Query 043077
Match_columns 150
No_of_seqs 128 out of 392
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 12:36:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043077.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043077hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4747 Two-component phosphor 100.0 3.5E-30 7.5E-35 191.8 14.6 144 3-147 5-149 (150)
2 COG2198 ArcB FOG: HPt domain [ 99.7 1.2E-15 2.7E-20 110.4 11.5 104 27-133 11-117 (122)
3 PF01627 Hpt: Hpt domain; Int 99.7 8.3E-16 1.8E-20 103.6 8.7 83 44-128 1-89 (90)
4 smart00073 HPT Histidine Phosp 99.5 1.8E-14 4E-19 97.4 5.4 85 44-131 2-86 (87)
5 cd00088 HPT Histidine Phosphot 99.4 1E-12 2.2E-17 90.5 8.0 66 43-108 2-69 (94)
6 TIGR02956 TMAO_torS TMAO reduc 99.4 2.8E-12 6E-17 118.2 10.9 94 36-133 875-968 (968)
7 PRK11091 aerobic respiration c 99.1 7.5E-10 1.6E-14 100.7 11.6 104 33-138 674-777 (779)
8 PRK10618 phosphotransfer inter 98.9 6E-09 1.3E-13 97.4 9.8 84 41-126 808-891 (894)
9 PRK11466 hybrid sensory histid 98.6 1.8E-07 3.9E-12 86.2 10.0 89 37-136 820-908 (914)
10 PRK11107 hybrid sensory histid 98.6 5.4E-07 1.2E-11 82.7 11.8 97 37-135 821-918 (919)
11 PRK10547 chemotaxis protein Ch 97.9 8.8E-05 1.9E-09 67.9 10.1 66 43-108 4-78 (670)
12 COG0643 CheA Chemotaxis protei 97.9 9.7E-05 2.1E-09 68.1 9.8 91 40-130 4-103 (716)
13 PRK09959 hybrid sensory histid 96.8 0.031 6.7E-07 53.5 13.5 95 38-134 1098-1193(1197)
14 PRK15347 two component system 96.4 0.01 2.2E-07 54.8 7.4 61 45-109 838-898 (921)
15 TIGR00984 3a0801s03tim44 mitoc 77.8 15 0.00032 32.0 8.0 82 8-108 212-294 (378)
16 KOG4747 Two-component phosphor 73.7 37 0.00081 25.8 8.6 102 38-144 12-115 (150)
17 TIGR02302 aProt_lowcomp conser 69.5 45 0.00097 32.1 9.6 83 39-127 522-604 (851)
18 PF13779 DUF4175: Domain of un 67.3 46 0.001 31.8 9.2 82 40-126 492-573 (820)
19 cd08323 CARD_APAF1 Caspase act 63.6 43 0.00093 22.8 6.3 66 10-79 16-82 (86)
20 KOG0796 Spliceosome subunit [R 62.2 99 0.0021 26.3 10.5 73 40-121 83-159 (319)
21 PF06160 EzrA: Septation ring 61.9 1.2E+02 0.0027 27.3 15.2 138 3-143 138-307 (560)
22 COG3046 Uncharacterized protei 61.2 14 0.00031 32.7 4.4 86 29-120 217-304 (505)
23 COG0497 RecN ATPase involved i 60.6 1.4E+02 0.003 27.4 12.4 80 4-83 167-256 (557)
24 PF14276 DUF4363: Domain of un 60.1 16 0.00035 25.9 3.9 49 78-131 18-66 (121)
25 PRK03636 hypothetical protein; 51.2 50 0.0011 25.7 5.6 38 43-82 131-174 (179)
26 PF04280 Tim44: Tim44-like dom 51.0 60 0.0013 23.3 5.8 55 38-107 12-66 (147)
27 PF03670 UPF0184: Uncharacteri 51.0 48 0.001 22.7 4.8 38 104-141 30-67 (83)
28 PF07743 HSCB_C: HSCB C-termin 50.0 68 0.0015 20.7 6.5 29 92-120 39-67 (78)
29 PF04722 Ssu72: Ssu72-like pro 49.9 21 0.00045 28.3 3.2 38 86-123 146-183 (195)
30 PRK03057 hypothetical protein; 49.3 56 0.0012 25.5 5.6 37 44-82 131-173 (180)
31 COG2603 Predicted ATPase [Gene 48.3 76 0.0016 27.0 6.5 81 41-125 242-326 (334)
32 PF03194 LUC7: LUC7 N_terminus 48.0 1.5E+02 0.0033 24.1 10.3 71 43-121 85-160 (254)
33 KOG2424 Protein involved in tr 47.7 30 0.00065 27.3 3.8 35 85-124 147-181 (195)
34 PRK15178 Vi polysaccharide exp 45.8 1.3E+02 0.0028 26.7 7.9 122 7-135 183-307 (434)
35 PF03847 TFIID_20kDa: Transcri 45.6 39 0.00085 22.0 3.6 46 7-63 2-47 (68)
36 KOG1142 Transcription initiati 43.2 32 0.0007 28.3 3.5 47 8-65 158-204 (258)
37 KOG3232 Vacuolar assembly/sort 42.5 99 0.0021 24.3 5.9 41 93-133 95-135 (203)
38 PF03993 DUF349: Domain of Unk 42.1 56 0.0012 20.8 4.0 30 94-123 37-66 (77)
39 KOG2580 Mitochondrial import i 42.1 48 0.001 29.4 4.6 68 4-80 282-350 (459)
40 PF08900 DUF1845: Domain of un 41.4 1.7E+02 0.0037 23.2 7.4 59 83-142 32-90 (217)
41 PF13326 PSII_Pbs27: Photosyst 40.6 1.5E+02 0.0033 22.1 7.1 85 45-130 45-145 (145)
42 PF09280 XPC-binding: XPC-bind 40.1 43 0.00093 21.3 3.1 36 26-62 9-44 (59)
43 TIGR02719 repress_PhaQ poly-be 39.9 73 0.0016 23.7 4.7 40 109-148 92-131 (138)
44 PF02845 CUE: CUE domain; Int 39.1 53 0.0011 18.8 3.2 35 26-60 4-38 (42)
45 TIGR00714 hscB Fe-S protein as 38.9 1.6E+02 0.0036 22.0 6.6 78 38-134 76-153 (157)
46 COG2991 Uncharacterized protei 38.8 8 0.00017 25.9 -0.5 20 79-98 27-46 (77)
47 PF05396 Phage_T7_Capsid: Phag 38.8 1.6E+02 0.0034 21.7 6.4 33 95-127 62-94 (123)
48 smart00188 IL10 Interleukin-10 38.6 1.5E+02 0.0033 22.1 6.2 28 28-55 33-60 (137)
49 TIGR03044 PS_II_psb27 photosys 36.5 1.4E+02 0.003 22.4 5.6 88 44-132 32-134 (135)
50 PF08858 IDEAL: IDEAL domain; 36.0 79 0.0017 18.0 3.5 27 53-81 11-37 (37)
51 PRK01356 hscB co-chaperone Hsc 35.5 1.6E+02 0.0034 22.4 6.1 54 70-132 107-160 (166)
52 PF12854 PPR_1: PPR repeat 35.1 38 0.00082 18.5 2.0 21 99-119 13-33 (34)
53 PLN00061 photosystem II protei 34.4 1.1E+02 0.0023 23.3 4.8 58 19-80 29-87 (150)
54 COG5490 Uncharacterized conser 33.4 2.2E+02 0.0047 21.7 7.8 97 38-136 24-124 (158)
55 smart00388 HisKA His Kinase A 32.9 98 0.0021 17.6 6.5 57 73-137 5-61 (66)
56 PF01535 PPR: PPR repeat; Int 32.5 65 0.0014 16.0 2.6 23 99-121 6-28 (31)
57 PF14493 HTH_40: Helix-turn-he 32.2 1.5E+02 0.0031 19.8 5.0 38 38-76 51-88 (91)
58 COG2956 Predicted N-acetylgluc 31.5 3.5E+02 0.0076 23.6 8.4 73 70-142 84-156 (389)
59 PF11827 DUF3347: Protein of u 31.4 2.4E+02 0.0051 21.5 8.3 80 40-129 44-127 (174)
60 TIGR00756 PPR pentatricopeptid 31.0 78 0.0017 15.9 2.9 22 100-121 7-28 (35)
61 TIGR03761 ICE_PFL4669 integrat 30.4 2.8E+02 0.0062 22.1 7.0 55 85-140 32-86 (216)
62 PF09403 FadA: Adhesion protei 30.4 1.5E+02 0.0032 21.8 5.0 11 82-92 11-21 (126)
63 PF05227 CHASE3: CHASE3 domain 30.2 1.9E+02 0.004 20.0 6.7 29 36-65 35-63 (138)
64 PF07818 HCNGP: HCNGP-like pro 30.1 1.2E+02 0.0026 21.1 4.3 42 4-49 11-53 (96)
65 PHA02666 hypothetical protein; 29.4 55 0.0012 26.6 2.7 53 37-93 202-258 (287)
66 PF13812 PPR_3: Pentatricopept 29.3 88 0.0019 15.9 3.2 22 100-121 8-29 (34)
67 PF08747 DUF1788: Domain of un 28.9 2.1E+02 0.0046 20.8 5.6 82 12-104 9-90 (126)
68 cd07298 PX_RICS The phosphoino 28.6 67 0.0014 23.3 2.8 40 13-52 52-95 (115)
69 PLN02407 diphosphomevalonate d 28.3 93 0.002 26.7 4.1 32 45-78 224-256 (343)
70 PF10845 DUF2576: Protein of u 28.2 70 0.0015 19.5 2.4 16 4-19 14-29 (48)
71 COG1220 HslU ATP-dependent pro 27.6 80 0.0017 27.7 3.6 34 71-104 374-408 (444)
72 PRK13916 plasmid segregation p 26.0 95 0.0021 21.5 3.1 27 27-53 21-47 (97)
73 PF05957 DUF883: Bacterial pro 25.6 2.1E+02 0.0046 19.1 7.0 67 72-139 8-74 (94)
74 PF08581 Tup_N: Tup N-terminal 24.9 1.5E+02 0.0034 19.9 4.0 22 112-133 2-23 (79)
75 PF03981 Ubiq_cyt_C_chap: Ubiq 24.7 1.4E+02 0.003 21.3 4.1 57 27-86 21-79 (141)
76 smart00546 CUE Domain that may 24.6 1.2E+02 0.0027 17.2 3.1 35 26-60 5-39 (43)
77 PF08657 DASH_Spc34: DASH comp 24.3 3.3E+02 0.0071 22.4 6.5 62 72-133 134-199 (259)
78 PF00435 Spectrin: Spectrin re 23.4 2E+02 0.0044 18.1 7.1 43 92-135 59-101 (105)
79 COG4865 Glutamate mutase epsil 22.9 50 0.0011 28.8 1.5 38 16-53 65-102 (485)
80 KOG2833 Mevalonate pyrophospha 22.8 1.4E+02 0.003 25.8 4.1 30 46-77 224-254 (395)
81 PRK04778 septation ring format 21.5 6.1E+02 0.013 22.9 14.3 132 2-136 141-304 (569)
82 PRK03578 hscB co-chaperone Hsc 21.2 3.8E+02 0.0083 20.5 6.5 76 38-132 93-169 (176)
83 PF02847 MA3: MA3 domain; Int 21.1 2.7E+02 0.0059 18.7 5.8 47 6-52 1-48 (113)
84 cd00225 API3 Ascaris pepsin in 20.4 1.1E+02 0.0024 23.3 2.8 43 43-88 36-78 (159)
85 PRK10698 phage shock protein P 20.4 4.4E+02 0.0095 20.9 7.2 22 44-65 27-48 (222)
86 PF00619 CARD: Caspase recruit 20.3 2.5E+02 0.0054 17.9 5.7 55 10-66 18-73 (85)
87 PRK08582 hypothetical protein; 20.3 1.6E+02 0.0035 21.6 3.6 27 39-66 103-129 (139)
88 PRK10265 chaperone-modulator p 20.0 2.4E+02 0.0051 19.5 4.3 23 114-136 78-100 (101)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.97 E-value=3.5e-30 Score=191.81 Aligned_cols=144 Identities=38% Similarity=0.572 Sum_probs=136.9
Q ss_pred hhHHHHHHHHHHHHHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 043077 3 GTSLQQELNNFVRSLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLR 82 (150)
Q Consensus 3 ~~~l~~~~~~~~~~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LK 82 (150)
+.+|+.+...|.+|+|++|++|.+|.+|++|+++..|+|+.+++..|++|+++.|..++.|+..+. |+.+++.+.|.||
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 468999999999999999999999999999999999999999999999999999999999999763 9999999999999
Q ss_pred ccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhchh-hhhhhhcc
Q 043077 83 GASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILNLGRQ-ILALQRGQ 147 (150)
Q Consensus 83 GSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q-~~~~~~~~ 147 (150)
|||++|||.++..+|..+..+|+.++.++|...+++++.||..++.+|++|.+++|| +..+|++.
T Consensus 84 gssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~rq~i~~~~~~n 149 (150)
T KOG4747|consen 84 GSSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLERQEILAAGGTN 149 (150)
T ss_pred CchhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 999999999999999999999999999999999999999999999999999999999 55555443
No 2
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.66 E-value=1.2e-15 Score=110.39 Aligned_cols=104 Identities=24% Similarity=0.442 Sum_probs=89.5
Q ss_pred HHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhh
Q 043077 27 FDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDD 106 (150)
Q Consensus 27 ~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~ 106 (150)
+..+..+.. +.|+++.+++..|+++++..+..++.++..+ |+..+.+.||+||||++|+|+.+|+.+|.++|..++.
