Query 048204
Match_columns 145
No_of_seqs 108 out of 361
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 07:22:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048204.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048204hhsearch_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 6.3E-29 1.4E-33 184.0 15.2 139 4-143 5-143 (150)
2 COG2198 ArcB FOG: HPt domain [ 99.7 2.5E-15 5.4E-20 108.1 12.4 95 38-134 20-117 (122)
3 PF01627 Hpt: Hpt domain; Int 99.6 1.4E-15 3.1E-20 101.8 9.4 83 45-129 1-89 (90)
4 smart00073 HPT Histidine Phosp 99.5 1.6E-14 3.5E-19 97.1 6.1 85 45-132 2-86 (87)
5 cd00088 HPT Histidine Phosphot 99.4 5.7E-13 1.2E-17 91.2 6.4 66 44-109 2-69 (94)
6 TIGR02956 TMAO_torS TMAO reduc 99.4 3.8E-12 8.2E-17 116.4 12.0 93 38-134 876-968 (968)
7 PRK11091 aerobic respiration c 99.1 1.2E-09 2.5E-14 98.7 13.2 101 37-139 677-777 (779)
8 PRK10618 phosphotransfer inter 98.9 1.1E-08 2.4E-13 95.0 11.0 85 42-128 808-892 (894)
9 PRK11466 hybrid sensory histid 98.6 3.4E-07 7.4E-12 83.8 11.2 88 38-136 820-907 (914)
10 PRK11107 hybrid sensory histid 98.6 1.1E-06 2.3E-11 80.2 13.0 96 38-135 821-917 (919)
11 COG0643 CheA Chemotaxis protei 98.0 6.5E-05 1.4E-09 68.8 10.6 70 41-110 4-82 (716)
12 PRK10547 chemotaxis protein Ch 97.9 8.7E-05 1.9E-09 67.5 10.7 61 44-104 4-70 (670)
13 PRK09959 hybrid sensory histid 96.9 0.032 7E-07 53.0 14.6 95 38-134 1097-1192(1197)
14 PRK15347 two component system 96.4 0.017 3.6E-07 53.1 8.6 61 46-110 838-898 (921)
15 cd08323 CARD_APAF1 Caspase act 63.8 43 0.00093 22.7 6.5 65 12-80 17-82 (86)
16 PF13779 DUF4175: Domain of un 62.3 1.4E+02 0.0031 28.4 11.4 42 84-125 530-571 (820)
17 TIGR02302 aProt_lowcomp conser 62.2 55 0.0012 31.3 8.7 44 85-128 561-604 (851)
18 PF14276 DUF4363: Domain of un 59.2 24 0.00051 24.8 4.6 48 79-131 18-65 (121)
19 KOG4747 Two-component phosphor 58.0 80 0.0017 23.9 10.0 59 39-100 12-70 (150)
20 PRK03636 hypothetical protein; 57.1 38 0.00081 26.2 5.7 39 44-84 131-175 (179)
21 TIGR00984 3a0801s03tim44 mitoc 56.1 34 0.00075 29.5 5.8 79 11-108 214-293 (378)
22 PRK03057 hypothetical protein; 55.9 39 0.00086 26.1 5.6 37 45-83 131-173 (180)
23 PLN02956 PSII-Q subunit 55.8 97 0.0021 24.2 9.1 74 51-129 89-183 (185)
24 PLN00061 photosystem II protei 54.9 31 0.00068 26.0 4.7 61 19-83 28-89 (150)
25 KOG2424 Protein involved in tr 54.0 24 0.00053 27.6 4.1 37 85-126 146-182 (195)
26 PF04722 Ssu72: Ssu72-like pro 51.3 26 0.00057 27.6 4.0 18 86-103 145-162 (195)
27 smart00188 IL10 Interleukin-10 50.4 1E+02 0.0022 22.9 7.2 27 30-56 34-60 (137)
28 PF11827 DUF3347: Protein of u 47.6 1.2E+02 0.0027 23.0 9.3 82 40-131 43-128 (174)
29 PF07743 HSCB_C: HSCB C-termin 47.4 75 0.0016 20.4 6.5 28 94-121 40-67 (78)
30 PF03670 UPF0184: Uncharacteri 45.1 90 0.0019 21.3 5.4 36 107-142 32-67 (83)
31 KOG0796 Spliceosome subunit [R 43.9 2E+02 0.0043 24.4 11.0 77 41-122 83-159 (319)
32 KOG1142 Transcription initiati 42.0 46 0.00099 27.3 4.2 49 8-67 157-205 (258)
33 PF03993 DUF349: Domain of Unk 42.0 55 0.0012 20.7 3.9 32 95-126 37-68 (77)
34 PF14493 HTH_40: Helix-turn-he 40.9 91 0.002 20.7 5.0 58 11-77 30-88 (91)
35 PF09403 FadA: Adhesion protei 40.8 87 0.0019 22.8 5.2 10 84-93 12-21 (126)
36 PF04049 APC8: Anaphase promot 40.1 1.5E+02 0.0032 21.8 6.8 84 2-89 4-104 (142)
37 TIGR00714 hscB Fe-S protein as 38.2 1.7E+02 0.0036 21.8 6.7 55 71-134 98-152 (157)
38 KOG3232 Vacuolar assembly/sort 38.0 1.3E+02 0.0029 23.5 6.0 39 94-132 95-133 (203)
39 PF05396 Phage_T7_Capsid: Phag 37.4 1.6E+02 0.0035 21.5 6.3 53 28-84 36-88 (123)
40 COG2603 Predicted ATPase [Gene 37.2 2.6E+02 0.0056 23.8 7.9 81 42-126 242-326 (334)
41 PF03847 TFIID_20kDa: Transcri 35.9 87 0.0019 20.2 4.1 49 8-67 2-50 (68)
42 COG2991 Uncharacterized protei 34.7 9.4 0.0002 25.5 -0.7 20 80-99 27-46 (77)
43 PRK01356 hscB co-chaperone Hsc 34.4 2E+02 0.0044 21.6 6.8 53 71-132 107-159 (166)
44 KOG0994 Extracellular matrix g 34.1 5.2E+02 0.011 26.4 10.6 58 74-131 1553-1614(1758)
45 PF02847 MA3: MA3 domain; Int 33.8 1.5E+02 0.0032 19.9 6.1 47 7-53 1-48 (113)
46 PF14357 DUF4404: Domain of un 33.7 79 0.0017 21.3 3.8 29 7-35 2-31 (85)
47 PRK08818 prephenate dehydrogen 33.6 1.6E+02 0.0034 25.2 6.4 42 39-87 226-267 (370)
48 PRK15178 Vi polysaccharide exp 33.4 3.4E+02 0.0074 23.9 8.7 92 38-134 212-305 (434)
49 PF06920 Ded_cyto: Dedicator o 31.8 2.2E+02 0.0048 21.3 6.5 91 47-142 64-154 (178)
50 PF08858 IDEAL: IDEAL domain; 31.1 1.1E+02 0.0023 17.4 5.4 26 55-82 12-37 (37)
51 PRK13916 plasmid segregation p 31.0 75 0.0016 21.9 3.2 27 28-54 21-47 (97)
52 PF09280 XPC-binding: XPC-bind 30.8 83 0.0018 19.8 3.3 36 27-63 9-44 (59)
53 PF08657 DASH_Spc34: DASH comp 30.0 1.9E+02 0.0042 23.6 6.1 62 73-134 134-199 (259)
54 PF03194 LUC7: LUC7 N_terminus 28.3 3.2E+02 0.007 22.1 8.8 82 43-129 84-170 (254)
55 PF02845 CUE: CUE domain; Int 28.1 92 0.002 17.7 2.9 34 28-61 5-38 (42)
56 PF02153 PDH: Prephenate dehyd 27.9 3E+02 0.0066 21.7 6.9 34 39-78 222-255 (258)
57 PF13326 PSII_Pbs27: Photosyst 27.4 2.6E+02 0.0057 20.7 7.9 86 45-131 44-145 (145)
58 COG0783 Dps DNA-binding ferrit 27.3 2E+02 0.0044 21.6 5.4 27 38-64 42-70 (156)
59 PF05227 CHASE3: CHASE3 domain 27.3 2.1E+02 0.0045 19.6 8.6 29 37-66 35-63 (138)
60 smart00544 MA3 Domain in DAP-5 27.0 1.7E+02 0.0037 19.7 4.7 46 8-53 2-48 (113)
61 PF05465 Halo_GVPC: Halobacter 26.8 1.2E+02 0.0026 16.7 3.7 23 113-135 4-26 (32)
62 cd07298 PX_RICS The phosphoino 26.3 78 0.0017 22.8 2.8 49 3-63 49-101 (115)
63 PLN02407 diphosphomevalonate d 26.2 1.1E+02 0.0024 26.1 4.1 32 46-79 224-256 (343)
64 PF08900 DUF1845: Domain of un 26.1 3.3E+02 0.0071 21.4 6.8 49 84-133 32-80 (217)
65 PF08747 DUF1788: Domain of un 25.3 2.7E+02 0.0057 20.1 5.8 81 14-105 10-90 (126)
66 COG4865 Glutamate mutase epsil 25.2 33 0.00072 29.7 0.9 39 15-53 63-101 (485)
67 PRK08582 hypothetical protein; 24.6 1E+02 0.0022 22.5 3.3 27 40-67 103-129 (139)
68 TIGR03042 PS_II_psbQ_bact phot 24.3 3.1E+02 0.0066 20.5 11.3 73 53-137 47-140 (142)
69 PF04904 NCD1: NAB conserved r 24.2 2E+02 0.0043 19.5 4.3 55 8-67 18-72 (82)
70 PF04280 Tim44: Tim44-like dom 23.9 2.7E+02 0.0058 19.6 5.8 51 39-104 12-62 (147)
71 PRK10265 chaperone-modulator p 23.1 2E+02 0.0043 19.7 4.4 23 114-136 77-99 (101)
72 PF05957 DUF883: Bacterial pro 23.0 2.4E+02 0.0052 18.8 8.6 64 74-138 9-72 (94)
73 KOG2833 Mevalonate pyrophospha 22.8 1.4E+02 0.0031 25.6 4.1 30 47-78 224-254 (395)
74 cd08326 CARD_CASP9 Caspase act 22.5 2.5E+02 0.0053 18.7 5.8 54 11-66 18-72 (84)
75 PHA02666 hypothetical protein; 22.1 91 0.002 25.3 2.7 53 38-94 202-258 (287)
76 KOG2176 Exocyst complex, subun 21.8 7.2E+02 0.016 23.8 11.2 49 93-141 139-187 (800)
77 KOG2716 Polymerase delta-inter 21.6 99 0.0021 24.9 2.9 52 49-100 48-99 (230)
78 TIGR01220 Pmev_kin_Gr_pos phos 21.5 4.3E+02 0.0093 22.1 6.9 56 47-104 247-310 (358)
79 smart00501 BRIGHT BRIGHT, ARID 21.1 1.7E+02 0.0036 19.4 3.6 87 41-135 5-91 (93)
80 TIGR03044 PS_II_psb27 photosys 21.1 3.5E+02 0.0077 20.0 7.1 89 44-133 31-134 (135)
81 PF00619 CARD: Caspase recruit 21.1 2.3E+02 0.0051 17.9 5.3 55 11-67 18-73 (85)
82 PF03981 Ubiq_cyt_C_chap: Ubiq 21.0 1.7E+02 0.0036 20.7 3.8 58 29-89 22-81 (141)
83 PF05781 MRVI1: MRVI1 protein; 20.7 6.5E+02 0.014 22.9 8.7 70 52-137 251-321 (538)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.96 E-value=6.3e-29 Score=184.03 Aligned_cols=139 Identities=24% Similarity=0.448 Sum_probs=133.9
Q ss_pred HHHHHHHHHHHHHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 048204 4 KVALNRQLLDTITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIK 83 (145)
Q Consensus 4 ~~~~~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (145)
+..++.+.+++..|++++|++|++|.+|++|+|++.|+||.+++..|++||.+.|..|+.|+... .|+.+++.+.|.||
T Consensus 5 i~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~-~d~k~~~~~~hqlk 83 (150)
T KOG4747|consen 5 IISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCE-RDFKKLGSHVHQLK 83 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhH-hHHHHHHHHHHHcc
Confidence 56789999999999999999999999999999999999999999999999999999999999975 49999999999999
Q ss_pred hhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 048204 84 GGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMDIVLQLERMIIS 143 (145)
Q Consensus 84 GSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~rq~~~ 143 (145)
|||++|||.++..+|..+...|+.++.++|...+++++.||..++++|++|++++||.++
T Consensus 84 gssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~rq~i~ 143 (150)
T KOG4747|consen 84 GSSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLERQEIL 143 (150)
T ss_pred CchhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999543
No 2
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.66 E-value=2.5e-15 Score=108.08 Aligned_cols=95 Identities=20% Similarity=0.349 Sum_probs=84.7
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhh-cCHHHHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDD-RSKERCTVA 116 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~-~~~~~~~~~ 116 (145)
+.|+++.+++.+|+++++..+..++.++..+ |+..+.+.||+||||++|+|+.+|+.+|.++|..++. ...+....+
T Consensus 20 ~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~~~~~~~~~~~ 97 (122)
T COG2198 20 GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRSGASLEELEEL 97 (122)
T ss_pred CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHcCCcHHHHHHH
Confidence 4699999999999999999999999999976 7899999999999999999999999999999999997 778999999
Q ss_pred HHHHHHHH--HHHHHHHHHH
Q 048204 117 VDAIRHEF--LKLHSKMDIV 134 (145)
Q Consensus 117 l~~l~~ef--~~~~~~L~~~ 134 (145)
+..++.++ ..+...+.++
T Consensus 98 i~~l~~~~~~~~~~~~~~~~ 117 (122)
T COG2198 98 IAELKDELQLDVLALELLTY 117 (122)
T ss_pred HHHHHHHhcchHHHHHHHHH
Confidence 99999994 4444444433
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=1.4e-15 Score=101.80 Aligned_cols=83 Identities=24% Similarity=0.403 Sum_probs=71.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHh---cCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHH---HHHHHH
Q 048204 45 ELIPTFCSDAQTTIREMTLAL---EQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKER---CTVAVD 118 (145)
Q Consensus 45 ~Li~~fl~ds~~~l~~L~~al---~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~---~~~~l~ 118 (145)
+++..|++++++.+..|+.++ .. .|++.+++.+|+|||+++++|+.+++.+|..+|..++.++... +.+.++
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 589999999999999999999 53 4899999999999999999999999999999999999988877 555555
Q ss_pred HHHHHHHHHHH
Q 048204 119 AIRHEFLKLHS 129 (145)
Q Consensus 119 ~l~~ef~~~~~ 129 (145)
.+...++++++
T Consensus 79 ~l~~~l~~l~~ 89 (90)
T PF01627_consen 79 ELEAMLEQLRQ 89 (90)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhC
Confidence 55555555443
No 4
>smart00073 HPT Histidine Phosphotransfer domain. Contains an active histidine residue that mediates phosphotransfer reactions. Domain detected only in eubacteria. This alignment is an extension to that shown in the Cell structure paper.
