.4 2.6 52 49-100 48-99 (230)
81 KOG2833 Mevalonate pyrophospha 25.7 1.3E+02 0.0028 25.3 4.3 33 45-79 222-255 (395)
82 TIGR00984 3a0801s03tim44 mitoc 25.6 1.2E+02 0.0025 25.8 4.1 50 47-108 243-293 (378)
83 PF01025 GrpE: GrpE; InterPro 25.0 2.6E+02 0.0057 19.9 5.8 60 72-131 41-105 (165)
84 PHA01929 putative scaffolding 23.4 4.1E+02 0.0088 21.6 6.6 54 37-92 198-252 (306)
85 TIGR00601 rad23 UV excision re 23.3 2.2E+02 0.0049 24.0 5.4 37 26-63 255-291 (378)
86 PF10923 DUF2791: P-loop Domai 22.9 4.9E+02 0.011 22.3 9.0 83 42-126 119-203 (416)
87 cd00454 Trunc_globin Truncated 22.8 2.4E+02 0.0052 18.7 5.1 36 38-76 7-42 (116)
88 PF10431 ClpB_D2-small: C-term 22.7 1.2E+02 0.0026 19.0 3.0 56 40-100 3-58 (81)
89 TIGR00465 ilvC ketol-acid redu 22.4 3.8E+02 0.0082 21.8 6.5 60 37-111 187-247 (314)
90 PF02023 SCAN: SCAN domain; I 22.2 2.5E+02 0.0054 18.7 6.4 60 3-80 23-82 (95)
91 PRK05399 DNA mismatch repair p 21.7 6.8E+02 0.015 23.5 10.8 30 112-141 427-456 (854)
92 PF00619 CARD: Caspase recruit 21.6 2.1E+02 0.0046 17.8 4.1 53 13-67 20-73 (85)
93 PF07361 Cytochrom_B562: Cytoc 21.3 2.7E+02 0.0059 18.8 5.5 34 88-121 59-92 (103)
94 cd07909 YciF YciF bacterial st 21.1 1.8E+02 0.0039 21.1 3.9 55 10-68 3-59 (147)
95 COG2178 Predicted RNA-binding 21.0 4E+02 0.0087 20.6 6.5 41 94-134 29-69 (204)
96 cd08327 CARD_RAIDD Caspase act 20.9 2.7E+02 0.0059 18.6 5.9 50 14-65 26-76 (94)
97 COG0282 ackA Acetate kinase [E 20.7 2.4E+02 0.0051 24.1 5.0 52 82-138 266-317 (396)
98 KOG0447 Dynamin-like GTP bindi 20.4 6.1E+02 0.013 23.3 7.6 124 7-138 115-256 (980)
99 PRK08818 prephenate dehydrogen 20.3 2.6E+02 0.0057 23.4 5.3 40 42-87 228-267 (370)
100 PF02845 CUE: CUE domain; Int 20.2 1.7E+02 0.0037 16.1 3.3 34 28-61 5-38 (42)
101 PF14399 Transpep_BrtH: NlpC/p 20.1 4.3E+02 0.0094 20.7 7.7 32 73-104 181-213 (317)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.84 E-value=1.3e-19 Score=130.82 Aligned_cols=134 Identities=57% Similarity=0.985 Sum_probs=130.1
Q ss_pred HHHHHHHHHHHHhhhhhcCCchHHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 032209 4 VSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (145)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~ild~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (145)
|-+++..+.+.+.+++++|++|++|.+|.+|.++..|+|+.+++..|.+++.+.+..++.++..+- |+..+....|.+|
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 778999999999999999999999999999999999999999999999999999999999998863 9999999999999
Q ss_pred hhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 84 GSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRVS 138 (145)
Q Consensus 84 Gss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L~~~l~~~ 138 (145)
|+|..+||.++...|..+-..|+.++.+.....+++++-++..+...|+.|++++
T Consensus 84 gssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~ 138 (150)
T KOG4747|consen 84 GSSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLE 138 (150)
T ss_pred CchhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999987
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=99.66 E-value=1.6e-15 Score=100.17 Aligned_cols=83 Identities=22% Similarity=0.423 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHh---cCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHH---HHHHHH
Q 032209 45 EVASLFFDDAEKLINSMARAL---EQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREG---CMRCLQ 118 (145)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~---~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~---~~~~l~ 118 (145)
+++..|+++.++.+..|++++ ..+ |++.+...+|+|||+++++|+..+...|..||..++.++.+. +...+.
T Consensus 1 ell~~f~~~~~~~~~~l~~~~~~~~~~--d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~ 78 (90)
T PF01627_consen 1 ELLDIFLEEAPEDLEQLEQALQALEQE--DWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLD 78 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSSHHC--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHh--hHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence 589999999999999999999 888 999999999999999999999999999999999999987776 445555
Q ss_pred HHHHHHHHHHH
Q 032209 119 QVSHEYTMLKS 129 (145)
Q Consensus 119 ~L~~~~~~l~~ 129 (145)
.+...+.++.+
T Consensus 79 ~l~~~l~~l~~ 89 (90)
T PF01627_consen 79 ELEAMLEQLRQ 89 (90)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhC
Confidence 55555555443
No 3
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.64 E-value=5.7e-15 Score=104.36 Aligned_cols=96 Identities=22% Similarity=0.390 Sum_probs=86.6
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhh-cCHHHHHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDA-QNREGCMR 115 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~-~~~~~~~~ 115 (145)
+++++++.+++..|+++.++++..+..++..+ |+..+.+.+|+|||+|+++|+..|...|.+||..++. +..+....
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 67888888
Q ss_pred HHHHHHHH--HHHHHHHHHHH
Q 032209 116 CLQQVSHE--YTMLKSKLQTL 134 (145)
Q Consensus 116 ~l~~L~~~--~~~l~~~L~~~ 134 (145)
.+.++.+. +......+..+
T Consensus 97 ~i~~l~~~~~~~~~~~~~~~~ 117 (122)
T COG2198 97 LIAELKDELQLDVLALELLTY 117 (122)
T ss_pred HHHHHHHHhcchHHHHHHHHH
Confidence 99999988 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=99.50 E-value=6.4e-14 Score=92.67 Aligned_cols=85 Identities=21% Similarity=0.331 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH
Q 032209 45 EVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEY 124 (145)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~ 124 (145)
+++..|+++.+..+..|..+...+ |+..+...+|+|||+|+++|+..|..+|..+|..++...... ......+...+
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 999999999999999999999999999999999888643222 24566677777
Q ss_pred HHHHHHHH
Q 032209 125 TMLKSKLQ 132 (145)
Q Consensus 125 ~~l~~~L~ 132 (145)
.++.+.|.
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=99.43 E-value=6.4e-13 Score=89.43 Aligned_cols=64 Identities=31% Similarity=0.533 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc----CCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcC
Q 032209 44 VEVASLFFDDAEKLINSMARALE----QPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN 109 (145)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~----~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~ 109 (145)
.+++..|+++.++.+..|.+++. .+ |++.+...+|+|||+++++|+..+...|..+|.+++.+.
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 57899999999999999999999 78 999999999999999999999999999999999998754
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=99.33 E-value=1.3e-11 Score=111.46 Aligned_cols=94 Identities=17% Similarity=0.284 Sum_probs=87.6
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRC 116 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~ 116 (145)
..+++.+.+++..|.++.+..+..|..++..+ ||..++..+|+|||+++++|+..+..+|+.||..++.++. ....
T Consensus 875 ~~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~--~~~~ 950 (968)
T TIGR02956 875 VLGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGAL--ELSD 950 (968)
T ss_pred hcCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCc--chhH
Confidence 45788899999999999999999999999999 9999999999999999999999999999999999998876 3567
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032209 117 LQQVSHEYTMLKSKLQTL 134 (145)
Q Consensus 117 l~~L~~~~~~l~~~L~~~ 134 (145)
+..|+..|.++..+|+.|
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=99.15 E-value=2.7e-10 Score=103.61 Aligned_cols=83 Identities=16% Similarity=0.292 Sum_probs=77.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH
Q 032209 44 VEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHE 123 (145)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~ 123 (145)
..++..|+++++.++..|..+..++ |+..++..||+|||+++++|+..+.++|..||..++.++..++...+.+|...
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 99999999999999999999999999999999999999999999999988888
Q ss_pred HHHHH
Q 032209 124 YTMLK 128 (145)
Q Consensus 124 ~~~l~ 128 (145)
+.++.
T Consensus 888 v~~ll 892 (894)
T PRK10618 888 VKSLL 892 (894)
T ss_pred HHHHh
Confidence 77765
No 8
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.04 E-value=4.1e-09 Score=93.81 Aligned_cols=100 Identities=13% Similarity=0.213 Sum_probs=93.3
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRC 116 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~ 116 (145)
..++..+...+..|.+..+..+..+..++..+ |+..+...+|+|||+++++|+..+.++|+.+|.....+..+.....
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 34567788999999999999999999999999 9999999999999999999999999999999998888888888999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032209 117 LQQVSHEYTMLKSKLQTLFRVS 138 (145)
Q Consensus 117 l~~L~~~~~~l~~~L~~~l~~~ 138 (145)
+.++..+|+...+.|+.|++..
T Consensus 755 ~~~l~~~~~~~~~~~~~~~~~~ 776 (779)
T PRK11091 755 VEELKNEWRHDVEVLKAWLAQA 776 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999998764
No 9
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.71 E-value=4.9e-07 Score=81.33 Aligned_cols=97 Identities=20% Similarity=0.280 Sum_probs=85.6
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhc-CHHHHHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ-NREGCMR 115 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~-~~~~~~~ 115 (145)
.+.++...+++..|.+..+.....+..++... |+..+...+|++||+++++|+..+...|+.+|..++.+ ..+.+..
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 46678889999999999999999999999999 99999999999999999999999999999999999876 4566677
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032209 116 CLQQVSHEYTMLKSKLQTLF 135 (145)
Q Consensus 116 ~l~~L~~~~~~l~~~L~~~l 135 (145)
.+..+..++.++..+++.++
T Consensus 898 ~~~~~~~~~~~~~~~~~~~~ 917 (919)
T PRK11107 898 ELLELLDEMENVARAAKKVL 917 (919)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 77777777777777777665
No 10
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.71 E-value=3.1e-07 Score=82.95 Aligned_cols=89 Identities=21% Similarity=0.237 Sum_probs=73.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRC 116 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~ 116 (145)
..+++.+.+++..|.++.+..+..+..+...+ |+..++..+|+|||+++++|+..+...|..+|.++...
T Consensus 819 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~~~-------- 888 (914)
T PRK11466 819 LMGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPLSA-------- 888 (914)
T ss_pred hcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCCc--------
Confidence 34567788999999999999999999999999 99999999999999999999999999999999875422
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032209 117 LQQVSHEYTMLKSKLQTLFR 136 (145)
Q Consensus 117 l~~L~~~~~~l~~~L~~~l~ 136 (145)
..+...+.+...+|+.|++
T Consensus 889 -~~~~~~~~~~~~~~~~~~~ 907 (914)
T PRK11466 889 -PLPHEEITRSVAALEAWLA 907 (914)
T ss_pred -hhHHHHHHHHHHHHHHHHH
Confidence 2233455555555555554
No 11
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=98.11 E-value=2.4e-05 Score=70.13 Aligned_cols=94 Identities=19% Similarity=0.261 Sum_probs=68.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CCC---HHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHH---HhhcCH
Q 032209 40 PDFVVEVASLFFDDAEKLINSMARALEQP---CVD---FKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSF---CDAQNR 110 (145)
Q Consensus 40 ~~~~~~ll~~F~~~~~~~l~~L~~a~~~~---~~D---~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a---~~~~~~ 110 (145)
.+.+.+++..|+.++++.+..|.+.+-.- +.| ...+.+.||+|||+||++|+..+..+|..+|.. .+.+..
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 44578899999999999999998754432 113 467789999999999999999999999999975 455554
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 032209 111 EGCMRCLQQVSHEYTMLKSKLQT 133 (145)
Q Consensus 111 ~~~~~~l~~L~~~~~~l~~~L~~ 133 (145)
+--...+..+-.+...+...++.
T Consensus 83 ~~~~~l~d~~l~~~D~l~~~~~~ 105 (716)
T COG0643 83 ELTSELLDLLLEALDALEEMLDA 105 (716)
T ss_pred cCcHHHHHHHhhhhHHHHHHHHh
Confidence 43344555554444444444444
No 12
>PRK10547 chemotaxis protein CheA; Provisional
Probab=97.95 E-value=7.4e-05 Score=66.62 Aligned_cols=64 Identities=20% Similarity=0.401 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC---CCCC---HHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHh
Q 032209 43 VVEVASLFFDDAEKLINSMARALEQ---PCVD---FKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCD 106 (145)
Q Consensus 43 ~~~ll~~F~~~~~~~l~~L~~a~~~---~~~D---~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~ 106 (145)
+.+++..|++++.+.++.|.+.+-. .+.| ...+-+.+|+|||+|+++|+..+..+|..+|....