T Consensus 11 ~~~~~~~~g-~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~ 87 (122)
T COG2198 11 IELLVRLIG-GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRS 87 (122)
T ss_pred HHHHHHHcC-CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHc
Confidence 334444433 5699999999999999999999999999976 7899999999999999999999999999999999998
Q ss_pred -cCHHHHHHHHHHHHHH--HHHHHHHHHHH
Q 043077 107 -KDKERCNEILQRIVEE--YQTLHVNLAHI 133 (150)
Q Consensus 107 -~~~~~~~~~l~~l~~e--f~~~~~~L~~~ 133 (150)
...+....++..++.+ ...+...+.++
T Consensus 88 ~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~ 117 (122)
T COG2198 88 GASLEELEELIAELKDELQLDVLALELLTY 117 (122)
T ss_pred CCcHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence 6899999999999999 55555444444
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=99.65 E-value=8.3e-16 Score=103.59 Aligned_cols=83 Identities=23% Similarity=0.476 Sum_probs=71.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHh---cCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHH---HHHHHH
Q 043077 44 EVINLFTRDAENAITQARDSL---QEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKER---CNEILQ 117 (150)
Q Consensus 44 ~li~~Fl~d~~~~l~~L~~Al---~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~---~~~~l~ 117 (150)
++++.|++++++.+..|+.++ .. .|++.+++.+|+|||+++++|+.++..+|..+|..++.++... +...++
T Consensus 1 ell~~f~~~~~~~~~~l~~~~~~~~~--~d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~ 78 (90)
T PF01627_consen 1 ELLDIFLEEAPEDLEQLEQALQALEQ--EDWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLD 78 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSSHH--CHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhH--hhHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence 579999999999999999999 54 4899999999999999999999999999999999999998888 555555
Q ss_pred HHHHHHHHHHH
Q 043077 118 RIVEEYQTLHV 128 (150)
Q Consensus 118 ~l~~ef~~~~~ 128 (150)
.|...++++++
T Consensus 79 ~l~~~l~~l~~ 89 (90)
T PF01627_consen 79 ELEAMLEQLRQ 89 (90)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhC
Confidence 55555555443
No 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=99.52 E-value=1.8e-14 Score=97.45 Aligned_cols=85 Identities=21% Similarity=0.350 Sum_probs=73.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHH
Q 043077 44 EVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEY 123 (150)
Q Consensus 44 ~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef 123 (150)
+++..|+++.++.+..|+.++.. .|+..+++.+|+||||++|+|+.+|..+|..+|...+... ++...++..+...|
T Consensus 2 e~~~~f~~~~~~~l~~l~~~~~~--~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~-~~~~~~~~~l~~~~ 78 (87)
T smart00073 2 EELAEFLQSLEEGLLELEKALDA--QDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR-SGEVELTPDLLDLL 78 (87)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCH--hHHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHH
Confidence 67899999999999999999975 4899999999999999999999999999999999988644 33446777788877
Q ss_pred HHHHHHHH
Q 043077 124 QTLHVNLA 131 (150)
Q Consensus 124 ~~~~~~L~ 131 (150)
..+...|.
T Consensus 79 ~~~~~~l~ 86 (87)
T smart00073 79 LELVDVLK 86 (87)
T ss_pred HHHHHHHc
Confidence 77776653
No 5
>cd00088 HPT Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is modulated by phosphorylation and dephosphorylation of a conserved aspartic acid residue; two-component proteins are abundant in most eubacteria; In E. coli there are 62 two-component proteins involved in a variety of processes such as chemotaxis, osmoregulation, metabolism and transport 1; also present in both Gram positive and Gram negative pathogenic bacteria where they regulate basic housekeeping functions and control expression of toxins and other proteins important for pathogenesis; in archaea and eukaryotes, two-component pathways constitute a very small number of all signaling systems; in fungi they mediate environmental stress responses and, in pathogenic yeast, hyphal development. In Dictyostelium and in plants, they are i
Probab=99.41 E-value=1e-12 Score=90.51 Aligned_cols=66 Identities=27% Similarity=0.481 Sum_probs=59.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhcC--CCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcC
Q 043077 43 TEVINLFTRDAENAITQARDSLQE--PSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKD 108 (150)
Q Consensus 43 ~~li~~Fl~d~~~~l~~L~~Al~~--~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~ 108 (150)
.+++..|+++.+..+..|..++.+ .+.|+..++..+|+||||++++|+.+|..+|..+|..++.+.
T Consensus 2 ~~l~~~f~~~~~~~l~~l~~~~~~~~~~~d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~lE~~~~~~~ 69 (94)
T cd00088 2 EELLELFLEEAEELLEELERALLELEDAEDLNEIFRAAHTLKGSAASLGLQRLAQLAHQLEDLLDALR 69 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhHHhcCChHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999999981 124899999999999999999999999999999999998763
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=99.38 E-value=2.8e-12 Score=118.19 Aligned_cols=94 Identities=15% Similarity=0.221 Sum_probs=87.7
Q ss_pred cCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHH
Q 043077 36 DQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEI 115 (150)
Q Consensus 36 ~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~ 115 (150)
..+++.+.+++..|+++.+..+..|..++..+ |+..+++.+|.|||+++++||.+++.+|+.||..++.|+. ....
T Consensus 875 ~~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~--~~~~ 950 (968)
T TIGR02956 875 VLGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGAL--ELSD 950 (968)
T ss_pred hcCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCc--chhH
Confidence 35788999999999999999999999999875 8999999999999999999999999999999999999988 4578
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 043077 116 LQRIVEEYQTLHVNLAHI 133 (150)
Q Consensus 116 l~~l~~ef~~~~~~L~~~ 133 (150)
++.|+..|..++.+|++|
T Consensus 951 ~~~l~~~~~~~~~~l~~~ 968 (968)
T TIGR02956 951 IDEIKQAWQASKTALDQW 968 (968)
T ss_pred HHHHHHHHHHHHHHHHhC
Confidence 999999999999999875
No 7
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.10 E-value=7.5e-10 Score=100.69 Aligned_cols=104 Identities=13% Similarity=0.210 Sum_probs=95.1
Q ss_pred hhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHH
Q 043077 33 IQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERC 112 (150)
Q Consensus 33 L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~ 112 (150)
+.+..+++.+.+.+..|.+..+..+..|..++..+ |...+...+|+|||+++++|+..++.+|..+|.....+.++..
T Consensus 674 ~~~~~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~ 751 (779)
T PRK11091 674 YVELVGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAWWDNV 751 (779)
T ss_pred HHHhcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccccHHHH
Confidence 33334667888999999999999999999999875 8999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhch
Q 043077 113 NEILQRIVEEYQTLHVNLAHILNLGR 138 (150)
Q Consensus 113 ~~~l~~l~~ef~~~~~~L~~~l~~~~ 138 (150)
..++++++.+|+....+|++|++..+
T Consensus 752 ~~~~~~l~~~~~~~~~~~~~~~~~~~ 777 (779)
T PRK11091 752 QDWVEELKNEWRHDVEVLKAWLAQAE 777 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999997653
No 8
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=98.91 E-value=6e-09 Score=97.44 Aligned_cols=84 Identities=17% Similarity=0.289 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHH
Q 043077 41 FVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIV 120 (150)
Q Consensus 41 f~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~ 120 (150)
+...++..|++..|.-+..|..++.++ |+..+...||.|||+++++|...++.+|..||..++.++..++...+.+|.
T Consensus 808 ~~s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~~i~~~i~~id 885 (894)
T PRK10618 808 HASDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEPGIENYISDID 885 (894)
T ss_pred hhhhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChHHHHHHHHHHH
Confidence 334567899999999999999999975 899999999999999999999999999999999999999999999999998
Q ss_pred HHHHHH
Q 043077 121 EEYQTL 126 (150)
Q Consensus 121 ~ef~~~ 126 (150)
..+.++
T Consensus 886 ~~v~~l 891 (894)
T PRK10618 886 SFVKSL 891 (894)
T ss_pred HHHHHH
Confidence 877654
No 9
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.63 E-value=1.8e-07 Score=86.20 Aligned_cols=89 Identities=22% Similarity=0.215 Sum_probs=72.5
Q ss_pred CCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHH
Q 043077 37 QSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEIL 116 (150)
Q Consensus 37 ~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l 116 (150)
.+++.+.+++..|.++++..+..++.+...+ |+..+++.||.|||+++++|+.++..+|.++|..+...
T Consensus 820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~~~--------- 888 (914)
T PRK11466 820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPLSA--------- 888 (914)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCCc---------
Confidence 4667788999999999999999999999865 89999999999999999999999999999999975422
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 043077 117 QRIVEEYQTLHVNLAHILNL 136 (150)
Q Consensus 117 ~~l~~ef~~~~~~L~~~l~~ 136 (150)
..+..++.+...+|+.|+..
T Consensus 889 ~~~~~~~~~~~~~~~~~~~~ 908 (914)
T PRK11466 889 PLPHEEITRSVAALEAWLAK 908 (914)
T ss_pred hhHHHHHHHHHHHHHHHHHh
Confidence 12344555555566666554
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.59 E-value=5.4e-07 Score=82.72 Aligned_cols=97 Identities=15% Similarity=0.293 Sum_probs=84.6
Q ss_pred CCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhc-CHHHHHHH
Q 043077 37 QSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDK-DKERCNEI 115 (150)
Q Consensus 37 ~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~-~~~~~~~~ 115 (150)
+.++...+++..|+++.+..+..|..++... |...++..+|++||+++++|+.++..+|..+|...+.+ ..+.....
T Consensus 821 ~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~ 898 (919)
T PRK11107 821 GKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGTSVEDLEPE 898 (919)
T ss_pred CCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCChhhHHHH
Confidence 4567888999999999999999999999865 78999999999999999999999999999999998876 46777777
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 043077 116 LQRIVEEYQTLHVNLAHILN 135 (150)
Q Consensus 116 l~~l~~ef~~~~~~L~~~l~ 135 (150)
+..+..++.++...++++++
T Consensus 899 ~~~~~~~~~~~~~~~~~~~~ 918 (919)
T PRK11107 899 LLELLDEMENVARAAKKVLS 918 (919)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 77788888888887777653
No 11
>PRK10547 chemotaxis protein CheA; Provisional
Probab=97.90 E-value=8.8e-05 Score=67.93 Aligned_cols=66 Identities=12% Similarity=0.276 Sum_probs=54.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHHh---cCCCCCH---HHHHHHHHHhhccccccCHHHHHHHHHHHHHh---hhhcC
Q 043077 43 TEVINLFTRDAENAITQARDSL---QEPSVDY---DKLIAAVHQLRGASSSIGGCRVALACRELRSA---IDDKD 108 (150)
Q Consensus 43 ~~li~~Fl~d~~~~l~~L~~Al---~~~~~D~---~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~ 108 (150)
.+++..|++++.++|+.|+..+ +..+.|. ..+-+.+|+|||+|+.+|-..+..+|-.+|.. .|.|.
T Consensus 4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~lld~vR~g~ 78 (670)
T PRK10547 4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLLDEARRGE 78 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHHHHHHCCC
Confidence 4789999999999999999886 3433454 46788999999999999999999999999987 35553
No 12
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.87 E-value=9.7e-05 Score=68.08 Aligned_cols=91 Identities=21% Similarity=0.376 Sum_probs=66.0
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHh---cCCCCCHH---HHHHHHHHhhccccccCHHHHHHHHHHHHHh---hhhcCHH
Q 043077 40 LFVTEVINLFTRDAENAITQARDSL---QEPSVDYD---KLIAAVHQLRGASSSIGGCRVALACRELRSA---IDDKDKE 110 (150)
Q Consensus 40 df~~~li~~Fl~d~~~~l~~L~~Al---~~~~~D~~---~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~ 110 (150)
+-..++...|++++++++..|..++ ..++.|.+ .+.+.||+|||+++.+|...+.++|-.+|.. .++|..+
T Consensus 4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~~ 83 (716)
T COG0643 4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGELE 83 (716)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCcc
Confidence 3456889999999999999999865 33334544 6689999999999999999999999999985 5666544
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 043077 111 RCNEILQRIVEEYQTLHVNL 130 (150)
Q Consensus 111 ~~~~~l~~l~~ef~~~~~~L 130 (150)
--..++..+-...+.....+
T Consensus 84 ~~~~l~d~~l~~~D~l~~~~ 103 (716)
T COG0643 84 LTSELLDLLLEALDALEEML 103 (716)
T ss_pred CcHHHHHHHhhhhHHHHHHH
Confidence 33444444444333333333
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=96.80 E-value=0.031 Score=53.50 Aligned_cols=95 Identities=16% Similarity=0.257 Sum_probs=74.4
Q ss_pred CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcC-HHHHHHHH
Q 043077 38 SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKD-KERCNEIL 116 (150)
Q Consensus 38 ~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~-~~~~~~~l 116 (150)
......+++..+...+...+..+..+...+ |...++..+|.+||++..+|+..+...|.++|......+ .+....++
T Consensus 1098 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~~~~l~~~~ 1175 (1197)
T PRK09959 1098 DLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDSKPEILQLL 1175 (1197)
T ss_pred CHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCchHHHHHHH
Confidence 446778889999999999998888888876 789999999999999999999999999999998876544 34455556
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 043077 117 QRIVEEYQTLHVNLAHIL 134 (150)
Q Consensus 117 ~~l~~ef~~~~~~L~~~l 134 (150)
..+..........+..++
T Consensus 1176 ~~~~~~~~~~~~~~~~~~ 1193 (1197)
T PRK09959 1176 NSVKEHIAELDQEIAVFC 1193 (1197)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 666655555555555544
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.44 E-value=0.01 Score=54.83 Aligned_cols=61 Identities=15% Similarity=0.250 Sum_probs=51.3
Q ss_pred HHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCH
Q 043077 45 VINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDK 109 (150)
Q Consensus 45 li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~ 109 (150)
+-..+.+.....+..+..++..+ | .+++.+|.+||+++++|+.++...|.++|...+.+..