Probab=99.53 E-value=1.6e-14 Score=97.09 Aligned_cols=85 Identities=19% Similarity=0.283 Sum_probs=74.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHH
Q 048204 45 ELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEF 124 (145)
Q Consensus 45 ~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef 124 (145)
+++..|+++.+..+..|+.++.. .|+..+++.+|+|||||+|+|+..|..+|..+|...+... .+...++..+...|
T Consensus 2 e~~~~f~~~~~~~l~~l~~~~~~--~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~-~~~~~~~~~l~~~~ 78 (87)
T smart00073 2 EELAEFLQSLEEGLLELEKALDA--QDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR-SGEVELTPDLLDLL 78 (87)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCH--hHHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHH
Confidence 67899999999999999999974 4899999999999999999999999999999999988543 44456778888888
Q ss_pred HHHHHHHH
Q 048204 125 LKLHSKMD 132 (145)
Q Consensus 125 ~~~~~~L~ 132 (145)
..+...|+
T Consensus 79 ~~~~~~l~ 86 (87)
T smart00073 79 LELVDVLK 86 (87)
T ss_pred HHHHHHHc
Confidence 88877664
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=5.7e-13 Score=91.18 Aligned_cols=66 Identities=21% Similarity=0.345 Sum_probs=59.5
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhcC--CCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcC
Q 048204 44 AELIPTFCSDAQTTIREMTLALEQ--PVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRS 109 (145)
Q Consensus 44 ~~Li~~fl~ds~~~l~~L~~al~~--~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~ 109 (145)
.+++..|+++.+..+..|+.++.+ .+.|+..++..+|+||||++++|+.+|..+|..+|..++.+.
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 578999999999999999999981 123899999999999999999999999999999999988643
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=3.8e-12 Score=116.43 Aligned_cols=93 Identities=17% Similarity=0.265 Sum_probs=86.9
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAV 117 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l 117 (145)
.+++.+.+++..|+++.+..+..|+.++..+ |+..+++.+|.|||+++++||.+++.+|..+|..++.++. ....+
T Consensus 876 ~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~--~~~~~ 951 (968)
T TIGR02956 876 LGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGAL--ELSDI 951 (968)
T ss_pred cCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCc--chhHH
Confidence 5788999999999999999999999999865 8999999999999999999999999999999999998887 45789
Q ss_pred HHHHHHHHHHHHHHHHH
Q 048204 118 DAIRHEFLKLHSKMDIV 134 (145)
Q Consensus 118 ~~l~~ef~~~~~~L~~~ 134 (145)
+.|+..|.+++.+|++|
T Consensus 952 ~~l~~~~~~~~~~l~~~ 968 (968)
T TIGR02956 952 DEIKQAWQASKTALDQW 968 (968)
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 99999999999999865
No 7
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.11 E-value=1.2e-09 Score=98.70 Aligned_cols=101 Identities=13% Similarity=0.132 Sum_probs=93.7
Q ss_pred ccChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHH
Q 048204 37 ANGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVA 116 (145)
Q Consensus 37 ~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~ 116 (145)
..++..+.+.+..|....+..+..|..++..+ |...+...+|.|||+++++|+..++.+|..+|.....+.++....+
T Consensus 677 ~~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~ 754 (779)
T PRK11091 677 LVGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAWWDNVQDW 754 (779)
T ss_pred hcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccccHHHHHHH
Confidence 34677888999999999999999999999965 8999999999999999999999999999999999889999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 048204 117 VDAIRHEFLKLHSKMDIVLQLER 139 (145)
Q Consensus 117 l~~l~~ef~~~~~~L~~~l~~~r 139 (145)
+++++.+|.....+|+.|++-.+
T Consensus 755 ~~~l~~~~~~~~~~~~~~~~~~~ 777 (779)
T PRK11091 755 VEELKNEWRHDVEVLKAWLAQAE 777 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999987654
No 8
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=98.90 E-value=1.1e-08 Score=95.05 Aligned_cols=85 Identities=11% Similarity=0.189 Sum_probs=77.2
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHH
Q 048204 42 FFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIR 121 (145)
Q Consensus 42 fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~ 121 (145)
+...++..|++..|.-+..|..++.++ |+.++++.||.|||+++++|+..++.+|..||..++.++..++...+.+|.
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 344567899999999999999999975 999999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHH
Q 048204 122 HEFLKLH 128 (145)
Q Consensus 122 ~ef~~~~ 128 (145)
..+.++.
T Consensus 886 ~~v~~ll 892 (894)
T PRK10618 886 SFVKSLL 892 (894)
T ss_pred HHHHHHh
Confidence 8776543
No 9
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.62 E-value=3.4e-07 Score=83.76 Aligned_cols=88 Identities=16% Similarity=0.220 Sum_probs=70.8
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAV 117 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l 117 (145)
.+++.+.+++..|..+++..+.+++.+...+ |+..++..||.|||+++++|+..++.+|.++|..+...
T Consensus 820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~~~--------- 888 (914)
T PRK11466 820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPLSA--------- 888 (914)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCCc---------
Confidence 4667788999999999999999999998865 89999999999999999999999999999999875422
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048204 118 DAIRHEFLKLHSKMDIVLQ 136 (145)
Q Consensus 118 ~~l~~ef~~~~~~L~~~l~ 136 (145)
..+..++.+...+|+.|+.
T Consensus 889 ~~~~~~~~~~~~~~~~~~~ 907 (914)
T PRK11466 889 PLPHEEITRSVAALEAWLA 907 (914)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 1233444445555555543
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=98.57 E-value=1.1e-06 Score=80.21 Aligned_cols=96 Identities=14% Similarity=0.159 Sum_probs=81.4
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhc-CHHHHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDR-SKERCTVA 116 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~-~~~~~~~~ 116 (145)
+.++...+++..|+++.+..+..|..++... |...++..+|.+||+++++|+.++..+|..+|...+.+ ..+.....
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 4567888999999999999999999999864 79999999999999999999999999999999998865 45666666
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048204 117 VDAIRHEFLKLHSKMDIVL 135 (145)
Q Consensus 117 l~~l~~ef~~~~~~L~~~l 135 (145)
+..+..++.++...+++++
T Consensus 899 ~~~~~~~~~~~~~~~~~~~ 917 (919)
T PRK11107 899 LLELLDEMENVARAAKKVL 917 (919)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 6677777777777766654
No 11
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.98 E-value=6.5e-05 Score=68.76 Aligned_cols=70 Identities=16% Similarity=0.268 Sum_probs=57.0
Q ss_pred hhHHHHHHHHHHhHHHHHHHHHHH---hcCCCCCHH---HHHHHHHHhhhhhhhhcHHHHHHHHHHHHHH---hhhcCH
Q 048204 41 FFFAELIPTFCSDAQTTIREMTLA---LEQPVVNYH---EMEELCMKIKGGTLCIGAHQIALACGDLRHA---IDDRSK 110 (145)
Q Consensus 41 ~fv~~Li~~fl~ds~~~l~~L~~a---l~~~~~D~~---~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~---~~~~~~ 110 (145)
+-..++...|+.++++++..|+.+ +..++.|.+ .+-+.||+|||+|+.+|...++.+|-.+|.. .+.+..
T Consensus 4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~ 82 (716)
T COG0643 4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGEL 82 (716)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCc
Confidence 345688999999999999999985 344344554 5778999999999999999999999999986 444543
No 12
>PRK10547 chemotaxis protein CheA; Provisional
Probab=97.94 E-value=8.7e-05 Score=67.49 Aligned_cols=61 Identities=16% Similarity=0.245 Sum_probs=52.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHH---hcCCCCCHH---HHHHHHHHhhhhhhhhcHHHHHHHHHHHHHH
Q 048204 44 AELIPTFCSDAQTTIREMTLA---LEQPVVNYH---EMEELCMKIKGGTLCIGAHQIALACGDLRHA 104 (145)
Q Consensus 44 ~~Li~~fl~ds~~~l~~L~~a---l~~~~~D~~---~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~ 104 (145)
.+++..|++++.++|+.|+.. |+..+.|.+ .+-+.+|+|||+|+.+|...+..+|-.+|..
T Consensus 4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~l 70 (670)
T PRK10547 4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENL 70 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHH
Confidence 478999999999999999996 445455644 5667899999999999999999999999987
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=96.93 E-value=0.032 Score=53.00 Aligned_cols=95 Identities=13% Similarity=0.214 Sum_probs=73.0
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcC-HHHHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRS-KERCTVA 116 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~-~~~~~~~ 116 (145)
.......+++..+...++..+..+..+...+ |...++..+|.+||++..+|+..+...|.++|......+ .+.....
T Consensus 1097 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~~~~l~~~ 1174 (1197)
T PRK09959 1097 NDLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDSKPEILQL 1174 (1197)
T ss_pred CCHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCchHHHHHH
Confidence 3456788889999999999898888888865 789999999999999999999999999999998876443 3445555
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 048204 117 VDAIRHEFLKLHSKMDIV 134 (145)
Q Consensus 117 l~~l~~ef~~~~~~L~~~ 134 (145)
+..+..........+..+
T Consensus 1175 ~~~~~~~~~~~~~~~~~~ 1192 (1197)
T PRK09959 1175 LNSVKEHIAELDQEIAVF 1192 (1197)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 555555444444444443
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.42 E-value=0.017 Score=53.07 Aligned_cols=61 Identities=18% Similarity=0.227 Sum_probs=50.3
Q ss_pred HHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCH
Q 048204 46 LIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSK 110 (145)
Q Consensus 46 Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~ 110 (145)
+-..+.+.-...+..+..++..+ | .++..+|.+||+++++|+.++...|.++|...+.+..