T Consensus 3 ~~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~lld 72 (670)
T PRK10547 3 ISDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLLD 72 (670)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHHH
Confidence 3478899999999999887776543 2114 46778999999999999999999999999997653
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.64 E-value=0.0011 Score=61.79 Aligned_cols=97 Identities=13% Similarity=0.245 Sum_probs=78.4
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcC-HHHHHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN-REGCMR 115 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~-~~~~~~ 115 (145)
..+...+.+++..+......++..+..+...+ |...++.++|++||++..+|+..+...|+++|......+ .+.+..
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 35667789999999999999999998999999 999999999999999999999999999999998876554 445555
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032209 116 CLQQVSHEYTMLKSKLQTLF 135 (145)
Q Consensus 116 ~l~~L~~~~~~l~~~L~~~l 135 (145)
.+..+..........+..|+
T Consensus 1174 ~~~~~~~~~~~~~~~~~~~~ 1193 (1197)
T PRK09959 1174 LLNSVKEHIAELDQEIAVFC 1193 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 56666655555555555543
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.99 E-value=0.0044 Score=56.08 Aligned_cols=62 Identities=16% Similarity=0.296 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHH
Q 032209 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNRE 111 (145)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~ 111 (145)
+...+.+.....+..+..++..+ | .+...+|++||+++.+|+..+...|.++|..++.+...
T Consensus 838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~~ 899 (921)
T PRK15347 838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEIL 899 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCCC
Confidence 44455566677888888888888 6 99999999999999999999999999999998876433
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=94.77 E-value=0.46 Score=34.66 Aligned_cols=74 Identities=9% Similarity=0.164 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhCh---------------------HHHHHHHHHHHHHHhhcCH
Q 032209 52 DDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGA---------------------LRVKNVCIAFRSFCDAQNR 110 (145)
Q Consensus 52 ~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa---------------------~~L~~~c~~LE~a~~~~~~ 110 (145)
+.+.+.+.+++..+..+ ||..++...|.- +|.++- ..|.+....|..+++.+|.
T Consensus 46 ~~~~~r~~eLk~lI~kk--~W~~vrn~irgp---~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD~AA~~kd~ 120 (142)
T TIGR03042 46 EAAKDRLPELASLVAKE--DWVFTRNLIHGP---MGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLDEAARLQDG 120 (142)
T ss_pred HHHHHhhHHHHHHHhhc--chHHHHHHHhcc---HHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence 45678888999999999 999999998853 333332 3344445555566666665
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 111 EGCMRCLQQVSHEYTMLKSKLQTLFRV 137 (145)
Q Consensus 111 ~~~~~~l~~L~~~~~~l~~~L~~~l~~ 137 (145)
..+ ...|..+...+++|+++
T Consensus 121 ~~a-------~k~Y~~av~~~dafl~~ 140 (142)
T TIGR03042 121 PQA-------QKAYQKAAADFDAYLDL 140 (142)
T ss_pred HHH-------HHHHHHHHHHHHHHHhh
Confidence 444 44666666666666653
No 16
>PLN02956 PSII-Q subunit
Probab=92.64 E-value=1.7 Score=32.96 Aligned_cols=81 Identities=11% Similarity=0.092 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhC---------------------hHHHHHHHHHHH
Q 032209 44 VEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIG---------------------ALRVKNVCIAFR 102 (145)
Q Consensus 44 ~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lG---------------------a~~L~~~c~~LE 102 (145)
.+--..=+.+..+.|-.|+..+..+ +|..+....|. .++.++ +..|.+....|+
T Consensus 82 peeA~ar~k~~A~~l~~LK~LI~k~--~W~yvrn~LRg---p~s~Lr~DL~~Ii~slpp~Drk~a~~La~~LFd~l~~LD 156 (185)
T PLN02956 82 VEEAESGVRGHAENLLRVKALIESE--SWKEAQKALRR---SASNLKQDLYAIIQAKPGKDRPQLRRLYSDLFNSVTKLD 156 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc--cHHHHHHHHHc---cHHHHHHHHHHHHHhcCHhHhHHHHHHHHHHHHHHHHHH
Confidence 3344445567778889999999999 99999998774 444444 345666777777
Q ss_pred HHHhhcCHHHHHHHHHHHHHHHHHHHH
Q 032209 103 SFCDAQNREGCMRCLQQVSHEYTMLKS 129 (145)
Q Consensus 103 ~a~~~~~~~~~~~~l~~L~~~~~~l~~ 129 (145)
.+++.++..++...+......|..+..
T Consensus 157 ~AAR~kd~~~a~k~Y~~tva~lD~Vl~ 183 (185)
T PLN02956 157 YAARDKDETRVWEYYENIVASLDDIFS 183 (185)
T ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHh
Confidence 888888877777777666666665543
No 17
>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=92.04 E-value=0.94 Score=29.04 Aligned_cols=45 Identities=18% Similarity=0.289 Sum_probs=38.2
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q 032209 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKG 84 (145)
Q Consensus 38 ~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKG 84 (145)
++.+-+..+....-......+..|..++..+ ||+.+...+++||=
T Consensus 24 ~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kLky 68 (78)
T PF07743_consen 24 DDEAELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKLKY 68 (78)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHHHH
Confidence 5567788888888888889999999999999 99999999999863
No 18
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=90.83 E-value=1.9 Score=39.79 Aligned_cols=88 Identities=8% Similarity=0.137 Sum_probs=67.7
Q ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHH
Q 032209 36 DESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMR 115 (145)
Q Consensus 36 ~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~ 115 (145)
.+.+.+-|.++...+.+-..+++.+|.+-...+ .-.. .-+..-+.+.+++...|.+...+||+..++|+.+++..
T Consensus 487 ~gAs~eEI~rLm~eLR~A~~~ym~~LAeq~~~~--~~~~---~~p~~~~~~~~~~~~dL~~mmd~ie~la~~G~~~~A~q 561 (820)
T PF13779_consen 487 RGASDEEIARLMQELREAMQDYMQALAEQAQRN--PQQQ---DQPPDQGNSQMMSQQDLQRMMDRIEELARSGRMDEARQ 561 (820)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--cccc---cCcccchhhhccCHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence 355667788888888888888888887765554 1111 11222567788999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 032209 116 CLQQVSHEYTMLK 128 (145)
Q Consensus 116 ~l~~L~~~~~~l~ 128 (145)
+++++.+-++.++
T Consensus 562 ~L~qlq~mmenmq 574 (820)
T PF13779_consen 562 LLEQLQQMMENMQ 574 (820)
T ss_pred HHHHHHHHHHhcc
Confidence 9999888877554
No 19
>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=89.31 E-value=3.1 Score=38.59 Aligned_cols=88 Identities=10% Similarity=0.169 Sum_probs=67.5
Q ss_pred hccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHH
Q 032209 35 QDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCM 114 (145)
Q Consensus 35 ~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~ 114 (145)
+.+.+.+-|.++...+.+-..+++.+|.+-..+++ +-.. -..-+.+.+++-..|-+...+||+..++|+.+++.
T Consensus 517 ~~gAsdeEI~~Lm~eLR~Am~~ym~~LAeq~~~~~-~~~~-----~~~~~~~~~l~~~dLq~Mmd~ieela~~G~~~~A~ 590 (851)
T TIGR02302 517 ERGASDEEIKQLTDKLRAAMQTYMRQLAQQLRNNP-QQLA-----RPLDPNTKVLRQQDLQNMMDQIENLARSGDRDQAK 590 (851)
T ss_pred HcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCc-cccc-----ccCCccccccCHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 34556777899999998888888888877655431 1111 11123467899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 032209 115 RCLQQVSHEYTMLK 128 (145)
Q Consensus 115 ~~l~~L~~~~~~l~ 128 (145)
.++++|..-++.++
T Consensus 591 qlL~qlq~mmenlq 604 (851)
T TIGR02302 591 QLLSQLQQMMNNLQ 604 (851)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999888887766
No 20
>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=89.13 E-value=2.4 Score=28.17 Aligned_cols=73 Identities=11% Similarity=0.195 Sum_probs=56.0
Q ss_pred hHHHHHHHHHHHHhhhhhcCCchHHHHHHHhhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 032209 3 VVSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQ 81 (145)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~ild~~~~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~ 81 (145)
+++.|+ +.+-...+...|++++. ..+.++. ....+-...+++....-.+.-...+..++... .+..++.+.|.
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 345555 56677888999999965 5555554 45577789999999999999999999998876 68888888764
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=87.79 E-value=3.5 Score=30.35 Aligned_cols=21 Identities=10% Similarity=-0.034 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHhhcCHHHHHH
Q 032209 95 KNVCIAFRSFCDAQNREGCMR 115 (145)
Q Consensus 95 ~~~c~~LE~a~~~~~~~~~~~ 115 (145)
..+...|+.+...++.+.+..
T Consensus 114 ~~~~~~l~~~~~~~d~~~A~~ 134 (157)
T TIGR00714 114 QTRHQLLVEQLDNQTWAAAAD 134 (157)
T ss_pred HHHHHHHHHHHhcCCHHHHHH
Confidence 334444444444444444433
No 22
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=86.93 E-value=3.6 Score=30.61 Aligned_cols=25 Identities=16% Similarity=0.076 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHhhcCHHHHHHHHHH
Q 032209 95 KNVCIAFRSFCDAQNREGCMRCLQQ 119 (145)
Q Consensus 95 ~~~c~~LE~a~~~~~~~~~~~~l~~ 119 (145)
..+...|+.+...++.+.+...+.+
T Consensus 123 ~~~~~~l~~~f~~~d~~~A~~~~~~ 147 (166)
T PRK01356 123 KNEIDSLKQAFEEQNLSDATIKTSK 147 (166)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHH
Confidence 3444455555555555555444433
No 23
>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=80.19 E-value=8.5 Score=29.69 Aligned_cols=76 Identities=9% Similarity=0.072 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH--------hhhhhhhhC----------hHHHHHHHHHHHHHHhhcCHHH
Q 032209 51 FDDAEKLINSMARALEQPCVDFKQVDSHVHQ--------LKGSSSSIG----------ALRVKNVCIAFRSFCDAQNREG 112 (145)
Q Consensus 51 ~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~--------LKGss~~lG----------a~~L~~~c~~LE~a~~~~~~~~ 112 (145)
+.+..+.|..++..+... .|..+....|. |+......+ +..|++-...|..+++..+...
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 467778889999999999 99999999886 333333332 2567778888888899888887
Q ss_pred HHHHHHHHHHHHHHHH
Q 032209 113 CMRCLQQVSHEYTMLK 128 (145)
Q Consensus 113 ~~~~l~~L~~~~~~l~ 128 (145)
...++......++.+.
