Query 033767
Match_columns 112
No_of_seqs 189 out of 876
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 06:04:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033767.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033767hhsearch_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 5.6E-20 1.2E-24 127.4 10.9 108 4-112 5-112 (150)
2 COG2198 ArcB FOG: HPt domain [ 99.6 1.3E-14 2.9E-19 97.5 9.0 69 37-107 19-87 (122)
3 PF01627 Hpt: Hpt domain; Int 99.6 1E-14 2.2E-19 91.5 7.6 64 45-110 1-67 (90)
4 smart00073 HPT Histidine Phosp 99.5 7.2E-14 1.6E-18 88.0 6.8 63 45-109 2-64 (87)
5 cd00088 HPT Histidine Phosphot 99.5 1.4E-13 3.1E-18 88.2 7.2 64 44-109 2-69 (94)
6 TIGR02956 TMAO_torS TMAO reduc 99.2 5E-11 1.1E-15 101.4 9.6 84 23-110 863-946 (968)
7 PRK10618 phosphotransfer inter 98.9 2.6E-09 5.7E-14 92.1 7.9 65 44-110 810-874 (894)
8 PRK11466 hybrid sensory histid 98.7 1.6E-07 3.6E-12 79.9 10.8 67 37-105 819-885 (914)
9 PRK11091 aerobic respiration c 98.6 2.3E-07 5.1E-12 78.0 8.1 77 30-108 670-746 (779)
10 PRK11107 hybrid sensory histid 98.4 3.7E-06 7.9E-11 71.4 10.9 70 37-108 820-889 (919)
11 PRK10547 chemotaxis protein Ch 98.1 1.3E-05 2.9E-10 67.7 8.9 62 44-105 4-71 (670)
12 COG0643 CheA Chemotaxis protei 98.1 9.8E-06 2.1E-10 68.9 7.5 66 40-105 3-74 (716)
13 PRK09959 hybrid sensory histid 97.3 0.004 8.6E-08 55.0 11.1 70 37-108 1096-1165(1197)
14 PRK15347 two component system 97.0 0.0034 7.5E-08 53.5 7.8 60 46-109 838-897 (921)
15 PF07743 HSCB_C: HSCB C-termin 93.9 0.5 1.1E-05 29.0 6.8 44 38-83 24-67 (78)
16 PRK01356 hscB co-chaperone Hsc 91.1 1.5 3.3E-05 31.1 7.1 59 23-83 91-149 (166)
17 TIGR00714 hscB Fe-S protein as 89.4 3.3 7.1E-05 29.1 7.5 52 30-83 89-140 (157)
18 cd08323 CARD_APAF1 Caspase act 89.2 3 6.6E-05 26.5 6.6 66 11-80 16-82 (86)
19 PRK03578 hscB co-chaperone Hsc 83.5 9.5 0.00021 27.3 7.4 45 37-83 113-158 (176)
20 PRK01773 hscB co-chaperone Hsc 82.8 11 0.00023 27.0 7.4 45 37-83 110-154 (173)
21 TIGR00984 3a0801s03tim44 mitoc 76.2 40 0.00086 27.2 9.6 80 10-108 213-293 (378)
22 PRK05014 hscB co-chaperone Hsc 73.1 29 0.00063 24.6 7.3 42 41-84 113-154 (171)
23 PF05396 Phage_T7_Capsid: Phag 69.2 32 0.00069 23.5 6.3 47 37-85 43-89 (123)
24 PF07014 Hs1pro-1_C: Hs1pro-1 66.6 26 0.00056 26.5 6.0 39 42-82 54-92 (261)
25 PF08858 IDEAL: IDEAL domain; 66.4 18 0.00039 19.2 5.7 36 43-82 2-37 (37)
26 PF05527 DUF758: Domain of unk 65.5 36 0.00078 24.8 6.4 65 4-68 116-184 (186)
27 PF09280 XPC-binding: XPC-bind 60.9 18 0.00038 21.4 3.5 37 26-63 8-44 (59)
28 TIGR03042 PS_II_psbQ_bact phot 58.1 17 0.00037 25.4 3.5 35 51-90 45-79 (142)
29 cd08326 CARD_CASP9 Caspase act 57.8 45 0.00096 20.9 6.0 63 11-77 18-81 (84)
30 cd07299 PX_TCGAP The phosphoin 57.5 14 0.0003 24.7 2.9 42 13-54 49-94 (113)
31 PRK03636 hypothetical protein; 56.3 53 0.0011 23.7 6.0 27 55-83 148-174 (179)
32 cd07298 PX_RICS The phosphoino 56.2 13 0.00028 25.0 2.6 42 13-54 51-96 (115)
33 PF04280 Tim44: Tim44-like dom 56.0 58 0.0013 21.6 6.0 50 47-108 17-66 (147)
34 PF02845 CUE: CUE domain; Int 53.8 27 0.00059 18.6 3.3 35 27-61 4-38 (42)
35 KOG4552 Vitamin-D-receptor int 53.7 94 0.002 23.4 7.7 40 46-86 103-142 (272)
36 PRK03057 hypothetical protein; 52.7 67 0.0015 23.2 6.0 36 46-83 132-173 (180)
37 PLN02407 diphosphomevalonate d 52.2 28 0.0006 27.7 4.3 33 45-79 223-256 (343)
38 cd07278 PX_RICS_like The phosp 47.6 19 0.00041 24.2 2.3 42 13-54 50-95 (114)
39 TIGR00601 rad23 UV excision re 47.5 63 0.0014 26.0 5.7 45 26-78 255-299 (378)
40 smart00546 CUE Domain that may 46.6 46 0.00099 17.7 3.5 36 26-61 4-39 (43)
41 PF14615 Rsa3: Ribosome-assemb 44.1 59 0.0013 18.3 3.9 40 46-88 6-45 (47)
42 COG3046 Uncharacterized protei 43.8 47 0.001 27.5 4.4 66 39-110 226-291 (505)
43 smart00188 IL10 Interleukin-10 43.6 1.1E+02 0.0024 21.2 7.1 51 3-55 4-59 (137)
44 TIGR01220 Pmev_kin_Gr_pos phos 43.3 1.6E+02 0.0035 23.1 7.4 56 46-103 246-309 (358)
45 KOG3192 Mitochondrial J-type c 41.1 1.3E+02 0.0029 21.5 6.7 38 43-82 117-154 (168)
46 KOG2833 Mevalonate pyrophospha 40.3 58 0.0012 26.1 4.3 33 45-79 222-255 (395)
47 PF08637 NCA2: ATP synthase re 40.0 1E+02 0.0022 23.8 5.6 45 39-85 73-126 (290)
48 COG2991 Uncharacterized protei 39.9 5.9 0.00013 24.7 -0.9 20 80-99 27-46 (77)
49 TIGR01240 mevDPdecarb diphosph 39.8 59 0.0013 25.2 4.4 32 46-79 201-232 (305)
50 PF13779 DUF4175: Domain of un 39.6 91 0.002 27.7 5.9 71 36-111 487-557 (820)
51 PRK13916 plasmid segregation p 38.6 54 0.0012 21.1 3.3 28 28-55 21-48 (97)
52 COG4997 Uncharacterized conser 38.0 1.1E+02 0.0024 19.7 6.5 54 56-111 40-93 (95)
53 PF02153 PDH: Prephenate dehyd 37.5 1.7E+02 0.0037 21.7 7.2 40 37-78 209-255 (258)
54 cd01671 CARD Caspase activatio 35.9 95 0.0021 18.3 6.7 58 9-68 13-71 (80)
55 PF01322 Cytochrom_C_2: Cytoch 35.5 1.3E+02 0.0027 19.6 5.1 40 47-88 77-116 (122)
56 COG3923 PriC Primosomal replic 35.1 1.1E+02 0.0024 22.0 4.7 72 3-83 6-80 (175)
57 cd08332 CARD_CASP2 Caspase act 34.9 1.2E+02 0.0026 19.1 7.0 64 11-78 22-86 (90)
58 PF03847 TFIID_20kDa: Transcri 34.7 1.1E+02 0.0023 18.5 6.2 49 8-67 2-50 (68)
59 PRK08818 prephenate dehydrogen 33.6 1.4E+02 0.003 23.9 5.6 40 42-87 228-267 (370)
60 TIGR02302 aProt_lowcomp conser 32.8 1.2E+02 0.0026 27.1 5.6 72 34-111 516-587 (851)
61 TIGR03042 PS_II_psbQ_bact phot 32.8 1.7E+02 0.0037 20.3 7.5 61 28-90 52-112 (142)
62 PF10431 ClpB_D2-small: C-term 32.3 79 0.0017 18.9 3.3 57 39-100 2-58 (81)
63 PF07304 SRA1: Steroid recepto 32.1 1.7E+02 0.0036 20.4 5.3 48 54-103 90-143 (157)
64 KOG1142 Transcription initiati 31.0 1.3E+02 0.0028 23.1 4.8 45 10-65 159-203 (258)
65 PF09209 DUF1956: Domain of un 29.5 1.5E+02 0.0033 18.7 8.7 54 39-92 36-89 (125)
66 PRK07417 arogenate dehydrogena 29.3 1.4E+02 0.0031 22.2 4.9 27 51-79 241-267 (279)
67 KOG2716 Polymerase delta-inter 28.6 54 0.0012 24.6 2.4 52 49-100 48-99 (230)
68 PF04840 Vps16_C: Vps16, C-ter 28.0 2.9E+02 0.0063 21.5 8.9 66 30-100 183-249 (319)
69 PF05168 HEPN: HEPN domain; I 27.9 1.5E+02 0.0033 18.2 5.1 31 48-80 2-32 (118)
70 PRK10093 primosomal replicatio 27.6 1.8E+02 0.0039 20.9 4.8 70 4-82 3-75 (171)
71 KOG2580 Mitochondrial import i 27.6 1.7E+02 0.0036 24.3 5.1 66 7-81 284-350 (459)
72 PF09670 Cas_Cas02710: CRISPR- 27.5 3.1E+02 0.0067 21.8 6.7 66 37-104 114-180 (379)
73 PF10018 Med4: Vitamin-D-recep 27.0 2.3E+02 0.0051 20.1 8.9 21 68-88 79-99 (188)
74 PF11277 Med24_N: Mediator com 24.7 2.8E+02 0.006 25.5 6.4 49 5-53 705-755 (990)
75 PF02203 TarH: Tar ligand bind 24.3 2.2E+02 0.0048 18.9 5.1 39 38-78 110-148 (171)
76 PRK11199 tyrA bifunctional cho 24.0 3.6E+02 0.0079 21.2 8.1 62 37-101 297-364 (374)
77 cd00454 Trunc_globin Truncated 23.8 2E+02 0.0043 18.1 4.3 30 38-68 7-36 (116)
78 PF13628 DUF4142: Domain of un 23.6 2.3E+02 0.0049 18.7 8.6 50 28-79 72-122 (139)
79 COG4865 Glutamate mutase epsil 23.0 43 0.00093 27.2 1.1 42 14-55 62-103 (485)
80 PF04282 DUF438: Family of unk 22.8 1.9E+02 0.0042 17.6 5.2 49 30-79 5-55 (71)
81 PRK08582 hypothetical protein; 22.7 1.5E+02 0.0033 20.1 3.7 28 41-68 103-130 (139)
82 PF08332 CaMKII_AD: Calcium/ca 22.5 58 0.0013 22.1 1.5 26 53-80 4-29 (128)
83 KOG4747 Two-component phosphor 22.5 2.9E+02 0.0062 19.5 6.5 58 39-100 12-70 (150)
84 PF04400 DUF539: Protein of un 22.4 9 0.00019 21.6 -2.1 18 81-98 7-24 (45)
85 PF07393 Sec10: Exocyst comple 22.2 3.3E+02 0.0071 23.4 6.3 46 39-86 96-142 (710)
86 PF08822 DUF1804: Protein of u 21.9 3.1E+02 0.0067 19.6 6.5 53 11-63 36-88 (165)
87 COG1220 HslU ATP-dependent pro 21.7 1.2E+02 0.0025 24.8 3.2 30 72-101 374-403 (444)
88 PF14357 DUF4404: Domain of un 20.4 1.8E+02 0.0039 18.2 3.4 20 7-26 2-21 (85)
89 smart00040 CSF2 Granulocyte-ma 20.2 2.6E+02 0.0056 18.8 4.1 60 5-64 17-76 (121)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.83 E-value=5.6e-20 Score=127.36 Aligned_cols=108 Identities=56% Similarity=0.948 Sum_probs=104.3
Q ss_pred HHHHHHHHHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 4 VSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 4 ~~~l~~~~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
+..++.+..++..|++++|++|++|.+|++|.++..|+|+.+++..|++++.+.+..++.|+..+. |+..+....|.+|
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 678999999999999999999999999999999999999999999999999999999999998864 9999999999999
Q ss_pred hhhhhhChHHHHHHHHHHHHHHHhhccCC
Q 033767 84 GSSSSIGALRVKNVCIAFRSFCDAQNREG 112 (112)
Q Consensus 84 Gsa~~lGa~~l~~~c~~lE~~~~~~~~~g 112 (112)
||+.++||.++...|..+...|+.++.+|
T Consensus 84 gssssIGa~kvk~~c~~~~~~~~~~n~eg 112 (150)
T KOG4747|consen 84 GSSSSIGALKVKKVCVGFNEFCEAGNIEG 112 (150)
T ss_pred CchhhhhHHHHHHHHHHHHHHHhhccchh
Confidence 99999999999999999999999999886
No 2
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.58 E-value=1.3e-14 Score=97.51 Aligned_cols=69 Identities=23% Similarity=0.464 Sum_probs=66.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHh
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDA 107 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~ 107 (112)
+++++++.+++..|+++.+..++.+..++..+ |+..+.+.||+|||+|+++|+.++...|.+||..++.