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 34455555677888888888854 4 8999999999999999999999999999999876543
No 15
>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=63.83 E-value=43 Score=22.68 Aligned_cols=65 Identities=15% Similarity=0.061 Sum_probs=48.1
Q ss_pred HHHHHhhhhhcchhHH-HHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 048204 12 LDTITSMEVEGLVDSR-FRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCM 80 (145)
Q Consensus 12 ~~~~~~~~~~g~lD~~-~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH 80 (145)
..++..|..+|+++.. .+.++.-. ...+=...||++-..-++.-+.....|+... .|+-+.++.|
T Consensus 17 ~~ild~L~~~gvlt~~~~e~I~~~~--t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~ 82 (86)
T cd08323 17 SYIMDHMISDGVLTLDEEEKVKSKA--TQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLH 82 (86)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHcCC--ChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHh
Confidence 4578889999999998 77777642 3345667888888888888888888888742 3666666554
No 16
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=62.28 E-value=1.4e+02 Score=28.39 Aligned_cols=42 Identities=2% Similarity=0.128 Sum_probs=36.9
Q ss_pred hhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHH
Q 048204 84 GGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFL 125 (145)
Q Consensus 84 GSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~ 125 (145)
+.+.+++..-|......||+..++|+.+.+.++|+++++--+
T Consensus 530 ~~~~~~~~~dL~~mmd~ie~la~~G~~~~A~q~L~qlq~mme 571 (820)
T PF13779_consen 530 GNSQMMSQQDLQRMMDRIEELARSGRMDEARQLLEQLQQMME 571 (820)
T ss_pred hhhhccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence 556789999999999999999999999999999998876443
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=62.16 E-value=55 Score=31.26 Aligned_cols=44 Identities=5% Similarity=0.158 Sum_probs=37.4
Q ss_pred hhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHH
Q 048204 85 GTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLH 128 (145)
Q Consensus 85 SSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~ 128 (145)
.+.+++-.-|......||++.++|+.+.+.++|+++.+-.+..+
T Consensus 561 ~~~~l~~~dLq~Mmd~ieela~~G~~~~A~qlL~qlq~mmenlq 604 (851)
T TIGR02302 561 NTKVLRQQDLQNMMDQIENLARSGDRDQAKQLLSQLQQMMNNLQ 604 (851)
T ss_pred cccccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence 35679999999999999999999999999999998887554433
No 18
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=59.22 E-value=24 Score=24.84 Aligned_cols=48 Identities=15% Similarity=0.202 Sum_probs=32.6
Q ss_pred HHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHH
Q 048204 79 CMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKM 131 (145)
Q Consensus 79 aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L 131 (145)
.|.+++++ ..+...+..+|+....++++.+...++.+...|.+....+
T Consensus 18 ~~~l~~~~-----~~i~~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~ 65 (121)
T PF14276_consen 18 NNYLNNST-----DSIEEQLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRW 65 (121)
T ss_pred HhhhhhHH-----HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchhe
Confidence 35555554 3445567777777777888888777777777777666553
No 19
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=57.98 E-value=80 Score=23.86 Aligned_cols=59 Identities=12% Similarity=0.129 Sum_probs=47.9
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHH
Q 048204 39 GPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGD 100 (145)
Q Consensus 39 ~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~ 100 (145)
-.+|-..++..++.| ..+.+|.+......+|+. ..-..|.||+|+.-||-.+.+..|..
T Consensus 12 ~~d~~~sl~~qgild--~qF~qlq~lqD~~~p~fv-~ev~~~fF~~s~~~i~~~r~ald~~~ 70 (150)
T KOG4747|consen 12 VSDYTKSLFDQGILD--SQFLQLQELQDDSSPDFV-EEVVGLFFEDSERLINNLRLALDCER 70 (150)
T ss_pred HHHHHHHHHHHHhhH--HHHHHHHHHhcccCccHH-HHHHHHHHHHHHHHHHHHHHHHhhHh
Confidence 346888888888888 678889888776555654 45567999999999999999999994
No 20
>PRK03636 hypothetical protein; Provisional
Probab=57.15 E-value=38 Score=26.22 Aligned_cols=39 Identities=13% Similarity=0.260 Sum_probs=29.9
Q ss_pred HHHHHHHHHh------HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q 048204 44 AELIPTFCSD------AQTTIREMTLALEQPVVNYHEMEELCMKIKG 84 (145)
Q Consensus 44 ~~Li~~fl~d------s~~~l~~L~~al~~~~~D~~~l~~~aH~LKG 84 (145)
...++.+++. -.++...|..||+.+ |-+.+.+++..||-
T Consensus 131 ~~~ae~~L~~~~~~~r~~~L~~~ID~ALd~~--D~e~F~~Ls~~l~~ 175 (179)
T PRK03636 131 RLLAEQFLEQSVFQFRREKLLKQIDEALDRR--DKEAFHRLSDELNQ 175 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHH
Confidence 3455555555 467889999999976 89999999888873
No 21
>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.
Probab=56.12 E-value=34 Score=29.53 Aligned_cols=79 Identities=11% Similarity=0.095 Sum_probs=54.1
Q ss_pred HHHHHHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHhHHHH-HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhh
Q 048204 11 LLDTITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTT-IREMTLALEQPVVNYHEMEELCMKIKGGTLCI 89 (145)
Q Consensus 11 ~~~~~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~-l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~i 89 (145)
+..++.+||.+.=+-..+.+++.+ +|+|- +..|+..+..- +..|-.|...| |.+.|+..++.
T Consensus 214 v~~~~~~lF~ete~a~~l~eIk~~----DPsFd---~~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~lse-------- 276 (378)
T TIGR00984 214 IGGVFSGMFSETEVSEVLTEFKKI----DPTFD---KEHFLRFLREYIVPEILEAYVKG--DLEVLKSWCSE-------- 276 (378)
T ss_pred hhhhhhcccCCCHHHHHHHHHHHh----CCCCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhhCH--------
Confidence 344555577777776667777766 67786 78899999999 68888888866 88899877543
Q ss_pred cHHHHHHHHHHHHHHhhhc
Q 048204 90 GAHQIALACGDLRHAIDDR 108 (145)
Q Consensus 90 GA~~L~~~c~~lE~~~~~~ 108 (145)
.-....|..++.....|
T Consensus 277 --~vy~~f~a~I~qr~~~G 293 (378)
T TIGR00984 277 --APFSVYATVVKEYKKMG 293 (378)
T ss_pred --HHHHHHHHHHHHHHHCC
Confidence 23444555555554443
No 22
>PRK03057 hypothetical protein; Provisional
Probab=55.91 E-value=39 Score=26.14 Aligned_cols=37 Identities=16% Similarity=0.243 Sum_probs=28.7
Q ss_pred HHHHHHHHh------HHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 048204 45 ELIPTFCSD------AQTTIREMTLALEQPVVNYHEMEELCMKIK 83 (145)
Q Consensus 45 ~Li~~fl~d------s~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (145)
..++.|++. -.++...|..||+.+ |.+.+.++.+.|+
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 456678899999976 8999999888876
No 23
>PLN02956 PSII-Q subunit
Probab=55.81 E-value=97 Score=24.20 Aligned_cols=74 Identities=11% Similarity=0.132 Sum_probs=45.5
Q ss_pred HHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhc---------------------HHHHHHHHHHHHHHhhhcC
Q 048204 51 CSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIG---------------------AHQIALACGDLRHAIDDRS 109 (145)
Q Consensus 51 l~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iG---------------------A~~L~~~c~~lE~~~~~~~ 109 (145)
+.++.+-|-.|+..|+.+ |+.-++ -.|.|++++++ |..|.+--.+|..+++.++
T Consensus 89 ~k~~A~~l~~LK~LI~k~--~W~yvr---n~LRgp~s~Lr~DL~~Ii~slpp~Drk~a~~La~~LFd~l~~LD~AAR~kd 163 (185)
T PLN02956 89 VRGHAENLLRVKALIESE--SWKEAQ---KALRRSASNLKQDLYAIIQAKPGKDRPQLRRLYSDLFNSVTKLDYAARDKD 163 (185)
T ss_pred HHHHHHHHHHHHHHhhhc--cHHHHH---HHHHccHHHHHHHHHHHHHhcCHhHhHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 344455566888888865 677766 44667777766 3344445555666677777
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 048204 110 KERCTVAVDAIRHEFLKLHS 129 (145)
Q Consensus 110 ~~~~~~~l~~l~~ef~~~~~ 129 (145)
...+..........|..+.+
T Consensus 164 ~~~a~k~Y~~tva~lD~Vl~ 183 (185)
T PLN02956 164 ETRVWEYYENIVASLDDIFS 183 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 66665555555555555443
No 24
>PLN00061 photosystem II protein Psb27; Provisional
Probab=54.92 E-value=31 Score=26.00 Aligned_cols=61 Identities=18% Similarity=0.189 Sum_probs=42.4
Q ss_pred hhhcchhHHHHHHHhchhccChh-hHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 048204 19 EVEGLVDSRFRMVYSLKEANGPF-FFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIK 83 (145)
Q Consensus 19 ~~~g~lD~~~~~L~~L~~~~~~~-fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (145)
.++|+|+ -+..|.|++..- -=..|=..|..|+-..+..|+++|+..+.|-..+++.+..=|
T Consensus 28 ~~~~~~~----~~~~~fdp~e~tksg~~Lpg~Y~kdtr~VV~tLresl~l~p~D~~~~~~aa~~Ak 89 (150)
T PLN00061 28 EGEGVVG----AIKSLFDPNEKTKSGKKLPKAYLKSAREVVKTLRESLKEDPKDEAKFRRTADAAK 89 (150)
T ss_pred ccccHHH----HHHHhcCccccccccccCchHHHHHHHHHHHHHHHHHccCCcchHHHHHHHHHHH
Confidence 3456666 677776654321 123567889999999999999999976667777766555433
No 25
>KOG2424 consensus Protein involved in transcription start site selection [Transcription]
Probab=53.97 E-value=24 Score=27.60 Aligned_cols=37 Identities=24% Similarity=0.282 Sum_probs=25.4
Q ss_pred hhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHH
Q 048204 85 GTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLK 126 (145)
Q Consensus 85 SSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~ 126 (145)
.-|.+||..+.++|..++. ++. .+...++.|-.+|++
T Consensus 146 EdA~~Gaf~I~elcq~l~~--~s~---d~Ed~ideil~~~ee 182 (195)
T KOG2424|consen 146 EDATLGAFLILELCQCLQA--QSD---DLEDNIDEILLEFEE 182 (195)
T ss_pred HhhhhhHHHHHHHHHHHHh--ccc---cHHHHHHHHHHHHHH
Confidence 3578999999999999987 333 334444555555543
No 26
>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=51.33 E-value=26 Score=27.57 Aligned_cols=18 Identities=33% Similarity=0.383 Sum_probs=15.9
Q ss_pred hhhhcHHHHHHHHHHHHH
Q 048204 86 TLCIGAHQIALACGDLRH 103 (145)
Q Consensus 86 Sa~iGA~~L~~~c~~lE~ 103 (145)
.|.+||..+.++|..|+.
T Consensus 145 eA~~Ga~~ileLc~~l~~ 162 (195)
T PF04722_consen 145 EATIGAFLILELCQMLEE 162 (195)
T ss_dssp HHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 578999999999999997
No 27
>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=50.40 E-value=1e+02 Score=22.87 Aligned_cols=27 Identities=15% Similarity=0.212 Sum_probs=22.0
Q ss_pred HHHhchhccChhhHHHHHHHHHHhHHH
Q 048204 30 MVYSLKEANGPFFFAELIPTFCSDAQT 56 (145)
Q Consensus 30 ~L~~L~~~~~~~fv~~Li~~fl~ds~~ 56 (145)
-|+.++++.|.-|+.+||.-|+++.=.