T Consensus 838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~ 898 (921)
T PRK15347 838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEI 898 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCC
Confidence 44555566778888888888864 3 9999999999999999999999999999999877653
No 15
>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=77.82 E-value=15 Score=31.97 Aligned_cols=82 Identities=9% Similarity=0.115 Sum_probs=58.9
Q ss_pred HHHHHHHHHHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHH-HHHHHHHhcCCCCCHHHHHHHHHHhhcccc
Q 043077 8 QELNNFVRSLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENA-ITQARDSLQEPSVDYDKLIAAVHQLRGASS 86 (150)
Q Consensus 8 ~~~~~~~~~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~-l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa 86 (150)
..+..++.+||.+.=+-..+.+++.+ +|+|- +..|+..+... +..|-.|...| |.+.|+.++
T Consensus 212 dkv~~~~~~lF~ete~a~~l~eIk~~----DPsFd---~~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~l-------- 274 (378)
T TIGR00984 212 DKIGGVFSGMFSETEVSEVLTEFKKI----DPTFD---KEHFLRFLREYIVPEILEAYVKG--DLEVLKSWC-------- 274 (378)
T ss_pred hhhhhhhhcccCCCHHHHHHHHHHHh----CCCCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhh--------
Confidence 34444555566666666667777766 47776 78899999999 69999999986 889999884
Q ss_pred ccCHHHHHHHHHHHHHhhhhcC
Q 043077 87 SIGGCRVALACRELRSAIDDKD 108 (150)
Q Consensus 87 ~iGA~~l~~~c~~lE~~~~~~~ 108 (150)
+-......|..++...+.|.
T Consensus 275 --se~vy~~f~a~I~qr~~~G~ 294 (378)
T TIGR00984 275 --SEAPFSVYATVVKEYKKMGV 294 (378)
T ss_pred --CHHHHHHHHHHHHHHHHCCC
Confidence 44566667777777766663
No 16
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=73.69 E-value=37 Score=25.77 Aligned_cols=102 Identities=11% Similarity=0.130 Sum_probs=68.5
Q ss_pred CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHH-HHHhhhhc-CHHHHHHH
Q 043077 38 SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRE-LRSAIDDK-DKERCNEI 115 (150)
Q Consensus 38 ~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~-lE~~~~~~-~~~~~~~~ 115 (150)
-.+|-..++..++.| ..+.+|.+-.....+|+ -..-..|.||+|+.-||-.+.+--|.. .-...... -+.|....
T Consensus 12 ~~d~~~sl~~qgild--~qF~qlq~lqD~~~p~f-v~ev~~~fF~~s~~~i~~~r~ald~~~d~k~~~~~~hqlkgssss 88 (150)
T KOG4747|consen 12 VSDYTKSLFDQGILD--SQFLQLQELQDDSSPDF-VEEVVGLFFEDSERLINNLRLALDCERDFKKLGSHVHQLKGSSSS 88 (150)
T ss_pred HHHHHHHHHHHHhhH--HHHHHHHHHhcccCccH-HHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHccCchhh
Confidence 347888888888888 78889999887655554 345678999999999999999999985 22222222 24444444
Q ss_pred HHHHHHHHHHHHHHHHHHHHhchhhhhhh
Q 043077 116 LQRIVEEYQTLHVNLAHILNLGRQILALQ 144 (150)
Q Consensus 116 l~~l~~ef~~~~~~L~~~l~~~~q~~~~~ 144 (150)
+..++ ...++..++.|-+.....|+.+
T Consensus 89 IGa~k--vk~~c~~~~~~~~~~n~egcvr 115 (150)
T KOG4747|consen 89 IGALK--VKKVCVGFNEFCEAGNIEGCVR 115 (150)
T ss_pred hhHHH--HHHHHHHHHHHHhhccchhHhh
Confidence 44443 2445666666666665555543
No 17
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=69.46 E-value=45 Score=32.06 Aligned_cols=83 Identities=7% Similarity=0.142 Sum_probs=56.9
Q ss_pred chHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHH
Q 043077 39 PLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQR 118 (150)
Q Consensus 39 ~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~ 118 (150)
++=+.+|++.+-+-..+++.+|.+...+++ +-.. -..-+.+.+++-.-|...-..||+.+++|+.+.+.++|++
T Consensus 522 deEI~~Lm~eLR~Am~~ym~~LAeq~~~~~-~~~~-----~~~~~~~~~l~~~dLq~Mmd~ieela~~G~~~~A~qlL~q 595 (851)
T TIGR02302 522 DEEIKQLTDKLRAAMQTYMRQLAQQLRNNP-QQLA-----RPLDPNTKVLRQQDLQNMMDQIENLARSGDRDQAKQLLSQ 595 (851)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhCc-cccc-----ccCCccccccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 344556666666666666666665554321 1000 1112235779999999999999999999999999999999
Q ss_pred HHHHHHHHH
Q 043077 119 IVEEYQTLH 127 (150)
Q Consensus 119 l~~ef~~~~ 127 (150)
+++=.+..+
T Consensus 596 lq~mmenlq 604 (851)
T TIGR02302 596 LQQMMNNLQ 604 (851)
T ss_pred HHHHHHHHh
Confidence 888666555
No 18
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=67.31 E-value=46 Score=31.81 Aligned_cols=82 Identities=5% Similarity=0.110 Sum_probs=53.1
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHH
Q 043077 40 LFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRI 119 (150)
Q Consensus 40 df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l 119 (150)
+=+.++++..-+-..++|..|.+....++ +.. ..+.--+.+.+++..-|...-.+||+.+++|+.+.+.++|+++
T Consensus 492 eEI~rLm~eLR~A~~~ym~~LAeq~~~~~-~~~----~~p~~~~~~~~~~~~dL~~mmd~ie~la~~G~~~~A~q~L~ql 566 (820)
T PF13779_consen 492 EEIARLMQELREAMQDYMQALAEQAQRNP-QQQ----DQPPDQGNSQMMSQQDLQRMMDRIEELARSGRMDEARQLLEQL 566 (820)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHhCc-ccc----cCcccchhhhccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 33445555555555555555555444321 100 0011135566899999999999999999999999999999988
Q ss_pred HHHHHHH
Q 043077 120 VEEYQTL 126 (150)
Q Consensus 120 ~~ef~~~ 126 (150)
++-.+..
T Consensus 567 q~mmenm 573 (820)
T PF13779_consen 567 QQMMENM 573 (820)
T ss_pred HHHHHhc
Confidence 7655433
No 19
>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=63.55 E-value=43 Score=22.82 Aligned_cols=66 Identities=14% Similarity=0.208 Sum_probs=46.8
Q ss_pred HHHHHHHHhhhccchhH-HHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 043077 10 LNNFVRSLREQGILDHN-FDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVH 79 (150)
Q Consensus 10 ~~~~~~~~~d~g~lD~~-~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH 79 (150)
...++..|+.+|++++. .+.++.-. ...+=...||++-..-++.-......|+... .|+.|.++.|
T Consensus 16 v~~ild~L~~~gvlt~~~~e~I~~~~--t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~ 82 (86)
T cd08323 16 TSYIMDHMISDGVLTLDEEEKVKSKA--TQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLH 82 (86)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHcCC--ChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHh
Confidence 45578889999999986 66666632 3345567778888888888888888888642 3666666554
No 20
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=62.22 E-value=99 Score=26.33 Aligned_cols=73 Identities=16% Similarity=0.277 Sum_probs=47.1
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhcCC---CCCHHHHH-HHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHH
Q 043077 40 LFVTEVINLFTRDAENAITQARDSLQEP---SVDYDKLI-AAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEI 115 (150)
Q Consensus 40 df~~~li~~Fl~d~~~~l~~L~~Al~~~---~~D~~~l~-~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~ 115 (150)
+|+ +.|..|+.|+...+..+++-++.. ..+...-. ...|.|- ..+..+-.++|..+.+|+.+.+..+
T Consensus 83 d~~-~~l~~~v~d~~rri~~~kerL~e~~ee~~~e~~~k~~~v~~l~--------e~I~~~l~~~E~LG~eG~Veeaq~~ 153 (319)
T KOG0796|consen 83 DAL-EILERFVADVDRRIEKAKERLAETVEERSEEAARKAEKVHELE--------EKIGKLLEKAEELGEEGNVEEAQKA 153 (319)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhcCCHHHHHHH
Confidence 454 788889999999888777766532 01110000 1122221 4556667788899999999999888
Q ss_pred HHHHHH
Q 043077 116 LQRIVE 121 (150)
Q Consensus 116 l~~l~~ 121 (150)
+..++.
T Consensus 154 ~~e~E~ 159 (319)
T KOG0796|consen 154 MKEVEE 159 (319)
T ss_pred HHHHHH
Confidence 777665
No 21
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=61.87 E-value=1.2e+02 Score=27.35 Aligned_cols=138 Identities=9% Similarity=0.165 Sum_probs=93.3
Q ss_pred hhHHHHHHHHHHHHHhhhcc---------------chhHHHHHhhhhccCCchHHHHH----------HHHHHHhHHHHH
Q 043077 3 GTSLQQELNNFVRSLREQGI---------------LDHNFDTLSRIQNDQSPLFVTEV----------INLFTRDAENAI 57 (150)
Q Consensus 3 ~~~l~~~~~~~~~~~~d~g~---------------lD~~~~~L~~L~~~~~~df~~~l----------i~~Fl~d~~~~l 57 (150)
+..|+.++..+.+.+.+... +...|.+...|...|++.=..++ +...+++.|.++
T Consensus 138 i~~l~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~ 217 (560)
T PF06160_consen 138 IEELKEKYRELRKELLAHSFSYGPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLY 217 (560)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 55677777777777766332 33347788888888776533333 456778888888
Q ss_pred HHHHHHhcCCCCCHHHHHHHHHHhhccccccCHH-------HHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHH
Q 043077 58 TQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGC-------RVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNL 130 (150)
Q Consensus 58 ~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~-------~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L 130 (150)
..+..-+-. -...|+.--..++..--.+.-. .+.+.+......-.+++++.+...+..|..+.+.+-..|
T Consensus 218 ~~l~~~~P~---ql~eL~~gy~~m~~~gy~l~~~~i~~~i~~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd~l 294 (560)
T PF06160_consen 218 KELQKEFPD---QLEELKEGYREMEEEGYYLEHLDIEEEIEQIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYDIL 294 (560)
T ss_pred HHHHHHhHH---HHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 888877753 3667777667777766555542 333344444444577789999999999988888888888
Q ss_pred HHHHHhchhhhhh
Q 043077 131 AHILNLGRQILAL 143 (150)
Q Consensus 131 ~~~l~~~~q~~~~ 143 (150)
++.+...+.+...
T Consensus 295 e~E~~Ak~~V~~~ 307 (560)
T PF06160_consen 295 EKEVEAKKYVEKN 307 (560)
T ss_pred HHHHHHHHHHHHh
Confidence 8877776665543
No 22
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=61.23 E-value=14 Score=32.71 Aligned_cols=86 Identities=13% Similarity=0.104 Sum_probs=64.5
Q ss_pred HHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcC
Q 043077 29 TLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKD 108 (150)
Q Consensus 29 ~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~ 108 (150)
++..+.=+-++.=....+..|++|.-..+..-+.|+..++. . +=|||=|++-|||-..=.++|+.-+.+=++|+
T Consensus 217 ~~e~F~wpvtr~~A~~~L~~Fi~~~L~nFG~yQDam~~d~~---~---L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~ 290 (505)
T COG3046 217 QVEGFGWPVTRTQALRALKHFIADRLPNFGSYQDAMSADDP---H---LWHSLLSFALNIGLLTPLEVIRAALKAYREGD 290 (505)
T ss_pred ccccCCCCCCHHHHHHHHHHHHHHhhhcCCcHHHHHhcCCc---h---hHHHHHHHHhhccCCCHHHHHHHHHHhhccCC
Confidence 33334334455556688999999999999999999986532 2 55999999999999999999999999887774
Q ss_pred --HHHHHHHHHHHH
Q 043077 109 --KERCNEILQRIV 120 (150)
Q Consensus 109 --~~~~~~~l~~l~ 120 (150)
+..++..+.+|-
T Consensus 291 ipLN~VEGFvRQii 304 (505)
T COG3046 291 IPLNSVEGFVRQII 304 (505)
T ss_pred CchHHHHHHHHHHh
Confidence 455555555554
No 23
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=60.58 E-value=1.4e+02 Score=27.43 Aligned_cols=80 Identities=16% Similarity=0.161 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHHHhh----hccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcC--CCCC----HHH
Q 043077 4 TSLQQELNNFVRSLRE----QGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQE--PSVD----YDK 73 (150)
Q Consensus 4 ~~l~~~~~~~~~~~~d----~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~--~~~D----~~~ 73 (150)
.+++++|..+.++--. ..+|.+++.+|..+....|.+=--.--..=+.+++++...+..|... ++.| +..