T Consensus 183 a~~~Y~~t~~~Ldevl 198 (202)
T PF05757_consen 183 AEKYYADTVKALDEVL 198 (202)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7776666555555544
No 24
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=77.61 E-value=16 Score=27.46 Aligned_cols=12 Identities=25% Similarity=0.487 Sum_probs=6.7
Q ss_pred CHHHHHHHHHHh
Q 032209 71 DFKQVDSHVHQL 82 (145)
Q Consensus 71 D~~~l~~~aH~L 82 (145)
|.+.+..+...+
T Consensus 115 d~~~L~~l~~e~ 126 (176)
T PRK03578 115 DVDALDALLAEL 126 (176)
T ss_pred CHHHHHHHHHHH
Confidence 555555555554
No 25
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=76.90 E-value=17 Score=27.17 Aligned_cols=47 Identities=9% Similarity=0.118 Sum_probs=27.2
Q ss_pred HHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 032209 61 MARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCL 117 (145)
Q Consensus 61 L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l 117 (145)
|..+-..+ |...+..+...++ ..+..+...|+.+...++.+.+...+
T Consensus 104 lee~~~~~--d~~~L~~l~~~v~--------~~~~~~~~~l~~~~~~~d~~~A~~~~ 150 (173)
T PRK01773 104 LEEIEQQQ--DEDALTAFSKEIK--------QEQQAILTELSTALNSQQWQQASQIN 150 (173)
T ss_pred HHhhcccC--CHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence 33333455 6677766666644 23456666666666667766655433
No 26
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=71.56 E-value=67 Score=29.59 Aligned_cols=102 Identities=12% Similarity=0.119 Sum_probs=78.0
Q ss_pred HHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh--hhhChHHHHHHHHHHHHHH
Q 032209 28 FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSS--SSIGALRVKNVCIAFRSFC 105 (145)
Q Consensus 28 ~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss--~~lGa~~L~~~c~~LE~a~ 105 (145)
+++|-.|-..-+..|..+++..|+.+.. .++..+ +|..++-++|.|---+ ..+-+..|..+...+=.++
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 5555555556678888888888887754 667888 9999999999998776 8889999999888887777
Q ss_pred hhcCHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 106 DAQNREGCM-----------------RCLQQVSHEYTMLKSKLQTLFRVS 138 (145)
Q Consensus 106 ~~~~~~~~~-----------------~~l~~L~~~~~~l~~~L~~~l~~~ 138 (145)
...+.+... .+.+..+++++++...++.|+..-
T Consensus 157 ~e~~~Pqvr~D~~v~~vLs~lPw~g~el~e~~~~~~e~ll~~ie~Yl~~R 206 (759)
T KOG1104|consen 157 IEENVPQVRRDYYVYCVLSSLPWFGRELNEKKPTEMEELLVYIEIYLKKR 206 (759)
T ss_pred HhhcCcchhhhHHHHHHHhccchhhhhhcccchHHHHHHHHHHHHHHHHh
Confidence 666655443 234456788899999999998653
No 27
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=67.67 E-value=29 Score=29.96 Aligned_cols=67 Identities=18% Similarity=0.082 Sum_probs=57.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHH
Q 032209 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNRE 111 (145)
Q Consensus 39 ~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~ 111 (145)
.++-..+.++.|+++.=...-.-+.++... |+- +=|++-+.+.|+|.-.-.++|++.+.+-+.++.+
T Consensus 226 tr~~A~~~L~~Fi~~~L~nFG~yQDam~~d--~~~----L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~ip 292 (505)
T COG3046 226 TRTQALRALKHFIADRLPNFGSYQDAMSAD--DPH----LWHSLLSFALNIGLLTPLEVIRAALKAYREGDIP 292 (505)
T ss_pred CHHHHHHHHHHHHHHhhhcCCcHHHHHhcC--Cch----hHHHHHHHHhhccCCCHHHHHHHHHHhhccCCCc
Confidence 567788899999999877777788888888 665 8899999999999999999999999998886433
No 28
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=63.00 E-value=50 Score=24.51 Aligned_cols=21 Identities=10% Similarity=0.014 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHhhcCHHHHHH
Q 032209 95 KNVCIAFRSFCDAQNREGCMR 115 (145)
Q Consensus 95 ~~~c~~LE~a~~~~~~~~~~~ 115 (145)
..+...|+.+...++.+.+..
T Consensus 127 ~~~~~~l~~~~~~~d~~~A~~ 147 (171)
T PRK05014 127 KTRLQQMVEQLDNEAWDAAAD 147 (171)
T ss_pred HHHHHHHHHHHhhCCHHHHHH
Confidence 334444444444455554443
No 29
>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=60.79 E-value=43 Score=21.94 Aligned_cols=62 Identities=11% Similarity=0.108 Sum_probs=35.3
Q ss_pred HHHHhhhhhcCCchHHHHHHHhhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 032209 12 IDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDS 77 (145)
Q Consensus 12 ~~~~~~~~~~~ild~~~~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~ 77 (145)
.+-...++..|++.+. ..+.+.+ ....+-...+++..-.-.+.-...+-.++... .+..++.
T Consensus 19 ~~v~~~L~~~~Vlt~~--~~e~I~~~~tr~~q~~~LLd~L~~RG~~AF~~F~~aL~~~--~~~~LA~ 81 (84)
T cd08326 19 KYLWDHLLSRGVFTPD--MIEEIQAAGSRRDQARQLLIDLETRGKQAFPAFLSALRET--GQTDLAE 81 (84)
T ss_pred HHHHHHHHhcCCCCHH--HHHHHHcCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CchHHHH
Confidence 3445556667777744 3444443 34455566666666666666666666666554 4444443
No 30
>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=59.45 E-value=51 Score=23.45 Aligned_cols=47 Identities=15% Similarity=0.141 Sum_probs=38.2
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGS 85 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGs 85 (145)
-|+++-+..++.-.....|+.++.+..++.++ |..+++.+.-.+.++
T Consensus 43 AGG~e~f~~i~~~~~~~~~~~~ea~~~Ai~~~--dla~vk~~vn~~~~s 89 (123)
T PF05396_consen 43 AGGEEGFAAIMSHAEANSPAAAEAFNEAIESG--DLATVKAAVNLAGAS 89 (123)
T ss_pred hcCHHHHHHHHHHHHhCCHHHHHHHHHHHHhC--CHHHHHHHHHHHHHH
Confidence 47888888888888788999999999999999 988888776555443
No 31
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=57.15 E-value=22 Score=24.49 Aligned_cols=32 Identities=16% Similarity=0.249 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 032209 45 EVASLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (145)
Q Consensus 45 ~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (145)
.-+..+.++.++.++.+.+.+.++ ||+.....
T Consensus 19 ~~l~~~~~~i~~~l~~i~~~i~~~--dW~~A~~~ 50 (121)
T PF14276_consen 19 NYLNNSTDSIEEQLEQIEEAIENE--DWEKAYKE 50 (121)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHhC--CHHHHHHH
Confidence 344555666666677777777777 77666543
No 32
>PF07445 priB_priC: Primosomal replication protein priB and priC; InterPro: IPR010890 This family contains the bacterial primosomal replication proteins priB and priC (approximately 180 residues long). In Escherichia coli, these function in the assembly of the primosome [].
Probab=53.03 E-value=86 Score=23.35 Aligned_cols=63 Identities=21% Similarity=0.239 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHhhh--hhcCCchHHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 032209 4 VSQLQKQFIDFSSSL--YREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHV 79 (145)
Q Consensus 4 ~~~~~~~~~~~~~~~--~~~~ild~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (145)
|+.|.+.+....... ...++-|+. |....+. .+..|+.+....+..|......+ ....+.-++
T Consensus 8 l~~L~~~~~~~d~~~~~~~~~~Fd~~------LF~~~~~-----~L~~yl~Ei~~~l~~L~~~~~~~--~~~~~~~la 72 (173)
T PF07445_consen 8 LQQLAQQAAQLDRQRGEQHQARFDRQ------LFSCRSQ-----RLSDYLQEIEQTLAQLQQQVEQN--RLQQVAFLA 72 (173)
T ss_pred HHHHHHHHHHHhhcccccchhhccHH------HHhccCc-----hHHHHHHHHHHHHHHHHHHHhcC--hHHHHHHHH
Confidence 667777776555544 444445543 2333332 57778888888888888887776 343444443
No 33
>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=52.99 E-value=1.6e+02 Score=25.96 Aligned_cols=24 Identities=25% Similarity=0.414 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 115 RCLQQVSHEYTMLKSKLQTLFRVS 138 (145)
Q Consensus 115 ~~l~~L~~~~~~l~~~L~~~l~~~ 138 (145)
..+..|..+|...+..|...+...
T Consensus 150 ~i~~~Lk~e~~~lr~~L~~~L~~~ 173 (593)
T PF06248_consen 150 KILKLLKDEYSELRENLQYQLSEE 173 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555556655555554444443
No 34
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=51.36 E-value=77 Score=21.71 Aligned_cols=34 Identities=6% Similarity=0.154 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHH
Q 032209 93 RVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTM 126 (145)
Q Consensus 93 ~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~ 126 (145)
.+.+.+..+|+....++.+.+...+..+...|..
T Consensus 27 ~i~~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k 60 (121)
T PF14276_consen 27 SIEEQLEQIEEAIENEDWEKAYKETEELEKEWDK 60 (121)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence 3444555555555555555555555555555443
No 35
>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=49.64 E-value=71 Score=24.72 Aligned_cols=53 Identities=11% Similarity=0.077 Sum_probs=34.8
Q ss_pred hhhhhChHHHHHHHHHHHHHHhhcCHHH------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 85 SSSSIGALRVKNVCIAFRSFCDAQNREG------CMRCLQQVSHEYTMLKSKLQTLFRV 137 (145)
Q Consensus 85 ss~~lGa~~L~~~c~~LE~a~~~~~~~~------~~~~l~~L~~~~~~l~~~L~~~l~~ 137 (145)
..+.+|.......+..|...+..+|+-. +...+..+...++...+.|+..++.
T Consensus 33 ~~~I~Gm~~~~~~~~~i~~~a~~DdPyAD~~L~~iEe~i~~~~~~l~~~~~~l~~~l~~ 91 (217)
T PF08900_consen 33 KPAIIGMPGFASRLNRIWRDARQDDPYADWWLLRIEEKINEARQELQELIARLDALLAE 91 (217)
T ss_pred CCCCcCHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3489999999999999999998776442 2334444444445555555444443
No 36
>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=47.85 E-value=67 Score=19.98 Aligned_cols=62 Identities=16% Similarity=0.299 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHhhhhhcCCchHH-HHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032209 4 VSQLQKQFIDFSSSLYREGYVDDQ-FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQP 68 (145)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~ild~~-~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~ 68 (145)
|+.+ .........+...++++.. ...|..- ....+-...+++....-.+.....+-.++...
T Consensus 9 v~~l-~~~~~il~~L~~~~vlt~~e~~~i~~~--~~~~~k~~~Lld~l~~kg~~af~~F~~~L~~~ 71 (80)
T cd01671 9 VKDL-LDVEDVLDHLLSDGVLTEEEYEKIRSE--STRQDKARKLLDILPRKGPKAFQSFLQALQET 71 (80)
T ss_pred HHHH-ccHHHHHHHHHHcCCCCHHHHHHHHcC--CChHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 4444 4455667777788888844 4444332 34567788888888888888888888877766
No 37
>COG0783 Dps DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]
Probab=46.62 E-value=95 Score=22.88 Aligned_cols=79 Identities=11% Similarity=0.268 Sum_probs=45.9
Q ss_pred cCChHH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCH--HH
Q 032209 37 ESSPDF--VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR--EG 112 (145)
Q Consensus 37 ~~~~~~--~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~--~~ 112 (145)
..||.| +.++++.+.++..+.+..+.+-+ ..+|..++.....-++..+-.+.. ..
T Consensus 41 V~G~~F~~lHe~~ee~y~el~~~~DeiAERi---------------------~~LGg~p~~t~~~~~~~s~ike~~~~~~ 99 (156)
T COG0783 41 VKGPNFFALHEKLEELYEELAEHVDEIAERI---------------------RALGGVPLGTLSEYLKLSSIKEEPGDYT 99 (156)
T ss_pred eeCccHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHcCCCCcccHHHHHHhCCCcccCCCCC
Confidence 346777 67777777777766666665433 335666666666666654432211 34
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 113 CMRCLQQVSHEYTMLKSKLQTLFR 136 (145)
Q Consensus 113 ~~~~l~~L~~~~~~l~~~L~~~l~ 136 (145)
+...+..|...|..+.+.++.-+.
T Consensus 100 ~~~~l~~l~~~~~~l~~~~r~~~~ 123 (156)
T COG0783 100 AREMLKELVEDYEYLIKELRKGIE 123 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666666666666665555443
No 38
>PF07426 Dynactin_p22: Dynactin subunit p22; InterPro: IPR009991 This family contains p22, the smallest subunit of dynactin, a complex that binds to cytoplasmic dynein and is a required activator for cytoplasmic dynein-mediated vesicular transport. Dynactin localises to the cleavage furrow and to the midbodies of dividing cells, suggesting that it may function in cytokinesis [].
Probab=46.54 E-value=1.2e+02 Score=22.65 Aligned_cols=66 Identities=14% Similarity=0.296 Sum_probs=38.7
Q ss_pred CHHHHHHHHHHhhhhhhhhChHHHHH---HHHHHHHHHh-----hcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 71 DFKQVDSHVHQLKGSSSSIGALRVKN---VCIAFRSFCD-----AQNREGCMRCLQQVSHEYTMLKSKLQTLFR 136 (145)
Q Consensus 71 D~~~l~~~aH~LKGss~~lGa~~L~~---~c~~LE~a~~-----~~~~~~~~~~l~~L~~~~~~l~~~L~~~l~ 136 (145)
+......+..+++.-.-.++...+.. .+..|..... .+..+.+...+..+-..|+.+...|.+-|.
T Consensus 95 ~i~~~~~~Leki~~L~pvL~se~i~~vp~~~~kL~~L~~~~~~Q~e~~~~ls~~~~~Ll~~YN~ii~~lSk~Fv 168 (174)
T PF07426_consen 95 EIKSTAELLEKIKSLEPVLDSESIRNVPELCDKLQKLSQIHLEQQEESEELSEEVQELLQQYNKIILLLSKQFV 168 (174)
T ss_pred HHHHHHHHHHHHHHhhhhcCcHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666667777666666665543 3444443332 123445556667777777777777755543
No 39
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=46.27 E-value=35 Score=22.82 Aligned_cols=30 Identities=10% Similarity=0.246 Sum_probs=25.9
Q ss_pred HHHHHHHhhhccCChHHHHHHHHHHHHHHH
Q 032209 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAE 55 (145)
Q Consensus 26 ~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~ 55 (145)
+.|.-|..+.++.-+.|++++++.|+++..