T Consensus 19 g~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~ 87 (122)
T COG2198 19 GGDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRS 87 (122)
T ss_pred CCChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHc
Confidence 36799999999999999999999999999999 9999999999999999999999999999999999987
No 3
>PF01627 Hpt: Hpt domain; InterPro: IPR008207 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents a domain present at the N terminus in proteins which undergo autophosphorylation. The group includes, the gliding motility regulatory protein from Myxococcus xanthus and a number of bacterial chemotaxis proteins.; GO: 0004871 signal transducer activity, 0000160 two-component signal transduction system (phosphorelay); PDB: 3KYJ_A 3KYI_A 3IQT_A 1Y6D_A 2LD6_A 1TQG_A 2R25_A 1OXB_A 1QSP_B 1C03_B ....
Probab=99.58 E-value=1e-14 Score=91.53 Aligned_cols=64 Identities=25% Similarity=0.512 Sum_probs=61.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHh---cCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhcc
Q 033767 45 EVASLFFDDAEKLINSMARAL---EQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR 110 (112)
Q Consensus 45 ~li~~f~~~~~~~l~~L~~a~---~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~~ 110 (112)
+|+..|+++.+..+..|..++ ..+ |++.+.+.+|+|||+++++|+.++...|..||..++.++.
T Consensus 1 ell~~f~~~~~~~~~~l~~~~~~~~~~--d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~ 67 (90)
T PF01627_consen 1 ELLDIFLEEAPEDLEQLEQALQALEQE--DWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDK 67 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSSHHC--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHh--hHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCc
Confidence 589999999999999999999 888 9999999999999999999999999999999999998764
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=7.2e-14 Score=87.99 Aligned_cols=63 Identities=25% Similarity=0.453 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhc
Q 033767 45 EVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN 109 (112)
Q Consensus 45 ~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~ 109 (112)
+++..|+++.+..+..|..+...+ |+..+.+.+|+|||+|+++|+..|..+|..+|..++...
T Consensus 2 e~~~~f~~~~~~~l~~l~~~~~~~--~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~ 64 (87)
T smart00073 2 EELAEFLQSLEEGLLELEKALDAQ--DVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR 64 (87)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCHh--HHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 688999999999999999999988 999999999999999999999999999999999988654
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=99.48 E-value=1.4e-13 Score=88.20 Aligned_cols=64 Identities=31% Similarity=0.533 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc----CCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhc
Q 033767 44 VEVASLFFDDAEKLINSMARALE----QPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN 109 (112)
Q Consensus 44 ~~li~~f~~~~~~~l~~L~~a~~----~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~ 109 (112)
.+++..|+++.+..+..|..++. .+ |++.+...+|+|||+++++|+.++...|..+|.+++.+.
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 999999999999999999999999999999999999865
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=99.23 E-value=5e-11 Score=101.45 Aligned_cols=84 Identities=20% Similarity=0.321 Sum_probs=73.7
Q ss_pred CchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHH
Q 033767 23 YVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFR 102 (112)
Q Consensus 23 ~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE 102 (112)
++|.. .+.......+++.+.+++..|+++.+..+..|..++..+ |+..+++.+|+|||+++++|+.++..+|+.||
T Consensus 863 ll~~~--~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le 938 (968)
T TIGR02956 863 LLDEE--QLQQDIEVLGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLE 938 (968)
T ss_pred hcCHH--HHHHHHHhcCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence 45543 333333456788999999999999999999999999999 99999999999999999999999999999999
Q ss_pred HHHHhhcc
Q 033767 103 SFCDAQNR 110 (112)
Q Consensus 103 ~~~~~~~~ 110 (112)
.+++.|+.
T Consensus 939 ~~~~~~~~ 946 (968)
T TIGR02956 939 KQGKTGAL 946 (968)
T ss_pred HhcccCCc
Confidence 99998865
No 7
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=98.94 E-value=2.6e-09 Score=92.15 Aligned_cols=65 Identities=17% Similarity=0.342 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhcc
Q 033767 44 VEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR 110 (112)
Q Consensus 44 ~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~~ 110 (112)
..++..|++..+.++..|..++..+ |+..+...||+|||+++++|+..+.++|..||+.++.++.
T Consensus 810 s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~ 874 (894)
T PRK10618 810 SDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDE 874 (894)
T ss_pred hhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCCh
Confidence 4567899999999999999999999 9999999999999999999999999999999999998875
No 8
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.70 E-value=1.6e-07 Score=79.86 Aligned_cols=67 Identities=24% Similarity=0.308 Sum_probs=62.8
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHH
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFC 105 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~ 105 (112)
..+++.+.+++..|.++....+.++..+...+ |+..+.+++|+|||+++++|+..+..+|.++|.++
T Consensus 819 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~ 885 (914)
T PRK11466 819 LMGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQP 885 (914)
T ss_pred hcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCC
Confidence 45677789999999999999999999999999 99999999999999999999999999999999864
No 9
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=98.57 E-value=2.3e-07 Score=78.03 Aligned_cols=77 Identities=16% Similarity=0.262 Sum_probs=67.4
Q ss_pred HHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhh
Q 033767 30 QLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ 108 (112)
Q Consensus 30 ~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~ 108 (112)
.+..+.+..++..+.+.+..|.+..+..++.+..++..+ |+..+...+|+|||+++++|+..++.+|..+|.....+
T Consensus 670 ~l~~~~~~~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~ 746 (779)
T PRK11091 670 MLEQYVELVGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPA 746 (779)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccc
Confidence 344444445677888999999999999999999999999 99999999999999999999999999999999765544
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.40 E-value=3.7e-06 Score=71.38 Aligned_cols=70 Identities=23% Similarity=0.360 Sum_probs=66.0
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhh
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ 108 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~ 108 (112)
.+.++...+++..|.++.+..+..+..++... |+..+..++|++||+++++|+.++..+|..+|..++.+
T Consensus 820 ~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~ 889 (919)
T PRK11107 820 AGKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSG 889 (919)
T ss_pred CCCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcC
Confidence 56778889999999999999999999999999 99999999999999999999999999999999998865
No 11
>PRK10547 chemotaxis protein CheA; Provisional
Probab=98.15 E-value=1.3e-05 Score=67.68 Aligned_cols=62 Identities=19% Similarity=0.386 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---hcCCCCCH---HHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHH
Q 033767 44 VEVASLFFDDAEKLINSMARA---LEQPCVDF---KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFC 105 (112)
Q Consensus 44 ~~li~~f~~~~~~~l~~L~~a---~~~~~~D~---~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~ 105 (112)
.+++..|++++.+.++.|+.. ++..|.|. ..+.+.+|+|||+|+++|...+..+|..+|...
T Consensus 4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~ll 71 (670)
T PRK10547 4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLL 71 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHH
Confidence 478999999999999888875 44444454 467899999999999999999999999999765
No 12
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=98.12 E-value=9.8e-06 Score=68.94 Aligned_cols=66 Identities=23% Similarity=0.383 Sum_probs=54.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHh---cCCCCCH---HHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHH
Q 033767 40 PDFVVEVASLFFDDAEKLINSMARAL---EQPCVDF---KQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFC 105 (112)
Q Consensus 40 ~~~~~~li~~f~~~~~~~l~~L~~a~---~~~~~D~---~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~ 105 (112)
.....+++..|+.++++.+..|..++ +..|.|. ..+.+.||+|||+|+++|...+.++|..+|...
T Consensus 3 ~~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~l 74 (716)
T COG0643 3 SMDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLL 74 (716)
T ss_pred hhHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHH
Confidence 34567899999999999999999743 3322354 467899999999999999999999999999753
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.26 E-value=0.004 Score=54.95 Aligned_cols=70 Identities=14% Similarity=0.234 Sum_probs=63.5
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhh
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ 108 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~ 108 (112)
..+...+.+++..+...+...+..+..+...+ |...+...+|++||++..+|+..+...|.++|......
T Consensus 1096 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~ 1165 (1197)
T PRK09959 1096 ANDLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSD 1165 (1197)
T ss_pred CCCHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcC
Confidence 45667889999999999999999999999999 99999999999999999999999999999999776543
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.98 E-value=0.0034 Score=53.54 Aligned_cols=60 Identities=17% Similarity=0.334 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhc
Q 033767 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQN 109 (112)
Q Consensus 46 li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~ 109 (112)
+...+.+.....+..+..++..+ | .+...+|++||+++.+|+..+...|.++|..++.+.
