Query 033537
Match_columns 117
No_of_seqs 104 out of 269
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 03:26:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033537.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033537hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4747 Two-component phosphor 99.9 2.3E-26 4.9E-31 170.9 9.5 99 1-100 1-100 (150)
2 COG2198 ArcB FOG: HPt domain [ 99.3 1.5E-11 3.2E-16 86.5 7.5 61 38-100 20-80 (122)
3 PF01627 Hpt: Hpt domain; Int 99.3 1.4E-11 3.1E-16 79.8 6.2 54 45-100 1-57 (90)
4 smart00073 HPT Histidine Phosp 99.2 3.8E-11 8.2E-16 78.6 4.9 54 45-100 2-55 (87)
5 cd00088 HPT Histidine Phosphot 99.1 2.5E-10 5.5E-15 76.2 5.5 57 44-100 2-60 (94)
6 TIGR02956 TMAO_torS TMAO reduc 98.7 1E-07 2.2E-12 84.4 8.7 61 38-100 876-936 (968)
7 PRK11466 hybrid sensory histid 98.1 1.8E-05 3.9E-10 70.2 8.5 61 38-100 820-880 (914)
8 PRK10618 phosphotransfer inter 97.9 2.7E-05 5.8E-10 71.4 7.0 57 42-100 808-864 (894)
9 PRK11091 aerobic respiration c 97.9 7.4E-05 1.6E-09 65.6 8.5 60 38-99 678-737 (779)
10 PRK11107 hybrid sensory histid 97.5 0.00052 1.1E-08 60.5 8.3 62 37-100 820-881 (919)
11 PRK10547 chemotaxis protein Ch 97.2 0.00075 1.6E-08 60.6 6.5 57 44-100 4-66 (670)
12 COG0643 CheA Chemotaxis protei 97.1 0.0011 2.5E-08 59.9 6.7 61 41-101 4-70 (716)
13 PRK09959 hybrid sensory histid 93.9 0.69 1.5E-05 42.8 10.5 62 38-101 1097-1158(1197)
14 PRK15347 two component system 92.5 0.38 8.3E-06 42.7 6.4 52 46-101 838-889 (921)
15 KOG4747 Two-component phosphor 80.5 11 0.00025 28.4 7.1 59 39-100 12-70 (150)
16 PLN00061 photosystem II protei 64.0 17 0.00037 27.5 4.7 62 18-83 27-89 (150)
17 KOG2716 Polymerase delta-inter 62.9 8.4 0.00018 30.8 3.1 56 49-104 48-103 (230)
18 cd08323 CARD_APAF1 Caspase act 59.1 53 0.0011 22.2 6.2 65 12-80 17-82 (86)
19 PF07743 HSCB_C: HSCB C-termin 57.8 47 0.001 21.2 6.6 44 38-83 24-67 (78)
20 TIGR00714 hscB Fe-S protein as 54.4 74 0.0016 23.5 6.7 26 55-82 114-139 (157)
21 PRK03636 hypothetical protein; 54.3 44 0.00095 25.7 5.6 41 42-84 129-175 (179)
22 PF02845 CUE: CUE domain; Int 53.6 24 0.00053 20.2 3.2 36 26-61 3-38 (42)
23 PRK03057 hypothetical protein; 53.3 43 0.00094 25.8 5.4 37 45-83 131-173 (180)
24 PRK05260 condesin subunit F; P 49.7 89 0.0019 27.4 7.3 16 21-36 205-220 (440)
25 PRK13916 plasmid segregation p 48.1 28 0.0006 24.3 3.3 27 28-54 21-47 (97)
26 PF02847 MA3: MA3 domain; Int 45.8 75 0.0016 21.1 5.2 47 7-53 1-48 (113)
27 PHA02666 hypothetical protein; 43.2 32 0.0007 27.9 3.5 53 38-94 202-258 (287)