T Consensus 19 ~iF~FL~~~P~GT~~~~iR~~L~rYI~~~G 48 (97)
T PRK13916 19 QIFDFLENVPRGTKTAHIREALRRYIEEIG 48 (97)
T ss_pred HHHHHHHHCCCCCccHHHHHHHHHHHHhcC
Confidence 457788888888999999999999999853
No 40
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.22 E-value=1.6e+02 Score=23.19 Aligned_cols=121 Identities=12% Similarity=0.215 Sum_probs=68.2
Q ss_pred hHHHHHHHHHHHHhhhhhcCCchH-HHHHHHhhhccCC-hHHHHHHHHHH-HHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 032209 3 VVSQLQKQFIDFSSSLYREGYVDD-QFSQLHKLQDESS-PDFVVEVASLF-FDDAEKLINSMARALEQPCVDFKQVDSHV 79 (145)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~ild~-~~~~L~~L~~~~~-~~~~~~ll~~F-~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (145)
.|++++.++...-..+...+.-+. .=..+.......+ .+-+.+....+ ++.....-.+|.+--.. -.+.+....
T Consensus 85 ~i~~lr~q~~~~~~~~~~~~~~~~~~r~~l~~~~~~~~~~~~~~~~~~~D~v~~~~~~qqqm~~eQDe---~Ld~ls~ti 161 (235)
T KOG3202|consen 85 FIDNLRTQLRQMKSKMAMSGFANSNIRDILLGPEKSPNLDEAMSRASGLDNVQEIVQLQQQMLQEQDE---GLDGLSATV 161 (235)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccchhhhcCCCCCCchhhhHHHhhccCcHHHHHHHHHHHHHHHHH---HHHHHHHHH
Confidence 478888888888887777666553 1112211111111 13344444444 34433333334333233 378999999
Q ss_pred HHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 80 HQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFR 136 (145)
Q Consensus 80 H~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L~~~l~ 136 (145)
-++||.|..+| ..|-...+-|. ++...+..+..-+.+....+.....
T Consensus 162 ~rlk~~a~~~g-~EL~~Q~~llD---------dl~~e~d~t~srl~~~~~~l~~v~~ 208 (235)
T KOG3202|consen 162 QRLKGMALAMG-EELEEQGRLLD---------DLDNEMDRTESRLDRVMKRLAKVNR 208 (235)
T ss_pred HHHHHHHHHHh-HHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999 77776666666 3333344455555555555544433
No 41
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.80 E-value=5.1 Score=25.92 Aligned_cols=19 Identities=42% Similarity=0.737 Sum_probs=17.2
Q ss_pred HhhhhhhhhChHHHHHHHH
Q 032209 81 QLKGSSSSIGALRVKNVCI 99 (145)
Q Consensus 81 ~LKGss~~lGa~~L~~~c~ 99 (145)
.+|||+|.+++..+.+.|.
T Consensus 28 ~I~GSCGGi~alGi~K~Cd 46 (77)
T COG2991 28 SIKGSCGGIAALGIEKVCD 46 (77)
T ss_pred ccccccccHHhhccchhcC
Confidence 6899999999999988886
No 42
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=42.28 E-value=1.9e+02 Score=24.00 Aligned_cols=49 Identities=10% Similarity=-0.009 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHH
Q 032209 52 DDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFR 102 (145)
Q Consensus 52 ~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE 102 (145)
++..+.+..++.++.++ |++.+..+.-+-+..-|...-..+-+.-..+|
T Consensus 318 ~~~~~~l~~l~~~l~~~--d~~~l~~~~~~a~~~~~~~~~~~~~~~~~~~~ 366 (374)
T PRK11199 318 KRYYQRFGEALELLEQG--DKQAFIDSFRKVEHWFGDYAEQFLKESRSLLQ 366 (374)
T ss_pred HHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence 44445567788888888 99988888777666555443444333333344
No 43
>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=41.55 E-value=1.3e+02 Score=23.52 Aligned_cols=52 Identities=13% Similarity=0.102 Sum_probs=35.0
Q ss_pred hhhhhChHHHHHHHHHHHHHHhhcCHHH------HHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 85 SSSSIGALRVKNVCIAFRSFCDAQNREG------CMRCLQQVSHEYTMLKSKLQTLFR 136 (145)
Q Consensus 85 ss~~lGa~~L~~~c~~LE~a~~~~~~~~------~~~~l~~L~~~~~~l~~~L~~~l~ 136 (145)
-.+++|.......+..|..++..+|+-. +...+.++...++.+.+.+++.++
T Consensus 31 ~~~IiGl~~f~s~~~~i~~~a~~DdPyAD~~Ll~~E~~l~~~~~~l~~~~~~l~~~l~ 88 (216)
T TIGR03761 31 KPGIIGMPGFISRLNRINQASEQDDPYADWALLRIEEKLLSARQEMQALLQRLDDLLA 88 (216)
T ss_pred CCCCcCcHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4568999999999999999998876542 334444455555555555555444
No 44
>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=40.64 E-value=45 Score=23.40 Aligned_cols=44 Identities=20% Similarity=0.277 Sum_probs=33.8
Q ss_pred HHHHhhhhhcCCchHHHHHHHhhhcc----CChHHHHHHHHHHHHHHH
Q 032209 12 IDFSSSLYREGYVDDQFSQLHKLQDE----SSPDFVVEVASLFFDDAE 55 (145)
Q Consensus 12 ~~~~~~~~~~~ild~~~~~L~~L~~~----~~~~~~~~ll~~F~~~~~ 55 (145)
+..+..+....+-|..|++|.+|... ..++++..++..|+....
T Consensus 50 fr~LD~~LHrCvyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~RlS 97 (115)
T cd07298 50 FRVLDKHLHLCIYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLSRLS 97 (115)
T ss_pred HHHHHHHHHHHHHhhhhhccccCCCcccccccHHHHHHHHHHHHHHHH
Confidence 45567778888999999999999852 256888888888887643
No 45
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.52 E-value=1.7e+02 Score=27.28 Aligned_cols=82 Identities=13% Similarity=0.164 Sum_probs=53.8
Q ss_pred HhhhccCChHHHHHHHHHHHH-HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCH
Q 032209 32 HKLQDESSPDFVVEVASLFFD-DAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR 110 (145)
Q Consensus 32 ~~L~~~~~~~~~~~ll~~F~~-~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~ 110 (145)
..|--.|...-..++-..|.= +-.=..-.+..+...+ ||+++...|-+-|+ -+|..+..+.|. +.++.
T Consensus 692 ~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~--kweeLekfAkskks---PIGy~PFVe~c~------~~~n~ 760 (829)
T KOG2280|consen 692 TTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIK--KWEELEKFAKSKKS---PIGYLPFVEACL------KQGNK 760 (829)
T ss_pred HHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhh--hHHHHHHHHhccCC---CCCchhHHHHHH------hcccH
Confidence 333334444556666666642 2222334577778889 99999999988887 799999998885 45666
Q ss_pred HHHHHHHHHHHHHH
Q 032209 111 EGCMRCLQQVSHEY 124 (145)
Q Consensus 111 ~~~~~~l~~L~~~~ 124 (145)
.++...+..+...-
T Consensus 761 ~EA~KYiprv~~l~ 774 (829)
T KOG2280|consen 761 DEAKKYIPRVGGLQ 774 (829)
T ss_pred HHHhhhhhccCChH
Confidence 66666655554443
No 46
>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=40.10 E-value=54 Score=22.91 Aligned_cols=44 Identities=16% Similarity=0.205 Sum_probs=32.6
Q ss_pred HHHHhhhhhcCCchHHHHHHHhhhc----cCChHHHHHHHHHHHHHHH
Q 032209 12 IDFSSSLYREGYVDDQFSQLHKLQD----ESSPDFVVEVASLFFDDAE 55 (145)
Q Consensus 12 ~~~~~~~~~~~ild~~~~~L~~L~~----~~~~~~~~~ll~~F~~~~~ 55 (145)
++.+-......+-|..|++|.+|.. ....+.+..++..|+....
T Consensus 48 fr~LD~~LHrCiyDRr~S~L~eL~~~~~l~~~~~~~~~~l~~YL~RlS 95 (113)
T cd07299 48 FRTLDAHLHRCIFDRRFSQLLELPPLCEIGDRLQILTPLLSEYLNRLT 95 (113)
T ss_pred HHHHHHHHHHHHHhhhhhhhhccCccccccchHHHHHHHHHHHHHHHH
Confidence 4556777888999999999999985 2344567888888876543
No 47
>PLN02407 diphosphomevalonate decarboxylase
Probab=39.14 E-value=52 Score=27.45 Aligned_cols=32 Identities=19% Similarity=0.198 Sum_probs=28.3
Q ss_pred HHHHHHHH-HHHHHHHHHHHhcCCCCCHHHHHHHH
Q 032209 46 VASLFFDD-AEKLINSMARALEQPCVDFKQVDSHV 79 (145)
Q Consensus 46 ll~~F~~~-~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (145)
++....+. +++++..+++++.++ |+..+.+++
T Consensus 224 ~~~~w~~~~~~~~~~~~~~Ai~~~--Df~~~gei~ 256 (343)
T PLN02407 224 LLQHRAKEVVPKRILQMEEAIKNR--DFASFAKLT 256 (343)
T ss_pred hHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHH
Confidence 56777888 899999999999999 999998775
No 48
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=38.35 E-value=1.7e+02 Score=21.90 Aligned_cols=29 Identities=3% Similarity=0.174 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Q 032209 93 RVKNVCIAFRSFCDAQNREGCMRCLQQVS 121 (145)
Q Consensus 93 ~L~~~c~~LE~a~~~~~~~~~~~~l~~L~ 121 (145)
++.+.-.+|-.+..+.+.+++..++.++.
T Consensus 127 ri~q~~~qlge~~esk~~~~Al~~i~rlr 155 (168)
T KOG3192|consen 127 RIAQCKQQLGEAFESKKYDEALKKILRLR 155 (168)
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence 45555555555555665665555555444
No 49
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=37.55 E-value=2.3e+02 Score=23.19 Aligned_cols=75 Identities=12% Similarity=0.201 Sum_probs=50.6
Q ss_pred cCChHHHHHHHHHHH-HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHH
Q 032209 37 ESSPDFVVEVASLFF-DDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMR 115 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~-~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~ 115 (145)
.+.......+...|- .+-.=..-.++.++..+ +|+.+...+-.=|+ -+|-.++++.|-. .|+..++..
T Consensus 190 ~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~--~w~eL~~fa~skKs---PIGyepFv~~~~~------~~~~~eA~~ 258 (319)
T PF04840_consen 190 MGQEKQAEKLKKEFKVPDKRFWWLKIKALAENK--DWDELEKFAKSKKS---PIGYEPFVEACLK------YGNKKEASK 258 (319)
T ss_pred CCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcC--CHHHHHHHHhCCCC---CCChHHHHHHHHH------CCCHHHHHH
Confidence 344455666666663 22333445588888999 99999999987554 5999999999863 445555666
Q ss_pred HHHHHHH
Q 032209 116 CLQQVSH 122 (145)
Q Consensus 116 ~l~~L~~ 122 (145)
.+..+..
T Consensus 259 yI~k~~~ 265 (319)
T PF04840_consen 259 YIPKIPD 265 (319)
T ss_pred HHHhCCh
Confidence 6655443
No 50
>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=37.09 E-value=75 Score=19.49 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=26.9
Q ss_pred HHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR 63 (145)
Q Consensus 26 ~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~ 63 (145)
++|.+|+.+- ..+|+.+..++...-.+.|..+..|.+
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 6677777764 577888888888888887777777654
No 51
>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=36.38 E-value=1.3e+02 Score=19.87 Aligned_cols=61 Identities=11% Similarity=0.144 Sum_probs=34.0
Q ss_pred HHhhhhhcCCchHHHHHHHhhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 032209 14 FSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (145)
Q Consensus 14 ~~~~~~~~~ild~~~~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (145)
-...++..|++.+. ....+.+ ....+-...+++....-+|.-...+-.++... .+..++.+
T Consensus 25 v~~~L~~~gvlt~~--~~~~I~~~~t~~~k~~~Lld~L~~RG~~AF~~F~~aL~~~--~~~~La~l 86 (90)
T cd08332 25 LLIHLLQKDILTDS--MAESIMAKPTSFSQNVALLNLLPKRGPRAFSAFCEALRET--SQEHLCDL 86 (90)
T ss_pred HHHHHHHcCCCCHH--HHHHHHcCCCcHHHHHHHHHHHHHhChhHHHHHHHHHHhc--ChHHHHHH
Confidence 34445566666643 3333332 24455566677776666666666666666654 45555443
No 52
>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=35.36 E-value=81 Score=17.36 Aligned_cols=35 Identities=17% Similarity=0.188 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 032209 43 VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQ 81 (145)
Q Consensus 43 ~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~ 81 (145)
+.+.+..|..+ .....|..|+..+ |-+....+...