T Consensus 838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~ 897 (921)
T PRK15347 838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGE 897 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCC
Confidence 44455566677888888888887 6 899999999999999999999999999999987764
No 15
>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=93.91 E-value=0.5 Score=28.97 Aligned_cols=44 Identities=18% Similarity=0.326 Sum_probs=38.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 38 ~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
++.+-+.++....-......+..|..++..+ ||..+....++||
T Consensus 24 ~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kLk 67 (78)
T PF07743_consen 24 DDEAELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKLK 67 (78)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHHH
Confidence 6667888999999899999999999999999 9999999999986
No 16
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=91.13 E-value=1.5 Score=31.09 Aligned_cols=59 Identities=10% Similarity=0.160 Sum_probs=38.4
Q ss_pred CchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 23 YVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 23 ~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
+|.++++.-+++.+..+++-+.++....-......+..|..++..+ ||+.....+-+||
T Consensus 91 fLme~me~rE~le~~~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~~L~ 149 (166)
T PRK01356 91 ELSIFWDEMERIENTILFSDLEKIKNKYELMYKNEIDSLKQAFEEQ--NLSDATIKTSKLK 149 (166)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHH
Confidence 3334444444454445555566666666666667778888999888 9988877776654
No 17
>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=89.40 E-value=3.3 Score=29.06 Aligned_cols=52 Identities=6% Similarity=0.097 Sum_probs=40.3
Q ss_pred HHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 30 QLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 30 ~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
.+.++....+++-+..+....-.........|..++..+ ||+.....+.+||
T Consensus 89 ~lee~~~~~d~~~L~~l~~~~~~~~~~~~~~l~~~~~~~--d~~~A~~~~~kLk 140 (157)
T TIGR00714 89 ELDEIEQAKDEARLESFIKRVKKMFQTRHQLLVEQLDNQ--TWAAAADYTRKLR 140 (157)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHH
Confidence 344444455677777888887777788888899999999 9999988887776
No 18
>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1. Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effect
Probab=89.23 E-value=3 Score=26.51 Aligned_cols=66 Identities=12% Similarity=0.185 Sum_probs=52.5
Q ss_pred HHHHHhhhhhccCchHHHHHHHHhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 033767 11 FIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVH 80 (112)
Q Consensus 11 ~~~~~~~~~~~~~ld~~f~~l~~L~~-~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH 80 (112)
....+..+..+|+++.. ..+.++. ....+-...+|+....-.+.-...+..++... .+..++.+.|
T Consensus 16 v~~ild~L~~~gvlt~~--~~e~I~~~~t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~ 82 (86)
T cd08323 16 TSYIMDHMISDGVLTLD--EEEKVKSKATQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLH 82 (86)
T ss_pred HHHHHHHHHhcCCCCHH--HHHHHHcCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHh
Confidence 45688888999999977 5666654 34567778899999999999999999999876 6888888765
No 19
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=83.53 E-value=9.5 Score=27.29 Aligned_cols=45 Identities=16% Similarity=0.148 Sum_probs=35.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHhh
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQ-PCVDFKQVDSHVHQLK 83 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~-~~~D~~~l~~~aH~LK 83 (112)
.++++-+..+....-......+..|..+++. + ||......+.+||
T Consensus 113 ~~d~~~L~~l~~e~~~~~~~~~~~l~~~~~~~~--d~~~A~~~~~kL~ 158 (176)
T PRK03578 113 ARDVDALDALLAELRDERRERYAELGALLDSRG--DDQAAAEAVRQLM 158 (176)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHccc--cHHHHHHHHHHHH
Confidence 3466777777777777778888888988877 7 9999888888877
No 20
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=82.76 E-value=11 Score=26.98 Aligned_cols=45 Identities=11% Similarity=0.283 Sum_probs=32.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
..+++-+..+....-......+..|..++..+ ||+.....+-+||
T Consensus 110 ~~d~~~L~~l~~~v~~~~~~~~~~l~~~~~~~--d~~~A~~~~~rL~ 154 (173)
T PRK01773 110 QQDEDALTAFSKEIKQEQQAILTELSTALNSQ--QWQQASQINDRLR 154 (173)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHH
Confidence 34566666777776667777788888888888 9987777766554
No 21
>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=76.15 E-value=40 Score=27.24 Aligned_cols=80 Identities=13% Similarity=0.223 Sum_probs=52.7
Q ss_pred HHHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHH-HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhh
Q 033767 10 QFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKL-INSMARALEQPCVDFKQVDSHVHQLKGSSSS 88 (112)
Q Consensus 10 ~~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~-l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~ 88 (112)
.+..++..++.+.-+-..+.+|..+ ||.|- +..|++.+... ++.+-.|+..+ |.+.|..++
T Consensus 213 kv~~~~~~lF~ete~a~~l~eIk~~----DPsFd---~~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~l--------- 274 (378)
T TIGR00984 213 KIGGVFSGMFSETEVSEVLTEFKKI----DPTFD---KEHFLRFLREYIVPEILEAYVKG--DLEVLKSWC--------- 274 (378)
T ss_pred hhhhhhhcccCCCHHHHHHHHHHHh----CCCCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhh---------
Confidence 3334444455555555445555544 44442 45788888888 79999999999 999999885
Q ss_pred hChHHHHHHHHHHHHHHHhh
Q 033767 89 IGALRVKNVCIAFRSFCDAQ 108 (112)
Q Consensus 89 lGa~~l~~~c~~lE~~~~~~ 108 (112)
+-......|..+++.-+.|
T Consensus 275 -se~vy~~f~a~I~qr~~~G 293 (378)
T TIGR00984 275 -SEAPFSVYATVVKEYKKMG 293 (378)
T ss_pred -CHHHHHHHHHHHHHHHHCC
Confidence 4455666666666665554
No 22
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=73.11 E-value=29 Score=24.57 Aligned_cols=42 Identities=12% Similarity=0.098 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q 033767 41 DFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKG 84 (112)
Q Consensus 41 ~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKG 84 (112)
..+.++....-.........|..+++.+ ||+.....+-+||=
T Consensus 113 ~~l~~l~~~~~~~~~~~~~~l~~~~~~~--d~~~A~~~~~~Lky 154 (171)
T PRK05014 113 AALESFIKRVKKMFKTRLQQMVEQLDNE--AWDAAADTVRKLKF 154 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhC--CHHHHHHHHHHHHH
Confidence 3466666666666667777788889888 99888888777663
No 23
>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=69.16 E-value=32 Score=23.48 Aligned_cols=47 Identities=15% Similarity=0.141 Sum_probs=38.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGS 85 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGs 85 (112)
.|+++-+..|+.-.-..++..++.+..+++.+ |...+..+.--+.++
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 57888888888888778899999999999999 999888776555443
No 24
>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=66.57 E-value=26 Score=26.49 Aligned_cols=39 Identities=18% Similarity=0.314 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 033767 42 FVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQL 82 (112)
Q Consensus 42 ~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~L 82 (112)
-+.+|++.++.-+...++.+...+..+ +++..+.-++.+
T Consensus 54 t~hQIlEsWi~~a~~LL~ri~~~i~~~--~~ekAa~dc~~v 92 (261)
T PF07014_consen 54 TTHQILESWIHVARKLLERIEERIEAR--DFEKAASDCWIV 92 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcc--cHHHHHhHHHHH
Confidence 467899999999999999999999999 998877776654
No 25
>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=66.38 E-value=18 Score=19.23 Aligned_cols=36 Identities=19% Similarity=0.219 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 033767 43 VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQL 82 (112)
Q Consensus 43 ~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~L 82 (112)
+.+.+..|..+ .....|..|+..+ |-+.+.++...|
T Consensus 2 L~~~~~~~~~~--~L~~~ID~ALd~~--D~e~F~~Ls~eL 37 (37)
T PF08858_consen 2 LDESLREFRKE--QLLELIDEALDNR--DKEWFYELSEEL 37 (37)
T ss_dssp HHHHHHHHHHH--HHHHHHHHHHHTT---HHHHHHHHHHH
T ss_pred hHHHHHHHHHH--HHHHHHHHHHHcC--CHHHHHHHHhhC
Confidence 34455555554 7788899999999 999988887543
No 26
>PF05527 DUF758: Domain of unknown function (DUF758) ; InterPro: IPR008477 This is a family of eukaryotic proteins with unknown function, which are induced by tumour necrosis factor.; PDB: 3F4M_A.
Probab=65.46 E-value=36 Score=24.79 Aligned_cols=65 Identities=18% Similarity=0.311 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHhhhhhccCchHHHHHHHHhhc-cCChHHHHHHHHH---HHHHHHHHHHHHHHHhcCC
Q 033767 4 VSQLQKQFIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASL---FFDDAEKLINSMARALEQP 68 (112)
Q Consensus 4 ~~~l~~~~~~~~~~~~~~~~ld~~f~~l~~L~~-~~~~~~~~~li~~---f~~~~~~~l~~L~~a~~~~ 68 (112)
++++=.+-++.........+-+....++....+ -++|+|+..+... |..........|..+++++
T Consensus 116 L~~~L~ec~~~L~~lv~~HLT~KS~~Ri~~vF~~f~~~efL~~lf~~~~~~~~~L~~i~~~Lnklld~g 184 (186)
T PF05527_consen 116 LSKLLKECRDLLHQLVEPHLTPKSHGRIDHVFNFFSDPEFLDALFSPDEEYRDHLGKICDGLNKLLDEG 184 (186)
T ss_dssp HHHHHHHHHHHHHHHHTTTS-HHHHHHHHHHHHHHT-HHHHHHHTSG--GGHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHhhCChHHHHHHhCcccchHHHHHHHHHHHHHHHhCC
Confidence 455555666666677777777766667777665 5788888888876 6666777777788887776
No 27
>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=60.90 E-value=18 Score=21.38 Aligned_cols=37 Identities=19% Similarity=0.367 Sum_probs=28.5
Q ss_pred HHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 033767 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR 63 (112)
Q Consensus 26 ~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~ 63 (112)
++|.+++++- ..+|+++..++...-.+.+..+..+..
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 5688888876 568888888888888888887777665
No 28
>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=58.14 E-value=17 Score=25.36 Aligned_cols=35 Identities=14% Similarity=0.326 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhC
Q 033767 51 FDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIG 90 (112)
Q Consensus 51 ~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lG 90 (112)
++.+.+.+.+|+..++++ ||..++...| |.++.++
T Consensus 45 i~~~~~r~~eLk~lI~kk--~W~~vrn~ir---gp~g~Lr 79 (142)
T TIGR03042 45 IEAAKDRLPELASLVAKE--DWVFTRNLIH---GPMGEVR 79 (142)
T ss_pred HHHHHHhhHHHHHHHhhc--chHHHHHHHh---ccHHHHH
Confidence 345778899999999999 9999998866 4555444
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=57.84 E-value=45 Score=20.91 Aligned_cols=63 Identities=11% Similarity=0.086 Sum_probs=41.3
Q ss_pred HHHHHhhhhhccCchHHHHHHHHhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHH
Q 033767 11 FIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDS 77 (112)
Q Consensus 11 ~~~~~~~~~~~~~ld~~f~~l~~L~~-~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~ 77 (112)
....+.-+...|++.+. ...++.. ....+-...++...-.-.+.-...+-.|+... .+..++.