T Consensus 34 ll~~~k~~~gC~~l~ell~FYLd~V~p 60 (137)
T smart00188 34 LLEDFKGYLGCQALSEMIQFYLEEVMP 60 (137)
T ss_pred HHHHhCCCcchHHHHHHHHHHHHHHHH
Confidence 556677778889999999999987643
No 28
>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=47.57 E-value=1.2e+02 Score=22.95 Aligned_cols=82 Identities=10% Similarity=0.148 Sum_probs=56.5
Q ss_pred hhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHH-HHHHHHHHHHhh---hcCHHHHHH
Q 048204 40 PFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQI-ALACGDLRHAID---DRSKERCTV 115 (145)
Q Consensus 40 ~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L-~~~c~~lE~~~~---~~~~~~~~~ 115 (145)
.+.+..|+..|+ .|..||..+ |.......|=.|..+-..+....+ ......+..... ..+++..+.
T Consensus 43 ~~~l~~v~~~Yl--------~lk~ALv~d--d~~~a~~aA~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~di~~qR~ 112 (174)
T PF11827_consen 43 DDSLQQVLNAYL--------ALKDALVAD--DLKAAKAAAKALLAALKAVDMAELSASLAKALMEAAEDAKEHDIEHQRE 112 (174)
T ss_pred HHHHHHHHHHHH--------HHHHHHHhc--CHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHhhhhCCHHHHHH
Confidence 345667777775 789999876 899999999999999888887643 333444444432 227777777
Q ss_pred HHHHHHHHHHHHHHHH
Q 048204 116 AVDAIRHEFLKLHSKM 131 (145)
Q Consensus 116 ~l~~l~~ef~~~~~~L 131 (145)
.|..|...+..+...+
T Consensus 113 ~F~~lS~~~~~l~~~~ 128 (174)
T PF11827_consen 113 AFESLSEAMIDLVKAF 128 (174)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 7777777665555443
No 29
>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=47.37 E-value=75 Score=20.40 Aligned_cols=28 Identities=21% Similarity=0.277 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHhhhcCHHHHHHHHHHHH
Q 048204 94 IALACGDLRHAIDDRSKERCTVAVDAIR 121 (145)
Q Consensus 94 L~~~c~~lE~~~~~~~~~~~~~~l~~l~ 121 (145)
+..+...|...-..++++.+...+.+++
T Consensus 40 ~~~~~~~l~~~f~~~d~~~A~~~~~kLk 67 (78)
T PF07743_consen 40 IKELIKELAEAFDAKDWEEAKEALRKLK 67 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHccCcHHHHHHHHHHHH
Confidence 3444444444445666666555555553
No 30
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=45.07 E-value=90 Score=21.26 Aligned_cols=36 Identities=17% Similarity=0.283 Sum_probs=30.1
Q ss_pred hcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 048204 107 DRSKERCTVAVDAIRHEFLKLHSKMDIVLQLERMII 142 (145)
Q Consensus 107 ~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~rq~~ 142 (145)
+..++....+|+.|+.--..+...|..+++-.||+-
T Consensus 32 ns~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R 67 (83)
T PF03670_consen 32 NSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIR 67 (83)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 555777788889999999999999999999888863
No 31
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=43.91 E-value=2e+02 Score=24.37 Aligned_cols=77 Identities=14% Similarity=0.135 Sum_probs=46.8
Q ss_pred hhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHH
Q 048204 41 FFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAI 120 (145)
Q Consensus 41 ~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l 120 (145)
+|+ +.|..|+.|+...+..+++-++.. .+.....+ .-|--.-+.=...+..+-.++|.++.+|+.+.+..++..+
T Consensus 83 d~~-~~l~~~v~d~~rri~~~kerL~e~---~ee~~~e~-~~k~~~v~~l~e~I~~~l~~~E~LG~eG~Veeaq~~~~e~ 157 (319)
T KOG0796|consen 83 DAL-EILERFVADVDRRIEKAKERLAET---VEERSEEA-ARKAEKVHELEEKIGKLLEKAEELGEEGNVEEAQKAMKEV 157 (319)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHHHhh---hhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence 454 888999999999988888776642 11110000 0000001111255566677788889999998888777666
Q ss_pred HH
Q 048204 121 RH 122 (145)
Q Consensus 121 ~~ 122 (145)
+.
T Consensus 158 E~ 159 (319)
T KOG0796|consen 158 EE 159 (319)
T ss_pred HH
Confidence 55
No 32
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=42.02 E-value=46 Score=27.31 Aligned_cols=49 Identities=14% Similarity=0.167 Sum_probs=35.6
Q ss_pred HHHHHHHHHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcC
Q 048204 8 NRQLLDTITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQ 67 (145)
Q Consensus 8 ~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~ 67 (145)
+..|.++++.+-.++.||. +-.+|+.+|.+.|+++....--.|.+--..
T Consensus 157 k~kl~dLvqqId~~~~LD~-----------dVedlLleiADdFV~sii~~sC~LAKHRKs 205 (258)
T KOG1142|consen 157 KRKLDDLVQQIDGTTKLDD-----------DVEDLLLEIADDFVSSIIHRSCKLAKHRKS 205 (258)
T ss_pred ccchhHHHHhhcCcccccH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4567788888877888885 345677888888888887777677665443
No 33
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=41.96 E-value=55 Score=20.69 Aligned_cols=32 Identities=3% Similarity=0.123 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHH
Q 048204 95 ALACGDLRHAIDDRSKERCTVAVDAIRHEFLK 126 (145)
Q Consensus 95 ~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~ 126 (145)
-.+|.+++.+....+.......+..|..+|..
T Consensus 37 ~~Li~~~~~l~~~~d~~~~~~~~k~l~~~Wk~ 68 (77)
T PF03993_consen 37 EALIEEAEALAESEDWKEAAEEIKELQQEWKE 68 (77)
T ss_pred HHHHHHHHHhcccccHHHHHHHHHHHHHHHHH
Confidence 35677777777776666666666677666654
No 34
>PF14493 HTH_40: Helix-turn-helix domain
Probab=40.94 E-value=91 Score=20.70 Aligned_cols=58 Identities=10% Similarity=0.115 Sum_probs=37.4
Q ss_pred HHHHHHhhhhhcc-hhHHHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHH
Q 048204 11 LLDTITSMEVEGL-VDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEE 77 (145)
Q Consensus 11 ~~~~~~~~~~~g~-lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~ 77 (145)
+..|+-.+...|- +|.. ++ -+++....+...|-......|..+.+++... .||..+|-
T Consensus 30 I~~HL~~~~~~g~~~~~~--~~------l~~e~~~~I~~~~~~~~~~~lk~i~e~l~~~-~sy~~iRl 88 (91)
T PF14493_consen 30 IYGHLAELIESGEPLDIE--EL------LSEEEIKQIEDAIEKLGSEKLKPIKEALPGD-YSYFEIRL 88 (91)
T ss_pred HHHHHHHHHHhCCCCCHH--Hh------CCHHHHHHHHHHHHHcCcccHHHHHHHCCCC-CCHHHHHH
Confidence 3445555555565 5532 11 2345666777777666667899999998864 78988873
No 35
>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=40.80 E-value=87 Score=22.84 Aligned_cols=10 Identities=10% Similarity=0.129 Sum_probs=0.0
Q ss_pred hhhhhhcHHH
Q 048204 84 GGTLCIGAHQ 93 (145)
Q Consensus 84 GSSa~iGA~~ 93 (145)
-||.+.+|..
T Consensus 12 lss~sfaA~~ 21 (126)
T PF09403_consen 12 LSSISFAATA 21 (126)
T ss_dssp ----------
T ss_pred HHHHHHHccc
Confidence 4667777776
No 36
>PF04049 APC8: Anaphase promoting complex subunit 8 / Cdc23 ; InterPro: IPR007192 The anaphase-promoting complex is composed of eight protein subunits, including BimE (APC1), CDC27 (APC3), CDC16 (APC6), and CDC23 (APC8). This entry is for CDC23.; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0005680 anaphase-promoting complex
Probab=40.11 E-value=1.5e+02 Score=21.75 Aligned_cols=84 Identities=11% Similarity=0.048 Sum_probs=51.6
Q ss_pred chHHHHHHHHHHHHHhhhhhcchhHH-HH--HHHhchhcc-------------ChhhHH-HHHHHHHHhHHHHHHHHHHH
Q 048204 2 ADKVALNRQLLDTITSMEVEGLVDSR-FR--MVYSLKEAN-------------GPFFFA-ELIPTFCSDAQTTIREMTLA 64 (145)
Q Consensus 2 ~~~~~~~~q~~~~~~~~~~~g~lD~~-~~--~L~~L~~~~-------------~~~fv~-~Li~~fl~ds~~~l~~L~~a 64 (145)
+|+..+|.+|..-++-+.+.|+++.. |. .|-.|.+.. .+.+-. .......+..+.-.=-+...
T Consensus 4 ~~~~~ir~~L~~a~~~~s~RgL~~saKWaaElL~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~d~yllAks 83 (142)
T PF04049_consen 4 DDLKEIRSELRQAIRECSERGLYQSAKWAAELLNGLPPPWRDDTPDDPSSSPSSSQLSPSSPSEDQLESKEYDKYLLAKS 83 (142)
T ss_pred hhHHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHcCCCCcccccccccccCCCccccCCCChhhhhhhhhHHHHHHHHHH
Confidence 47788999999999999999999987 43 366665211 111111 11112221122222234454
Q ss_pred hcCCCCCHHHHHHHHHHhhhhhhhh
Q 048204 65 LEQPVVNYHEMEELCMKIKGGTLCI 89 (145)
Q Consensus 65 l~~~~~D~~~l~~~aH~LKGSSa~i 89 (145)
+= |...+++.||.||+..+..
T Consensus 84 yF----D~kEy~RaA~~L~~~~s~~ 104 (142)
T PF04049_consen 84 YF----DCKEYDRAAHVLKDCKSPK 104 (142)
T ss_pred Hh----chhHHHHHHHHHccCCCch
Confidence 43 7889999999999988443
No 37
>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=38.24 E-value=1.7e+02 Score=21.82 Aligned_cols=55 Identities=15% Similarity=0.183 Sum_probs=38.3
Q ss_pred CHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 71 NYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMDIV 134 (145)
Q Consensus 71 D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 134 (145)
|...+..+.+.++ .++..+...++.+-..++++.+...+.+++= |.++...++.+
T Consensus 98 d~~~L~~l~~~~~--------~~~~~~~~~l~~~~~~~d~~~A~~~~~kLky-~~kl~~~i~~~ 152 (157)
T TIGR00714 98 DEARLESFIKRVK--------KMFQTRHQLLVEQLDNQTWAAAADYTRKLRF-LDKLRSSAEQL 152 (157)
T ss_pred CHHHHHHHHHHHH--------HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 5667777766655 4666777777777777888888888877765 55555555543
No 38
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.00 E-value=1.3e+02 Score=23.46 Aligned_cols=39 Identities=15% Similarity=0.262 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 94 IALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMD 132 (145)
Q Consensus 94 L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~ 132 (145)
++.+|+.++..-+..+++.+.++++..+..|..+-..-+
T Consensus 95 M~gVvK~md~alktmNLekis~~MDkFE~qFedldvqt~ 133 (203)
T KOG3232|consen 95 MAGVVKSMDSALKTMNLEKISQLMDKFEKQFEDLDVQTE 133 (203)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhhhhhHHH
Confidence 567899999999999999999999999999987655433
No 39
>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=37.42 E-value=1.6e+02 Score=21.47 Aligned_cols=53 Identities=11% Similarity=0.103 Sum_probs=29.3
Q ss_pred HHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q 048204 28 FRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKG 84 (145)
Q Consensus 28 ~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKG 84 (145)
.+++...- ||++=...|++---..+|..++.+..+++++ |..+++-+.-.+++
T Consensus 36 V~~V~~~A--GG~e~f~~i~~~~~~~~~~~~ea~~~Ai~~~--dla~vk~~vn~~~~ 88 (123)
T PF05396_consen 36 VNSVKGYA--GGEEGFAAIMSHAEANSPAAAEAFNEAIESG--DLATVKAAVNLAGA 88 (123)
T ss_pred HHHHHHHh--cCHHHHHHHHHHHHhCCHHHHHHHHHHHHhC--CHHHHHHHHHHHHH
Confidence 44444443 4554444555444456677777777777654 66666655444333
No 40
>COG2603 Predicted ATPase [General function prediction only]
Probab=37.25 E-value=2.6e+02 Score=23.77 Aligned_cols=81 Identities=10% Similarity=0.157 Sum_probs=55.4
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHH----HHhhhcCHHHHHHHH
Q 048204 42 FFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLR----HAIDDRSKERCTVAV 117 (145)
Q Consensus 42 fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE----~~~~~~~~~~~~~~l 117 (145)
=|.++++.|...-.+. +-..++... .-|..+. +-|.|-++---+|-.++..+...+- +....++.++-..++
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 3678888887654422 122232211 1255665 6699999999999999998887654 446678888888888
Q ss_pred HHHHHHHHH
Q 048204 118 DAIRHEFLK 126 (145)
Q Consensus 118 ~~l~~ef~~ 126 (145)
..+..||-.