T Consensus 2 L~~~~~~~~~~--~L~~~ID~ALd~~--D~e~F~~Ls~e 36 (37)
T PF08858_consen 2 LDESLREFRKE--QLLELIDEALDNR--DKEWFYELSEE 36 (37)
T ss_dssp HHHHHHHHHHH--HHHHHHHHHHHTT---HHHHHHHHHH
T ss_pred hHHHHHHHHHH--HHHHHHHHHHHcC--CHHHHHHHHhh
Confidence 34444444444 6777888999999 98888877654
No 53
>PRK10093 primosomal replication protein N''; Provisional
Probab=35.08 E-value=2e+02 Score=21.69 Aligned_cols=35 Identities=23% Similarity=0.368 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 032209 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQL 82 (145)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~L 82 (145)
.+..|+.++...+.+|..++..+ +...+.-++-+|
T Consensus 41 ~L~~yl~Ei~~~l~qL~~~~~~~--~~~~~~flaEkL 75 (171)
T PRK10093 41 LLQAYLDEAGDNLAALRHAVEQQ--QLPQVAWLAEHL 75 (171)
T ss_pred chHHHHHHHHHHHHHHHHHHhcC--cHHHHHHHHHHH
Confidence 68889999999999999998888 777766655554
No 54
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=34.72 E-value=2.3e+02 Score=22.33 Aligned_cols=16 Identities=13% Similarity=0.144 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 032209 41 DFVVEVASLFFDDAEK 56 (145)
Q Consensus 41 ~~~~~ll~~F~~~~~~ 56 (145)
..++.+...|+++..+
T Consensus 240 ~~~R~l~a~fL~~~~~ 255 (317)
T PF14399_consen 240 GGFRNLYADFLQEAAE 255 (317)
T ss_pred chHHHHHHHHHHHHHH
Confidence 4466666677776644
No 55
>cd05136 RasGAP_DAB2IP The DAB2IP family of Ras GTPase-activating proteins includes DAB2IP, nGAP, and Syn GAP. Disabled 2 interactive protein, (DAB2IP; also known as ASK-interacting protein 1 (AIP1)), is a member of the GTPase-activating proteins, down-regulates Ras-mediated signal pathways, and mediates TNF-induced activation of ASK1-JNK signaling pathways. The mechanism by which TNF signaling is coupled to DAB2IP is not known.
Probab=34.22 E-value=1.3e+02 Score=24.55 Aligned_cols=49 Identities=20% Similarity=0.306 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 032209 95 KNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRVSVKACG 143 (145)
Q Consensus 95 ~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L~~~l~~~~~~~~ 143 (145)
..+|..||......+.+++...+=.+-..-.+....|...+..+|.+|.
T Consensus 15 ~~l~~~l~~~~~~~~~~ela~~Lv~if~~~~~~~~~l~~Li~~EI~~~~ 63 (309)
T cd05136 15 ARLCEVLEPVLSVRAKEELACALVHVLQSTGKAKDFLTDLVMAEVDRCG 63 (309)
T ss_pred HHHHHHHHhhCCchhHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhcc
Confidence 3555566655555555555555555555555555555555555555544
No 56
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=34.08 E-value=2.3e+02 Score=22.21 Aligned_cols=68 Identities=12% Similarity=0.094 Sum_probs=42.7
Q ss_pred CHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 71 DFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR--EGCMRCLQQVSHEYTMLKSKLQTLFRVSV 139 (145)
Q Consensus 71 D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~--~~~~~~l~~L~~~~~~l~~~L~~~l~~~~ 139 (145)
+...-+..+.+||++ +.+--..+-++-+.||.+-+..+. ..+...-..+..++.++..+....+...|
T Consensus 137 ~~~~K~~~~~rlk~s-~~i~~~KvdeA~~~l~eA~~~e~~l~~k~~rIs~nm~~E~~rf~~~~~~dl~~~l 206 (230)
T cd07625 137 NTKSKQEAARRLKAK-RDINPLKVDEAIRQLEEATKHEHDLSLKLKRITGNMLIERKEWTDWTEEDLQSAI 206 (230)
T ss_pred HHHHHHHHHHHHhcC-CCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456668889999998 667777888999999876554321 13333444455555555555555554443
No 57
>PF14615 Rsa3: Ribosome-assembly protein 3
Probab=33.91 E-value=1e+02 Score=18.09 Aligned_cols=40 Identities=13% Similarity=0.153 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhh
Q 032209 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSS 88 (145)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~ 88 (145)
-+....++..++|.+|+.+ .+..-..+.-++|.||+.+..
T Consensus 6 yl~~~t~efgdDLd~lR~~---~dF~~~sl~~Li~aL~~G~~~ 45 (47)
T PF14615_consen 6 YLQRLTDEFGDDLDELRKA---PDFTDKSLPLLIDALQQGTDM 45 (47)
T ss_pred HHHHHHHHHHHHHHHHhcC---CCCCchhHHHHHHHHHhcccc
Confidence 3445556666778888843 411357889999999987654
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=32.93 E-value=62 Score=22.66 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=33.8
Q ss_pred HHHHhhhhhcCCchHHHHHHHhhhccC----ChHHHHHHHHHHHHHHHH
Q 032209 12 IDFSSSLYREGYVDDQFSQLHKLQDES----SPDFVVEVASLFFDDAEK 56 (145)
Q Consensus 12 ~~~~~~~~~~~ild~~~~~L~~L~~~~----~~~~~~~ll~~F~~~~~~ 56 (145)
++.+-.+....+-|..|++|.+|...+ .++.+..++..|++....
T Consensus 49 fr~LD~~LHrCiyDRr~S~L~eL~~~~~~~~~~~~~~~~l~~YL~RlS~ 97 (114)
T cd07278 49 FRMLDKHLHQCIYDRKFSQLTELPEECIEKREQQNLHQVLSDYLKRLSS 97 (114)
T ss_pred HHHHHHHHHHHHHhhhhhccccCCccccccchHHHHHHHHHHHHHHHHH
Confidence 456677888899999999999998632 456788888888766433
No 59
>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=32.46 E-value=1.9e+02 Score=20.78 Aligned_cols=67 Identities=12% Similarity=0.137 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHH-hhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHH
Q 032209 54 AEKLINSMARALEQPCVDFKQVDSHVHQ-LKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKS 129 (145)
Q Consensus 54 ~~~~l~~L~~a~~~~~~D~~~l~~~aH~-LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~ 129 (145)
+...+..|+.+-..+ |...+..+..+ ++..-|++|-..|+..+. .|.+.-+...++++..++..+..
T Consensus 59 I~~rl~~L~~aR~~~--d~~~l~~~Lr~~l~RNlggi~n~~LY~~s~-------~GTK~lIe~Yi~ev~~~L~~l~~ 126 (145)
T PF11815_consen 59 IRERLRELREARQSG--DIEALMFLLRTGLHRNLGGIGNPRLYSHSY-------SGTKRLIEEYIDEVVRCLEYLAE 126 (145)
T ss_pred HHHHHHHHHHHHHcC--CHHHHHHHHHHHHhcCccccCCHHHHHHcc-------ccchHHHHHHHHHHHHHHHHHHh
Confidence 446777888888889 98887766654 666777777777776543 35444555555555555555444
No 60
>PF05470 eIF-3c_N: Eukaryotic translation initiation factor 3 subunit 8 N-terminus; InterPro: IPR008905 The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa. eIF3 binds to the 40 S ribosome in an early step of translation initiation and promotes the binding of methionyl-tRNAi and mRNA [].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation, 0005852 eukaryotic translation initiation factor 3 complex
Probab=32.19 E-value=3.8e+02 Score=24.14 Aligned_cols=97 Identities=16% Similarity=0.277 Sum_probs=61.7
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH-------HHHhhhhhhhhChHHHH-HHHHHHHHHHhh--
Q 032209 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSH-------VHQLKGSSSSIGALRVK-NVCIAFRSFCDA-- 107 (145)
Q Consensus 38 ~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~-------aH~LKGss~~lGa~~L~-~~c~~LE~a~~~-- 107 (145)
++.-.+...=+...++....+..|+++...+ ||..+... ..+-+-.-.+.|..+++ ++...||.....
T Consensus 16 e~kRVVkSaKdKr~del~~~i~~i~n~~ki~--Dw~~i~~eFd~L~k~~~K~~~~~~~~~~P~~yir~l~~Led~v~e~~ 93 (595)
T PF05470_consen 16 EEKRVVKSAKDKRFDELEEIIKQIRNAMKIN--DWSSILTEFDKLNKQLEKSKKIQQNEGIPRFYIRALVELEDFVNETW 93 (595)
T ss_pred cCcccccchHHHHHHHHHHHHHHHHHHHhhc--cHHHHHHHHHHHHHHHHHHhhhhhcCCCChhHHHHHHHHHHHHHHHH
Confidence 4455577778899999999999999999999 99877543 22222233456666655 444566766554
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 108 QNREGCMRCLQQVSHEYTMLKSKLQTLFR 136 (145)
Q Consensus 108 ~~~~~~~~~l~~L~~~~~~l~~~L~~~l~ 136 (145)
.+.+.-..+=..-..+|+.+++.+.+|..
T Consensus 94 ~~ke~~Kkms~~nakaln~lkQklkK~~k 122 (595)
T PF05470_consen 94 ADKEAKKKMSKNNAKALNTLKQKLKKYNK 122 (595)
T ss_pred hhhHhhhhcCHHhHHHHHHHHHHHHhhhh
Confidence 23333333334444566777777766644
No 61
>PF06367 Drf_FH3: Diaphanous FH3 Domain; InterPro: IPR010472 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain (IPR003104 from INTERPRO) is required to inhibit actin polymerisation. The FH3 domain is less well conserved and is required for directing formins to the correct intracellular location, such the mitotic spindle [], or the projection tip during conjugation []. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH3 domain.; GO: 0003779 actin binding, 0016043 cellular component organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=31.57 E-value=2.1e+02 Score=21.01 Aligned_cols=28 Identities=14% Similarity=0.215 Sum_probs=20.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032209 39 SPDFVVEVASLFFDDAEKLINSMARALE 66 (145)
Q Consensus 39 ~~~~~~~ll~~F~~~~~~~l~~L~~a~~ 66 (145)
+.+-+..-++.|.+...++...+.....
T Consensus 84 ~~~~L~~Qi~~f~~~~~~D~~el~~~~~ 111 (197)
T PF06367_consen 84 EDDDLQEQIDIFEENEEEDEEELLERFD 111 (197)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHhhHHHHHHhhc
Confidence 4556888889999998888888876544
No 62
>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=31.51 E-value=2.7e+02 Score=22.13 Aligned_cols=67 Identities=15% Similarity=0.232 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Q 032209 42 FVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQ 119 (145)
Q Consensus 42 ~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~ 119 (145)
.+.++++.++.-+...+..+.+.+..+ +|+..+.-++.+ .++-++...+|..-.-=|++++-.+-.+
T Consensus 54 t~hQIlEsWi~~a~~LL~ri~~~i~~~--~~ekAa~dc~~v---------ERiWKLL~eieDlhllMDPdDFlrLK~q 120 (261)
T PF07014_consen 54 TTHQILESWIHVARKLLERIEERIEAR--DFEKAASDCWIV---------ERIWKLLAEIEDLHLLMDPDDFLRLKKQ 120 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcc--cHHHHHhHHHHH---------HHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 378999999999999999999999999 999999888874 5777888888876665566666544333
No 63
>TIGR00444 mazG MazG family protein. This family of prokaryotic proteins has no known function. It includes the uncharacterized protein MazG in E. coli.
Probab=30.83 E-value=2.7e+02 Score=22.07 Aligned_cols=90 Identities=8% Similarity=0.091 Sum_probs=55.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH----HhcCCCCCHHHHHHHHHHhhhhhhh-----hChHHHHHHHHHHHHHHhhc-C
Q 032209 40 PDFVVEVASLFFDDAEKLINSMAR----ALEQPCVDFKQVDSHVHQLKGSSSS-----IGALRVKNVCIAFRSFCDAQ-N 109 (145)
Q Consensus 40 ~~~~~~ll~~F~~~~~~~l~~L~~----a~~~~~~D~~~l~~~aH~LKGss~~-----lGa~~L~~~c~~LE~a~~~~-~ 109 (145)
.+.+..+..+|+..-|........ .+.. .|+.++..-..-++..+. -+...|..+.+-.+.+++.| +
T Consensus 73 edvl~~~~~K~irRhphVf~~~~~~s~~e~~~---~We~~K~~Ek~~~~~~s~ld~ip~~lPaL~~A~ki~~raa~~Gfd 149 (248)
T TIGR00444 73 DDVCAGISEKLVRRHPHVFADVKAEDESEVLA---RWEQIKAEEKAQKAQTSALDDVPRTLPALMRAAKIQKRCAKVGFD 149 (248)
T ss_pred HHHHHHHHHHHHhhchhhhhccccCCHHHHHH---HHHHHHHHHHhhcccCCccccCcccCCHHHHHHHHHHHHHHcCCC
Confidence 455677777777766655443211 0111 366665444332221111 24566788888888899888 7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 032209 110 REGCMRCLQQVSHEYTMLKSKLQ 132 (145)
Q Consensus 110 ~~~~~~~l~~L~~~~~~l~~~L~ 132 (145)
.+.....+..+..++.++..++.