T Consensus 18 ~~~v~~~L~~~~Vlt~~--~~e~I~~~~tr~~q~~~LLd~L~~RG~~AF~~F~~aL~~~--~~~~LA~ 81 (84)
T cd08326 18 PKYLWDHLLSRGVFTPD--MIEEIQAAGSRRDQARQLLIDLETRGKQAFPAFLSALRET--GQTDLAE 81 (84)
T ss_pred HHHHHHHHHhcCCCCHH--HHHHHHcCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CchHHHH
Confidence 45567777788888866 5555553 34456677777777777777777777777655 4544443
No 30
>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=57.53 E-value=14 Score=24.74 Aligned_cols=42 Identities=17% Similarity=0.207 Sum_probs=30.5
Q ss_pred HHHhhhhhccCchHHHHHHHHhhc----cCChHHHHHHHHHHHHHH
Q 033767 13 DFSSSLYREGYVDDQFSQLHKLQD----ESSPDFVVEVASLFFDDA 54 (112)
Q Consensus 13 ~~~~~~~~~~~ld~~f~~l~~L~~----~~~~~~~~~li~~f~~~~ 54 (112)
.+...+....+-|..|++|.+|.. ...++.+..++..|+.--
T Consensus 49 r~LD~~LHrCiyDRr~S~L~eL~~~~~l~~~~~~~~~~l~~YL~Rl 94 (113)
T cd07299 49 RTLDAHLHRCIFDRRFSQLLELPPLCEIGDRLQILTPLLSEYLNRL 94 (113)
T ss_pred HHHHHHHHHHHHhhhhhhhhccCccccccchHHHHHHHHHHHHHHH
Confidence 344566677888999999999985 234567888888887643
No 31
>PRK03636 hypothetical protein; Provisional
Probab=56.35 E-value=53 Score=23.71 Aligned_cols=27 Identities=26% Similarity=0.416 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 55 EKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 55 ~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
.+...+|..|++.+ |-+.+.++...||
T Consensus 148 ~~L~~~ID~ALd~~--D~e~F~~Ls~~l~ 174 (179)
T PRK03636 148 EKLLKQIDEALDRR--DKEAFHRLSDELN 174 (179)
T ss_pred HHHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence 47889999999999 9999999988776
No 32
>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=56.21 E-value=13 Score=25.03 Aligned_cols=42 Identities=21% Similarity=0.281 Sum_probs=31.3
Q ss_pred HHHhhhhhccCchHHHHHHHHhhcc----CChHHHHHHHHHHHHHH
Q 033767 13 DFSSSLYREGYVDDQFSQLHKLQDE----SSPDFVVEVASLFFDDA 54 (112)
Q Consensus 13 ~~~~~~~~~~~ld~~f~~l~~L~~~----~~~~~~~~li~~f~~~~ 54 (112)
.+...+....+-|..|++|.+|.+. ..++++..++..|+.--
T Consensus 51 r~LD~~LHrCvyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~Rl 96 (115)
T cd07298 51 RVLDKHLHLCIYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLSRL 96 (115)
T ss_pred HHHHHHHHHHHHhhhhhccccCCCcccccccHHHHHHHHHHHHHHH
Confidence 3455667778889999999999852 25688888888887643
No 33
>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=55.96 E-value=58 Score=21.64 Aligned_cols=50 Identities=8% Similarity=0.153 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhh
Q 033767 47 ASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQ 108 (112)
Q Consensus 47 i~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~ 108 (112)
...|+..+...+..+..|...+ |.+.++.+ ++-.-+..++..+......|
T Consensus 17 ~~~F~~~ak~~f~~i~~A~~~~--D~~~l~~~----------~t~~~~~~~~~~i~~~~~~g 66 (147)
T PF04280_consen 17 PAAFLEEAKEAFLPIQEAWAKG--DLEALRPL----------LTEELYERLQAEIKARRSRG 66 (147)
T ss_dssp HHHHHHHHHHTHHHHHHHHHHT---HHHHHHH----------B-HHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHH----------hCHHHHHHHHHHHHHHHHcC
Confidence 5678888999999999999999 99999887 56666777777777664443
No 34
>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=53.81 E-value=27 Score=18.61 Aligned_cols=35 Identities=17% Similarity=0.231 Sum_probs=24.4
Q ss_pred HHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHH
Q 033767 27 QFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSM 61 (112)
Q Consensus 27 ~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L 61 (112)
.+.+|.++...-+++++...+..+-.+.+..+..|
T Consensus 4 ~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~L 38 (42)
T PF02845_consen 4 MVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDAL 38 (42)
T ss_dssp HHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 45677888878888888888877766666655554
No 35
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=53.72 E-value=94 Score=23.42 Aligned_cols=40 Identities=15% Similarity=0.168 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q 033767 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSS 86 (112)
Q Consensus 46 li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa 86 (112)
++.+-+=++.+.+..+++| +.+||.-+.+-.+||+|-.+-
T Consensus 103 iLtta~fqA~qKLksi~~A-~krpvsSEelIKyAHrIS~~N 142 (272)
T KOG4552|consen 103 ILTTACFQANQKLKSIKEA-EKRPVSSEELIKYAHRISKHN 142 (272)
T ss_pred HHHHHHHHHHHHHHHHHHH-hcCCCCHHHHHHHHHHhhhcc
Confidence 5666666777888888887 556789999999999996543
No 36
>PRK03057 hypothetical protein; Provisional
Probab=52.72 E-value=67 Score=23.21 Aligned_cols=36 Identities=19% Similarity=0.374 Sum_probs=27.6
Q ss_pred HHHHHHHH------HHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 033767 46 VASLFFDD------AEKLINSMARALEQPCVDFKQVDSHVHQLK 83 (112)
Q Consensus 46 li~~f~~~------~~~~l~~L~~a~~~~~~D~~~l~~~aH~LK 83 (112)
.++.|++. -.....++..|++.+ |.+.+.++.+.|+
T Consensus 132 ~ae~~L~~~~~~~~~~~L~~~ID~ALd~~--D~e~F~~Lt~~L~ 173 (180)
T PRK03057 132 ETEQVLDEVLKRNEVSRLRMQIDQALDRK--DMEEFQRLTEKLK 173 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHH
Confidence 34455554 457778899999999 9999888888775
No 37
>PLN02407 diphosphomevalonate decarboxylase
Probab=52.25 E-value=28 Score=27.72 Aligned_cols=33 Identities=18% Similarity=0.187 Sum_probs=28.7
Q ss_pred HHHHHHHHH-HHHHHHHHHHHhcCCCCCHHHHHHHH
Q 033767 45 EVASLFFDD-AEKLINSMARALEQPCVDFKQVDSHV 79 (112)
Q Consensus 45 ~li~~f~~~-~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (112)
.++...++. +++++..++.|+..+ |+..+.+++
T Consensus 223 p~~~~w~~~~~~~~~~~~~~Ai~~~--Df~~~gei~ 256 (343)
T PLN02407 223 PLLQHRAKEVVPKRILQMEEAIKNR--DFASFAKLT 256 (343)
T ss_pred hhHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHH
Confidence 356778888 899999999999999 999998775
No 38
>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=47.59 E-value=19 Score=24.19 Aligned_cols=42 Identities=21% Similarity=0.280 Sum_probs=31.2
Q ss_pred HHHhhhhhccCchHHHHHHHHhhccC----ChHHHHHHHHHHHHHH
Q 033767 13 DFSSSLYREGYVDDQFSQLHKLQDES----SPDFVVEVASLFFDDA 54 (112)
Q Consensus 13 ~~~~~~~~~~~ld~~f~~l~~L~~~~----~~~~~~~li~~f~~~~ 54 (112)
.+...+....+-|..|++|.+|.+.+ .++.+..++..|++--
T Consensus 50 r~LD~~LHrCiyDRr~S~L~eL~~~~~~~~~~~~~~~~l~~YL~Rl 95 (114)
T cd07278 50 RMLDKHLHQCIYDRKFSQLTELPEECIEKREQQNLHQVLSDYLKRL 95 (114)
T ss_pred HHHHHHHHHHHHhhhhhccccCCccccccchHHHHHHHHHHHHHHH
Confidence 34556667788899999999998532 4577888888887643
No 39
>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=47.51 E-value=63 Score=25.98 Aligned_cols=45 Identities=16% Similarity=0.288 Sum_probs=34.6
Q ss_pred HHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 033767 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (112)
Q Consensus 26 ~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (112)
++|.+|+++- ..+|+++..|+...-++.++.++.|.+ |.+.+.++
T Consensus 255 pqf~~lR~~v-q~NP~~L~~lLqql~~~nP~l~q~I~~-------n~e~Fl~l 299 (378)
T TIGR00601 255 PQFQQLRQVV-QQNPQLLPPLLQQIGQENPQLLQQISQ-------HPEQFLQM 299 (378)
T ss_pred HHHHHHHHHH-HHCHHHHHHHHHHHHhhCHHHHHHHHH-------CHHHHHHH
Confidence 5688888876 579999999999888888888777655 55655555
No 40
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=46.58 E-value=46 Score=17.72 Aligned_cols=36 Identities=14% Similarity=0.220 Sum_probs=25.4
Q ss_pred HHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHH
Q 033767 26 DQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSM 61 (112)
Q Consensus 26 ~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L 61 (112)
+.+..|.++...-+++.+...+...-.+....+..|
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~L 39 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNL 39 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 456788888888888888777777666666655544
No 41
>PF14615 Rsa3: Ribosome-assembly protein 3
Probab=44.12 E-value=59 Score=18.32 Aligned_cols=40 Identities=13% Similarity=0.153 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhh
Q 033767 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSS 88 (112)
Q Consensus 46 li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~ 88 (112)
.+....++-.++|.+|+++ +.-.-..+.-++|.||.++..
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 3444445556667777754 311236789999999987754
No 42
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=43.76 E-value=47 Score=27.49 Aligned_cols=66 Identities=18% Similarity=0.086 Sum_probs=55.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhcc
Q 033767 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNR 110 (112)
Q Consensus 39 ~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~~ 110 (112)
.++-....+..|+++.-...-.-..|+... |+. +=|+|-+++-|+|...=.++|+..+.+-++|+.
T Consensus 226 tr~~A~~~L~~Fi~~~L~nFG~yQDam~~d--~~~----L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~i 291 (505)
T COG3046 226 TRTQALRALKHFIADRLPNFGSYQDAMSAD--DPH----LWHSLLSFALNIGLLTPLEVIRAALKAYREGDI 291 (505)
T ss_pred CHHHHHHHHHHHHHHhhhcCCcHHHHHhcC--Cch----hHHHHHHHHhhccCCCHHHHHHHHHHhhccCCC
Confidence 445566788999998877777788888887 765 889999999999999999999999999888653
No 43
>smart00188 IL10 Interleukin-10 family. Interleukin-10 inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells.
Probab=43.58 E-value=1.1e+02 Score=21.22 Aligned_cols=51 Identities=8% Similarity=0.193 Sum_probs=37.4
Q ss_pred hHHHHHHHHHHHHhhhhh-----ccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHH
Q 033767 3 VVSQLQKQFIDFSSSLYR-----EGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAE 55 (112)
Q Consensus 3 ~~~~l~~~~~~~~~~~~~-----~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~ 55 (112)
++..|+.-.++...++.. -.++++. -++++++..+--++.+||.-|++++=
T Consensus 4 ~L~eLR~~f~~Ik~~~q~kD~~~~vll~~~--ll~~~k~~~gC~~l~ell~FYLd~V~ 59 (137)
T smart00188 4 MLRELRAAFSRVKTFFQMKDQLDNILLTES--LLEDFKGYLGCQALSEMIQFYLEEVM 59 (137)
T ss_pred HHHHHHHHHHHHHHHHHccchHhhHhhhHH--HHHHhCCCcchHHHHHHHHHHHHHHH
Confidence 356677766666666422 2356664 88888888899999999999999874
No 44
>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=43.30 E-value=1.6e+02 Score=23.08 Aligned_cols=56 Identities=16% Similarity=0.330 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhh------C--hHHHHHHHHHHHH
Q 033767 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSI------G--ALRVKNVCIAFRS 103 (112)
Q Consensus 46 li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~l------G--a~~l~~~c~~lE~ 103 (112)
.+..|++.......++..++..+ |+..+.++.+.-..--..+ | -..+.+++...++
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 35678888889999999999999 9998877655544444433 3 4455555544443
No 45
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=41.15 E-value=1.3e+02 Score=21.51 Aligned_cols=38 Identities=11% Similarity=0.187 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 033767 43 VVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQL 82 (112)
Q Consensus 43 ~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~L 82 (112)
+..+=..--+...+..++|.++++.+ +|.......-+|
T Consensus 117 l~~lk~q~q~ri~q~~~qlge~~esk--~~~~Al~~i~rl 154 (168)
T KOG3192|consen 117 LKQLKSQNQERIAQCKQQLGEAFESK--KYDEALKKILRL 154 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc--cHHHHHHHHHHH
Confidence 55665666666677778889999999 888766665443
No 46
>KOG2833 consensus Mevalonate pyrophosphate decarboxylase [Lipid transport and metabolism]
Probab=40.26 E-value=58 Score=26.12 Aligned_cols=33 Identities=15% Similarity=0.274 Sum_probs=26.9
Q ss_pred HHHHHHHHH-HHHHHHHHHHHhcCCCCCHHHHHHHH
Q 033767 45 EVASLFFDD-AEKLINSMARALEQPCVDFKQVDSHV 79 (112)
Q Consensus 45 ~li~~f~~~-~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (112)
.++..=+++ .|++|.+|++|+.++ ||+.++++.