T Consensus 167 ~~~~~~l~~~~~~~~e~~~~~d~L~fq~~Ele~~~l~~gE~e~L~~e~~rLsn~ekl~~~~~~a~~~L~ge~~~~~~~~~ 246 (557)
T COG0497 167 KQARRELEDLQEKERERAQRADLLQFQLEELEELNLQPGEDEELEEERKRLSNSEKLAEAIQNALELLSGEDDTVSALSL 246 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCCchhHHHH
Confidence 4555666666554422 44566678888888764443211112223356667777766666541 1111 445
Q ss_pred HHHHHHHhhc
Q 043077 74 LIAAVHQLRG 83 (150)
Q Consensus 74 l~~~aH~LKG 83 (150)
+.+.-|.|..
T Consensus 247 l~~a~~~l~~ 256 (557)
T COG0497 247 LGRALEALED 256 (557)
T ss_pred HHHHHHHHHH
Confidence 5555666653
No 24
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=60.12 E-value=16 Score=25.89 Aligned_cols=49 Identities=12% Similarity=0.213 Sum_probs=34.4
Q ss_pred HHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 78 VHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLA 131 (150)
Q Consensus 78 aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~ 131 (150)
.|.+++++ ..+...+..+|+..++++++.+...++.+...+.+.+..+.
T Consensus 18 ~~~l~~~~-----~~i~~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~ 66 (121)
T PF14276_consen 18 NNYLNNST-----DSIEEQLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWS 66 (121)
T ss_pred HhhhhhHH-----HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchhee
Confidence 35555553 44556677788888888888888888888887777766543
No 25
>PRK03636 hypothetical protein; Provisional
Probab=51.23 E-value=50 Score=25.68 Aligned_cols=38 Identities=16% Similarity=0.247 Sum_probs=29.3
Q ss_pred HHHHHHHHHh------HHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 043077 43 TEVINLFTRD------AENAITQARDSLQEPSVDYDKLIAAVHQLR 82 (150)
Q Consensus 43 ~~li~~Fl~d------~~~~l~~L~~Al~~~~~D~~~l~~~aH~LK 82 (150)
...++.+++. -.+++.+|.+|++++ |-+.+.+++..||
T Consensus 131 ~~~ae~~L~~~~~~~r~~~L~~~ID~ALd~~--D~e~F~~Ls~~l~ 174 (179)
T PRK03636 131 RLLAEQFLEQSVFQFRREKLLKQIDEALDRR--DKEAFHRLSDELN 174 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence 3455666665 467889999999986 7889998888776
No 26
>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=51.05 E-value=60 Score=23.26 Aligned_cols=55 Identities=15% Similarity=0.149 Sum_probs=41.4
Q ss_pred CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhc
Q 043077 38 SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDK 107 (150)
Q Consensus 38 ~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~ 107 (150)
.|+|- ...|+..+.+.+..|..|..++ |.+.|+.+ ++-.-+..++..+......|
T Consensus 12 dp~Fd---~~~F~~~ak~~f~~i~~A~~~~--D~~~l~~~----------~t~~~~~~~~~~i~~~~~~g 66 (147)
T PF04280_consen 12 DPGFD---PAAFLEEAKEAFLPIQEAWAKG--DLEALRPL----------LTEELYERLQAEIKARRSRG 66 (147)
T ss_dssp -TT-----HHHHHHHHHHTHHHHHHHHHHT---HHHHHHH----------B-HHHHHHHHHHHHHHHHTT
T ss_pred CCCCC---HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHH----------hCHHHHHHHHHHHHHHHHcC
Confidence 46775 7889999999999999999986 89999988 77777788888887774444
No 27
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=51.05 E-value=48 Score=22.73 Aligned_cols=38 Identities=24% Similarity=0.318 Sum_probs=32.2
Q ss_pred hhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhh
Q 043077 104 IDDKDKERCNEILQRIVEEYQTLHVNLAHILNLGRQIL 141 (150)
Q Consensus 104 ~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q~~ 141 (150)
.-+..++.+...|..|+.--+.+...|..+++..||+-
T Consensus 30 ~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R 67 (83)
T PF03670_consen 30 AINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIR 67 (83)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 34446788889999999999999999999999999874
No 28
>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=49.97 E-value=68 Score=20.72 Aligned_cols=29 Identities=34% Similarity=0.481 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHhhhhcCHHHHHHHHHHHH
Q 043077 92 RVALACRELRSAIDDKDKERCNEILQRIV 120 (150)
Q Consensus 92 ~l~~~c~~lE~~~~~~~~~~~~~~l~~l~ 120 (150)
++..+...|..+-..++++.+...+.+++
T Consensus 39 ~~~~~~~~l~~~f~~~d~~~A~~~~~kLk 67 (78)
T PF07743_consen 39 RIKELIKELAEAFDAKDWEEAKEALRKLK 67 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHccCcHHHHHHHHHHHH
Confidence 34445555555555666666655555553
No 29
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=49.91 E-value=21 Score=28.30 Aligned_cols=38 Identities=24% Similarity=0.395 Sum_probs=23.2
Q ss_pred cccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHH
Q 043077 86 SSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEY 123 (150)
Q Consensus 86 a~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef 123 (150)
|.+||..+.++|..|+....+.--+.+..+|+..+.++
T Consensus 146 A~~Ga~~ileLc~~l~~~~~~d~e~~i~~il~~fe~k~ 183 (195)
T PF04722_consen 146 ATIGAFLILELCQMLEEEASEDLEDEIDEILQEFEEKH 183 (195)
T ss_dssp HHHHHHHHHHHHHHHH--TSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHc
Confidence 55999999999999997322222333445555555443
No 30
>PRK03057 hypothetical protein; Provisional
Probab=49.26 E-value=56 Score=25.46 Aligned_cols=37 Identities=11% Similarity=0.175 Sum_probs=28.4
Q ss_pred HHHHHHHHh------HHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 043077 44 EVINLFTRD------AENAITQARDSLQEPSVDYDKLIAAVHQLR 82 (150)
Q Consensus 44 ~li~~Fl~d------~~~~l~~L~~Al~~~~~D~~~l~~~aH~LK 82 (150)
..++.|++. -.+++.+|..|++.+ |.+.+.++.+.||
T Consensus 131 ~~ae~~L~~~~~~~~~~~L~~~ID~ALd~~--D~e~F~~Lt~~L~ 173 (180)
T PRK03057 131 KETEQVLDEVLKRNEVSRLRMQIDQALDRK--DMEEFQRLTEKLK 173 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHH
Confidence 446666666 556778899999986 7889988887775
No 31
>COG2603 Predicted ATPase [General function prediction only]
Probab=48.29 E-value=76 Score=27.02 Aligned_cols=81 Identities=12% Similarity=0.180 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHH----HHhhhhcCHHHHHHHH
Q 043077 41 FVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACREL----RSAIDDKDKERCNEIL 116 (150)
Q Consensus 41 f~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~l----E~~~~~~~~~~~~~~l 116 (150)
=|.++++.|+..-.+. +-..++... .-|..+. +-|.|-++---+|-.|+..++..+ ++....|++++-..++
T Consensus 242 rv~RIi~ey~~kkh~~--df~~~~~~~-~~~~~~~-l~~~l~~~~~r~~~qr~~~l~~~~~~~~~~q~~~~~~d~~~~~i 317 (334)
T COG2603 242 RVERIIEEYFKKKHKH--DFTHAVGDE-QGWQAYS-LHHGLSAIKRRLGLQRYNELAARLDAALTEQLTTGSTDGHLAWI 317 (334)
T ss_pred HHHHHHHHHHHHhhhh--hhhhhhccc-hhHHHHH-HhhhHHHHHHHHhHHHHHHHHHHHHHHHHhcCCcCCccchHHHH
Confidence 3667788887665432 222333322 1366666 779999999999999999888764 5556778899999999
Q ss_pred HHHHHHHHH
Q 043077 117 QRIVEEYQT 125 (150)
Q Consensus 117 ~~l~~ef~~ 125 (150)
..+.+||-.
T Consensus 318 ~~~~~e~~d 326 (334)
T COG2603 318 VPLLEEYYD 326 (334)
T ss_pred HHHHHHHHH
Confidence 998888865
No 32
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=47.95 E-value=1.5e+02 Score=24.11 Aligned_cols=71 Identities=13% Similarity=0.291 Sum_probs=44.5
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHH-----HHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHH
Q 043077 43 TEVINLFTRDAENAITQARDSLQEPSVDYDKLI-----AAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQ 117 (150)
Q Consensus 43 ~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~-----~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~ 117 (150)
-+.+..|+.|+...|..=..-+...+.+..... .-.+.| -..+..+-.+.|.++.+|+++.+..++.
T Consensus 85 ~~~L~~~i~d~drrI~~~k~RL~~~~~~~~~~~~~~~~~~i~~l--------~~~I~~ll~~aE~LGeeG~VdeA~~~~~ 156 (254)
T PF03194_consen 85 LRYLQRLIRDCDRRIERAKERLEQTQEEQAKEADEEKAEKIDEL--------DEKIGELLKEAEELGEEGDVDEAQKLME 156 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccccccchhhhHHHHHHHH--------HHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence 478889999999999877666654221111110 111111 1235667778899999999998876665
Q ss_pred HHHH
Q 043077 118 RIVE 121 (150)
Q Consensus 118 ~l~~ 121 (150)
.++.
T Consensus 157 ~~e~ 160 (254)
T PF03194_consen 157 EVEK 160 (254)
T ss_pred HHHH
Confidence 5443
No 33
>KOG2424 consensus Protein involved in transcription start site selection [Transcription]
Probab=47.71 E-value=30 Score=27.27 Aligned_cols=35 Identities=20% Similarity=0.477 Sum_probs=23.6
Q ss_pred ccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHH
Q 043077 85 SSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQ 124 (150)
Q Consensus 85 Sa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~ 124 (150)
-|.+||..+.++|..|+. ++.+++ ..++.|-.+|+
T Consensus 147 dA~~Gaf~I~elcq~l~~--~s~d~E---d~ideil~~~e 181 (195)
T KOG2424|consen 147 DATLGAFLILELCQCLQA--QSDDLE---DNIDEILLEFE 181 (195)
T ss_pred hhhhhHHHHHHHHHHHHh--ccccHH---HHHHHHHHHHH
Confidence 367999999999999997 444443 34444444443
No 34
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=45.83 E-value=1.3e+02 Score=26.73 Aligned_cols=122 Identities=9% Similarity=0.088 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHhhhccchhH-HHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccc
Q 043077 7 QQELNNFVRSLREQGILDHN-FDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGAS 85 (150)
Q Consensus 7 ~~~~~~~~~~~~d~g~lD~~-~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSS 85 (150)
.+.++.+|+.+.+-.+=+.. +-.|+.- .-+|+.-..+-..-+..+++.+++|-.-+.. ++++..-..++.+-
T Consensus 183 ~E~l~~Yy~~~V~V~~D~~sGIi~l~V~--AF~PedA~~ia~aLL~~sE~~VN~Ls~rar~-----D~v~~Ae~ev~~Ae 255 (434)
T PRK15178 183 NDDPYRYYLSKVSVAVDIQQGMLRLNVK--ARSAKQAEFFAQRILSFAEQHVNTVSARMQK-----ERILWLENDVKSAQ 255 (434)
T ss_pred HHHHHHHHHhceEEeecCCCCeEEEEEE--ecCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH
Confidence 34667777777664443332 2233322 1478888999999999999999999998874 37777777777666
Q ss_pred cccCHHHHHHHHHHHHHh--hhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 86 SSIGGCRVALACRELRSA--IDDKDKERCNEILQRIVEEYQTLHVNLAHILN 135 (150)
Q Consensus 86 a~iGA~~l~~~c~~lE~~--~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~ 135 (150)
..+.+.+.+-..-+=++- -+....+....++..|+.+....+..|.....
T Consensus 256 ~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~aeL~~L~~ 307 (434)
T PRK15178 256 ENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAEYAQLMV 307 (434)
T ss_pred HHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 555444443333222211 23334556678889999999888888776543
No 35
>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=45.65 E-value=39 Score=22.03 Aligned_cols=46 Identities=15% Similarity=0.260 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHH
Q 043077 7 QQELNNFVRSLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDS 63 (150)
Q Consensus 7 ~~~~~~~~~~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~A 63 (150)
+.+|..|++.+.-..-+|.. -.+++.++.+.|++++-..--.+.+-
T Consensus 2 K~~l~~Lv~~iDp~~~ld~~-----------vee~Ll~laddFv~~v~~~ac~lAKh 47 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDPD-----------VEELLLELADDFVDDVVSFACRLAKH 47 (68)
T ss_dssp HHHHHHHHHCC-SS----HH-----------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCCCCCHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46778888887555556652 23567788888888887766666554
No 36
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=43.23 E-value=32 Score=28.34 Aligned_cols=47 Identities=13% Similarity=0.218 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhc
Q 043077 8 QELNNFVRSLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQ 65 (150)
Q Consensus 8 ~~~~~~~~~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~ 65 (150)
..|..+++-+.-++.||+. -.||+.+|.+.|+++....--.|.+-=.