T Consensus 150 w~~~~~~~~k~~EE~~El~~a~~ 172 (248)
T TIGR00444 150 WEDVSPVWDKVYEELDEVMYEAR 172 (248)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHh
Confidence 77777888888888888777663
No 64
>PRK03636 hypothetical protein; Provisional
Probab=30.78 E-value=2e+02 Score=21.77 Aligned_cols=38 Identities=21% Similarity=0.286 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q 032209 43 VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKG 84 (145)
Q Consensus 43 ~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKG 84 (145)
+.+.+..|.. ...+.+|..|+.++ |-+....+...+|-
T Consensus 138 L~~~~~~~r~--~~L~~~ID~ALd~~--D~e~F~~Ls~~l~~ 175 (179)
T PRK03636 138 LEQSVFQFRR--EKLLKQIDEALDRR--DKEAFHRLSDELNQ 175 (179)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHcC--CHHHHHHHHHHHHH
Confidence 3444444443 47888999999999 99999988887763
No 65
>KOG2424 consensus Protein involved in transcription start site selection [Transcription]
Probab=30.28 E-value=1e+02 Score=23.56 Aligned_cols=35 Identities=14% Similarity=0.483 Sum_probs=23.4
Q ss_pred hhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHH
Q 032209 86 SSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYT 125 (145)
Q Consensus 86 s~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~ 125 (145)
-+++||..+.++|+.|+. ++.+.+ ..+..|-..|+
T Consensus 147 dA~~Gaf~I~elcq~l~~--~s~d~E---d~ideil~~~e 181 (195)
T KOG2424|consen 147 DATLGAFLILELCQCLQA--QSDDLE---DNIDEILLEFE 181 (195)
T ss_pred hhhhhHHHHHHHHHHHHh--ccccHH---HHHHHHHHHHH
Confidence 357999999999999996 343433 34455444443
No 66
>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=30.26 E-value=63 Score=22.58 Aligned_cols=46 Identities=9% Similarity=0.188 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHH
Q 032209 47 ASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSF 104 (145)
Q Consensus 47 l~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a 104 (145)
...|+..+.+.+..+..|..++ |+..++.++. -.-+..++..+...
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 5678888889999999999999 9999887753 34444555555544
No 67
>PRK03057 hypothetical protein; Provisional
Probab=29.86 E-value=2e+02 Score=21.72 Aligned_cols=28 Identities=21% Similarity=0.400 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 032209 54 AEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (145)
Q Consensus 54 ~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (145)
......+|..|+..+ |.+....+.+.|+
T Consensus 146 ~~~L~~~ID~ALd~~--D~e~F~~Lt~~L~ 173 (180)
T PRK03057 146 VSRLRMQIDQALDRK--DMEEFQRLTEKLK 173 (180)
T ss_pred HHHHHHHHHHHHHCC--CHHHHHHHHHHHH
Confidence 456778899999999 9888888877765
No 68
>COG3433 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=29.76 E-value=79 Score=20.49 Aligned_cols=49 Identities=4% Similarity=0.126 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHH
Q 032209 47 ASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKN 96 (145)
Q Consensus 47 l~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~ 96 (145)
+...+.+.++.+..=.+++..| .|.-.+-.++|+.|-..+.+++..|++
T Consensus 7 ~~~Ll~e~~~~l~dqeNLi~~G-LDSiR~M~L~~~wR~~G~~i~F~~La~ 55 (74)
T COG3433 7 IAELLGESVEELDDQENLIDYG-LDSIRMMALLERWRKRGADIDFAQLAA 55 (74)
T ss_pred HHHHHcCChhhcCchhhHHHhc-hhHHHHHHHHHHHHHcCCcccHHHHHh
Confidence 3333344444444444555555 477778888888888888888877764
No 69
>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=29.73 E-value=78 Score=24.35 Aligned_cols=18 Identities=22% Similarity=0.571 Sum_probs=15.2
Q ss_pred hhhhChHHHHHHHHHHHH
Q 032209 86 SSSIGALRVKNVCIAFRS 103 (145)
Q Consensus 86 s~~lGa~~L~~~c~~LE~ 103 (145)
-+.+||..+.++|+.||.
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 356899999999999996
No 70
>PF04400 DUF539: Protein of unknown function (DUF539); InterPro: IPR007495 This is a family of putative periplasmic proteins.
Probab=29.44 E-value=5.6 Score=23.34 Aligned_cols=19 Identities=37% Similarity=0.711 Sum_probs=15.4
Q ss_pred HhhhhhhhhChHHHHHHHH
Q 032209 81 QLKGSSSSIGALRVKNVCI 99 (145)
Q Consensus 81 ~LKGss~~lGa~~L~~~c~ 99 (145)
.||||+|.||+..+-..|.
T Consensus 7 ~I~GSCGGl~~lGi~~~C~ 25 (45)
T PF04400_consen 7 PIKGSCGGLGALGIDKECD 25 (45)
T ss_pred cccccchhhhhcCCCccCC
Confidence 5899999999987766665
No 71
>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=28.59 E-value=3.4e+02 Score=22.39 Aligned_cols=56 Identities=16% Similarity=0.330 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhh------C--hHHHHHHHHHHHH
Q 032209 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSI------G--ALRVKNVCIAFRS 103 (145)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~l------G--a~~L~~~c~~LE~ 103 (145)
....|++...+....+..++..+ |+..+..+.+.-.+.-..+ | -..+.+++...+.
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 35667888888888999999999 9998877766554444433 3 4555555544443
No 72
>PF13628 DUF4142: Domain of unknown function (DUF4142)
Probab=28.31 E-value=2.1e+02 Score=19.91 Aligned_cols=52 Identities=15% Similarity=0.154 Sum_probs=39.5
Q ss_pred HHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHH-HhcCCCCCHHHHHHHH
Q 032209 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR-ALEQPCVDFKQVDSHV 79 (145)
Q Consensus 26 ~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~-a~~~~~~D~~~l~~~a 79 (145)
+.-..+..|....|++|=...++..+..-.+.+..++. ....+ +-+.++..+
T Consensus 70 ~~~~~l~~L~~~~g~~FD~~yl~~~i~~h~~~l~~~~~~~~~~~--~~~~lk~~a 122 (139)
T PF13628_consen 70 EQQAELDRLQKLSGSAFDRAYLDAQIKAHEKALALFEKQLAASG--KDPELKAFA 122 (139)
T ss_pred hhHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccC--CCHHHHHHH
Confidence 33446777777778899888999999999999999988 66666 666666655
No 73
>TIGR01240 mevDPdecarb diphosphomevalonate decarboxylase. Alternate names: mevalonate diphosphate decarboxylase; pyrophosphomevalonate decarboxylase
Probab=27.81 E-value=1.1e+02 Score=24.92 Aligned_cols=32 Identities=9% Similarity=0.175 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 032209 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHV 79 (145)
Q Consensus 46 ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (145)
.+...++++++++..+..++.++ |++.+.+.+
T Consensus 201 ~~~~~v~~~~~~l~~~~~ai~~~--D~~~~g~~~ 232 (305)
T TIGR01240 201 LFKEWIEHVVPDFEVXRKAIKTK--DFATFGKET 232 (305)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhc--cHHHHHHHH
Confidence 46677888888899999999999 999987765
No 74
>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=27.67 E-value=2.9e+02 Score=21.44 Aligned_cols=28 Identities=25% Similarity=0.285 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 032209 49 LFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (145)
Q Consensus 49 ~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (145)
..+++..+.+.+++.++.++ |++.+.++
T Consensus 228 ~~l~~~~~~L~~l~~~l~~~--d~~~l~~~ 255 (258)
T PF02153_consen 228 EALDEFIKELNELREALEAG--DEEELEEL 255 (258)
T ss_dssp HHHHHHHHHHHHHHHHHHTT--SHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcC--CHHHHHHH
Confidence 44455556677888888899 99888765
No 75
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=27.65 E-value=1.5e+02 Score=18.01 Aligned_cols=45 Identities=7% Similarity=0.090 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhh
Q 032209 43 VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSI 89 (145)
Q Consensus 43 ~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~l 89 (145)
+...++.+..|.-..+.-+...++.+ +++.+......+.+.....
T Consensus 12 ~~~~lR~~RHD~~NhLqvI~gllqlg--~~~~a~eYi~~~~~~~~~~ 56 (62)
T PF14689_consen 12 LIDSLRAQRHDFLNHLQVIYGLLQLG--KYEEAKEYIKELSKDLQQE 56 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHH
Confidence 55567888888888899999999999 8999888888777766554
No 76
>PRK14154 heat shock protein GrpE; Provisional
Probab=27.20 E-value=3e+02 Score=21.33 Aligned_cols=63 Identities=10% Similarity=0.121 Sum_probs=37.2
Q ss_pred CHHHHHHHHHHhhhhhhhhCh----HHHHHHHHHHHHHHhhc--CHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 71 DFKQVDSHVHQLKGSSSSIGA----LRVKNVCIAFRSFCDAQ--NREGCMRCLQQVSHEYTMLKSKLQT 133 (145)
Q Consensus 71 D~~~l~~~aH~LKGss~~lGa----~~L~~~c~~LE~a~~~~--~~~~~~~~l~~L~~~~~~l~~~L~~ 133 (145)
|++.++....+-+-.....+. ..|..++..||.+.... ..+.....+..++-.+..+...|+.
T Consensus 81 DfeNyRKR~~kE~e~~~~~a~e~~~~~LLpVlDnLeRAL~~~~~~~~~~~~l~eGvemi~k~l~~vL~k 149 (208)
T PRK14154 81 EMDNLRKRIEREKADIIKFGSKQLITDLLPVADSLIHGLESPASEDPQVKSMRDGMSLTLDLLHNTLAK 149 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 566666666666666555555 56677888888887642 1223344555555555555555443
No 77
>PLN02999 photosystem II oxygen-evolving enhancer 3 protein (PsbQ)
Probab=26.62 E-value=2.5e+02 Score=21.42 Aligned_cols=40 Identities=3% Similarity=-0.062 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHH
Q 032209 92 LRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKL 131 (145)
Q Consensus 92 ~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L 131 (145)
..|.+-...|+.++|..+..+....+...-..+..+...|
T Consensus 150 nkLFdnvt~LDyAAR~K~~~eae~yY~~Tv~slddVl~~l 189 (190)
T PLN02999 150 NELVENMSELDYYVRTPKVYESYLYYEKTLKSIDNVVELL 189 (190)
T ss_pred HHHhhhHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHh
Confidence 4578888899999999998888887777766666655443
No 78
>PF04136 Sec34: Sec34-like family ; InterPro: IPR007265 Sec34 and Sec35 form a sub-complex in a seven-protein complex that includes Dor1. This complex is thought to be important for tethering vesicles to the Golgi [].; GO: 0006886 intracellular protein transport, 0005801 cis-Golgi network, 0016020 membrane
Probab=26.43 E-value=2.6e+02 Score=20.37 Aligned_cols=85 Identities=12% Similarity=0.161 Sum_probs=62.2
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHh----hcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 58 INSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCD----AQNREGCMRCLQQVSHEYTMLKSKLQT 133 (145)
Q Consensus 58 l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~----~~~~~~~~~~l~~L~~~~~~l~~~L~~ 133 (145)
+..+.+.+...=-=+..+.....+|.+...++.-.........|+.... +.+..+......+.+.++.+...-+..
T Consensus 61 L~~~ae~I~~~L~yF~~Ld~itr~Ln~p~~sV~~~~F~~~L~~LD~cl~Fl~~h~~fkea~~Y~~rf~q~ltRAl~lIk~ 140 (157)
T PF04136_consen 61 LEELAEEISEKLQYFEELDPITRRLNSPGSSVNSDSFKPMLSRLDECLEFLEEHPNFKEAEVYLIRFRQCLTRALTLIKN 140 (157)
T ss_pred HHHHHHHHHHHhHHHhhHHHHHHHHcCCCCcccchHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444200257777777888888888888888888888886543 336667888999999999999999999
Q ss_pred HHHHHHHhc
Q 032209 134 LFRVSVKAC 142 (145)
Q Consensus 134 ~l~~~~~~~ 142 (145)
|+...++..