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 455555666 689999999999999 999988773
No 47
>PF08637 NCA2: ATP synthase regulation protein NCA2; InterPro: IPR013946 NCA2 (Nuclear Control of ATPase), is one of the two nuclear genes involved in the control of mitochondrial expression of subunits 6 and 8 of the Fo-F1 ATP synthase in Saccharomyces cerevisiae (Baker's yeast). Mutations in either NCA2 or NCA3 (IPR005556 from INTERPRO) dramatically lower the level of the co-transcript encoding subunits 6 and 8 [, ].
Probab=40.02 E-value=1e+02 Score=23.85 Aligned_cols=45 Identities=13% Similarity=0.206 Sum_probs=34.1
Q ss_pred ChHHHHHHHHHHHHHHH----HHHHHHHHHhcCCCCCHHHH-----HHHHHHhhhh
Q 033767 39 SPDFVVEVASLFFDDAE----KLINSMARALEQPCVDFKQV-----DSHVHQLKGS 85 (112)
Q Consensus 39 ~~~~~~~li~~f~~~~~----~~l~~L~~a~~~~~~D~~~l-----~~~aH~LKGs 85 (112)
+.+=+.+|+..|..|.. ..+++|.+.+..+ |...+ .++-|-+||.
T Consensus 73 d~~SLeRMv~dF~~d~~~~~~~~~~~l~~~v~~G--dlt~Vm~~YE~el~~Pik~~ 126 (290)
T PF08637_consen 73 DMESLERMVVDFAKDNSPNMPADLEELRQQVREG--DLTPVMKRYEKELKHPIKNI 126 (290)
T ss_pred HHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHcC--CcHHHHHHHHHHHHhHHHHH
Confidence 44568899999999986 5689999999999 98655 3445555554
No 48
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.89 E-value=5.9 Score=24.66 Aligned_cols=20 Identities=40% Similarity=0.710 Sum_probs=16.9
Q ss_pred HHhhhhhhhhChHHHHHHHH
Q 033767 80 HQLKGSSSSIGALRVKNVCI 99 (112)
Q Consensus 80 H~LKGsa~~lGa~~l~~~c~ 99 (112)
-.||||++-+++..+...|.
T Consensus 27 k~I~GSCGGi~alGi~K~Cd 46 (77)
T COG2991 27 KSIKGSCGGIAALGIEKVCD 46 (77)
T ss_pred cccccccccHHhhccchhcC
Confidence 36899999999998888775
No 49
>TIGR01240 mevDPdecarb diphosphomevalonate decarboxylase. Alternate names: mevalonate diphosphate decarboxylase; pyrophosphomevalonate decarboxylase
Probab=39.83 E-value=59 Score=25.17 Aligned_cols=32 Identities=9% Similarity=0.175 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 033767 46 VASLFFDDAEKLINSMARALEQPCVDFKQVDSHV 79 (112)
Q Consensus 46 li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (112)
.+...+++++..+..+..++.++ |++.+.+++
T Consensus 201 ~~~~~v~~~~~~l~~~~~ai~~~--D~~~~g~~~ 232 (305)
T TIGR01240 201 LFKEWIEHVVPDFEVXRKAIKTK--DFATFGKET 232 (305)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhc--cHHHHHHHH
Confidence 45667778888899999999999 999987765
No 50
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=39.62 E-value=91 Score=27.75 Aligned_cols=71 Identities=7% Similarity=0.126 Sum_probs=50.7
Q ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhccC
Q 033767 36 DESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNRE 111 (112)
Q Consensus 36 ~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~~~ 111 (112)
.+-+.+=|.+++..+.+=..+++.+|.+-.... .-.. ....--+.+.+++...|..+..+||+.+++|+.+
T Consensus 487 ~gAs~eEI~rLm~eLR~A~~~ym~~LAeq~~~~--~~~~---~~p~~~~~~~~~~~~dL~~mmd~ie~la~~G~~~ 557 (820)
T PF13779_consen 487 RGASDEEIARLMQELREAMQDYMQALAEQAQRN--PQQQ---DQPPDQGNSQMMSQQDLQRMMDRIEELARSGRMD 557 (820)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--cccc---cCcccchhhhccCHHHHHHHHHHHHHHHHcCCHH
Confidence 344666688888888888888888887765544 1111 0111246677899999999999999999999865
No 51
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=38.62 E-value=54 Score=21.08 Aligned_cols=28 Identities=11% Similarity=0.275 Sum_probs=23.9
Q ss_pred HHHHHHhhccCChHHHHHHHHHHHHHHH
Q 033767 28 FSQLHKLQDESSPDFVVEVASLFFDDAE 55 (112)
Q Consensus 28 f~~l~~L~~~~~~~~~~~li~~f~~~~~ 55 (112)
|+-|..+-++.-+.|+++.+..|+++..
T Consensus 21 F~FL~~~P~GT~~~~iR~~L~rYI~~~G 48 (97)
T PRK13916 21 FDFLENVPRGTKTAHIREALRRYIEEIG 48 (97)
T ss_pred HHHHHHCCCCCccHHHHHHHHHHHHhcC
Confidence 7778888778889999999999999853
No 52
>COG4997 Uncharacterized conserved protein [Function unknown]
Probab=38.00 E-value=1.1e+02 Score=19.68 Aligned_cols=54 Identities=11% Similarity=0.182 Sum_probs=44.0
Q ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhccC
Q 033767 56 KLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNRE 111 (112)
Q Consensus 56 ~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~~~ 111 (112)
..++++...++.+ +.+.++.+.--+-+-+...|...=.-...+++...+.|.+.
T Consensus 40 KL~EE~~E~ledk--~lEeLadllEvi~~ia~a~gfske~l~~~R~~Kk~e~Ggf~ 93 (95)
T COG4997 40 KLLEEVEEFLEDK--NLEELADLLEVISRIAEARGFSKENLEALRLQKKLEKGGFE 93 (95)
T ss_pred HHHHHHHHHHhcc--cHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCcc
Confidence 4555666677788 89999999999999999999998888888888888777654
No 53
>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=37.48 E-value=1.7e+02 Score=21.68 Aligned_cols=40 Identities=23% Similarity=0.317 Sum_probs=25.7
Q ss_pred cCChHHHHHHH-------HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 033767 37 ESSPDFVVEVA-------SLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (112)
Q Consensus 37 ~~~~~~~~~li-------~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (112)
..+|++..+|+ ...++.....+++++.+++++ |.+.+.++
T Consensus 209 ~~~p~l~~~I~~~N~~~~~~~l~~~~~~L~~l~~~l~~~--d~~~l~~~ 255 (258)
T PF02153_consen 209 SSDPELWADIFLSNPENLLEALDEFIKELNELREALEAG--DEEELEEL 255 (258)
T ss_dssp GS-HHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHTT--SHHHHHHH
T ss_pred cCChHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHH
Confidence 34555555553 233444556677888899999 99988765
No 54
>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=35.87 E-value=95 Score=18.31 Aligned_cols=58 Identities=16% Similarity=0.286 Sum_probs=41.1
Q ss_pred HHHHHHHhhhhhccCchHHHHHHHHhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 033767 9 KQFIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQP 68 (112)
Q Consensus 9 ~~~~~~~~~~~~~~~ld~~f~~l~~L~~-~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~ 68 (112)
.....++..+...+++... ..+.+.. ....+-...+++....-.+.....+-.++...
T Consensus 13 ~~~~~il~~L~~~~vlt~~--e~~~i~~~~~~~~k~~~Lld~l~~kg~~af~~F~~~L~~~ 71 (80)
T cd01671 13 LDVEDVLDHLLSDGVLTEE--EYEKIRSESTRQDKARKLLDILPRKGPKAFQSFLQALQET 71 (80)
T ss_pred ccHHHHHHHHHHcCCCCHH--HHHHHHcCCChHHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence 3566677777888888866 5555553 23567777888888777777777777777665
No 55
>PF01322 Cytochrom_C_2: Cytochrome C'; InterPro: IPR002321 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class II includes the high-spin cytC' and a number of low-spin cytochromes, e.g. cyt c-556. The haem-attachment site is close to the C terminus. The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000-fold smaller than other high-spin haemoproteins []. This, coupled with its relatively low redox potential, makes it unlikely that cytC' is a terminal oxidase. Thus cytC' probably functions as an electron transfer protein []. The 3D structures of a number of cytC' have been determined. The molecule usually exists as a dimer, each monomer folding as a four-alpha-helix bundle incorporating a covalently-bound haem group at the core []. The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0005746 mitochondrial respiratory chain; PDB: 1BBH_A 2J9B_B 2J8W_A 1JAF_B 3ZTM_A 2XLD_A 2XL6_A 1E86_A 2YLD_A 2YKZ_A ....
Probab=35.48 E-value=1.3e+02 Score=19.58 Aligned_cols=40 Identities=13% Similarity=0.144 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhh
Q 033767 47 ASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSS 88 (112)
Q Consensus 47 i~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~ 88 (112)
+..+..........|..+...+ |...+......+.++|..
T Consensus 77 F~~~~~~~~~aa~~L~~aa~~~--d~~~~~~a~~~v~~~C~a 116 (122)
T PF01322_consen 77 FKQLAQAFQKAAAALAAAAKSG--DLAAIKAAFGEVGKSCKA 116 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT--SHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHH
Confidence 3444555556677788888888 999988888777777654
No 56
>COG3923 PriC Primosomal replication protein N'' [DNA replication, recombination, and repair]
Probab=35.12 E-value=1.1e+02 Score=22.04 Aligned_cols=72 Identities=21% Similarity=0.397 Sum_probs=48.4
Q ss_pred hHHHHHHHHHHHHhhhh---hccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 033767 3 VVSQLQKQFIDFSSSLY---REGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHV 79 (112)
Q Consensus 3 ~~~~l~~~~~~~~~~~~---~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (112)
.+..|..++..+.++.. .+.-+-..|+. -|....| .++.-|++++.+.+..|+.+.+.+ -..++.-+|
T Consensus 6 Llq~Le~~l~~L~q~~ap~a~~~~l~aRFd~--~LFs~~g-----~~ls~ylqEa~~tL~aL~~~~e~~--~l~q~afLA 76 (175)
T COG3923 6 LLQKLEQQLAQLRQRCAPVAREATLSARFDR--HLFSENG-----QLLSFYLQEAGQTLTALKQAVEQD--RLPQVAFLA 76 (175)
T ss_pred HHHHHHHHHHHHHHHhhhhhccccHHHhhhH--HHHhhcC-----chHHHHHHHHHHHHHHHHHHHhcc--chHHHHHHH
Confidence 36777777777776654 22223323332 2333333 378899999999999999999998 777788877
Q ss_pred HHhh
Q 033767 80 HQLK 83 (112)
Q Consensus 80 H~LK 83 (112)
-+|-
T Consensus 77 ErLl 80 (175)
T COG3923 77 ERLL 80 (175)
T ss_pred HHHH
Confidence 6664
No 57
>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=34.91 E-value=1.2e+02 Score=19.10 Aligned_cols=64 Identities=11% Similarity=0.142 Sum_probs=37.3
Q ss_pred HHHHHhhhhhccCchHHHHHHHHhhc-cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 033767 11 FIDFSSSLYREGYVDDQFSQLHKLQD-ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (112)
Q Consensus 11 ~~~~~~~~~~~~~ld~~f~~l~~L~~-~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (112)
....+..+...|++.+. ....+.. ....+-...+++..-.-.+.-...+-.|+... .+..++.+
T Consensus 22 ~~~v~~~L~~~gvlt~~--~~~~I~~~~t~~~k~~~Lld~L~~RG~~AF~~F~~aL~~~--~~~~La~l 86 (90)
T cd08332 22 LDELLIHLLQKDILTDS--MAESIMAKPTSFSQNVALLNLLPKRGPRAFSAFCEALRET--SQEHLCDL 86 (90)
T ss_pred HHHHHHHHHHcCCCCHH--HHHHHHcCCCcHHHHHHHHHHHHHhChhHHHHHHHHHHhc--ChHHHHHH
Confidence 33455556667777755 4444443 23445566677776666677777777776654 45555444
No 58
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=34.70 E-value=1.1e+02 Score=18.49 Aligned_cols=49 Identities=14% Similarity=0.308 Sum_probs=29.8
Q ss_pred HHHHHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 033767 8 QKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQ 67 (112)
Q Consensus 8 ~~~~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~ 67 (112)
+.++.++++.+....-+|+. -.+++.++.+.|++++-..--.|.+-=..