T Consensus 318 ~~~~~e~~d 326 (334)
T COG2603 318 VPLLEEYYD 326 (334)
T ss_pred HHHHHHHHH
Confidence 888887754
No 41
>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=35.91 E-value=87 Score=20.25 Aligned_cols=49 Identities=14% Similarity=0.227 Sum_probs=29.4
Q ss_pred HHHHHHHHHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcC
Q 048204 8 NRQLLDTITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQ 67 (145)
Q Consensus 8 ~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~ 67 (145)
+++|..+++.+--...+|. .-.+++.++.+.|+++.-..--.+..--..
T Consensus 2 K~~l~~Lv~~iDp~~~ld~-----------~vee~Ll~laddFv~~v~~~ac~lAKhR~s 50 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDP-----------DVEELLLELADDFVDDVVSFACRLAKHRKS 50 (68)
T ss_dssp HHHHHHHHHCC-SS----H-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred hHHHHHHHHHcCCCCCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 4566777777744444554 234677888888888887777666665443
No 42
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.66 E-value=9.4 Score=25.46 Aligned_cols=20 Identities=35% Similarity=0.395 Sum_probs=17.7
Q ss_pred HHhhhhhhhhcHHHHHHHHH
Q 048204 80 MKIKGGTLCIGAHQIALACG 99 (145)
Q Consensus 80 H~LKGSSa~iGA~~L~~~c~ 99 (145)
.++|||++-|+|..+...|.
T Consensus 27 k~I~GSCGGi~alGi~K~Cd 46 (77)
T COG2991 27 KSIKGSCGGIAALGIEKVCD 46 (77)
T ss_pred cccccccccHHhhccchhcC
Confidence 57999999999999888886
No 43
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=34.42 E-value=2e+02 Score=21.64 Aligned_cols=53 Identities=13% Similarity=0.230 Sum_probs=34.6
Q ss_pred CHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 71 NYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMD 132 (145)
Q Consensus 71 D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~ 132 (145)
|...+..+...++. ++..+...|+.+-..++++.+...+.+++= |.++...++
T Consensus 107 ~~~~L~~l~~~~~~--------~~~~~~~~l~~~f~~~d~~~A~~~~~~L~y-~~kl~~~i~ 159 (166)
T PRK01356 107 LFSDLEKIKNKYEL--------MYKNEIDSLKQAFEEQNLSDATIKTSKLKY-IGTLLNKLQ 159 (166)
T ss_pred CHHHHHHHHHHHHH--------HHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-HHHHHHHHH
Confidence 45567766666653 345666667777777888888888877765 444444444
No 44
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=34.13 E-value=5.2e+02 Score=26.36 Aligned_cols=58 Identities=16% Similarity=0.104 Sum_probs=29.7
Q ss_pred HHHHHHHHhhhhhhhh-cHHHHHHHHHH-HHHHhh--hcCHHHHHHHHHHHHHHHHHHHHHH
Q 048204 74 EMEELCMKIKGGTLCI-GAHQIALACGD-LRHAID--DRSKERCTVAVDAIRHEFLKLHSKM 131 (145)
Q Consensus 74 ~l~~~aH~LKGSSa~i-GA~~L~~~c~~-lE~~~~--~~~~~~~~~~l~~l~~ef~~~~~~L 131 (145)
+-++-||.+|+++-.| +|...+..+.. .+.+.+ ..+.....+.|.+++.+-+.+...+
T Consensus 1553 ~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~ 1614 (1758)
T KOG0994|consen 1553 RARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLA 1614 (1758)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455677777766543 44444444332 122222 2345556667777776665554443
No 45
>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=33.78 E-value=1.5e+02 Score=19.94 Aligned_cols=47 Identities=13% Similarity=0.152 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhhhhhcchhHHHHHHHhchhc-cChhhHHHHHHHHHHh
Q 048204 7 LNRQLLDTITSMEVEGLVDSRFRMVYSLKEA-NGPFFFAELIPTFCSD 53 (145)
Q Consensus 7 ~~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~-~~~~fv~~Li~~fl~d 53 (145)
+|+.+...+...++.|=.++.+..|.+|.-+ ..++||..+|..-++.
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 5778888899999999888888899888544 2245555555555444
No 46
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=33.67 E-value=79 Score=21.27 Aligned_cols=29 Identities=21% Similarity=0.137 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhhhhhcchhHH-HHHHHhch
Q 048204 7 LNRQLLDTITSMEVEGLVDSR-FRMVYSLK 35 (145)
Q Consensus 7 ~~~q~~~~~~~~~~~g~lD~~-~~~L~~L~ 35 (145)
|+.+|..+.+-+.+..-+|.. -..|..|.
T Consensus 2 L~~~L~~L~~eL~~~~~ld~~~~~~L~~l~ 31 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPLDEETRAELSSLD 31 (85)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence 677777777777777777775 55555554
No 47
>PRK08818 prephenate dehydrogenase; Provisional
Probab=33.55 E-value=1.6e+02 Score=25.23 Aligned_cols=42 Identities=10% Similarity=0.233 Sum_probs=30.0
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhh
Q 048204 39 GPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTL 87 (145)
Q Consensus 39 ~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa 87 (145)
|| .+.+.++.| .+.|.++++++.++ |...+.+..|.+.-+-.
T Consensus 226 N~-~i~~~l~~~----~~~L~~l~~~i~~~--D~~~~~~~~~~f~~a~~ 267 (370)
T PRK08818 226 NP-YVGEMLDRL----LAQLQELRALVAQG--DDAARARFRAQFLHANA 267 (370)
T ss_pred CH-HHHHHHHHH----HHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHh
Confidence 56 667777777 55677788888865 78888888777765544
No 48
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=33.37 E-value=3.4e+02 Score=23.95 Aligned_cols=92 Identities=8% Similarity=0.024 Sum_probs=68.4
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHH--HhhhcCHHHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRH--AIDDRSKERCTV 115 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~--~~~~~~~~~~~~ 115 (145)
-+|+.-..+-...+..|++++.+|..-+.. ++++-+-..++.+-..+.+.+.+-..-+=++ +-+....+....
T Consensus 212 F~PedA~~ia~aLL~~sE~~VN~Ls~rar~-----D~v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~ 286 (434)
T PRK15178 212 RSAKQAEFFAQRILSFAEQHVNTVSARMQK-----ERILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQ 286 (434)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHH
Confidence 368889999999999999999999988773 3777777888887777666655544443332 133455677778
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048204 116 AVDAIRHEFLKLHSKMDIV 134 (145)
Q Consensus 116 ~l~~l~~ef~~~~~~L~~~ 134 (145)
.+..|+.+...++..|...
T Consensus 287 lI~~Le~qLa~~~aeL~~L 305 (434)
T PRK15178 287 LIAGFETQLAEAKAEYAQL 305 (434)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8889999888888887754
No 49
>PF06920 Ded_cyto: Dedicator of cytokinesis; InterPro: IPR010703 This family represents a conserved region of approximately 200 residues within a number of eukaryotic dedicator of cytokinesis (DOCK) proteins. These proteins are potential guanine nucleotide exchange factors that activate some small GTPases, such as Rac, by exchanging bound GDP for free GTP []. DOCK proteins are required during several cellular processes, such as cell motility and phagocytosis. For instance, DOCK2 is specifically expressed in haemopoietic cells, and plays a critical role in lymphocyte migration [].; GO: 0005085 guanyl-nucleotide exchange factor activity, 0005525 GTP binding, 0051020 GTPase binding; PDB: 2WMO_A 2WM9_A 2WMN_A 3VHL_A 3B13_A 2YIN_B.
Probab=31.82 E-value=2.2e+02 Score=21.34 Aligned_cols=91 Identities=13% Similarity=0.116 Sum_probs=45.6
Q ss_pred HHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHH
Q 048204 47 IPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLK 126 (145)
Q Consensus 47 i~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~ 126 (145)
|+.=+++-.+...+|..++.....|+..+.......=.++.|=|-...++..-.-+.. .......+.+|+..|.+
T Consensus 64 ie~Aie~i~~k~~eL~~~~~~~~~~~~~L~~~L~G~v~a~VngG~~~y~~~Fl~~~~~-----~~~~~~~~~~L~~~~~~ 138 (178)
T PF06920_consen 64 IENAIEDIEKKNKELEELINSYKPNINPLQMLLQGSVDAAVNGGPSKYAEAFLSPEYL-----HPEDKELVEKLKEAFID 138 (178)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSSS-HHHHHHHHHHHHS-SSS-TTHHHHHHHSSCHHC-----SHCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccchhHHHHHhcccccccccCchHHHHHHHcCcccc-----CcccHHHHHHHHHHHHH
Confidence 4444566667777777776654346666664444333345565655554443332222 11223444555565655
Q ss_pred HHHHHHHHHHHHhhhh
Q 048204 127 LHSKMDIVLQLERMII 142 (145)
Q Consensus 127 ~~~~L~~~l~~~rq~~ 142 (145)
....++.-+.++++..
T Consensus 139 ~~~~~~~~L~~h~~~~ 154 (178)
T PF06920_consen 139 QLIVLERALELHKKLC 154 (178)
T ss_dssp HHHHHHHHHHHHHHC-
T ss_pred HHHHHHHHHHHHHHHC
Confidence 5555555555555443
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=31.13 E-value=1.1e+02 Score=17.39 Aligned_cols=26 Identities=15% Similarity=0.184 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 048204 55 QTTIREMTLALEQPVVNYHEMEELCMKI 82 (145)
Q Consensus 55 ~~~l~~L~~al~~~~~D~~~l~~~aH~L 82 (145)
+++...|..|+..+ |-+.+.+++..|
T Consensus 12 ~~L~~~ID~ALd~~--D~e~F~~Ls~eL 37 (37)
T PF08858_consen 12 EQLLELIDEALDNR--DKEWFYELSEEL 37 (37)
T ss_dssp HHHHHHHHHHHHTT---HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcC--CHHHHHHHHhhC
Confidence 56788899999976 888888877553
No 51
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=31.05 E-value=75 Score=21.89 Aligned_cols=27 Identities=7% Similarity=0.225 Sum_probs=23.4
Q ss_pred HHHHHhchhccChhhHHHHHHHHHHhH
Q 048204 28 FRMVYSLKEANGPFFFAELIPTFCSDA 54 (145)
Q Consensus 28 ~~~L~~L~~~~~~~fv~~Li~~fl~ds 54 (145)
|+=|..+-+..-|.||.++++.|+++.