T Consensus 158 ~kl~dLvqqId~~~~LD~d-----------VedlLleiADdFV~sii~~sC~LAKHRK 204 (258)
T KOG1142|consen 158 RKLDDLVQQIDGTTKLDDD-----------VEDLLLEIADDFVSSIIHRSCKLAKHRK 204 (258)
T ss_pred cchhHHHHhhcCcccccHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4577788888777788762 3467778888888888777666655433
No 37
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.54 E-value=99 Score=24.32 Aligned_cols=41 Identities=15% Similarity=0.369 Sum_probs=35.9
Q ss_pred HHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 93 VALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHI 133 (150)
Q Consensus 93 l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 133 (150)
++.+|+.++.+-+..+++.+.++++..+..|+.+-..-+.|
T Consensus 95 M~gVvK~md~alktmNLekis~~MDkFE~qFedldvqt~~m 135 (203)
T KOG3232|consen 95 MAGVVKSMDSALKTMNLEKISQLMDKFEKQFEDLDVQTEVM 135 (203)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence 56789999999999999999999999999999887665443
No 38
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=42.11 E-value=56 Score=20.79 Aligned_cols=30 Identities=13% Similarity=0.252 Sum_probs=17.8
Q ss_pred HHHHHHHHHhhhhcCHHHHHHHHHHHHHHH
Q 043077 94 ALACRELRSAIDDKDKERCNEILQRIVEEY 123 (150)
Q Consensus 94 ~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef 123 (150)
..+|.+++.+....++......+..|..+|
T Consensus 37 ~~Li~~~~~l~~~~d~~~~~~~~k~l~~~W 66 (77)
T PF03993_consen 37 EALIEEAEALAESEDWKEAAEEIKELQQEW 66 (77)
T ss_pred HHHHHHHHHhcccccHHHHHHHHHHHHHHH
Confidence 356777777777666555555555554444
No 39
>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.09 E-value=48 Score=29.42 Aligned_cols=68 Identities=13% Similarity=0.192 Sum_probs=46.7
Q ss_pred hHHHHHHHHHHHHHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHH-HHHHhcCCCCCHHHHHHHHHH
Q 043077 4 TSLQQELNNFVRSLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQ-ARDSLQEPSVDYDKLIAAVHQ 80 (150)
Q Consensus 4 ~~l~~~~~~~~~~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~-L~~Al~~~~~D~~~l~~~aH~ 80 (150)
..++..+.+.+..||.+-=..+.+.++..+++ .|- ...|+.+++..|-- +=+|+-.+ |.+-|...+|.
T Consensus 282 rdvtdki~~~~~g~fsktE~Sev~tei~~iDP----sF~---~~~Flr~~ee~IiPnVLeAyvkG--D~evLK~wcse 350 (459)
T KOG2580|consen 282 RDVTDKITDVDGGLFSKTEMSEVLTEIKKIDP----SFD---KEDFLRECEEYIIPNVLEAYVKG--DLEVLKKWCSE 350 (459)
T ss_pred HHHHHhhhhcccccchhhHHHHHHHHHHhcCC----CCC---cHHHHHHHHHhhhHHHHHHHHhc--cHHHHHHHHhh
Confidence 34667788888888887766666778887744 443 34555556555544 77777765 88899988874
No 40
>PF08900 DUF1845: Domain of unknown function (DUF1845); InterPro: IPR014996 Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=41.43 E-value=1.7e+02 Score=23.17 Aligned_cols=59 Identities=20% Similarity=0.184 Sum_probs=39.5
Q ss_pred ccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhh
Q 043077 83 GASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILNLGRQILA 142 (150)
Q Consensus 83 GSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q~~~ 142 (150)
+..+=+|.......+..+...++.+| +-+..++-+|++....++..+++..+.-++...
T Consensus 32 ~~~~I~Gm~~~~~~~~~i~~~a~~Dd-PyAD~~L~~iEe~i~~~~~~l~~~~~~l~~~l~ 90 (217)
T PF08900_consen 32 GKPAIIGMPGFASRLNRIWRDARQDD-PYADWWLLRIEEKINEARQELQELIARLDALLA 90 (217)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHhcCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34477999999999999999877765 223455666666666666666555555444433
No 41
>PF13326 PSII_Pbs27: Photosystem II Pbs27; PDB: 2KND_A 2KMF_A 2Y6X_A.
Probab=40.62 E-value=1.5e+02 Score=22.11 Aligned_cols=85 Identities=14% Similarity=0.146 Sum_probs=52.8
Q ss_pred HHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccc-----------cccCHHHHHHHHHHHH----HhhhhcCH
Q 043077 45 VINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGAS-----------SSIGGCRVALACRELR----SAIDDKDK 109 (150)
Q Consensus 45 li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSS-----------a~iGA~~l~~~c~~lE----~~~~~~~~ 109 (150)
+-..|.+|+-..+..|+.+|+.+ .|....++.+-.+|-+. .--|=.....+-..|. ++...|+.
T Consensus 45 l~~~Y~~dt~~vv~~lr~~l~l~-~d~~~~~~~~~~ar~~in~~vs~YRr~~~v~g~~Sf~~m~tAln~LaghY~s~g~r 123 (145)
T PF13326_consen 45 LTGDYVKDTRAVVKTLREALELD-KDDPNRAEAAAEARELINDYVSRYRRGPSVSGLPSFTTMYTALNALAGHYSSYGNR 123 (145)
T ss_dssp --S-CHHHHHHHHHHHHHHHCS--TT-TTHHHHHHHHHHHHHHHHCCCCCCHHCCTSHHHHHHHHHHHHHHHHCHHHTTS
T ss_pred ccchHHHHHHHHHHHHHHHHcCC-CCCccHHHHHHHHHHHHHHHHHHhCCCCCcCCcchHHHHHHHHHHHHHHHHhCCCC
Confidence 44669999999999999999864 46677777766666432 2233233333434443 33455665
Q ss_pred -HHHHHHHHHHHHHHHHHHHHH
Q 043077 110 -ERCNEILQRIVEEYQTLHVNL 130 (150)
Q Consensus 110 -~~~~~~l~~l~~ef~~~~~~L 130 (150)
+--....++|..||.++..+|
T Consensus 124 aPlP~k~k~rll~el~~Ae~aL 145 (145)
T PF13326_consen 124 APLPEKLKERLLKELDQAEKAL 145 (145)
T ss_dssp -S--HHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcC
Confidence 445678888999998887765
No 42
>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=40.09 E-value=43 Score=21.25 Aligned_cols=36 Identities=11% Similarity=0.344 Sum_probs=28.4
Q ss_pred HHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHH
Q 043077 26 NFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARD 62 (150)
Q Consensus 26 ~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~ 62 (150)
+|.+++++-. .+|+.+..++..--..-|.++..|.+
T Consensus 9 qf~~lR~~vq-~NP~lL~~lLqql~~~nP~l~q~I~~ 44 (59)
T PF09280_consen 9 QFQQLRQLVQ-QNPQLLPPLLQQLGQSNPQLLQLIQQ 44 (59)
T ss_dssp HHHHHHHHHH-C-GGGHHHHHHHHHCCSHHHHHHHHH
T ss_pred HHHHHHHHHH-HCHHHHHHHHHHHhccCHHHHHHHHH
Confidence 5888888765 58999999998888888888877654
No 43
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor. Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family (see pfam03551).
Probab=39.86 E-value=73 Score=23.68 Aligned_cols=40 Identities=8% Similarity=0.083 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhccc
Q 043077 109 KERCNEILQRIVEEYQTLHVNLAHILNLGRQILALQRGQH 148 (150)
Q Consensus 109 ~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q~~~~~~~~~ 148 (150)
.+.....+.....+|..+...++.++...+..++.+|+-|
T Consensus 92 Te~Gr~~L~~~~~~w~~~~~~l~~ll~~~~~~~~~~~~~~ 131 (138)
T TIGR02719 92 TDAGEQYLSMCANSFEHYQNMLDSFFHLYTDAFFPFSSSP 131 (138)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCC
Confidence 3455789999999999999999999999999999999876
No 44
>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=39.14 E-value=53 Score=18.83 Aligned_cols=35 Identities=20% Similarity=0.198 Sum_probs=24.6
Q ss_pred HHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHH
Q 043077 26 NFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQA 60 (150)
Q Consensus 26 ~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L 60 (150)
.+.+|+++-+.-+++++..++..+=.+.+..+..|
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 36788888888788888888777766666665544
No 45
>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=38.88 E-value=1.6e+02 Score=22.00 Aligned_cols=78 Identities=12% Similarity=0.160 Sum_probs=51.2
Q ss_pred CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHH
Q 043077 38 SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQ 117 (150)
Q Consensus 38 ~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~ 117 (150)
+|+|+.++++. -+.++.+-..+ |...|..+.+.++ .++..+...|+.+-..++++.+...+.
T Consensus 76 d~~fLme~Me~--------rE~lee~~~~~--d~~~L~~l~~~~~--------~~~~~~~~~l~~~~~~~d~~~A~~~~~ 137 (157)
T TIGR00714 76 DTAFLMEQLEL--------REELDEIEQAK--DEARLESFIKRVK--------KMFQTRHQLLVEQLDNQTWAAAADYTR 137 (157)
T ss_pred CHHHHHHHHHH--------HHHHHHHHhCC--CHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 46676666543 22333322222 5667777777665 467788888888878889999988888
Q ss_pred HHHHHHHHHHHHHHHHH
Q 043077 118 RIVEEYQTLHVNLAHIL 134 (150)
Q Consensus 118 ~l~~ef~~~~~~L~~~l 134 (150)
+++= |.++...+.++.
T Consensus 138 kLky-~~kl~~~i~~~~ 153 (157)
T TIGR00714 138 KLRF-LDKLRSSAEQLE 153 (157)
T ss_pred HHHH-HHHHHHHHHHHH
Confidence 8765 666666666553
No 46
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.77 E-value=8 Score=25.94 Aligned_cols=20 Identities=15% Similarity=0.496 Sum_probs=17.9
Q ss_pred HHhhccccccCHHHHHHHHH
Q 043077 79 HQLRGASSSIGGCRVALACR 98 (150)
Q Consensus 79 H~LKGSSa~iGA~~l~~~c~ 98 (150)
-++|||++-|+|..+...|.
T Consensus 27 k~I~GSCGGi~alGi~K~Cd 46 (77)
T COG2991 27 KSIKGSCGGIAALGIEKVCD 46 (77)
T ss_pred cccccccccHHhhccchhcC
Confidence 57999999999999988887
No 47
>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=38.76 E-value=1.6e+02 Score=21.68 Aligned_cols=33 Identities=15% Similarity=0.195 Sum_probs=22.6
Q ss_pred HHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHH
Q 043077 95 LACRELRSAIDDKDKERCNEILQRIVEEYQTLH 127 (150)
Q Consensus 95 ~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~ 127 (150)
+....++.+..++|+..+..++.-+...|....
T Consensus 62 ~~~ea~~~Ai~~~dla~vk~~vn~~~~s~~~~f 94 (123)
T PF05396_consen 62 AAAEAFNEAIESGDLATVKAAVNLAGASYRKKF 94 (123)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHh
Confidence 445667777777777777777777777776543
No 48
>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=38.57 E-value=1.5e+02 Score=22.11 Aligned_cols=28 Identities=11% Similarity=0.172 Sum_probs=23.1
Q ss_pred HHHhhhhccCCchHHHHHHHHHHHhHHH
Q 043077 28 DTLSRIQNDQSPLFVTEVINLFTRDAEN 55 (150)
Q Consensus 28 ~~L~~L~~~~~~df~~~li~~Fl~d~~~ 55 (150)
+-|+.+++..+.-|+.+||.-|++++=.
T Consensus 33 ~ll~~~k~~~gC~~l~ell~FYLd~V~p 60 (137)
T smart00188 33 SLLEDFKGYLGCQALSEMIQFYLEEVMP 60 (137)
T ss_pred HHHHHhCCCcchHHHHHHHHHHHHHHHH
Confidence 3566777788889999999999998754
No 49
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=36.47 E-value=1.4e+02 Score=22.35 Aligned_cols=88 Identities=15% Similarity=0.143 Sum_probs=54.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh-----------ccccccCHHHHHHHHHHHHHhh----hhcC
Q 043077 44 EVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLR-----------GASSSIGGCRVALACRELRSAI----DDKD 108 (150)
Q Consensus 44 ~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LK-----------GSSa~iGA~~l~~~c~~lE~~~----~~~~ 108 (150)
.|-..|.+|+-..+..|+.+|+-+ .|-+...+.....| +-..--|-.....+-..|...+ ..++
T Consensus 32 ~Ltg~Y~~DT~~Vi~tlr~~i~lp-kd~p~~~~a~~~ar~~indyvsrYRr~~~v~g~~SFttm~TALNsLAGHY~sy~~ 110 (135)
T TIGR03044 32 RLTGDYVEDTLAVIQTLREAIDLP-DDDPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALNSLAGHYKSYAN 110 (135)
T ss_pred cccchHHHHHHHHHHHHHHHHcCC-CCCccHHHHHHHHHHHHHHHHHHhcCCCCcCCcccHHHHHHHHHHHHHHhccCCC
Confidence 568899999999999999999853 24444443333333 2223344444444444454432 2234
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 109 KERCNEILQRIVEEYQTLHVNLAH 132 (150)
Q Consensus 109 ~~~~~~~l~~l~~ef~~~~~~L~~ 132 (150)
.+--..+-++|.+||.++..+|.+
T Consensus 111 rPlPeklk~Rl~~El~~AE~al~R 134 (135)
T TIGR03044 111 RPLPEKLKERLEKELKKAEKALLR 134 (135)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhc
Confidence 344457788899999988887653
No 50
>PF08858 IDEAL: IDEAL domain; InterPro: IPR014957 This entry represents the C-terminal domain of Bacteriophage SPP1, p90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. his domain may also be referred to as the IDEAL domain, after the sequence of the most conserved region of the domain.; PDB: 3DO9_A.