T Consensus 2 K~~l~~Lv~~iDp~~~ld~~-----------vee~Ll~laddFv~~v~~~ac~lAKhR~s 50 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDPD-----------VEELLLELADDFVDDVVSFACRLAKHRKS 50 (68)
T ss_dssp HHHHHHHHHCC-SS----HH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred hHHHHHHHHHcCCCCCCCHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 45677777777555555543 23577788888998887777666665333
No 59
>PRK08818 prephenate dehydrogenase; Provisional
Probab=33.58 E-value=1.4e+02 Score=23.90 Aligned_cols=40 Identities=13% Similarity=0.127 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhh
Q 033767 42 FVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSS 87 (112)
Q Consensus 42 ~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~ 87 (112)
.+.+.++.|. +.+.++++++.++ |++.+.+..|++.-+-.
T Consensus 228 ~i~~~l~~~~----~~L~~l~~~i~~~--D~~~~~~~~~~f~~a~~ 267 (370)
T PRK08818 228 YVGEMLDRLL----AQLQELRALVAQG--DDAARARFRAQFLHANA 267 (370)
T ss_pred HHHHHHHHHH----HHHHHHHHHHHcC--CHHHHHHHHHHHHHHHh
Confidence 3444444444 5567788888999 99999998777765544
No 60
>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=32.78 E-value=1.2e+02 Score=27.15 Aligned_cols=72 Identities=10% Similarity=0.179 Sum_probs=51.2
Q ss_pred hhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHHHHHHHhhccC
Q 033767 34 LQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAFRSFCDAQNRE 111 (112)
Q Consensus 34 L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~lE~~~~~~~~~ 111 (112)
|+.+-+++=|.+|+..+.+-..+++.+|.+-..+.+ +-.. -..-+.+.+++-..|.++..+||+..++|+.+
T Consensus 516 L~~gAsdeEI~~Lm~eLR~Am~~ym~~LAeq~~~~~-~~~~-----~~~~~~~~~l~~~dLq~Mmd~ieela~~G~~~ 587 (851)
T TIGR02302 516 LERGASDEEIKQLTDKLRAAMQTYMRQLAQQLRNNP-QQLA-----RPLDPNTKVLRQQDLQNMMDQIENLARSGDRD 587 (851)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhCc-cccc-----ccCCccccccCHHHHHHHHHHHHHHHHcCCHH
Confidence 334556677889999998888898888887655431 1000 11123457789999999999999999999865
No 61
>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=32.77 E-value=1.7e+02 Score=20.35 Aligned_cols=61 Identities=13% Similarity=0.150 Sum_probs=48.2
Q ss_pred HHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhC
Q 033767 28 FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIG 90 (112)
Q Consensus 28 f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lG 90 (112)
+..|..|-+..+.-+++..|..=..+...++..|...+-.. |-.++.+++-.|++.-..+.
T Consensus 52 ~~eLk~lI~kk~W~~vrn~irgp~g~Lr~dl~~l~~sl~p~--dqk~a~~L~~~Lf~~L~~LD 112 (142)
T TIGR03042 52 LPELASLVAKEDWVFTRNLIHGPMGEVRREMTYLNQSLLPK--DQKEALALAKELKDDLEKLD 112 (142)
T ss_pred hHHHHHHHhhcchHHHHHHHhccHHHHHHHHHHHHHccCHH--hHHHHHHHHHHHHHHHHHHH
Confidence 44566666677888888888888888888888888888777 88899999888877766554
No 62
>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=32.28 E-value=79 Score=18.94 Aligned_cols=57 Identities=18% Similarity=0.212 Sum_probs=35.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHH
Q 033767 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIA 100 (112)
Q Consensus 39 ~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~ 100 (112)
+++.+.+++...++...+.+.. .. +.=. +|-..+..++.. |....+||.++...-..
T Consensus 2 ~~~~l~~I~~~~l~~l~~~l~~-~~-i~l~-~~~~~~~~l~~~--~~~~~~GAR~l~r~i~~ 58 (81)
T PF10431_consen 2 SEEDLEKIADLQLKKLNERLKE-KG-IELE-FDDAVVDYLAEK--GYDPEYGARPLRRIIER 58 (81)
T ss_dssp -HHHHHHHHHSHHHHHHHHHHH-TT-EEEE-E-HHHHHHHHHH--HHHTTTTTTCHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHH-CC-CeEE-ecHHHHHHHHHh--CcccCCCHHHHHHHHHH
Confidence 4566778888888887777765 22 2221 244445555443 67788999998877654
No 63
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=32.06 E-value=1.7e+02 Score=20.44 Aligned_cols=48 Identities=17% Similarity=0.241 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHH------HHhhhhhhhhChHHHHHHHHHHHH
Q 033767 54 AEKLINSMARALEQPCVDFKQVDSHV------HQLKGSSSSIGALRVKNVCIAFRS 103 (112)
Q Consensus 54 ~~~~l~~L~~a~~~~~~D~~~l~~~a------H~LKGsa~~lGa~~l~~~c~~lE~ 103 (112)
+...+.+|.+++..+ ||+....+= |.=..+.=.+|..+|...++.+..
T Consensus 90 v~~~L~~L~~aL~~~--d~~~A~~Ih~~L~t~h~~E~~~WmvGVKRLI~~~r~~~~ 143 (157)
T PF07304_consen 90 VVDKLHQLAQALQAR--DYDAADEIHVDLMTDHVDECGNWMVGVKRLIAMARNLPP 143 (157)
T ss_dssp HHHHHHHHHHHHHHT---HHHHHHHHHHHHHSSHHHHTTTHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHcC--CHHHHHHHHHHHHhccHHHhhhHHHHHHHHHHHHHhcCc
Confidence 456677888888888 887654331 222344556888888888888754
No 64
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=30.99 E-value=1.3e+02 Score=23.08 Aligned_cols=45 Identities=18% Similarity=0.242 Sum_probs=29.3
Q ss_pred HHHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHh
Q 033767 10 QFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARAL 65 (112)
Q Consensus 10 ~~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~ 65 (112)
.+.++++.+.....||+. -.+++.+|.+.|+++.-...-.|.+--
T Consensus 159 kl~dLvqqId~~~~LD~d-----------VedlLleiADdFV~sii~~sC~LAKHR 203 (258)
T KOG1142|consen 159 KLDDLVQQIDGTTKLDDD-----------VEDLLLEIADDFVSSIIHRSCKLAKHR 203 (258)
T ss_pred chhHHHHhhcCcccccHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455666666555555543 346777888888888777766666643
No 65
>PF09209 DUF1956: Domain of unknown function (DUF1956); InterPro: IPR015292 This entry represents the C-terminal domain found in the hypothetical transcriptional regulator YbiH from bacteria such as Salmonella typhimurium and Escherichia coli. YbiH is a member of the TetR (tetracycline resistance) transcriptional regulator family of proteins. The C-terminal domains of YbiH and TetR share a multi-helical, interlocking structure.; PDB: 1T33_A.
Probab=29.46 E-value=1.5e+02 Score=18.71 Aligned_cols=54 Identities=6% Similarity=-0.005 Sum_probs=37.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChH
Q 033767 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGAL 92 (112)
Q Consensus 39 ~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~ 92 (112)
..+.+..++..++.-..+.+..|-..+...+.|-..+...+|++=|-+..+...
T Consensus 36 Pt~~~~~i~~~~~~P~~~~l~~ll~~~~g~~~~~~~~~~~~~si~g~~~~~~~~ 89 (125)
T PF09209_consen 36 PTPAFDRIVEELIRPKHEALARLLAEILGEPADDPEVRLCAFSIVGQCLFFRIA 89 (125)
T ss_dssp --HHHHHHHHHTHHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHHHHHHHT
T ss_pred chHHHHHHHHHHhhhHHHHHHHHHHHHhCcCCChHHHHHHHHHHHHHHHHHHHh
Confidence 346678888888887777777776665555456788999999999988665443
No 66
>PRK07417 arogenate dehydrogenase; Reviewed
Probab=29.27 E-value=1.4e+02 Score=22.22 Aligned_cols=27 Identities=7% Similarity=0.352 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 033767 51 FDDAEKLINSMARALEQPCVDFKQVDSHV 79 (112)
Q Consensus 51 ~~~~~~~l~~L~~a~~~~~~D~~~l~~~a 79 (112)
+++..+.+.+++.+++.+ |.+.+.+..
T Consensus 241 l~~~~~~l~~~~~~l~~~--d~~~l~~~~ 267 (279)
T PRK07417 241 LASYRQSLDQLEELIEQE--NWSALEQKL 267 (279)
T ss_pred HHHHHHHHHHHHHHHHcC--CHHHHHHHH
Confidence 334445577788888888 887766553
No 67
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=28.62 E-value=54 Score=24.64 Aligned_cols=52 Identities=13% Similarity=0.256 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHH
Q 033767 49 LFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIA 100 (112)
Q Consensus 49 ~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~ 100 (112)
.|++-+++....+-+.+..|.|+.+.-.+..--|+.-|--++...|+++|..
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 3666677777777777776655555555555566777777888888888887
No 68
>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=27.98 E-value=2.9e+02 Score=21.48 Aligned_cols=66 Identities=17% Similarity=0.229 Sum_probs=47.9
Q ss_pred HHHHhhccCChHHHHHHHHHHH-HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHH
Q 033767 30 QLHKLQDESSPDFVVEVASLFF-DDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIA 100 (112)
Q Consensus 30 ~l~~L~~~~~~~~~~~li~~f~-~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~ 100 (112)
.+..|-..+.......|...|. .+-.=..-.++.....+ +|+++...+-.=| +-||-.++.+.|..