T Consensus 21 F~FL~~~P~GT~~~~iR~~L~rYI~~~ 47 (97)
T PRK13916 21 FDFLENVPRGTKTAHIREALRRYIEEI 47 (97)
T ss_pred HHHHHHCCCCCccHHHHHHHHHHHHhc
Confidence 778888987777999999999998864
No 52
>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=30.85 E-value=83 Score=19.80 Aligned_cols=36 Identities=11% Similarity=0.289 Sum_probs=27.6
Q ss_pred HHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHH
Q 048204 27 RFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTL 63 (145)
Q Consensus 27 ~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~ 63 (145)
+|.+|+.+-. .+|+.+..++...-..-|.++..|.+
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 3788888765 48899988888888888888877755
No 53
>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=30.01 E-value=1.9e+02 Score=23.55 Aligned_cols=62 Identities=6% Similarity=0.128 Sum_probs=47.5
Q ss_pred HHHHHHHHHhhhhhhh----hcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 73 HEMEELCMKIKGGTLC----IGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMDIV 134 (145)
Q Consensus 73 ~~l~~~aH~LKGSSa~----iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~ 134 (145)
...++.++.+..+|-- +|=..+-.+|+.+|.+|.-=...++.+.+..+...|..+...+..|
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 3556666666555522 4666778899999999998888899999999999999998887743
No 54
>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=28.27 E-value=3.2e+02 Score=22.06 Aligned_cols=82 Identities=13% Similarity=0.143 Sum_probs=47.9
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHH--HHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHH-
Q 048204 43 FAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEEL--CMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDA- 119 (145)
Q Consensus 43 v~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~--aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~- 119 (145)
+.+.+..|+.|+.+.|..=..-++..+.+....... +=.+..= -..+..+-.+.|.++.+|+.+.+...+..
T Consensus 84 ~~~~L~~~i~d~drrI~~~k~RL~~~~~~~~~~~~~~~~~~i~~l-----~~~I~~ll~~aE~LGeeG~VdeA~~~~~~~ 158 (254)
T PF03194_consen 84 FLRYLQRLIRDCDRRIERAKERLEQTQEEQAKEADEEKAEKIDEL-----DEKIGELLKEAEELGEEGDVDEAQKLMEEV 158 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhhhHHHHHHHH-----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 347888999999999987766665432121111111 1111111 12356677788899999998887665544
Q ss_pred --HHHHHHHHHH
Q 048204 120 --IRHEFLKLHS 129 (145)
Q Consensus 120 --l~~ef~~~~~ 129 (145)
|+.+-..+..
T Consensus 159 e~Lk~ek~~le~ 170 (254)
T PF03194_consen 159 EKLKEEKEELEK 170 (254)
T ss_pred HHHHHHHHHHHh
Confidence 4444444444
No 55
>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=28.06 E-value=92 Score=17.66 Aligned_cols=34 Identities=6% Similarity=0.078 Sum_probs=20.7
Q ss_pred HHHHHhchhccChhhHHHHHHHHHHhHHHHHHHH
Q 048204 28 FRMVYSLKEANGPFFFAELIPTFCSDAQTTIREM 61 (145)
Q Consensus 28 ~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L 61 (145)
+.+|.++-+.-+++++..++..+=.+.+..+..|
T Consensus 5 v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~L 38 (42)
T PF02845_consen 5 VQQLQEMFPDLDREVIEAVLQANNGDVEAAIDAL 38 (42)
T ss_dssp HHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 5677777766667777666666655555555433
No 56
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=27.94 E-value=3e+02 Score=21.74 Aligned_cols=34 Identities=32% Similarity=0.428 Sum_probs=21.2
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHH
Q 048204 39 GPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEEL 78 (145)
Q Consensus 39 ~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~ 78 (145)
|++.+.+.++.| .+.|.+++.++.++ |.+.+.+.
T Consensus 222 N~~~~~~~l~~~----~~~L~~l~~~l~~~--d~~~l~~~ 255 (258)
T PF02153_consen 222 NPENLLEALDEF----IKELNELREALEAG--DEEELEEL 255 (258)
T ss_dssp THHHHHHHHHHH----HHHHHHHHHHHHTT--SHHHHHHH
T ss_pred CHHHHHHHHHHH----HHHHHHHHHHHHcC--CHHHHHHH
Confidence 444444555555 56677777787865 77777654
No 57
>PF13326 PSII_Pbs27: Photosystem II Pbs27; PDB: 2KND_A 2KMF_A 2Y6X_A.
Probab=27.37 E-value=2.6e+02 Score=20.74 Aligned_cols=86 Identities=10% Similarity=0.072 Sum_probs=53.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhh-----------hhcHHHHHHHHHHHHHH----hhhcC
Q 048204 45 ELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTL-----------CIGAHQIALACGDLRHA----IDDRS 109 (145)
Q Consensus 45 ~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa-----------~iGA~~L~~~c~~lE~~----~~~~~ 109 (145)
.+-..|.+|+-+.+..|+.+|+.+ .|-+..++.+-.+|-+.- --|=.....+-..|..+ ...|+
T Consensus 44 ~l~~~Y~~dt~~vv~~lr~~l~l~-~d~~~~~~~~~~ar~~in~~vs~YRr~~~v~g~~Sf~~m~tAln~LaghY~s~g~ 122 (145)
T PF13326_consen 44 GLTGDYVKDTRAVVKTLREALELD-KDDPNRAEAAAEARELINDYVSRYRRGPSVSGLPSFTTMYTALNALAGHYSSYGN 122 (145)
T ss_dssp S--S-CHHHHHHHHHHHHHHHCS--TT-TTHHHHHHHHHHHHHHHHCCCCCCHHCCTSHHHHHHHHHHHHHHHHCHHHTT
T ss_pred cccchHHHHHHHHHHHHHHHHcCC-CCCccHHHHHHHHHHHHHHHHHHhCCCCCcCCcchHHHHHHHHHHHHHHHHhCCC
Confidence 445679999999999999999864 477777777777775442 22324444444444443 33454
Q ss_pred H-HHHHHHHHHHHHHHHHHHHHH
Q 048204 110 K-ERCTVAVDAIRHEFLKLHSKM 131 (145)
Q Consensus 110 ~-~~~~~~l~~l~~ef~~~~~~L 131 (145)
. +--....++|..||.++..+|
T Consensus 123 raPlP~k~k~rll~el~~Ae~aL 145 (145)
T PF13326_consen 123 RAPLPEKLKERLLKELDQAEKAL 145 (145)
T ss_dssp S-S--HHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHhcC
Confidence 4 444566778889998887765
No 58
>COG0783 Dps DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]
Probab=27.34 E-value=2e+02 Score=21.64 Aligned_cols=27 Identities=22% Similarity=0.464 Sum_probs=13.6
Q ss_pred cChhhH--HHHHHHHHHhHHHHHHHHHHH
Q 048204 38 NGPFFF--AELIPTFCSDAQTTIREMTLA 64 (145)
Q Consensus 38 ~~~~fv--~~Li~~fl~ds~~~l~~L~~a 64 (145)
.||+|. .++.+.+.++....+.+|.+-
T Consensus 42 ~G~~F~~lHe~~ee~y~el~~~~DeiAER 70 (156)
T COG0783 42 KGPNFFALHEKLEELYEELAEHVDEIAER 70 (156)
T ss_pred eCccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477774 244444444444445444443
No 59
>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=27.34 E-value=2.1e+02 Score=19.58 Aligned_cols=29 Identities=10% Similarity=0.218 Sum_probs=20.3
Q ss_pred ccChhhHHHHHHHHHHhHHHHHHHHHHHhc
Q 048204 37 ANGPFFFAELIPTFCSDAQTTIREMTLALE 66 (145)
Q Consensus 37 ~~~~~fv~~Li~~fl~ds~~~l~~L~~al~ 66 (145)
.|+|.|+ +-......+-+..|..|+..+.
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 4556667888888999988775
No 60
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=27.01 E-value=1.7e+02 Score=19.73 Aligned_cols=46 Identities=13% Similarity=0.122 Sum_probs=32.2
Q ss_pred HHHHHHHHHhhhhhcchhHHHHHHHhchhc-cChhhHHHHHHHHHHh
Q 048204 8 NRQLLDTITSMEVEGLVDSRFRMVYSLKEA-NGPFFFAELIPTFCSD 53 (145)
Q Consensus 8 ~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~-~~~~fv~~Li~~fl~d 53 (145)
|+.+...+.+.+..|=.++.+..|.+|.-+ -.++|+..+|..-++.
T Consensus 2 ~k~i~~~l~ey~~~~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~le~ 48 (113)
T smart00544 2 KKKIFLIIEEYLSSGDTDEAVHCLLELKLPEQHHEVVKVLLTCALEE 48 (113)
T ss_pred hhHHHHHHHHHHHcCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcC
Confidence 567777888888888888888889888643 2345665666555544
No 61
>PF05465 Halo_GVPC: Halobacterial gas vesicle protein C (GVPC) repeat; InterPro: IPR008639 This family consists of Halobacterium gas vesicle protein C sequences which are thought to confer stability to the gas vesicle membranes [,].; GO: 0031412 gas vesicle organization, 0031411 gas vesicle
Probab=26.82 E-value=1.2e+02 Score=16.72 Aligned_cols=23 Identities=17% Similarity=0.247 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 048204 113 CTVAVDAIRHEFLKLHSKMDIVL 135 (145)
Q Consensus 113 ~~~~l~~l~~ef~~~~~~L~~~l 135 (145)
....+...+.+|..+..++..|-
T Consensus 4 l~a~I~~~r~~f~~~~~aF~aY~ 26 (32)
T PF05465_consen 4 LLAAIAEFREEFDDTQDAFEAYA 26 (32)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34557788899999999999884
No 62
>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=26.26 E-value=78 Score=22.84 Aligned_cols=49 Identities=18% Similarity=0.303 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHHHhhhhhcchhHHHHHHHhchhc----cChhhHHHHHHHHHHhHHHHHHHHHH
Q 048204 3 DKVALNRQLLDTITSMEVEGLVDSRFRMVYSLKEA----NGPFFFAELIPTFCSDAQTTIREMTL 63 (145)
Q Consensus 3 ~~~~~~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~----~~~~fv~~Li~~fl~ds~~~l~~L~~ 63 (145)
|+..|-.+|+-+ +-|..|++|.+|.+. .+|++|..++..|+. ++..|..
T Consensus 49 dfr~LD~~LHrC--------vyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~----RlS~Ia~ 101 (115)
T cd07298 49 DFRVLDKHLHLC--------IYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLS----RLSAIAG 101 (115)
T ss_pred HHHHHHHHHHHH--------HHhhhhhccccCCCcccccccHHHHHHHHHHHHH----HHHHHhh
Confidence 444555554444 456678888888663 246788888888864 5555543
No 63
>PLN02407 diphosphomevalonate decarboxylase
Probab=26.20 E-value=1.1e+02 Score=26.13 Aligned_cols=32 Identities=16% Similarity=0.317 Sum_probs=26.5
Q ss_pred HHHHHHHh-HHHHHHHHHHHhcCCCCCHHHHHHHH
Q 048204 46 LIPTFCSD-AQTTIREMTLALEQPVVNYHEMEELC 79 (145)
Q Consensus 46 Li~~fl~d-s~~~l~~L~~al~~~~~D~~~l~~~a 79 (145)
+....++. +|+.+..|++|+..+ ||.++.+.+
T Consensus 224 ~~~~w~~~~~~~~~~~~~~Ai~~~--Df~~~gei~ 256 (343)
T PLN02407 224 LLQHRAKEVVPKRILQMEEAIKNR--DFASFAKLT 256 (343)
T ss_pred hHHHHHHhhhHHHHHHHHHHHHhc--CHHHHHHHH
Confidence 46677787 899999999999965 899887654
No 64
>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=26.13 E-value=3.3e+02 Score=21.44 Aligned_cols=49 Identities=10% Similarity=0.057 Sum_probs=30.6
Q ss_pred hhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 84 GGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMDI 133 (145)
Q Consensus 84 GSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~ 133 (145)
+..+-+|...+...+..+...+...|- -+..++-+|+.....+...|++
T Consensus 32 ~~~~I~Gm~~~~~~~~~i~~~a~~DdP-yAD~~L~~iEe~i~~~~~~l~~ 80 (217)
T PF08900_consen 32 GKPAIIGMPGFASRLNRIWRDARQDDP-YADWWLLRIEEKINEARQELQE 80 (217)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHhcCCc-HHHHHHHHHHHHHHHHHHHHHH
Confidence 334789999999999999998876652 1223333444444444444443
No 65
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=25.30 E-value=2.7e+02 Score=20.11 Aligned_cols=81 Identities=11% Similarity=0.105 Sum_probs=56.7
Q ss_pred HHHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHH
Q 048204 14 TITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQ 93 (145)
Q Consensus 14 ~~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~ 93 (145)
++.-+.+.|++| .+-++....|.+.+.+-+..-+......+..|.+.+...+.|. =-+.|--+--+-.|
T Consensus 10 ~l~~l~~~~~~d----~~~~~E~~~g~~~~~~~l~~~l~~~~~i~~~i~~~~~~~~~~v-------v~ltGvG~l~P~~R 78 (126)
T PF08747_consen 10 FLEILEERGILD----KIIEMEEKKGSDALLKQLQGILDMQEKIAEYIQEELEDDDRDV-------VFLTGVGSLFPFIR 78 (126)
T ss_pred HHHHHHhcChHH----HHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHhccCCCCcE-------EEEeCcchhcchhh
Confidence 445556667776 5666777778888889999988887777888887755433232 24667777777788
Q ss_pred HHHHHHHHHHHh
Q 048204 94 IALACGDLRHAI 105 (145)
Q Consensus 94 L~~~c~~lE~~~ 105 (145)
.+.+-..+....