Probab=36.05 E-value=79 Score=18.03 Aligned_cols=27 Identities=15% Similarity=0.229 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 043077 53 AENAITQARDSLQEPSVDYDKLIAAVHQL 81 (150)
Q Consensus 53 ~~~~l~~L~~Al~~~~~D~~~l~~~aH~L 81 (150)
-+++...|..|+.++ |-+.+.+++..|
T Consensus 11 ~~~L~~~ID~ALd~~--D~e~F~~Ls~eL 37 (37)
T PF08858_consen 11 KEQLLELIDEALDNR--DKEWFYELSEEL 37 (37)
T ss_dssp HHHHHHHHHHHHHTT---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcC--CHHHHHHHHhhC
Confidence 356788899999986 788888776543
No 51
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=35.54 E-value=1.6e+02 Score=22.36 Aligned_cols=54 Identities=11% Similarity=0.070 Sum_probs=37.0
Q ss_pred CHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 70 DYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAH 132 (150)
Q Consensus 70 D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~ 132 (150)
|...|..+...++. ++..+...|+.+-..++++.+...+.+|+= |.++...++.
T Consensus 107 ~~~~L~~l~~~~~~--------~~~~~~~~l~~~f~~~d~~~A~~~~~~L~y-~~kl~~~i~~ 160 (166)
T PRK01356 107 LFSDLEKIKNKYEL--------MYKNEIDSLKQAFEEQNLSDATIKTSKLKY-IGTLLNKLQE 160 (166)
T ss_pred CHHHHHHHHHHHHH--------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 44567777666663 456777777777778899999888877765 5555555444
No 52
>PF12854 PPR_1: PPR repeat
Probab=35.14 E-value=38 Score=18.50 Aligned_cols=21 Identities=5% Similarity=0.107 Sum_probs=17.2
Q ss_pred HHHHhhhhcCHHHHHHHHHHH
Q 043077 99 ELRSAIDDKDKERCNEILQRI 119 (150)
Q Consensus 99 ~lE~~~~~~~~~~~~~~l~~l 119 (150)
-+..+|+.|.++.+..++++.
T Consensus 13 lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 13 LIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHhC
Confidence 466779999999999988764
No 53
>PLN00061 photosystem II protein Psb27; Provisional
Probab=34.42 E-value=1.1e+02 Score=23.33 Aligned_cols=58 Identities=14% Similarity=0.259 Sum_probs=39.1
Q ss_pred hhccchhHHHHHhhhhccCCch-HHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 043077 19 EQGILDHNFDTLSRIQNDQSPL-FVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQ 80 (150)
Q Consensus 19 d~g~lD~~~~~L~~L~~~~~~d-f~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~ 80 (150)
++|+++ -+..|-|+...- -=..|=..|.+|+-..+..|+++|+..+.|-..+++.+..
T Consensus 29 ~~~~~~----~~~~~fdp~e~tksg~~Lpg~Y~kdtr~VV~tLresl~l~p~D~~~~~~aa~~ 87 (150)
T PLN00061 29 GEGVVG----AIKSLFDPNEKTKSGKKLPKAYLKSAREVVKTLRESLKEDPKDEAKFRRTADA 87 (150)
T ss_pred cccHHH----HHHHhcCccccccccccCchHHHHHHHHHHHHHHHHHccCCcchHHHHHHHHH
Confidence 455555 555665543211 1125668899999999999999999756677776665443
No 54
>COG5490 Uncharacterized conserved protein [Function unknown]
Probab=33.43 E-value=2.2e+02 Score=21.71 Aligned_cols=97 Identities=9% Similarity=0.089 Sum_probs=58.9
Q ss_pred CchHHHHHHHHHH-HhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhh-hcCHHHH--H
Q 043077 38 SPLFVTEVINLFT-RDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAID-DKDKERC--N 113 (150)
Q Consensus 38 ~~df~~~li~~Fl-~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~-~~~~~~~--~ 113 (150)
+++-+...+..|- .+.++-.....+.......+.+.+...+-+=+..+.++|+.....+=...|.... .+.+-++ .
T Consensus 24 da~~f~d~f~~Faekgveqs~~a~a~~~th~~knleAleasv~aa~~ga~~Lg~kt~a~lr~~ae~~~s~aesl~aaks~ 103 (158)
T COG5490 24 DADKFMDMFRRFAEKGVEQSKEAYAKIKTHHEKNLEALEASVEAAAAGATSLGLKTIAALRDNAEEIASHAESLRAAKSL 103 (158)
T ss_pred chHHHHHHHHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHhhHHHHhHHHHHHHHHHHHHHHHHHHHHhccCCH
Confidence 3444557777777 5556666666665553334688888888888999999999988877777665532 2222222 2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 043077 114 EILQRIVEEYQTLHVNLAHILNL 136 (150)
Q Consensus 114 ~~l~~l~~ef~~~~~~L~~~l~~ 136 (150)
+-+-.++.+| ++..++.+++-
T Consensus 104 qElvelQTaf--ark~~Eaaveq 124 (158)
T COG5490 104 QELVELQTAF--ARKSFEAAVEQ 124 (158)
T ss_pred HHHHHHHHHH--HHHHHHHHHHH
Confidence 2233344444 44455555443
No 55
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=32.91 E-value=98 Score=17.57 Aligned_cols=57 Identities=23% Similarity=0.271 Sum_probs=32.7
Q ss_pred HHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 043077 73 KLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILNLG 137 (150)
Q Consensus 73 ~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~ 137 (150)
-+...+|.+|.+=++|- ..|..+.. ...+.+. ...+..++.+...+..-+..++...
T Consensus 5 ~~~~i~Hel~~pl~~i~-----~~~~~l~~--~~~~~~~-~~~~~~~~~~~~~~~~~v~~l~~~~ 61 (66)
T smart00388 5 FLANLSHELRTPLTAIR-----GYLELLED--TELSEEQ-REYLETILRSAERLLRLINDLLDLS 61 (66)
T ss_pred HHHHHHHhccCcHHHHH-----HHHHHHHh--CCCChHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667899997655332 22333333 1122233 6777777877777777766666543
No 56
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=32.48 E-value=65 Score=16.01 Aligned_cols=23 Identities=13% Similarity=0.096 Sum_probs=17.8
Q ss_pred HHHHhhhhcCHHHHHHHHHHHHH
Q 043077 99 ELRSAIDDKDKERCNEILQRIVE 121 (150)
Q Consensus 99 ~lE~~~~~~~~~~~~~~l~~l~~ 121 (150)
-++.+++.|+.+.+..++.++..
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~~ 28 (31)
T PF01535_consen 6 LISGYCKMGQFEEALEVFDEMRE 28 (31)
T ss_pred HHHHHHccchHHHHHHHHHHHhH
Confidence 35677888888888888887754
No 57
>PF14493 HTH_40: Helix-turn-helix domain
Probab=32.17 E-value=1.5e+02 Score=19.82 Aligned_cols=38 Identities=8% Similarity=0.142 Sum_probs=27.1
Q ss_pred CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHH
Q 043077 38 SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIA 76 (150)
Q Consensus 38 ~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~ 76 (150)
+++....+...|-......|..|.+++... .||..+|-
T Consensus 51 ~~e~~~~I~~~~~~~~~~~lk~i~e~l~~~-~sy~~iRl 88 (91)
T PF14493_consen 51 SEEEIKQIEDAIEKLGSEKLKPIKEALPGD-YSYFEIRL 88 (91)
T ss_pred CHHHHHHHHHHHHHcCcccHHHHHHHCCCC-CCHHHHHH
Confidence 345566677777666667888888888864 78888763
No 58
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=31.52 E-value=3.5e+02 Score=23.56 Aligned_cols=73 Identities=16% Similarity=0.140 Sum_probs=61.3
Q ss_pred CHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhh
Q 043077 70 DYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILNLGRQILA 142 (150)
Q Consensus 70 D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q~~~ 142 (150)
..++--+.=..|=.|..--+..|+..+-.--+.+-..|-+|.++.++..|..|=+-...+|++.+.+.++...
T Consensus 84 EvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~tre 156 (389)
T COG2956 84 EVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATRE 156 (389)
T ss_pred hHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhH
Confidence 4556666656787888888999999998888999999999999999999999888888999999988877543
No 59
>PF11827 DUF3347: Protein of unknown function (DUF3347); InterPro: IPR021782 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.
Probab=31.36 E-value=2.4e+02 Score=21.51 Aligned_cols=80 Identities=21% Similarity=0.234 Sum_probs=51.2
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHH-HHHHHHHHHhh---hhcCHHHHHHH
Q 043077 40 LFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRV-ALACRELRSAI---DDKDKERCNEI 115 (150)
Q Consensus 40 df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l-~~~c~~lE~~~---~~~~~~~~~~~ 115 (150)
+.+..|+..|+ .|+.||..+ |.......|=.|..+-..+....+ ......+.... ...+++..+..
T Consensus 44 ~~l~~v~~~Yl--------~lk~ALv~d--d~~~a~~aA~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~di~~qR~~ 113 (174)
T PF11827_consen 44 DSLQQVLNAYL--------ALKDALVAD--DLKAAKAAAKALLAALKAVDMAELSASLAKALMEAAEDAKEHDIEHQREA 113 (174)
T ss_pred HHHHHHHHHHH--------HHHHHHHhc--CHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHhhhhCCHHHHHHH
Confidence 45556666665 688999876 789999888888888877776633 33333444332 22267777777
Q ss_pred HHHHHHHHHHHHHH
Q 043077 116 LQRIVEEYQTLHVN 129 (150)
Q Consensus 116 l~~l~~ef~~~~~~ 129 (150)
+..|...+..+...
T Consensus 114 F~~lS~~~~~l~~~ 127 (174)
T PF11827_consen 114 FESLSEAMIDLVKA 127 (174)
T ss_pred HHHHHHHHHHHHHh
Confidence 77666655554443
No 60
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=31.04 E-value=78 Score=15.88 Aligned_cols=22 Identities=14% Similarity=0.265 Sum_probs=17.5
Q ss_pred HHHhhhhcCHHHHHHHHHHHHH
Q 043077 100 LRSAIDDKDKERCNEILQRIVE 121 (150)
Q Consensus 100 lE~~~~~~~~~~~~~~l~~l~~ 121 (150)
|..+++.|+.+.+..++..++.
T Consensus 7 i~~~~~~~~~~~a~~~~~~M~~ 28 (35)
T TIGR00756 7 IDGLCKAGRVEEALELFKEMLE 28 (35)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH
Confidence 5667888999988888887764
No 61
>TIGR03761 ICE_PFL4669 integrating conjugative element protein, PFL_4669 family. Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens.
Probab=30.40 E-value=2.8e+02 Score=22.15 Aligned_cols=55 Identities=16% Similarity=0.151 Sum_probs=36.9
Q ss_pred ccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhh
Q 043077 85 SSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILNLGRQI 140 (150)
Q Consensus 85 Sa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q~ 140 (150)
.+=+|..++...+..|...+...| +=+..++-++++....++..+++..+.-++.
T Consensus 32 ~~IiGl~~f~s~~~~i~~~a~~Dd-PyAD~~Ll~~E~~l~~~~~~l~~~~~~l~~~ 86 (216)
T TIGR03761 32 PGIIGMPGFISRLNRINQASEQDD-PYADWALLRIEEKLLSARQEMQALLQRLDDL 86 (216)
T ss_pred CCCcCcHHHHHHHHHHHHHHHcCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345999999999999999887765 2234455566666666666655555544444
No 62
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=30.38 E-value=1.5e+02 Score=21.76 Aligned_cols=11 Identities=18% Similarity=-0.058 Sum_probs=0.0
Q ss_pred hccccccCHHH
Q 043077 82 RGASSSIGGCR 92 (150)
Q Consensus 82 KGSSa~iGA~~ 92 (150)
=-||.+++|..
T Consensus 11 llss~sfaA~~ 21 (126)
T PF09403_consen 11 LLSSISFAATA 21 (126)
T ss_dssp -----------
T ss_pred HHHHHHHHccc
Confidence 34677777777
No 63
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=30.22 E-value=1.9e+02 Score=19.97 Aligned_cols=29 Identities=28% Similarity=0.314 Sum_probs=20.1
Q ss_pred cCCchHHHHHHHHHHHhHHHHHHHHHHHhc
Q 043077 36 DQSPLFVTEVINLFTRDAENAITQARDSLQ 65 (150)
Q Consensus 36 ~~~~df~~~li~~Fl~d~~~~l~~L~~Al~ 65 (150)
.|+|.|+ +-+.....+.+..+..|+..+.