T Consensus 183 Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~--~w~eL~~fa~skK---sPIGyepFv~~~~~ 249 (319)
T PF04840_consen 183 TIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENK--DWDELEKFAKSKK---SPIGYEPFVEACLK 249 (319)
T ss_pred HHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcC--CHHHHHHHHhCCC---CCCChHHHHHHHHH
Confidence 4444444555666777777774 33344556788888999 9999999997644 35999999999975
No 69
>PF05168 HEPN: HEPN domain; InterPro: IPR007842 The HEPN (higher eukaryotes and prokaryotes nucleotide-binding) domain is a region of 110 residues found in the C terminus of sacsin, a chaperonin implicated in an early-onset neurodegenerative disease in human, and in many bacterial and archeabacterial proteins. There are three classes of proteins with HEPN domain: Single-domain HEPN proteins found in many bacteria. Two-domain proteins with N-terminal nucleotidyltransferase (NT) and C- terminal HEPN domains. This N-terminal NT domain belongs to a large family of NTs, which includes several classes of enzymes that are responsible for some types of bacterial resistance to aminoglycosides. These enzymes deactivate various antibiotics by transferring a nucleotidyl group to the drug. A multidomain sacsin protein in genomes of fish and mammals. The HEPN domain is located at the C terminus of the protein, directly after the DnaJ domain (see PDOC00553 from PROSITEDOC). The crystal structure of the HEPN domain from the TM0613 protein of Thermotoga maritima indicates that it is structurally similar to the C-terminal all- alpha-helical domain of kanamycin nucleotidyltransferases (KNTases). It is composed of five alpha helices, three of which form an up- and-down helical bundle, with a pair of short helices on the side. The distant structural similarity suggests that the HEPN domain might be involved in nucleotide binding [].; PDB: 1O3U_A 1WOL_A 3O10_D 2HSB_A 1UFB_A.
Probab=27.94 E-value=1.5e+02 Score=18.21 Aligned_cols=31 Identities=19% Similarity=0.244 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 033767 48 SLFFDDAEKLINSMARALEQPCVDFKQVDSHVH 80 (112)
Q Consensus 48 ~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH 80 (112)
..|++.+...+...+..++.+ ++......+|
T Consensus 2 ~~~~~~A~~~l~~A~~~~~~~--~~~~a~~~a~ 32 (118)
T PF05168_consen 2 QDWLEKAEEDLKAAEILLEEG--DYNWAVFHAY 32 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT---HHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHCC--CHHHHHHHHH
Confidence 456777778888888888877 7776666654
No 70
>PRK10093 primosomal replication protein N''; Provisional
Probab=27.57 E-value=1.8e+02 Score=20.93 Aligned_cols=70 Identities=19% Similarity=0.306 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHhhhhh---ccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 033767 4 VSQLQKQFIDFSSSLYR---EGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVH 80 (112)
Q Consensus 4 ~~~l~~~~~~~~~~~~~---~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH 80 (112)
+..|+.++..+.+-... .+.+-+-|+. .|....+ ..+.-|+.+....+..|..+...+ +...+.-++=
T Consensus 3 L~~L~~qi~~L~~~~~p~~~~~~~~~rFD~--~LF~~~s-----~~L~~yl~Ei~~~l~qL~~~~~~~--~~~~~~flaE 73 (171)
T PRK10093 3 LEKLEGQLATLRQRCAPLAQHATLSARFDR--HLFQTRS-----TLLQAYLDEAGDNLAALRHAVEQQ--QLPQVAWLAE 73 (171)
T ss_pred HHHHHHHHHHHHHHhhhhccccccccchhH--HHHccCC-----cchHHHHHHHHHHHHHHHHHHhcC--cHHHHHHHHH
Confidence 56777777766554422 2222222222 2332222 367889999999999999999998 8877776654
Q ss_pred Hh
Q 033767 81 QL 82 (112)
Q Consensus 81 ~L 82 (112)
+|
T Consensus 74 kL 75 (171)
T PRK10093 74 HL 75 (171)
T ss_pred HH
Confidence 44
No 71
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.55 E-value=1.7e+02 Score=24.28 Aligned_cols=66 Identities=15% Similarity=0.370 Sum_probs=37.0
Q ss_pred HHHHHHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHH-HHHHHHHHHhcCCCCCHHHHHHHHHH
Q 033767 7 LQKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAE-KLINSMARALEQPCVDFKQVDSHVHQ 81 (112)
Q Consensus 7 l~~~~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~-~~l~~L~~a~~~~~~D~~~l~~~aH~ 81 (112)
+++.+.+.+..++..--..+++.++..+. |.|-. +.|+.+++ ..+.++-+|+-.+ |.+.+...||.
T Consensus 284 vtdki~~~~~g~fsktE~Sev~tei~~iD----PsF~~---~~Flr~~ee~IiPnVLeAyvkG--D~evLK~wcse 350 (459)
T KOG2580|consen 284 VTDKITDVDGGLFSKTEMSEVLTEIKKID----PSFDK---EDFLRECEEYIIPNVLEAYVKG--DLEVLKKWCSE 350 (459)
T ss_pred HHHhhhhcccccchhhHHHHHHHHHHhcC----CCCCc---HHHHHHHHHhhhHHHHHHHHhc--cHHHHHHHHhh
Confidence 44444444444444433334444444443 33321 23444554 4455688899999 99999888874
No 72
>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)
Probab=27.50 E-value=3.1e+02 Score=21.78 Aligned_cols=66 Identities=9% Similarity=0.151 Sum_probs=51.1
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh-hhhhChHHHHHHHHHHHHH
Q 033767 37 ESSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGS-SSSIGALRVKNVCIAFRSF 104 (112)
Q Consensus 37 ~~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGs-a~~lGa~~l~~~c~~lE~~ 104 (112)
..|.+.+..+-+-|.--....+.....++... ||....++.+.|... ++......+..+|.....|
T Consensus 114 ~~Gte~l~~~~~p~~~~~~~~~~~a~~l~n~~--~y~aA~~~l~~l~~rl~~~~~~~~~~~l~~~y~~W 180 (379)
T PF09670_consen 114 IPGTERLRELENPYEVFGDREWRRAKELFNRY--DYGAAARILEELLRRLPGREEYQRYKDLCEGYDAW 180 (379)
T ss_pred cCcchhhhhcCCHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHhCCchhhHHHHHHHHHHHHHH
Confidence 35667777777677666778888899999999 999999998888876 5555567788888877655
No 73
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=27.00 E-value=2.3e+02 Score=20.08 Aligned_cols=21 Identities=24% Similarity=0.339 Sum_probs=18.3
Q ss_pred CCCCHHHHHHHHHHhhhhhhh
Q 033767 68 PCVDFKQVDSHVHQLKGSSSS 88 (112)
Q Consensus 68 ~~~D~~~l~~~aH~LKGsa~~ 88 (112)
.+||++.|-.+||+|-.....
T Consensus 79 ~~v~~~eLL~YA~rISk~t~~ 99 (188)
T PF10018_consen 79 RPVDYEELLSYAHRISKFTSA 99 (188)
T ss_pred CCCCHHHHHHHHHHHHHhcCC
Confidence 378999999999999887766
No 74
>PF11277 Med24_N: Mediator complex subunit 24 N-terminal; InterPro: IPR021429 This subunit of the Mediator complex appears to be conserved only from insects to humans. It is essential for correct retinal development in fish. Subunit composition of the mediator contributes to the control of differentiation in the vertebrate CNS as there are divergent functions of the mediator subunits Crsp34/Med27, Trap100/Med24, and Crsp150/Med14 [].
Probab=24.66 E-value=2.8e+02 Score=25.45 Aligned_cols=49 Identities=12% Similarity=0.220 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhhhhhccCchH-HHHHHHHhhccCCh-HHHHHHHHHHHHH
Q 033767 5 SQLQKQFIDFSSSLYREGYVDD-QFSQLHKLQDESSP-DFVVEVASLFFDD 53 (112)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~ld~-~f~~l~~L~~~~~~-~~~~~li~~f~~~ 53 (112)
+++.+++...+....+.|++|. .+..+..|...||+ -|+..++...+..
T Consensus 705 ~p~~E~l~~~f~~~~~~Gw~~~~~~~~~d~ll~~gG~~W~~~~lvkelLk~ 755 (990)
T PF11277_consen 705 TPILEQLRSVFSAARQRGWLDIRAIQLFDSLLNMGGVFWFCTNLVKELLKE 755 (990)
T ss_pred CchHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 3567899999999999999995 46677777766665 4444666655444
No 75
>PF02203 TarH: Tar ligand binding domain homologue; InterPro: IPR003122 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the ligand-binding domain found in a number of methyl-accepting chemotaxis receptors.; GO: 0004888 transmembrane signaling receptor activity, 0006935 chemotaxis, 0007165 signal transduction, 0016020 membrane; PDB: 2ASR_A 3ATP_A 2D4U_A 2LIG_A 1VLS_A 1LIH_A 1WAT_B 1VLT_B 1WAS_A 1JMW_A.
Probab=24.32 E-value=2.2e+02 Score=18.90 Aligned_cols=39 Identities=13% Similarity=0.129 Sum_probs=27.5
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 033767 38 SSPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQVDSH 78 (112)
Q Consensus 38 ~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~l~~~ 78 (112)
.+.+...++...|-.=....+..+..++..+ |+..+.++
T Consensus 110 ~~~~l~~~~~~~~~~~~~~~l~~~~~al~~~--d~~~~~~~ 148 (171)
T PF02203_consen 110 EERALADELEASFDAYLQQALDPLLAALRAG--DIAAFMQL 148 (171)
T ss_dssp GGHHHHHHHHHHHHH-HHHHHHHHHHHHHTT---HHHHHHS
T ss_pred chHHHHHHHHHHHHHHHHHhHHHHHHHHHCC--CHHHHHHH
Confidence 4567777777777765667778888888888 88877655
No 76
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=24.00 E-value=3.6e+02 Score=21.23 Aligned_cols=62 Identities=10% Similarity=0.072 Sum_probs=37.2
Q ss_pred cCChHHHHHHHHH------HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhChHHHHHHHHHH
Q 033767 37 ESSPDFVVEVASL------FFDDAEKLINSMARALEQPCVDFKQVDSHVHQLKGSSSSIGALRVKNVCIAF 101 (112)
Q Consensus 37 ~~~~~~~~~li~~------f~~~~~~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa~~lGa~~l~~~c~~l 101 (112)
.++|++..+|+.. -+++-...+.++..+++++ |.+.+.++.-+-|..=+.. ..+....|..+
T Consensus 297 ~~~p~lw~dI~~~N~~~~~~l~~~~~~l~~l~~~l~~~--d~~~l~~~~~~a~~~~~~~-~~~~~~~~~~~ 364 (374)
T PRK11199 297 AQDPQLYADIIMSSPENLALIKRYYQRFGEALELLEQG--DKQAFIDSFRKVEHWFGDY-AEQFLKESRSL 364 (374)
T ss_pred cCCHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHhhh-hHHHHHHHHHH
Confidence 4566666665532 1344456677788889999 9999888876655543322 23334444443
No 77
>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=23.78 E-value=2e+02 Score=18.14 Aligned_cols=30 Identities=3% Similarity=0.117 Sum_probs=16.9
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 033767 38 SSPDFVVEVASLFFDDAEKLINSMARALEQP 68 (112)
Q Consensus 38 ~~~~~~~~li~~f~~~~~~~l~~L~~a~~~~ 68 (112)
|+.+-+..+++.|.+....+ +.|...+...