T Consensus 141 y~~~~l~~~ 149 (157)
T PF04136_consen 141 YVVNTLRSA 149 (157)
T ss_pred HHHHHHHHH
Confidence 998887654
No 79
>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=26.12 E-value=2.1e+02 Score=22.58 Aligned_cols=39 Identities=10% Similarity=0.248 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHH
Q 032209 93 RVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKL 131 (145)
Q Consensus 93 ~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L 131 (145)
.+.+....|+++...++.+.+...+..+...|..+.-.+
T Consensus 102 ~i~~~~~~mk~a~~~~~~~~f~~~~n~f~~~y~~I~Psl 140 (232)
T PF09577_consen 102 PIMEDFQRMKQAAQKGDKEAFRASLNEFLSHYELIRPSL 140 (232)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhcchh
Confidence 456666777777777777777777777777766655443
No 80
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=25.89 E-value=65 Score=25.37 Aligned_cols=52 Identities=13% Similarity=0.256 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHH
Q 032209 49 LFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIA 100 (145)
Q Consensus 49 ~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~ 100 (145)
.|++.+|+...-+-+.+..|+++.+.-....--|+.-|--.+...|++.|..
T Consensus 48 IFIDRSpKHF~~ILNfmRdGdv~LPe~~kel~El~~EA~fYlL~~Lv~~C~~ 99 (230)
T KOG2716|consen 48 IFIDRSPKHFDTILNFMRDGDVDLPESEKELKELLREAEFYLLDGLVELCQS 99 (230)
T ss_pred EEecCChhHHHHHHHhhhcccccCccchHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 5888888999998888888766666666666667777888999999999998
No 81
>KOG2833 consensus Mevalonate pyrophosphate decarboxylase [Lipid transport and metabolism]
Probab=25.66 E-value=1.3e+02 Score=25.28 Aligned_cols=33 Identities=15% Similarity=0.274 Sum_probs=26.6
Q ss_pred HHHHHHHHH-HHHHHHHHHHHhcCCCCCHHHHHHHH
Q 032209 45 EVASLFFDD-AEKLINSMARALEQPCVDFKQVDSHV 79 (145)
Q Consensus 45 ~ll~~F~~~-~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (145)
.++..=+++ +|..+.+|++++.++ |++.+..+.
T Consensus 222 ~L~qhRi~~vVP~Ri~~m~eaI~~r--DF~~FA~lT 255 (395)
T KOG2833|consen 222 QLLQHRIESVVPQRIQQMREAIRER--DFESFAKLT 255 (395)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHH
Confidence 355555566 899999999999999 999987663
No 82
>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.
Probab=25.62 E-value=1.2e+02 Score=25.80 Aligned_cols=50 Identities=8% Similarity=0.119 Sum_probs=35.7
Q ss_pred HHHHHHHHHHH-HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhc
Q 032209 47 ASLFFDDAEKL-INSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ 108 (145)
Q Consensus 47 l~~F~~~~~~~-l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~ 108 (145)
+..|+..+... +..+-.|+..+ |.+.|+.+++. ......+..|+.....|
T Consensus 243 ~~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~lse----------~vy~~f~a~I~qr~~~G 293 (378)
T TIGR00984 243 KEHFLRFLREYIVPEILEAYVKG--DLEVLKSWCSE----------APFSVYATVVKEYKKMG 293 (378)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhhCH----------HHHHHHHHHHHHHHHCC
Confidence 35678888888 68899999999 99999988765 34444555555554444
No 83
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=24.97 E-value=2.6e+02 Score=19.95 Aligned_cols=60 Identities=13% Similarity=0.089 Sum_probs=27.8
Q ss_pred HHHHHHHHHHhhhhhhhhC----hHHHHHHHHHHHHHHhhcC-HHHHHHHHHHHHHHHHHHHHHH
Q 032209 72 FKQVDSHVHQLKGSSSSIG----ALRVKNVCIAFRSFCDAQN-REGCMRCLQQVSHEYTMLKSKL 131 (145)
Q Consensus 72 ~~~l~~~aH~LKGss~~lG----a~~L~~~c~~LE~a~~~~~-~~~~~~~l~~L~~~~~~l~~~L 131 (145)
++.++....+-+......+ +..|...+..++.+..... .+........+...+..+...|
T Consensus 41 ~en~~~r~~~e~~~~~~~~~~~~~~~ll~v~D~l~~a~~~~~~~~~~~~~~~g~~~~~~~l~~~L 105 (165)
T PF01025_consen 41 FENYRKRLEKEKEEAKKYALEKFLKDLLPVLDNLERALEAAKSNEEEESLLEGLEMILKQLEDIL 105 (165)
T ss_dssp HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCC-SHHCTCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHH
Confidence 3344444444433333333 4447777888887776532 2222333344444444444333
No 84
>PHA01929 putative scaffolding protein
Probab=23.37 E-value=4.1e+02 Score=21.64 Aligned_cols=54 Identities=17% Similarity=0.233 Sum_probs=34.4
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHH-HHHHhcCCCCCHHHHHHHHHHhhhhhhhhChH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINS-MARALEQPCVDFKQVDSHVHQLKGSSSSIGAL 92 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~-L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~ 92 (145)
.|+.+....-.+.|-+..+..+.. ++.++..+ |...+...|-.+-+-+...|+.
T Consensus 198 ~GGee~w~qAa~vFn~kAd~~~r~ai~~L~nSG--d~~~mk~AAk~V~~FA~~sG~v 252 (306)
T PHA01929 198 VGGEAVWKQAAGLFNQKADPATRAAIGRLMNSG--DAQAMQYAAKQVAAFAQGSGAV 252 (306)
T ss_pred cccHHHHHHHHHHHHhcCCHHHHHHHHHHHccc--hHHHHHHHHHHHHHHHHhcCce
Confidence 356666777777777776655544 66667777 8777766666665555554443
No 85
>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=23.29 E-value=2.2e+02 Score=23.99 Aligned_cols=37 Identities=16% Similarity=0.390 Sum_probs=27.9
Q ss_pred HHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR 63 (145)
Q Consensus 26 ~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~ 63 (145)
++|.+|+.+- ..+|+++..+|...-.+.|..+..|.+
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 5688887764 678888888888887777777776654
No 86
>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=22.92 E-value=4.9e+02 Score=22.34 Aligned_cols=83 Identities=11% Similarity=0.050 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Q 032209 42 FVVEVASLFFDDAEKLINSMARALEQPCVDF--KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQ 119 (145)
Q Consensus 42 ~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~--~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~ 119 (145)
-+..+++.|+....+++..-...-... ++ ..-....-+|++.+..++...++.+++.-=.+...+|.+.....+.+
T Consensus 119 al~~ild~wi~~~~~~~~~~~~~~~~~--~~~~~v~~~I~~~L~~l~~~~~~~~Fa~~l~~Y~~a~~~gd~~~~~~~l~W 196 (416)
T PF10923_consen 119 ALRSILDRWIYNLEEEVAAEGGIEPDE--GFEEAVEELIEERLASLSELVHGPDFAAALRAYYRAYVEGDEELADAALRW 196 (416)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCcch--hhHHHHHHHHHHHHHHHHcccCChhHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence 488999999999888765543111111 22 23334556677777777888888888888777888888888888999
Q ss_pred HHHHHHH
Q 032209 120 VSHEYTM 126 (145)
Q Consensus 120 L~~~~~~ 126 (145)
|..++..
T Consensus 197 L~Ge~~~ 203 (416)
T PF10923_consen 197 LRGEYNT 203 (416)
T ss_pred HcCCCcc
Confidence 8888744
No 87
>cd00454 Trunc_globin Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct from the three-over-three pattern found in other globins. A subset of these have been demonstrated to form homodimers.
Probab=22.76 E-value=2.4e+02 Score=18.68 Aligned_cols=36 Identities=6% Similarity=0.165 Sum_probs=25.7
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Q 032209 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVD 76 (145)
Q Consensus 38 ~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~ 76 (145)
|+.+-+..+++.|.+....+ ..|+...... |++...
T Consensus 7 GG~~~i~~lv~~FY~~i~~d-p~i~~~F~~~--~~~~~~ 42 (116)
T cd00454 7 GGEEAIRALVDRFYARVAAD-PRLGPIFPAD--DLEEHR 42 (116)
T ss_pred CCHHHHHHHHHHHHHHHhcC-hHHHHhcCCc--chHHHH
Confidence 67777888888888887665 5577777665 665554
No 88
>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []. This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....
Probab=22.71 E-value=1.2e+02 Score=19.03 Aligned_cols=56 Identities=16% Similarity=0.203 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHH
Q 032209 40 PDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIA 100 (145)
Q Consensus 40 ~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~ 100 (145)
++.+.++++..+.+..+.+.. .. +.=. .|-+.+..++.. |....+||.+|....+.
T Consensus 3 ~~~l~~I~~~~l~~l~~~l~~-~~-i~l~-~~~~~~~~l~~~--~~~~~~GAR~l~r~i~~ 58 (81)
T PF10431_consen 3 EEDLEKIADLQLKKLNERLKE-KG-IELE-FDDAVVDYLAEK--GYDPEYGARPLRRIIER 58 (81)
T ss_dssp HHHHHHHHHSHHHHHHHHHHH-TT-EEEE-E-HHHHHHHHHH--HHHTTTTTTCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH-CC-CeEE-ecHHHHHHHHHh--CcccCCCHHHHHHHHHH
Confidence 456777777777777776655 22 2211 134444444443 67788999888776554
No 89
>TIGR00465 ilvC ketol-acid reductoisomerase. This is the second enzyme in the parallel isoleucine-valine biosynthetic pathway
Probab=22.40 E-value=3.8e+02 Score=21.83 Aligned_cols=60 Identities=10% Similarity=-0.063 Sum_probs=37.3
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHH
Q 032209 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDF-KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNRE 111 (145)
Q Consensus 37 ~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~-~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~ 111 (145)
+++|.++...++.+ ++.+- +. ......+|.+||++-.+.-..+..+...+=.-++.|+..
T Consensus 187 Gs~pa~v~~~~eal--------------v~~G~-~~e~A~~~~~~~~~g~~~l~~e~g~~~l~~~Vsstaeyg~~~ 247 (314)
T TIGR00465 187 GGLTALIKAGFDTL--------------VEAGY-QPELAYFETVHELKLIVDLIYEGGITGMRDRISNTAEYGALT 247 (314)
T ss_pred hHHHHHHHHHHHHH--------------HHcCC-CHHHHHHHHHHHHHHHHHHHHHhcHHHHHHHcCCHHHcCcch
Confidence 55666666665444 34441 34 445566999999999997666655555554555566553
No 90
>PF02023 SCAN: SCAN domain; InterPro: IPR003309 A number of C2H2-zinc finger proteins contain a highly conserved N-terminal motif termed the SCAN domain. The SCAN domain may play an important role in the assembly and function of this newly defined subclass of transcriptional regulators [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3LHR_B 4E6S_A 2FI2_A 1Y7Q_A.
Probab=22.21 E-value=2.5e+02 Score=18.68 Aligned_cols=60 Identities=12% Similarity=0.110 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHHHhhhhhcCCchHHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 032209 3 VVSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVH 80 (145)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~ild~~~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH 80 (145)
++..|+.-+-+|++| +. .++.+|.+|- +++.|+.-.|..+...-.--... +..++..+|=
T Consensus 23 ~~~rL~~l~~~WL~p--e~----~tkeqi~ell----------vlEQFL~~lP~e~~~wV~e~~p~--s~~ea~~Lae 82 (95)
T PF02023_consen 23 FLSRLRELCDRWLQP--EV----HTKEQILELL----------VLEQFLNILPPEVQTWVRERKPE--SAEEAVALAE 82 (95)
T ss_dssp HHHHHHHHHHHHH-T--TT----S-HHHHHHHH----------HHHHHHHHS-HHHHHHHHTCS-S--SHHHHHHHHH
T ss_pred HHHHHHHHHHHhCcc--cc----CcHHHHHHHH----------HHHHHHHHCCHHHHHHHHhcCCC--CHHHHHHHHH
Confidence 566788888888886 22 2333554443 67788888877776655443333 5555555443
No 91
>PRK05399 DNA mismatch repair protein MutS; Provisional
Probab=21.66 E-value=6.8e+02 Score=23.50 Aligned_cols=30 Identities=17% Similarity=-0.044 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032209 112 GCMRCLQQVSHEYTMLKSKLQTLFRVSVKA 141 (145)
Q Consensus 112 ~~~~~l~~L~~~~~~l~~~L~~~l~~~~~~ 141 (145)
++...+..+...+..+.++++.+.+....+
T Consensus 427 g~~~~Ld~lr~~~~~~~~~l~~~~~~~~~~ 456 (854)
T PRK05399 427 GYDAELDELRALSDNGKDWLAELEARERER 456 (854)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567778888888888887776654433
No 92
>PF00619 CARD: Caspase recruitment domain; InterPro: IPR001315 The caspase recruitment domain domain (CARD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. CARD is related in sequence and structure to the death domain (DD, see IPR000488 from INTERPRO) and the death effector domain (DED, see IPR001875 from INTERPRO), which work in similar pathways and show similar interaction properties []. The CARD domain typically associates with other CARD-containing proteins, forming either dimers or trimers. CARD domains can be found in isolation, or in combination with other domains. Domains associated with CARD include: NACHT (IPR007111 from INTERPRO) (in Nal1 and Bir1), NB-ARC (IPR002182 from INTERPRO) (in Apaf-1), pyrin/dapin domains (IPR004020 from INTERPRO) (in Nal1), leucine-rich repeats () (in Nal1), WD repeats (IPR001680 from INTERPRO) (in Apaf1), Src homology domains (IPR001452 from INTERPRO), PDZ (IPR001478 from INTERPRO), RING, kinase and DD domains []. CARD-containing proteins are involved in apoptosis through their regulation of caspases that contain CARDs in their N-terminal pro-domains, including human caspases 1, 2, 9, 11 and 12 []. CARD-containing proteins are also involved in inflammation through their regulation of NF-kappaB []. The mechanisms by which CARDs activate caspases and NF-kappaB involve the assembly of multi-protein complexes, which can facilitate dimerisation or serve as scaffolds on which proteases and kinases are assembled and activated.; GO: 0005515 protein binding, 0042981 regulation of apoptosis, 0005622 intracellular; PDB: 2NSN_A 2NZ7_B 2DBD_A 4E9M_C 2B1W_A 3YGS_P 2KN6_A 3CRD_A 1DGN_A 3KAT_A ....