T Consensus 35 tgd~~~l-~~y~~~~~~~~~~l~~L~~l~~ 63 (138)
T PF05227_consen 35 TGDPEFL-EPYQEARARLEKALAQLRQLVQ 63 (138)
T ss_dssp H--HHHH-HHHHHHHHHHHHHHHHHHHHTT
T ss_pred cCCHhhh-chHHHHHHHHHHHHHHHHHHhc
Confidence 3678886 4455567888888888888875
No 64
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=30.13 E-value=1.2e+02 Score=21.05 Aligned_cols=42 Identities=24% Similarity=0.547 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHhhhcc-chhHHHHHhhhhccCCchHHHHHHHHH
Q 043077 4 TSLQQELNNFVRSLREQGI-LDHNFDTLSRIQNDQSPLFVTEVINLF 49 (150)
Q Consensus 4 ~~l~~~~~~~~~~~~d~g~-lD~~~~~L~~L~~~~~~df~~~li~~F 49 (150)
.+|+.++..|.+-.. +|+ +|..+..=..+ .||.++..||+-|
T Consensus 11 ~~l~~Ki~~fl~lk~-~G~~fN~~L~~s~~f---rNP~i~ekLi~~~ 53 (96)
T PF07818_consen 11 PELQAKIAKFLELKR-QGIHFNDRLQNSKSF---RNPSILEKLIEFF 53 (96)
T ss_pred HHHHHHHHHHHHHHH-cCCCHHHHHHHcccc---CChHHHHHHHHHc
Confidence 478899999888777 775 66544444444 7899998888765
No 65
>PHA02666 hypothetical protein; Provisional
Probab=29.38 E-value=55 Score=26.63 Aligned_cols=53 Identities=15% Similarity=0.260 Sum_probs=40.8
Q ss_pred CCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhc----cccccCHHHH
Q 043077 37 QSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRG----ASSSIGGCRV 93 (150)
Q Consensus 37 ~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKG----SSa~iGA~~l 93 (150)
+.|++ +.=|.+.+.|.+.+|..|++.|+. ++.-+++..|.-|+ -++|||-..|
T Consensus 202 gkpNL-Q~DIcTLC~DIEtQLSALEKSLES---ElnFYrrYIqDTKsLLatRAANIgsKAL 258 (287)
T PHA02666 202 GKPNL-QSDICTLCHDIETQLSALEKSLES---ELNFYRRYIQDTKSLLATRAANIGSKAL 258 (287)
T ss_pred CCCch-hhHHHHhhhhHHHHHHHHHHHHHH---HHHHHHHHHHhHHHHHHHHhhcccccee
Confidence 34555 466788899999999999999986 47788888888775 4677776554
No 66
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=29.30 E-value=88 Score=15.93 Aligned_cols=22 Identities=18% Similarity=0.373 Sum_probs=17.0
Q ss_pred HHHhhhhcCHHHHHHHHHHHHH
Q 043077 100 LRSAIDDKDKERCNEILQRIVE 121 (150)
Q Consensus 100 lE~~~~~~~~~~~~~~l~~l~~ 121 (150)
+..+++.|+.+.+..++..++.
T Consensus 8 l~a~~~~g~~~~a~~~~~~M~~ 29 (34)
T PF13812_consen 8 LRACAKAGDPDAALQLFDEMKE 29 (34)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH
Confidence 5566788888888888887765
No 67
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=28.91 E-value=2.1e+02 Score=20.76 Aligned_cols=82 Identities=20% Similarity=0.227 Sum_probs=57.6
Q ss_pred HHHHHHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHH
Q 043077 12 NFVRSLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGC 91 (150)
Q Consensus 12 ~~~~~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~ 91 (150)
-++.-+.+.+++| .+-++....|.+.+.+-+..-+......+..|.+.+..++.| .=-|.|--+-.+-.
T Consensus 9 ~~l~~l~~~~~~d----~~~~~E~~~g~~~~~~~l~~~l~~~~~i~~~i~~~~~~~~~~-------vv~ltGvG~l~P~~ 77 (126)
T PF08747_consen 9 IFLEILEERGILD----KIIEMEEKKGSDALLKQLQGILDMQEKIAEYIQEELEDDDRD-------VVFLTGVGSLFPFI 77 (126)
T ss_pred HHHHHHHhcChHH----HHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHhccCCCCc-------EEEEeCcchhcchh
Confidence 4566667777777 455566666788888888888887777778888875543222 23466777777888
Q ss_pred HHHHHHHHHHHhh
Q 043077 92 RVALACRELRSAI 104 (150)
Q Consensus 92 ~l~~~c~~lE~~~ 104 (150)
|.+.+-..|+...
T Consensus 78 R~h~lL~~l~~~~ 90 (126)
T PF08747_consen 78 RSHELLNNLQPKF 90 (126)
T ss_pred hHHHHHHHHHHHh
Confidence 8888888877643
No 68
>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=28.61 E-value=67 Score=23.33 Aligned_cols=40 Identities=20% Similarity=0.307 Sum_probs=28.7
Q ss_pred HHHHHhhhccchhHHHHHhhhhccC----CchHHHHHHHHHHHh
Q 043077 13 FVRSLREQGILDHNFDTLSRIQNDQ----SPLFVTEVINLFTRD 52 (150)
Q Consensus 13 ~~~~~~d~g~lD~~~~~L~~L~~~~----~~df~~~li~~Fl~d 52 (150)
+...+.+.=+-|..|++|.+|.+.+ +|+++..++..|+.-
T Consensus 52 ~LD~~LHrCvyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~R 95 (115)
T cd07298 52 VLDKHLHLCIYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLSR 95 (115)
T ss_pred HHHHHHHHHHHhhhhhccccCCCcccccccHHHHHHHHHHHHHH
Confidence 4556667777888888888886632 467888888888753
No 69
>PLN02407 diphosphomevalonate decarboxylase
Probab=28.27 E-value=93 Score=26.72 Aligned_cols=32 Identities=9% Similarity=0.297 Sum_probs=26.7
Q ss_pred HHHHHHHh-HHHHHHHHHHHhcCCCCCHHHHHHHH
Q 043077 45 VINLFTRD-AENAITQARDSLQEPSVDYDKLIAAV 78 (150)
Q Consensus 45 li~~Fl~d-~~~~l~~L~~Al~~~~~D~~~l~~~a 78 (150)
+....++. +++.+..|++|+.++ ||.++.+++
T Consensus 224 ~~~~w~~~~~~~~~~~~~~Ai~~~--Df~~~gei~ 256 (343)
T PLN02407 224 LLQHRAKEVVPKRILQMEEAIKNR--DFASFAKLT 256 (343)
T ss_pred hHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHH
Confidence 46677887 899999999999976 899987654
No 70
>PF10845 DUF2576: Protein of unknown function (DUF2576); InterPro: IPR022556 The function of this viral family of proteins is unknown. The entry contains Orf5 from Autographa californica nuclear polyhedrosis virus (AcMNPV).
Probab=28.24 E-value=70 Score=19.47 Aligned_cols=16 Identities=44% Similarity=0.673 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHhh
Q 043077 4 TSLQQELNNFVRSLRE 19 (150)
Q Consensus 4 ~~l~~~~~~~~~~~~d 19 (150)
.+||+.++.+.++|.+
T Consensus 14 eqlrrelnsLR~~vhe 29 (48)
T PF10845_consen 14 EQLRRELNSLRRSVHE 29 (48)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5799999999999987
No 71
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=27.56 E-value=80 Score=27.70 Aligned_cols=34 Identities=15% Similarity=0.225 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhhccccccCHHHHHHHHHH-HHHhh
Q 043077 71 YDKLIAAVHQLRGASSSIGGCRVALACRE-LRSAI 104 (150)
Q Consensus 71 ~~~l~~~aH~LKGSSa~iGA~~l~~~c~~-lE~~~ 104 (150)
.+++.+.|-.+-.++-||||.||..+... ||..+
T Consensus 374 I~~iAeiA~~vN~~~ENIGARRLhTvlErlLediS 408 (444)
T COG1220 374 IKRIAEIAYQVNEKTENIGARRLHTVLERLLEDIS 408 (444)
T ss_pred HHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhC
Confidence 45788888999999999999999999886 55543
No 72
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=25.99 E-value=95 Score=21.51 Aligned_cols=27 Identities=15% Similarity=0.378 Sum_probs=23.4
Q ss_pred HHHHhhhhccCCchHHHHHHHHHHHhH
Q 043077 27 FDTLSRIQNDQSPLFVTEVINLFTRDA 53 (150)
Q Consensus 27 ~~~L~~L~~~~~~df~~~li~~Fl~d~ 53 (150)
|+=|..+-+..-|.||.++++.|+++.
T Consensus 21 F~FL~~~P~GT~~~~iR~~L~rYI~~~ 47 (97)
T PRK13916 21 FDFLENVPRGTKTAHIREALRRYIEEI 47 (97)
T ss_pred HHHHHHCCCCCccHHHHHHHHHHHHhc
Confidence 778888887777899999999999875
No 73
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=25.55 E-value=2.1e+02 Score=19.13 Aligned_cols=67 Identities=15% Similarity=0.228 Sum_probs=36.3
Q ss_pred HHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhchh
Q 043077 72 DKLIAAVHQLRGASSSIGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILNLGRQ 139 (150)
Q Consensus 72 ~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~~q 139 (150)
+.+..-+..|..+.++.+......+-..++..... -.+.+......++..+..+....+.|++-+|-
T Consensus 8 ~~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~~~~V~e~P~ 74 (94)
T PF05957_consen 8 EQLRADLEDLARSAADLAGEKADEARDRAEEALDD-ARDRAEDAADQAREQAREAAEQTEDYVRENPW 74 (94)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHChH
Confidence 34444444444444445555555444444433221 12334556666777777778888888776653
No 74
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=24.87 E-value=1.5e+02 Score=19.85 Aligned_cols=22 Identities=27% Similarity=0.431 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 043077 112 CNEILQRIVEEYQTLHVNLAHI 133 (150)
Q Consensus 112 ~~~~l~~l~~ef~~~~~~L~~~ 133 (150)
...+|+.|+.||+.+...+..+
T Consensus 2 l~elLd~ir~Ef~~~~~e~~~~ 23 (79)
T PF08581_consen 2 LNELLDAIRQEFENLSQEANSY 23 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4578888888888887765544
No 75
>PF03981 Ubiq_cyt_C_chap: Ubiquinol-cytochrome C chaperone ; InterPro: IPR021150 Saccharomyces cerevisiae ubiquinol-cytochrome C chaperone is required for assembly of coenzyme QF-2-cytochrome C reductase. It appears to be found in a number of different organisms including Homo sapiens, Caenorhabditis elegans and Rhizobium meliloti. This entry also contains bacterial proteins belonging to the UPF0174 family.
Probab=24.73 E-value=1.4e+02 Score=21.28 Aligned_cols=57 Identities=11% Similarity=0.117 Sum_probs=36.5
Q ss_pred HHHHhhhhccC--CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccc
Q 043077 27 FDTLSRIQNDQ--SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASS 86 (150)
Q Consensus 27 ~~~L~~L~~~~--~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa 86 (150)
|--+.+|+.++ +..+-..|++.|++|+...|.++..-=-. --..++.+...+-|...