T Consensus 79 ~h~lL~~l~~~~ 90 (126)
T PF08747_consen 79 SHELLNNLQPKF 90 (126)
T ss_pred HHHHHHHHHHHh
Confidence 888877777643
No 66
>COG4865 Glutamate mutase epsilon subunit [Amino acid transport and metabolism]
Probab=25.23 E-value=33 Score=29.71 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=32.2
Q ss_pred HHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHh
Q 048204 15 ITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSD 53 (145)
Q Consensus 15 ~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~d 53 (145)
-|+-.-..+||+.+..|..|+++|+.||+...|+.|-++
T Consensus 63 ~Qpragv~lLdehielL~tl~eeGqADlLp~tIDSyTR~ 101 (485)
T COG4865 63 SQPRAGVALLDEHIELLKTLQEEGQADLLPSTIDSYTRL 101 (485)
T ss_pred cccccCcchHHHHHHHHHHHHHhccccccchhhhhhhhh
Confidence 344455667999999999999999999999999998654
No 67
>PRK08582 hypothetical protein; Provisional
Probab=24.64 E-value=1e+02 Score=22.53 Aligned_cols=27 Identities=15% Similarity=0.281 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHHHhHHHHHHHHHHHhcC
Q 048204 40 PFFFAELIPTFCSDAQTTIREMTLALEQ 67 (145)
Q Consensus 40 ~~fv~~Li~~fl~ds~~~l~~L~~al~~ 67 (145)
++| ...+..|+.||++.|.+|+...+.
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 689999999999999999886653
No 68
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=24.28 E-value=3.1e+02 Score=20.47 Aligned_cols=73 Identities=15% Similarity=0.175 Sum_probs=42.4
Q ss_pred hHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHH---------------------HHHHHHHHHHHhhhcCHH
Q 048204 53 DAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQ---------------------IALACGDLRHAIDDRSKE 111 (145)
Q Consensus 53 ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~---------------------L~~~c~~lE~~~~~~~~~ 111 (145)
.+.+++.+++..++.+ |+..++.. |.|+.+.++-.- |.+--..|-.+++.++.
T Consensus 47 ~~~~r~~eLk~lI~kk--~W~~vrn~---irgp~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD~AA~~kd~- 120 (142)
T TIGR03042 47 AAKDRLPELASLVAKE--DWVFTRNL---IHGPMGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLDEAARLQDG- 120 (142)
T ss_pred HHHHhhHHHHHHHhhc--chHHHHHH---HhccHHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHHHHHHhcCH-
Confidence 3566777777777754 67777744 445666554321 11111222333444443
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 112 RCTVAVDAIRHEFLKLHSKMDIVLQL 137 (145)
Q Consensus 112 ~~~~~l~~l~~ef~~~~~~L~~~l~~ 137 (145)
.+..+.|.++.+.|+.|+++
T Consensus 121 ------~~a~k~Y~~av~~~dafl~~ 140 (142)
T TIGR03042 121 ------PQAQKAYQKAAADFDAYLDL 140 (142)
T ss_pred ------HHHHHHHHHHHHHHHHHHhh
Confidence 35667888888888888765
No 69
>PF04904 NCD1: NAB conserved region 1 (NCD1); InterPro: IPR006988 Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of eukaryotic (metazoa) transcription factors []. This entry represents the N-terminal NAB domain, which interacts with the EGR1 inhibitory domain (R1) []. It may also mediate multimerisation.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=24.23 E-value=2e+02 Score=19.47 Aligned_cols=55 Identities=15% Similarity=0.159 Sum_probs=35.2
Q ss_pred HHHHHHHHHhhhhhcchhHHHHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcC
Q 048204 8 NRQLLDTITSMEVEGLVDSRFRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQ 67 (145)
Q Consensus 8 ~~q~~~~~~~~~~~g~lD~~~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~ 67 (145)
|+-|..+.+.+++.|=-|-+ +|-.. +.++|..-+--.=...-|=++..+.+|+..
T Consensus 18 rAnLl~Yyd~fi~~GgDDvq--QL~~~---~e~eF~eim~lvGM~sKPLHVrRlqKAL~e 72 (82)
T PF04904_consen 18 RANLLQYYDTFIAQGGDDVQ--QLCEA---GEEEFLEIMALVGMASKPLHVRRLQKALQE 72 (82)
T ss_pred HhhHHHHHHHHHHHcChhHH--HHHhc---ChHHHHHHHHHhCccCccHHHHHHHHHHHH
Confidence 44566667777777765532 44444 667887444444466678888888888873
No 70
>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=23.94 E-value=2.7e+02 Score=19.64 Aligned_cols=51 Identities=12% Similarity=0.174 Sum_probs=34.9
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHH
Q 048204 39 GPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHA 104 (145)
Q Consensus 39 ~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~ 104 (145)
.|+|- ...|+..+.+.+..|..|...+ |...++.+ ++-.-+..++.++...
T Consensus 12 dp~Fd---~~~F~~~ak~~f~~i~~A~~~~--D~~~l~~~----------~t~~~~~~~~~~i~~~ 62 (147)
T PF04280_consen 12 DPGFD---PAAFLEEAKEAFLPIQEAWAKG--DLEALRPL----------LTEELYERLQAEIKAR 62 (147)
T ss_dssp -TT-----HHHHHHHHHHTHHHHHHHHHHT---HHHHHHH----------B-HHHHHHHHHHHHHH
T ss_pred CCCCC---HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHH----------hCHHHHHHHHHHHHHH
Confidence 56776 7889999999999999999976 88888865 3444555566666555
No 71
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=23.09 E-value=2e+02 Score=19.71 Aligned_cols=23 Identities=9% Similarity=0.158 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 048204 114 TVAVDAIRHEFLKLHSKMDIVLQ 136 (145)
Q Consensus 114 ~~~l~~l~~ef~~~~~~L~~~l~ 136 (145)
.+-++.++++...++..|..|++
T Consensus 77 Ld~i~~Lr~el~~L~~~l~~~~~ 99 (101)
T PRK10265 77 LDEIAHLKQENRLLRQRLSRFVA 99 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455666677777777777754
No 72
>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=23.03 E-value=2.4e+02 Score=18.77 Aligned_cols=64 Identities=13% Similarity=0.142 Sum_probs=28.3
Q ss_pred HHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 74 EMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMDIVLQLE 138 (145)
Q Consensus 74 ~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~ 138 (145)
.++.-+..|..+.++.+......+-..++.....- .+.+......++..+.++....+.|++-+
T Consensus 9 ~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~~~~~V~e~ 72 (94)
T PF05957_consen 9 QLRADLEDLARSAADLAGEKADEARDRAEEALDDA-RDRAEDAADQAREQAREAAEQTEDYVREN 72 (94)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 33333344444444444444444444443322211 22334444455555556666666665433
No 73
>KOG2833 consensus Mevalonate pyrophosphate decarboxylase [Lipid transport and metabolism]
Probab=22.75 E-value=1.4e+02 Score=25.62 Aligned_cols=30 Identities=13% Similarity=0.313 Sum_probs=23.4
Q ss_pred HHHHHHh-HHHHHHHHHHHhcCCCCCHHHHHHH
Q 048204 47 IPTFCSD-AQTTIREMTLALEQPVVNYHEMEEL 78 (145)
Q Consensus 47 i~~fl~d-s~~~l~~L~~al~~~~~D~~~l~~~ 78 (145)
+.-=++. .|++|.+|++|+.+. ||+.+.++
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 3333444 699999999999975 89998876
No 74
>cd08326 CARD_CASP9 Caspase activation and recruitment domain of Caspase-9. Caspase activation and recruitment domain (CARD) similar to that found in caspase-9 (CASP9, MCH6, APAF3), which interacts with the CARD of apoptotic protease-activating factor 1 (APAF-1). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Initiator caspases are the first to be activated following death- or inflammation-inducing signals. Caspase-9 is the initiator caspase associated with the intrinsic or mitochondrial pathway of apoptosis, induced by many pro-apoptotic signals. Together with APAF-1, it forms the heptameric 'apoptosome' in response to the release of cytochrome c from mitochondria. Activated caspase-9 cleaves and activates downstream effector caspases, like caspase-3, caspase-6, and caspase-7, resulting in apoptosis. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apopt
Probab=22.52 E-value=2.5e+02 Score=18.75 Aligned_cols=54 Identities=7% Similarity=0.002 Sum_probs=34.7
Q ss_pred HHHHHHhhhhhcchhHH-HHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhc
Q 048204 11 LLDTITSMEVEGLVDSR-FRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALE 66 (145)
Q Consensus 11 ~~~~~~~~~~~g~lD~~-~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~ 66 (145)
....+.-|+..|+++.. .++|..-. ...+=+..+++.--.-+|.-+...-.|+.
T Consensus 18 ~~~v~~~L~~~~Vlt~~~~e~I~~~~--tr~~q~~~LLd~L~~RG~~AF~~F~~aL~ 72 (84)
T cd08326 18 PKYLWDHLLSRGVFTPDMIEEIQAAG--SRRDQARQLLIDLETRGKQAFPAFLSALR 72 (84)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHcCC--CHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 35567778888888887 77776543 23445566666666666666666666665
No 75
>PHA02666 hypothetical protein; Provisional
Probab=22.10 E-value=91 Score=25.25 Aligned_cols=53 Identities=21% Similarity=0.318 Sum_probs=40.1
Q ss_pred cChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh----hhhhhcHHHH
Q 048204 38 NGPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKG----GTLCIGAHQI 94 (145)
Q Consensus 38 ~~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKG----SSa~iGA~~L 94 (145)
|.|++ ..=|.+.+.|-+.+|..|++.|+. .+.-.++..|.-|. -+||||-..|
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 37777888887775 4677776655
No 76
>KOG2176 consensus Exocyst complex, subunit SEC15 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.78 E-value=7.2e+02 Score=23.84 Aligned_cols=49 Identities=8% Similarity=0.220 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 048204 93 QIALACGDLRHAIDDRSKERCTVAVDAIRHEFLKLHSKMDIVLQLERMI 141 (145)
Q Consensus 93 ~L~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~~rq~ 141 (145)
++-++|.++.+...++..=.+...++.|++.|-.-.+.+.-++.++++|
T Consensus 139 ~vLEl~sK~~e~~s~kqyy~aLktle~lE~~yL~~~~~~~~~~~i~~~I 187 (800)
T KOG2176|consen 139 PVLELYSKLQEQMSEKQYYPALKTLESLEKVYLPRVSNFRFLIVIQNRI 187 (800)
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcccchhhHHHhhcc
Confidence 4556666666667777777788888899988876666555555555443
No 77
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=21.60 E-value=99 Score=24.92 Aligned_cols=52 Identities=10% Similarity=0.055 Sum_probs=35.9
Q ss_pred HHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHH
Q 048204 49 TFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGD 100 (145)
Q Consensus 49 ~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~ 100 (145)
.|++-||+++.-|=..+..|+++.+.-.+..-.|+.=+-=-+-..|+++|..