T Consensus 7 GG~~~i~~lv~~FY~~i~~d-p~i~~~F~~~ 36 (116)
T cd00454 7 GGEEAIRALVDRFYARVAAD-PRLGPIFPAD 36 (116)
T ss_pred CCHHHHHHHHHHHHHHHhcC-hHHHHhcCCc
Confidence 45556666666666665543 3455555444
No 78
>PF13628 DUF4142: Domain of unknown function (DUF4142)
Probab=23.63 E-value=2.3e+02 Score=18.75 Aligned_cols=50 Identities=14% Similarity=0.124 Sum_probs=40.6
Q ss_pred HHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHH-HhcCCCCCHHHHHHHH
Q 033767 28 FSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR-ALEQPCVDFKQVDSHV 79 (112)
Q Consensus 28 f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~-a~~~~~~D~~~l~~~a 79 (112)
=..+..|....|++|-...+...+..-.+.+..++. ....+ +-..++..+
T Consensus 72 ~~~l~~L~~~~g~~FD~~yl~~~i~~h~~~l~~~~~~~~~~~--~~~~lk~~a 122 (139)
T PF13628_consen 72 QAELDRLQKLSGSAFDRAYLDAQIKAHEKALALFEKQLAASG--KDPELKAFA 122 (139)
T ss_pred HHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccC--CCHHHHHHH
Confidence 346777777778999999999999999999999998 77776 667777665
No 79
>COG4865 Glutamate mutase epsilon subunit [Amino acid transport and metabolism]
Probab=23.05 E-value=43 Score=27.16 Aligned_cols=42 Identities=17% Similarity=0.238 Sum_probs=35.1
Q ss_pred HHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHH
Q 033767 14 FSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAE 55 (112)
Q Consensus 14 ~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~ 55 (112)
+.|+.....+||+.+.-|+.|.+.|..+|+...|+.|-+++.
T Consensus 62 l~Qpragv~lLdehielL~tl~eeGqADlLp~tIDSyTR~N~ 103 (485)
T COG4865 62 LSQPRAGVALLDEHIELLKTLQEEGQADLLPSTIDSYTRLNR 103 (485)
T ss_pred ecccccCcchHHHHHHHHHHHHHhccccccchhhhhhhhhhh
Confidence 445566678999999999999999999999999999987753
No 80
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=22.80 E-value=1.9e+02 Score=17.65 Aligned_cols=49 Identities=14% Similarity=0.319 Sum_probs=31.3
Q ss_pred HHHHhhccCChHHHHHHHHHHHHHH-HHHHHHHHHH-hcCCCCCHHHHHHHH
Q 033767 30 QLHKLQDESSPDFVVEVASLFFDDA-EKLINSMARA-LEQPCVDFKQVDSHV 79 (112)
Q Consensus 30 ~l~~L~~~~~~~~~~~li~~f~~~~-~~~l~~L~~a-~~~~~~D~~~l~~~a 79 (112)
-|..|-.+.+++-+++-+...+.+. +..|..+++. ++.| ++.+.+.++|
T Consensus 5 ii~~Lh~G~~~e~vk~~F~~~~~~Vs~~EI~~~Eq~Li~eG-~~~eeiq~LC 55 (71)
T PF04282_consen 5 IIKRLHEGEDPEEVKEEFKKLFSDVSASEISAAEQELIQEG-MPVEEIQKLC 55 (71)
T ss_pred HHHHHhCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcC-CCHHHHHHHh
Confidence 4566666777777766666555554 5666666664 4444 5777777765
No 81
>PRK08582 hypothetical protein; Provisional
Probab=22.65 E-value=1.5e+02 Score=20.13 Aligned_cols=28 Identities=25% Similarity=0.320 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 033767 41 DFVVEVASLFFDDAEKLINSMARALEQP 68 (112)
Q Consensus 41 ~~~~~li~~f~~~~~~~l~~L~~a~~~~ 68 (112)
.-+...+..|+.++.+.+++|+.-.+.+
T Consensus 103 ~~fe~~l~~flk~s~~~~~~l~~~~~~~ 130 (139)
T PRK08582 103 EDFEQKMSRFLKDSEDRLTSIKRNTESK 130 (139)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 3467899999999999999998765543
No 82
>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (IPR000719 from INTERPRO) at their N terminus []. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release. ; GO: 0004683 calmodulin-dependent protein kinase activity, 0005516 calmodulin binding, 0006468 protein phosphorylation; PDB: 2W2C_F 3H51_B 3SOA_A 2UX0_A 1HKX_M 2F86_B.
Probab=22.48 E-value=58 Score=22.11 Aligned_cols=26 Identities=12% Similarity=0.120 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 033767 53 DAEKLINSMARALEQPCVDFKQVDSHVH 80 (112)
Q Consensus 53 ~~~~~l~~L~~a~~~~~~D~~~l~~~aH 80 (112)
+..+..+.+..++..+ |++.+.++.+
T Consensus 4 eI~~l~~~w~~ai~tg--D~~~~~~ly~ 29 (128)
T PF08332_consen 4 EIAALFDRWNDAIQTG--DPETYAKLYA 29 (128)
T ss_dssp HHHHHHHHHHHHHHHT---HHHHHHHEE
T ss_pred HHHHHHHHHHHHHHcC--CHHHHhhhcC
Confidence 4556777888899999 9999988753
No 83
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=22.45 E-value=2.9e+02 Score=19.50 Aligned_cols=58 Identities=12% Similarity=0.048 Sum_probs=45.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHHhhhhhhhhChHHHHHHHHH
Q 033767 39 SPDFVVEVASLFFDDAEKLINSMARALEQPCVDFKQ-VDSHVHQLKGSSSSIGALRVKNVCIA 100 (112)
Q Consensus 39 ~~~~~~~li~~f~~~~~~~l~~L~~a~~~~~~D~~~-l~~~aH~LKGsa~~lGa~~l~~~c~~ 100 (112)
..++-..++..++.+ ....+|.+..... .... ..-..|-+++|+..+|-.+.+-.|..
T Consensus 12 ~~d~~~sl~~qgild--~qF~qlq~lqD~~--~p~fv~ev~~~fF~~s~~~i~~~r~ald~~~ 70 (150)
T KOG4747|consen 12 VSDYTKSLFDQGILD--SQFLQLQELQDDS--SPDFVEEVVGLFFEDSERLINNLRLALDCER 70 (150)
T ss_pred HHHHHHHHHHHHhhH--HHHHHHHHHhccc--CccHHHHHHHHHHHHHHHHHHHHHHHHhhHh
Confidence 456777888888888 7788888887776 4433 35678999999999999998888875
No 84
>PF04400 DUF539: Protein of unknown function (DUF539); InterPro: IPR007495 This is a family of putative periplasmic proteins.
Probab=22.36 E-value=9 Score=21.61 Aligned_cols=18 Identities=39% Similarity=0.820 Sum_probs=13.6
Q ss_pred HhhhhhhhhChHHHHHHH
Q 033767 81 QLKGSSSSIGALRVKNVC 98 (112)
Q Consensus 81 ~LKGsa~~lGa~~l~~~c 98 (112)
.||||++-||+..+-..|
T Consensus 7 ~I~GSCGGl~~lGi~~~C 24 (45)
T PF04400_consen 7 PIKGSCGGLGALGIDKEC 24 (45)
T ss_pred cccccchhhhhcCCCccC
Confidence 589999999887665444
No 85
>PF07393 Sec10: Exocyst complex component Sec10; InterPro: IPR009976 This family contains the Sec10 component (approximately 650 residues long) of the eukaryotic exocyst complex, which specifically affects the synthesis and delivery of secretory and basolateral plasma membrane proteins [].; GO: 0006887 exocytosis, 0048278 vesicle docking, 0005737 cytoplasm
Probab=22.21 E-value=3.3e+02 Score=23.45 Aligned_cols=46 Identities=13% Similarity=0.138 Sum_probs=36.2
Q ss_pred ChHHHHHHHHHHHHHHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh
Q 033767 39 SPDFVVEVASLFFDDAE-KLINSMARALEQPCVDFKQVDSHVHQLKGSS 86 (112)
Q Consensus 39 ~~~~~~~li~~f~~~~~-~~l~~L~~a~~~~~~D~~~l~~~aH~LKGsa 86 (112)
+-....+-|..|.+.-+ ..|.++..++..+ |+..+++.|+.|-.--
T Consensus 96 ~~~~~~~~I~~~~e~fE~~LL~eFe~ay~~~--d~~~M~~~A~vL~~fn 142 (710)
T PF07393_consen 96 GFEEARENIEKYCEIFENALLREFEIAYREG--DYERMKEFAKVLLEFN 142 (710)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHcC
Confidence 44556778888888874 7889999999999 9999988887765433
No 86
>PF08822 DUF1804: Protein of unknown function (DUF1804); InterPro: IPR014926 This entry is represented by Bacteriophage D3112, Orf24. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.86 E-value=3.1e+02 Score=19.61 Aligned_cols=53 Identities=11% Similarity=0.077 Sum_probs=39.2
Q ss_pred HHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHH
Q 033767 11 FIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMAR 63 (112)
Q Consensus 11 ~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~ 63 (112)
.++|...-...|=.+...-.-..|..++=.+..+.++..|+-+....+++|+.
T Consensus 36 arrWK~~Ak~~GDDWDk~RaA~~laggg~e~v~~~~l~~f~~Q~~~tmeel~~ 88 (165)
T PF08822_consen 36 ARRWKREAKAKGDDWDKARAAHTLAGGGIEDVARQMLEDFVVQYQATMEELKE 88 (165)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46777777777844444334455655556788999999999999999999984
No 87
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=21.68 E-value=1.2e+02 Score=24.85 Aligned_cols=30 Identities=23% Similarity=0.341 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhhhhhhhhChHHHHHHHHHH
Q 033767 72 FKQVDSHVHQLKGSSSSIGALRVKNVCIAF 101 (112)
Q Consensus 72 ~~~l~~~aH~LKGsa~~lGa~~l~~~c~~l 101 (112)
.+.+++.|-.+-...-|+||.+|+.....+
T Consensus 374 I~~iAeiA~~vN~~~ENIGARRLhTvlErl 403 (444)
T COG1220 374 IKRIAEIAYQVNEKTENIGARRLHTVLERL 403 (444)
T ss_pred HHHHHHHHHHhcccccchhHHHHHHHHHHH
Confidence 468899999999999999999999987765
No 88
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=20.42 E-value=1.8e+02 Score=18.19 Aligned_cols=20 Identities=20% Similarity=0.277 Sum_probs=10.9
Q ss_pred HHHHHHHHHhhhhhccCchH
Q 033767 7 LQKQFIDFSSSLYREGYVDD 26 (112)
Q Consensus 7 l~~~~~~~~~~~~~~~~ld~ 26 (112)
|+.+|..+..-+.+..-+|+
T Consensus 2 L~~~L~~L~~eL~~~~~ld~ 21 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPLDE 21 (85)
T ss_pred HHHHHHHHHHHHhcCCCCCH
Confidence 55555555555555555553
No 89
>smart00040 CSF2 Granulocyte-macrophage colony-simulating factor (GM-CSF). GM-CSF stimulates the development of and the cytotoxic activity of white blood cells.
Probab=20.20 E-value=2.6e+02 Score=18.81 Aligned_cols=60 Identities=7% Similarity=0.135 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhhhhhccCchHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 033767 5 SQLQKQFIDFSSSLYREGYVDDQFSQLHKLQDESSPDFVVEVASLFFDDAEKLINSMARA 64 (112)
Q Consensus 5 ~~l~~~~~~~~~~~~~~~~ld~~f~~l~~L~~~~~~~~~~~li~~f~~~~~~~l~~L~~a 64 (112)
.|.++-++-+-+|-.-....|+..+.+.++.+...|.-++.-+..|.+-.+..+..|+.+
T Consensus 17 dAIkEAlsLLn~s~dt~a~mnEtVeVVSe~Fd~qeptClQtRL~LYkqGLrGslt~Lkg~ 76 (121)
T smart00040 17 DAIKEALSLLNDSRDTAAVMNETVEVVSEMFDLQEPTCLQTRLKLYKQGLRGSLTKLKGP 76 (121)
T ss_pred HHHHHHHHHHhcCCchHhHhcchHHHHHhccCCCCCcHHHHHHHHHHhhccccHHHhhcH
Confidence 345555554444444445566666677777666666667666777766665555555443
Done!