T Consensus 21 ~l~~~RLk~~~~~~~~~~q~l~~~~~~d~~~~l~~~gv~d~~---~~k~~k~l~~~~~g~~~ 79 (141)
T PF03981_consen 21 WLVLRRLKAEGKEGKELEQALFDKFFEDMDERLREMGVGDLS---VGKRMKKLQEQFYGRLL 79 (141)
T ss_pred HHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHhcCcchh---hhHHHHHHHHHHHHHHH
Confidence 34455566555 67788999999999999999887541111 13455555555555443
No 76
>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=24.58 E-value=1.2e+02 Score=17.25 Aligned_cols=35 Identities=11% Similarity=0.178 Sum_probs=23.1
Q ss_pred HHHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHH
Q 043077 26 NFDTLSRIQNDQSPLFVTEVINLFTRDAENAITQA 60 (150)
Q Consensus 26 ~~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L 60 (150)
.+..|+++-+.-+++.+..++..+-.+.+..+..|
T Consensus 5 ~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~L 39 (43)
T smart00546 5 ALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNL 39 (43)
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 46778888777777777666666655666555443
No 77
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=24.32 E-value=3.3e+02 Score=22.35 Aligned_cols=62 Identities=11% Similarity=0.078 Sum_probs=46.6
Q ss_pred HHHHHHHHHhhccccc----cCHHHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 72 DKLIAAVHQLRGASSS----IGGCRVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHI 133 (150)
Q Consensus 72 ~~l~~~aH~LKGSSa~----iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 133 (150)
...++.+|.+..++-- +|=..+-.+|+.+|..|..=...++...+..+...|..+...+..|
T Consensus 134 ~~~~~~avA~vlG~~m~~e~~~d~dvevLL~~ae~L~~vYP~~ga~eki~~Lr~~y~~l~~~i~~l 199 (259)
T PF08657_consen 134 KQRRNTAVALVLGGVMHEEIVEDVDVEVLLRGAEKLCNVYPLPGAREKIAALRQRYNQLSNSIAYL 199 (259)
T ss_pred HHHHHHHHHHhccCcccccccccCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666666665522 3556677889999999887777788999999999998888876654
No 78
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=23.41 E-value=2e+02 Score=18.14 Aligned_cols=43 Identities=12% Similarity=0.180 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043077 92 RVALACRELRSAIDDKDKERCNEILQRIVEEYQTLHVNLAHILN 135 (150)
Q Consensus 92 ~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~ 135 (150)
.|...|..| ......+.+.+...+..|...|..++..+..+.+
T Consensus 59 ~l~~~~~~L-~~~~~~~~~~i~~~~~~l~~~w~~l~~~~~~r~~ 101 (105)
T PF00435_consen 59 SLNEQAQQL-IDSGPEDSDEIQEKLEELNQRWEALCELVEERRQ 101 (105)
T ss_dssp HHHHHHHHH-HHTTHTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHH-HHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666 3333556778888888899999888888777654
No 79
>COG4865 Glutamate mutase epsilon subunit [Amino acid transport and metabolism]
Probab=22.94 E-value=50 Score=28.82 Aligned_cols=38 Identities=18% Similarity=0.317 Sum_probs=31.3
Q ss_pred HHhhhccchhHHHHHhhhhccCCchHHHHHHHHHHHhH
Q 043077 16 SLREQGILDHNFDTLSRIQNDQSPLFVTEVINLFTRDA 53 (150)
Q Consensus 16 ~~~d~g~lD~~~~~L~~L~~~~~~df~~~li~~Fl~d~ 53 (150)
+-....+||+.+..|+.|+++|+.||+...|+.|-.+-
T Consensus 65 pragv~lLdehielL~tl~eeGqADlLp~tIDSyTR~N 102 (485)
T COG4865 65 PRAGVALLDEHIELLKTLQEEGQADLLPSTIDSYTRLN 102 (485)
T ss_pred cccCcchHHHHHHHHHHHHHhccccccchhhhhhhhhh
Confidence 33446678988889999999999999999999987653
No 80
>KOG2833 consensus Mevalonate pyrophosphate decarboxylase [Lipid transport and metabolism]
Probab=22.77 E-value=1.4e+02 Score=25.82 Aligned_cols=30 Identities=17% Similarity=0.358 Sum_probs=23.5
Q ss_pred HHHHHHh-HHHHHHHHHHHhcCCCCCHHHHHHH
Q 043077 46 INLFTRD-AENAITQARDSLQEPSVDYDKLIAA 77 (150)
Q Consensus 46 i~~Fl~d-~~~~l~~L~~Al~~~~~D~~~l~~~ 77 (150)
+.-=++. .|++|.+|++|+.+. ||+.+.++
T Consensus 224 ~qhRi~~vVP~Ri~~m~eaI~~r--DF~~FA~l 254 (395)
T KOG2833|consen 224 LQHRIESVVPQRIQQMREAIRER--DFESFAKL 254 (395)
T ss_pred HHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHH
Confidence 3334444 899999999999986 89998765
No 81
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=21.51 E-value=6.1e+02 Score=22.92 Aligned_cols=132 Identities=12% Similarity=0.184 Sum_probs=69.9
Q ss_pred chhHHHHHHHHHHHHHhhhcc---------------chhHHHHHhhhhccCCchHHHHH----------HHHHHHhHHHH
Q 043077 2 VGTSLQQELNNFVRSLREQGI---------------LDHNFDTLSRIQNDQSPLFVTEV----------INLFTRDAENA 56 (150)
Q Consensus 2 ~~~~l~~~~~~~~~~~~d~g~---------------lD~~~~~L~~L~~~~~~df~~~l----------i~~Fl~d~~~~ 56 (150)
++..|+.+...+.+++.+... +...|.+...|-..|++.=..++ +..++++.|.+
T Consensus 141 ~v~~l~~~y~~~rk~ll~~~~~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~l~~~~~~iP~l 220 (569)
T PRK04778 141 EVEQLKDLYRELRKSLLANRFSFGPALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAALEQIMEEIPEL 220 (569)
T ss_pred HHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677777777777766332 33347777777777776433333 45667777777
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHH----HHHHHHHHH---HhhhhcCHHHHHHHHHHHHHHHHHHHHH
Q 043077 57 ITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCR----VALACRELR---SAIDDKDKERCNEILQRIVEEYQTLHVN 129 (150)
Q Consensus 57 l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~----l~~~c~~lE---~~~~~~~~~~~~~~l~~l~~ef~~~~~~ 129 (150)
+..+..-+-. .+..|..-...++-.--.+.-.. +..+=.++. ......+++.+...+..|+...+.+-..
T Consensus 221 ~~~~~~~~P~---ql~el~~gy~~m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~ 297 (569)
T PRK04778 221 LKELQTELPD---QLQELKAGYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDI 297 (569)
T ss_pred HHHHHHHhhH---HHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHH
Confidence 7777765532 24455555555554443333222 222222222 2233345566655555555555555555
Q ss_pred HHHHHHh
Q 043077 130 LAHILNL 136 (150)
Q Consensus 130 L~~~l~~ 136 (150)
|++....
T Consensus 298 lekE~~A 304 (569)
T PRK04778 298 LEREVKA 304 (569)
T ss_pred HHHHHHH
Confidence 5444433
No 82
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=21.19 E-value=3.8e+02 Score=20.47 Aligned_cols=76 Identities=22% Similarity=0.317 Sum_probs=47.7
Q ss_pred CchHHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccccccCHHHHHHHHHHHHHhhhh-cCHHHHHHHH
Q 043077 38 SPLFVTEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSIGGCRVALACRELRSAIDD-KDKERCNEIL 116 (150)
Q Consensus 38 ~~df~~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~-~~~~~~~~~l 116 (150)
+|+|+-++++. .+.|. .+-.. .|...|..+...++ .++..+...|+.+-.. ++++.+...+
T Consensus 93 d~~fLme~mE~-----rE~le---e~~~~--~d~~~L~~l~~e~~--------~~~~~~~~~l~~~~~~~~d~~~A~~~~ 154 (176)
T PRK03578 93 PPAFLMQQMEW-----REAIE---DARAA--RDVDALDALLAELR--------DERRERYAELGALLDSRGDDQAAAEAV 154 (176)
T ss_pred CHHHHHHHHHH-----HHHHH---Hhhcc--CCHHHHHHHHHHHH--------HHHHHHHHHHHHHHHccccHHHHHHHH
Confidence 57888777763 22232 22222 26678888877774 5677777777777656 8888887777
Q ss_pred HHHHHHHHHHHHHHHH
Q 043077 117 QRIVEEYQTLHVNLAH 132 (150)
Q Consensus 117 ~~l~~ef~~~~~~L~~ 132 (150)
.+++= |.++...+.+
T Consensus 155 ~kL~y-~~kl~~ei~~ 169 (176)
T PRK03578 155 RQLMF-IEKLAQEIGA 169 (176)
T ss_pred HHHHH-HHHHHHHHHH
Confidence 66664 4445444443
No 83
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=21.14 E-value=2.7e+02 Score=18.72 Aligned_cols=47 Identities=13% Similarity=0.209 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhhhccchhHHHHHhhhhcc-CCchHHHHHHHHHHHh
Q 043077 6 LQQELNNFVRSLREQGILDHNFDTLSRIQND-QSPLFVTEVINLFTRD 52 (150)
Q Consensus 6 l~~~~~~~~~~~~d~g~lD~~~~~L~~L~~~-~~~df~~~li~~Fl~d 52 (150)
+|.+....+.+-++.|=.++.+..|.+|.-+ ..++|+..+|..-++.
T Consensus 1 ~rk~i~~~l~ey~~~~d~~ea~~~l~el~~~~~~~~vv~~~l~~~le~ 48 (113)
T PF02847_consen 1 LRKKIFSILMEYFSSGDVDEAVECLKELKLPSQHHEVVKVILECALEE 48 (113)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHHHHTT-GGGHHHHHHHHHHHHHTS
T ss_pred ChHHHHHHHHHHhcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhhc
Confidence 4678888888888888778778888888433 2244554444444433
No 84
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=20.43 E-value=1.1e+02 Score=23.30 Aligned_cols=43 Identities=9% Similarity=0.182 Sum_probs=33.3
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccc
Q 043077 43 TEVINLFTRDAENAITQARDSLQEPSVDYDKLIAAVHQLRGASSSI 88 (150)
Q Consensus 43 ~~li~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LKGSSa~i 88 (150)
...+..|.+|+.+.=.++++++... -+.|+..-|+=|++++++
T Consensus 36 q~el~~y~~d~~~yK~~~k~~l~er---~~~~~~~~~~~~~~~~~~ 78 (159)
T cd00225 36 QQELAQYVEDVADYKEEVKQALKER---QEGLKLRRAGKKKKAVTL 78 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHhhhhhhhccccccccc
Confidence 4667899999999999999999875 356666667777775554
No 85
>PRK10698 phage shock protein PspA; Provisional
Probab=20.40 E-value=4.4e+02 Score=20.85 Aligned_cols=22 Identities=14% Similarity=0.460 Sum_probs=12.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHhc
Q 043077 44 EVINLFTRDAENAITQARDSLQ 65 (150)
Q Consensus 44 ~li~~Fl~d~~~~l~~L~~Al~ 65 (150)
.+|+.|+.+....+..++.+++
T Consensus 27 k~l~q~i~em~~~l~~~r~alA 48 (222)
T PRK10698 27 KLVRLMIQEMEDTLVEVRSTSA 48 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555544
No 86
>PF00619 CARD: Caspase recruitment domain; InterPro: IPR001315 The caspase recruitment domain domain (CARD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. CARD is related in sequence and structure to the death domain (DD, see IPR000488 from INTERPRO) and the death effector domain (DED, see IPR001875 from INTERPRO), which work in similar pathways and show similar interaction properties []. The CARD domain typically associates with other CARD-containing proteins, forming either dimers or trimers. CARD domains can be found in isolation, or in combination with other domains. Domains associated with CARD include: NACHT (IPR007111 from INTERPRO) (in Nal1 and Bir1), NB-ARC (IPR002182 from INTERPRO) (in Apaf-1), pyrin/dapin domains (IPR004020 from INTERPRO) (in Nal1), leucine-rich repeats () (in Nal1), WD repeats (IPR001680 from INTERPRO) (in Apaf1), Src homology domains (IPR001452 from INTERPRO), PDZ (IPR001478 from INTERPRO), RING, kinase and DD domains []. CARD-containing proteins are involved in apoptosis through their regulation of caspases that contain CARDs in their N-terminal pro-domains, including human caspases 1, 2, 9, 11 and 12 []. CARD-containing proteins are also involved in inflammation through their regulation of NF-kappaB []. The mechanisms by which CARDs activate caspases and NF-kappaB involve the assembly of multi-protein complexes, which can facilitate dimerisation or serve as scaffolds on which proteases and kinases are assembled and activated.; GO: 0005515 protein binding, 0042981 regulation of apoptosis, 0005622 intracellular; PDB: 2NSN_A 2NZ7_B 2DBD_A 4E9M_C 2B1W_A 3YGS_P 2KN6_A 3CRD_A 1DGN_A 3KAT_A ....
Probab=20.27 E-value=2.5e+02 Score=17.92 Aligned_cols=55 Identities=15% Similarity=0.358 Sum_probs=37.0
Q ss_pred HHHHHHHHhhhccchhH-HHHHhhhhccCCchHHHHHHHHHHHhHHHHHHHHHHHhcC
Q 043077 10 LNNFVRSLREQGILDHN-FDTLSRIQNDQSPLFVTEVINLFTRDAENAITQARDSLQE 66 (150)
Q Consensus 10 ~~~~~~~~~d~g~lD~~-~~~L~~L~~~~~~df~~~li~~Fl~d~~~~l~~L~~Al~~ 66 (150)
+..++.-|+..|+|++. ...+.. .....+=+..|++....-.+.-...+-.++.+
T Consensus 18 ~~~ild~L~~~~vlt~~e~e~I~~--~~t~~~k~~~LLd~l~~kg~~a~~~F~~~L~~ 73 (85)
T PF00619_consen 18 LDDILDHLLSRGVLTEEEYEEIRS--EPTRQDKARKLLDILKRKGPEAFDIFCQALRE 73 (85)
T ss_dssp HHHHHHHHHHTTSSSHHHHHHHHT--SSSHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHc--cCChHHHHHHHHHHHHHHCHHHHHHHHHHHHh
Confidence 45566677778888885 666665 22344567777777777777777777777654
No 87
>PRK08582 hypothetical protein; Provisional
Probab=20.25 E-value=1.6e+02 Score=21.59 Aligned_cols=27 Identities=19% Similarity=0.391 Sum_probs=23.0
Q ss_pred chHHHHHHHHHHHhHHHHHHHHHHHhcC
Q 043077 39 PLFVTEVINLFTRDAENAITQARDSLQE 66 (150)
Q Consensus 39 ~df~~~li~~Fl~d~~~~l~~L~~Al~~ 66 (150)
++| ...+..|+.||++.|++|+.-.+.
T Consensus 103 ~~f-e~~l~~flk~s~~~~~~l~~~~~~ 129 (139)
T PRK08582 103 EDF-EQKMSRFLKDSEDRLTSIKRNTES 129 (139)
T ss_pred cCH-HHHHHHHHHHHHHHHHHHHhhccc
Confidence 466 689999999999999999887654
No 88
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=20.04 E-value=2.4e+02 Score=19.46 Aligned_cols=23 Identities=13% Similarity=0.264 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 043077 114 EILQRIVEEYQTLHVNLAHILNL 136 (150)
Q Consensus 114 ~~l~~l~~ef~~~~~~L~~~l~~ 136 (150)
+-+++++++...+++.|..|++.
T Consensus 78 d~i~~Lr~el~~L~~~l~~~~~~ 100 (101)
T PRK10265 78 DEIAHLKQENRLLRQRLSRFVAH 100 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Confidence 34455666777777777777653
Done!