Probab=21.63 E-value=2.1e+02 Score=17.75 Aligned_cols=53 Identities=11% Similarity=0.288 Sum_probs=27.7
Q ss_pred HHHhhhhhcCCchHHHHHHHhhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032209 13 DFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQ 67 (145)
Q Consensus 13 ~~~~~~~~~~ild~~~~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~ 67 (145)
.-+..+...+++++. ....+.. ....+-...+++......+.-...+-.++..
T Consensus 20 ~ild~L~~~~vlt~~--e~e~I~~~~t~~~k~~~LLd~l~~kg~~a~~~F~~~L~~ 73 (85)
T PF00619_consen 20 DILDHLLSRGVLTEE--EYEEIRSEPTRQDKARKLLDILKRKGPEAFDIFCQALRE 73 (85)
T ss_dssp HHHHHHHHTTSSSHH--HHHHHHTSSSHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHCCCCCHH--HHHHHHccCChHHHHHHHHHHHHHHCHHHHHHHHHHHHh
Confidence 334455566666643 2333332 2344456666666665555555555555444
No 93
>PF07361 Cytochrom_B562: Cytochrome b562; InterPro: IPR009155 Cytochrome b562 is a haem-containing protein that is expressed in the periplasm of Escherichia coli. In b-type cytochromes, the haem atom is not covalently attached to the polypeptide. Cytochrome b562 has a four-helical bundle structure that is structurally similar to that found in members of the cytochrome c family (IPR002321 from INTERPRO). Cytochrome b562 has a reduction potential of 167 mV, which sets the energy yield possible in metabolism and is also a key determinant of the rate at which redox reactions proceed [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0042597 periplasmic space; PDB: 4ER9_A 3IQ6_G 2QLA_B 3FOO_A 3M79_C 256B_A 3NMI_F 3HNK_A 3NMK_D 2BC5_A ....
Probab=21.30 E-value=2.7e+02 Score=18.77 Aligned_cols=34 Identities=9% Similarity=0.113 Sum_probs=26.1
Q ss_pred hhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Q 032209 88 SIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVS 121 (145)
Q Consensus 88 ~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~ 121 (145)
.=|...|......++..+..|+.+++...+..|.
T Consensus 59 ~~Gl~~li~~id~a~~~~~~G~l~~AK~~l~~l~ 92 (103)
T PF07361_consen 59 QEGLDKLIDQIDKAEALAEAGKLDEAKAALKKLD 92 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3477888888888999999999888766555543
No 94
>cd07909 YciF YciF bacterial stress response protein, ferritin-like iron-binding domain. YciF is a bacterial protein of unknown function that is up-regulated when bacteria experience stress conditions, and is highly conserved in a broad range of bacterial species. YciF has a ferritin-like domain. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=21.10 E-value=1.8e+02 Score=21.14 Aligned_cols=55 Identities=15% Similarity=0.300 Sum_probs=31.0
Q ss_pred HHHHHHhhhhhcCCchHH--HHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032209 10 QFIDFSSSLYREGYVDDQ--FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQP 68 (145)
Q Consensus 10 ~~~~~~~~~~~~~ild~~--~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L~~a~~~~ 68 (145)
.|++|++.+..- +. ...|..|......+-+...+..=++++..++..|++.+..-
T Consensus 3 lf~~~L~d~y~a----E~Q~~~al~~m~~~a~~peLk~~l~~H~~eT~~qi~rLe~if~~l 59 (147)
T cd07909 3 LFVHELRDLYSA----EKQLVKALPKMAKAATSEELKEAFESHLEETEGQVERLEQIFESL 59 (147)
T ss_pred hHHHHHHHHHHH----HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 355565555544 21 22333333322333366677777778888888888777753
No 95
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=21.02 E-value=4e+02 Score=20.64 Aligned_cols=41 Identities=15% Similarity=0.066 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 94 VKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTL 134 (145)
Q Consensus 94 L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L~~~ 134 (145)
+...|...=.+...++.+.+...+......+..++..|..|
T Consensus 29 i~r~s~~aI~~~H~~~~eeA~~~l~~a~~~v~~Lk~~l~~~ 69 (204)
T COG2178 29 IVRLSGEAIFLLHRGDFEEAEKKLKKASEAVEKLKRLLAGF 69 (204)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34444444444555555555555555555555555555444
No 96
>cd08327 CARD_RAIDD Caspase activation and recruitment domain of RIP-associated ICH-1 homologous protein with a death domain. Caspase activation and recruitment domain (CARD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal CARD, which interacts with the caspase-2 CARD, and a C-terminal Death domain (DD), which interacts with the DD of PIDD. In general, CARDs are DDs 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 heterodime
Probab=20.91 E-value=2.7e+02 Score=18.61 Aligned_cols=50 Identities=14% Similarity=0.324 Sum_probs=31.9
Q ss_pred HHhhhhhcCCchHHHHHHHhhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032209 14 FSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARAL 65 (145)
Q Consensus 14 ~~~~~~~~~ild~~~~~L~~L~~-~~~~~~~~~ll~~F~~~~~~~l~~L~~a~ 65 (145)
+...++..||+.+. ..+.+.. ....+-+..+++..-.-++.-...+-.++
T Consensus 26 v~~~L~~~gIlT~~--~~e~I~a~~T~~~k~~~LLdiLp~RG~~AF~~F~~aL 76 (94)
T cd08327 26 VIQYLYQEGILTES--HVEEIESQTTSRRKTMKLLDILPSRGPKAFHAFLDSL 76 (94)
T ss_pred HHHHHHhCCCCCHH--HHHHHHccCChHHHHHHHHHHHHhhChhHHHHHHHHH
Confidence 45557777887744 4444443 45566677777777777777776666666
No 97
>COG0282 ackA Acetate kinase [Energy production and conversion]
Probab=20.74 E-value=2.4e+02 Score=24.13 Aligned_cols=52 Identities=8% Similarity=-0.011 Sum_probs=33.9
Q ss_pred hhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 82 LKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRVS 138 (145)
Q Consensus 82 LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L~~~l~~~ 138 (145)
|-=-||.+|...++.-|+.+|.+...++. +. -.++--..++..++-.|+..+
T Consensus 266 LNkkSGllGlSg~ssD~R~l~~~~~~g~~--A~---lA~~~f~~Ri~kyIg~y~a~L 317 (396)
T COG0282 266 LNKKSGLLGLSGLSSDMRDLEEAAAEGNE--AK---LALDMFVYRIAKYIGSYAAAL 317 (396)
T ss_pred HhhhccccccccccchHHHHHHHhccCch--HH---HHHHHHHHHHHHHHHHHHHHh
Confidence 33359999999999999999998877743 21 122333455555555555443
No 98
>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]
Probab=20.35 E-value=6.1e+02 Score=23.34 Aligned_cols=124 Identities=17% Similarity=0.195 Sum_probs=61.0
Q ss_pred HHHHHHHHHhhhhh---cCCch----------HHHHHHHhhhc--cCChHHHHHHHHHHHHHHHHHHHH---HHHHhcCC
Q 032209 7 LQKQFIDFSSSLYR---EGYVD----------DQFSQLHKLQD--ESSPDFVVEVASLFFDDAEKLINS---MARALEQP 68 (145)
Q Consensus 7 ~~~~~~~~~~~~~~---~~ild----------~~~~~L~~L~~--~~~~~~~~~ll~~F~~~~~~~l~~---L~~a~~~~ 68 (145)
+++.+.+|-..+.| ..|++ ..|+++...++ +.||. +.++-.. +.+....+++ ...++.++
T Consensus 115 a~k~yeeWKd~lPdls~~kW~~~d~~~~~~~w~~FS~~~~~Kd~~~~Dpk-lkqlGen-lsEWmakFes~~~ed~a~~a~ 192 (980)
T KOG0447|consen 115 AKKTFDQWKDMIPDLSEYKWIVPDIVWEIDEYIDFSKIRKSKDLVKLDPK-LKQLGEN-LSEWMAKFESGSPEETAFRAT 192 (980)
T ss_pred hhhhHHHHhhcCCCcccccccccccccccchHHHHHHHHhhhhhhccChh-hhhhhhh-HHHHHHHHhcCCchhhhhccc
Confidence 56777778776666 44444 34666665554 33432 2222222 2222222222 44455555
Q ss_pred CCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032209 69 CVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNREGCMRCLQQVSHEYTMLKSKLQTLFRVS 138 (145)
Q Consensus 69 ~~D~~~l~~~aH~LKGss~~lGa~~L~~~c~~LE~a~~~~~~~~~~~~l~~L~~~~~~l~~~L~~~l~~~ 138 (145)
|+. .....|-=+ +.+||.-+..........-...+.......+++|..++-.++..++.-+..+
T Consensus 193 --d~g-~E~~~~~k~---~~~~A~L~~~~~~~~ts~E~~K~~vs~~e~i~~LQeE~l~tQ~kYQreLErl 256 (980)
T KOG0447|consen 193 --DRG-SESDKHFRK---GLLGALLLLQIQEESTSYEQQKRKVSDKEKIDQLQEELLHTQLKYQRILERL 256 (980)
T ss_pred --CCC-CccCcchhh---hhHHHHHHHHHhhccCCHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 443 222233322 3345544444444433222333444556677778777777777666666554
No 99
>PRK08818 prephenate dehydrogenase; Provisional
Probab=20.31 E-value=2.6e+02 Score=23.44 Aligned_cols=40 Identities=13% Similarity=0.087 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhh
Q 032209 42 FVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSS 87 (145)
Q Consensus 42 ~~~~ll~~F~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGss~ 87 (145)
.+.+.++.| .+.+..+++++.++ |++.+.+..|++.-+-.
T Consensus 228 ~i~~~l~~~----~~~L~~l~~~i~~~--D~~~~~~~~~~f~~a~~ 267 (370)
T PRK08818 228 YVGEMLDRL----LAQLQELRALVAQG--DDAARARFRAQFLHANA 267 (370)
T ss_pred HHHHHHHHH----HHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHh
Confidence 444444444 45577888888999 99999998777655443
No 100
>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=20.23 E-value=1.7e+02 Score=16.05 Aligned_cols=34 Identities=18% Similarity=0.248 Sum_probs=18.0
Q ss_pred HHHHHhhhccCChHHHHHHHHHHHHHHHHHHHHH
Q 032209 28 FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSM 61 (145)
Q Consensus 28 ~~~L~~L~~~~~~~~~~~ll~~F~~~~~~~l~~L 61 (145)
+.+|.+|.-.-+++++..++...--+.+.-+..|
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 4455555555566666666655555554444443
No 101
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=20.11 E-value=4.3e+02 Score=20.68 Aligned_cols=32 Identities=9% Similarity=0.338 Sum_probs=22.3
Q ss_pred HHHHHHHHHhhhhh-hhhChHHHHHHHHHHHHH
Q 032209 73 KQVDSHVHQLKGSS-SSIGALRVKNVCIAFRSF 104 (145)
Q Consensus 73 ~~l~~~aH~LKGss-~~lGa~~L~~~c~~LE~a 104 (145)
..++..+..+.+.. ++.|...+...+..|...
T Consensus 181 ~~i~~~~~~~~~~~~~~~G~~~~~~~~~~l~~~ 213 (317)
T PF14399_consen 181 KAIRKNARRMLGPPDGNFGLKGIRKFAKELPDW 213 (317)
T ss_pred HHHHHHHHHccCCCcccccHHHHHHHHHHHHHh
Confidence 34455566666665 778888888888888776
Done!