T Consensus 48 IFIDRSpKHF~~ILNfmRdGdv~LPe~~kel~El~~EA~fYlL~~Lv~~C~~ 99 (230)
T KOG2716|consen 48 IFIDRSPKHFDTILNFMRDGDVDLPESEKELKELLREAEFYLLDGLVELCQS 99 (230)
T ss_pred EEecCChhHHHHHHHhhhcccccCccchHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 4667778888777777776666666555555555555556677788888876
No 78
>TIGR01220 Pmev_kin_Gr_pos phosphomevalonate kinase, ERG8-type, Gram-positive branch. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found - the animal type and this ERG8 type. This model represents the low GC Gram-positive organism forms of the ERG8 type of phosphomevalonate kinase.
Probab=21.55 E-value=4.3e+02 Score=22.13 Aligned_cols=56 Identities=9% Similarity=0.172 Sum_probs=37.1
Q ss_pred HHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHH---HHhhhhh---hhhc--HHHHHHHHHHHHHH
Q 048204 47 IPTFCSDAQTTIREMTLALEQPVVNYHEMEELC---MKIKGGT---LCIG--AHQIALACGDLRHA 104 (145)
Q Consensus 47 i~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~a---H~LKGSS---a~iG--A~~L~~~c~~lE~~ 104 (145)
...|++...+...+++.++..+ |+..+.++. |.++-+- +.+| -..+..++...+..
T Consensus 247 ~~~~l~~~~~i~~~~~~al~~~--d~~~lg~~~~~~~~lL~~l~~~~~~~vs~~~l~~li~~a~~~ 310 (358)
T TIGR01220 247 YQRFLETSTDCVESAITAFETG--DITSLQKEIRRNRQELARLDDEVGVGIETEKLKALCDAAEAY 310 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHHhhcccCCCcCCHHHHHHHHHHhhc
Confidence 4567888899999999999975 788766544 4454332 1223 56666666666554
No 79
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=21.11 E-value=1.7e+02 Score=19.43 Aligned_cols=87 Identities=10% Similarity=0.193 Sum_probs=50.6
Q ss_pred hhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhhhcCHHHHHHHHHHH
Q 048204 41 FFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAIDDRSKERCTVAVDAI 120 (145)
Q Consensus 41 ~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~~~~~~~~~~~l~~l 120 (145)
.|+ .-+..|++.....+..+ -.+...++|+..|.....++.|...-..-..-..+|..+-- . +.+...-..|
T Consensus 5 ~F~-~~L~~F~~~~g~~~~~~-P~i~g~~vdL~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~---~---~~~~~~~~~l 76 (93)
T smart00501 5 LFL-DRLYKFMEERGSPLKKI-PVIGGKPLDLYRLYRLVQERGGYDQVTKDKKWKEIARELGI---P---DTSTSAASSL 76 (93)
T ss_pred HHH-HHHHHHHHHcCCcCCcC-CeECCEeCcHHHHHHHHHHccCHHHHcCCCCHHHHHHHhCC---C---cccchHHHHH
Confidence 454 33445554433322211 23566789999999999999776643222334444433321 1 1145566788
Q ss_pred HHHHHHHHHHHHHHH
Q 048204 121 RHEFLKLHSKMDIVL 135 (145)
Q Consensus 121 ~~ef~~~~~~L~~~l 135 (145)
+..|.+..-.++.+.
T Consensus 77 k~~Y~k~L~~yE~~~ 91 (93)
T smart00501 77 RKHYERYLLPFERFL 91 (93)
T ss_pred HHHHHHHhHHHHHHh
Confidence 888888877777664
No 80
>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=21.07 E-value=3.5e+02 Score=20.03 Aligned_cols=89 Identities=11% Similarity=0.073 Sum_probs=56.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh-----------hhhcHHHHHHHHHHHHHHhh----hc
Q 048204 44 AELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGT-----------LCIGAHQIALACGDLRHAID----DR 108 (145)
Q Consensus 44 ~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSS-----------a~iGA~~L~~~c~~lE~~~~----~~ 108 (145)
..|-..|.+|+-..+..|+.+|+-. .|-+...+.....|... .--|-.....+-..|...+. -+
T Consensus 31 ~~Ltg~Y~~DT~~Vi~tlr~~i~lp-kd~p~~~~a~~~ar~~indyvsrYRr~~~v~g~~SFttm~TALNsLAGHY~sy~ 109 (135)
T TIGR03044 31 TRLTGDYVEDTLAVIQTLREAIDLP-DDDPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALNSLAGHYKSYA 109 (135)
T ss_pred ccccchHHHHHHHHHHHHHHHHcCC-CCCccHHHHHHHHHHHHHHHHHHhcCCCCcCCcccHHHHHHHHHHHHHHhccCC
Confidence 3567899999999999999999863 35555555544444332 23444444444455554432 13
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Q 048204 109 SKERCTVAVDAIRHEFLKLHSKMDI 133 (145)
Q Consensus 109 ~~~~~~~~l~~l~~ef~~~~~~L~~ 133 (145)
+.+-....-++|.+||.++..+|.+
T Consensus 110 ~rPlPeklk~Rl~~El~~AE~al~R 134 (135)
T TIGR03044 110 NRPLPEKLKERLEKELKKAEKALLR 134 (135)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 3333456677899999998888753
No 81
>PF00619 CARD: Caspase recruitment domain; InterPro: IPR001315 The caspase recruitment domain domain (CARD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. CARD is related in sequence and structure to the death domain (DD, see IPR000488 from INTERPRO) and the death effector domain (DED, see IPR001875 from INTERPRO), which work in similar pathways and show similar interaction properties []. The CARD domain typically associates with other CARD-containing proteins, forming either dimers or trimers. CARD domains can be found in isolation, or in combination with other domains. Domains associated with CARD include: NACHT (IPR007111 from INTERPRO) (in Nal1 and Bir1), NB-ARC (IPR002182 from INTERPRO) (in Apaf-1), pyrin/dapin domains (IPR004020 from INTERPRO) (in Nal1), leucine-rich repeats () (in Nal1), WD repeats (IPR001680 from INTERPRO) (in Apaf1), Src homology domains (IPR001452 from INTERPRO), PDZ (IPR001478 from INTERPRO), RING, kinase and DD domains []. CARD-containing proteins are involved in apoptosis through their regulation of caspases that contain CARDs in their N-terminal pro-domains, including human caspases 1, 2, 9, 11 and 12 []. CARD-containing proteins are also involved in inflammation through their regulation of NF-kappaB []. The mechanisms by which CARDs activate caspases and NF-kappaB involve the assembly of multi-protein complexes, which can facilitate dimerisation or serve as scaffolds on which proteases and kinases are assembled and activated.; GO: 0005515 protein binding, 0042981 regulation of apoptosis, 0005622 intracellular; PDB: 2NSN_A 2NZ7_B 2DBD_A 4E9M_C 2B1W_A 3YGS_P 2KN6_A 3CRD_A 1DGN_A 3KAT_A ....
Probab=21.06 E-value=2.3e+02 Score=17.93 Aligned_cols=55 Identities=13% Similarity=0.141 Sum_probs=40.3
Q ss_pred HHHHHHhhhhhcchhHH-HHHHHhchhccChhhHHHHHHHHHHhHHHHHHHHHHHhcC
Q 048204 11 LLDTITSMEVEGLVDSR-FRMVYSLKEANGPFFFAELIPTFCSDAQTTIREMTLALEQ 67 (145)
Q Consensus 11 ~~~~~~~~~~~g~lD~~-~~~L~~L~~~~~~~fv~~Li~~fl~ds~~~l~~L~~al~~ 67 (145)
+..++..+...|+|++. ...+... ....+=+..|+++...-++.....+-.++..
T Consensus 18 ~~~ild~L~~~~vlt~~e~e~I~~~--~t~~~k~~~LLd~l~~kg~~a~~~F~~~L~~ 73 (85)
T PF00619_consen 18 LDDILDHLLSRGVLTEEEYEEIRSE--PTRQDKARKLLDILKRKGPEAFDIFCQALRE 73 (85)
T ss_dssp HHHHHHHHHHTTSSSHHHHHHHHTS--SSHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHcc--CChHHHHHHHHHHHHHHCHHHHHHHHHHHHh
Confidence 45677778888999887 7777762 2344567888888887888888777777764
No 82
>PF03981 Ubiq_cyt_C_chap: Ubiquinol-cytochrome C chaperone ; InterPro: IPR021150 Saccharomyces cerevisiae ubiquinol-cytochrome C chaperone is required for assembly of coenzyme QF-2-cytochrome C reductase. It appears to be found in a number of different organisms including Homo sapiens, Caenorhabditis elegans and Rhizobium meliloti. This entry also contains bacterial proteins belonging to the UPF0174 family.
Probab=20.99 E-value=1.7e+02 Score=20.74 Aligned_cols=58 Identities=22% Similarity=0.280 Sum_probs=38.3
Q ss_pred HHHHhchhcc--ChhhHHHHHHHHHHhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhh
Q 048204 29 RMVYSLKEAN--GPFFFAELIPTFCSDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCI 89 (145)
Q Consensus 29 ~~L~~L~~~~--~~~fv~~Li~~fl~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~i 89 (145)
--+..|+..+ +..+-..|++.|++|+...+.++..- +. . --..++++...+-|.....
T Consensus 22 l~~~RLk~~~~~~~~~~q~l~~~~~~d~~~~l~~~gv~-d~-~-~~k~~k~l~~~~~g~~~ay 81 (141)
T PF03981_consen 22 LVLRRLKAEGKEGKELEQALFDKFFEDMDERLREMGVG-DL-S-VGKRMKKLQEQFYGRLLAY 81 (141)
T ss_pred HHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHhcCc-ch-h-hhHHHHHHHHHHHHHHHHH
Confidence 3444555544 67788999999999999999887541 11 1 1345666666666666533
No 83
>PF05781 MRVI1: MRVI1 protein; InterPro: IPR008677 This family consists of mammalian MRVI1 proteins which are related to the lymphoid-restricted membrane protein (JAW1) and the IP3 receptor associated cGMP kinase substrates A and B (IRAGA and IRAGB). The function of MRVI1 is unknown although mutations in the Mrvi1 gene induces myeloid leukaemia by altering the expression of a gene important for myeloid cell growth and/or differentiation so it has been speculated that Mrvi1 is a tumour suppressor gene []. IRAG is very similar in sequence to MRVI1 and is an essential NO/cGKI-dependent regulator of IP3-induced calcium release. Activation of cGKI decreases IP3-stimulated elevations in intracellular calcium, induces smooth muscle relaxation and contributes to the antiproliferative and pro-apoptotic effects of NO/cGMP []. Jaw1 is a member of a class of proteins with COOH-terminal hydrophobic membrane anchors and is structurally similar to proteins involved in vesicle targeting and fusion. This suggests that the function and/or the structure of the ER in lymphocytes may be modified by lymphoid-restricted resident ER proteins [].
Probab=20.67 E-value=6.5e+02 Score=22.95 Aligned_cols=70 Identities=11% Similarity=0.260 Sum_probs=48.5
Q ss_pred HhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhhhcHHHHHHHHHHHHHHhh-hcCHHHHHHHHHHHHHHHHHHHHH
Q 048204 52 SDAQTTIREMTLALEQPVVNYHEMEELCMKIKGGTLCIGAHQIALACGDLRHAID-DRSKERCTVAVDAIRHEFLKLHSK 130 (145)
Q Consensus 52 ~ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~L~~~c~~lE~~~~-~~~~~~~~~~l~~l~~ef~~~~~~ 130 (145)
.++.+.+..|... ..-+.+++|.+=+.+=-+||++= -.| ....+-+.+.++.|++-|++-...
T Consensus 251 ~e~~e~~~kl~~~-------l~~l~~~~~rvss~AE~lGAv~Q---------E~R~SkAvevM~qhvenLkr~~~kehae 314 (538)
T PF05781_consen 251 NESREIIQKLQKS-------LDVLHQCATRVSSRAEMLGAVHQ---------ESRVSKAVEVMIQHVENLKRMYEKEHAE 314 (538)
T ss_pred HHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhcchHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555554 44788889999888889999742 112 234566778888999999988888
Q ss_pred HHHHHHH
Q 048204 131 MDIVLQL 137 (145)
Q Consensus 131 L~~~l~~ 137 (145)
|..+-++
T Consensus 315 L~E~k~~ 321 (538)
T PF05781_consen 315 LEELKKL 321 (538)
T ss_pred HHHHHHH
Confidence 8866554
Done!