28 PRK01356 hscB co-chaperone Hsc 42.7 1.3E+02 0.0029 22.4 6.6 11 39-49 88-98 (166)
29 TIGR00984 3a0801s03tim44 mitoc 41.9 1.3E+02 0.0028 25.8 7.1 65 7-80 210-275 (378)
30 PF03981 Ubiq_cyt_C_chap: Ubiq 40.5 79 0.0017 22.1 4.9 55 30-87 23-79 (141)
31 smart00546 CUE Domain that may 40.5 51 0.0011 18.8 3.2 36 26-61 4-39 (43)
32 COG2991 Uncharacterized protei 38.7 7.5 0.00016 26.3 -0.6 19 80-98 27-45 (77)
33 PF08747 DUF1788: Domain of un 38.5 90 0.002 22.5 4.9 75 14-99 10-84 (126)
34 PF08858 IDEAL: IDEAL domain; 36.3 78 0.0017 18.1 3.5 26 54-81 11-36 (37)
35 KOG0860 Synaptobrevin/VAMP-lik 35.9 1.7E+02 0.0037 21.2 8.5 61 43-111 38-105 (116)
36 PF05218 DUF713: Protein of un 35.8 1.4E+02 0.0031 22.7 5.9 94 6-100 71-168 (182)
37 PF04280 Tim44: Tim44-like dom 35.4 60 0.0013 22.6 3.6 43 28-79 5-47 (147)
38 cd07298 PX_RICS The phosphoino 34.8 37 0.00081 24.6 2.4 37 16-52 54-94 (115)
39 PF14493 HTH_40: Helix-turn-he 34.4 1.1E+02 0.0024 20.1 4.5 38 39-77 51-88 (91)
40 PF03882 KicB: KicB killing fa 34.2 1.2E+02 0.0027 26.6 5.8 18 70-87 244-261 (440)
41 PF09280 XPC-binding: XPC-bind 32.8 60 0.0013 20.5 2.9 37 26-63 8-44 (59)
42 PRK10987 regulatory protein Am 32.8 1.5E+02 0.0033 23.8 5.9 61 52-114 85-153 (284)
43 PF01764 Lipase_3: Lipase (cla 31.0 57 0.0012 22.0 2.7 51 45-97 37-88 (140)
44 PF00619 CARD: Caspase recruit 29.7 1.5E+02 0.0032 18.6 5.7 55 11-67 18-73 (85)
45 PRK08582 hypothetical protein; 29.1 79 0.0017 22.9 3.4 26 42-67 104-129 (139)
46 COG1283 NptA Na+/phosphate sym 29.0 3.1E+02 0.0067 24.7 7.6 54 55-110 477-530 (533)
47 KOG1925 Rac1 GTPase effector F 29.0 1.8E+02 0.004 26.7 6.1 55 50-104 526-598 (817)
48 smart00544 MA3 Domain in DAP-5 28.7 1.6E+02 0.0035 19.5 4.7 46 8-53 2-48 (113)
49 PF07072 DUF1342: Protein of u 28.7 2.7E+02 0.0059 21.7 6.5 47 47-93 42-88 (211)
50 COG1220 HslU ATP-dependent pro 28.6 65 0.0014 28.1 3.2 46 57-102 352-404 (444)
51 PF03847 TFIID_20kDa: Transcri 28.2 1.7E+02 0.0037 18.9 5.8 49 8-67 2-50 (68)
52 PRK05287 hypothetical protein; 28.2 3.2E+02 0.007 22.1 7.9 61 28-92 44-105 (250)
53 PF12178 INCENP_N: Chromosome 27.9 69 0.0015 18.9 2.3 21 90-110 3-23 (38)
54 cd05565 PTS_IIB_lactose PTS_II 27.7 45 0.00098 23.0 1.8 19 84-102 10-28 (99)
55 PF10431 ClpB_D2-small: C-term 27.4 1E+02 0.0022 19.5 3.4 63 39-106 2-64 (81)
56 PF07304 SRA1: Steroid recepto 26.8 1.3E+02 0.0028 22.3 4.2 22 49-70 65-86 (157)
57 PF09130 DUF1932: Domain of un 26.8 1.7E+02 0.0038 18.5 5.8 48 20-67 3-50 (73)
58 PRK14729 miaA tRNA delta(2)-is 26.6 39 0.00085 27.8 1.5 24 4-27 197-220 (300)
59 PRK03578 hscB co-chaperone Hsc 26.3 2.9E+02 0.0062 20.8 6.4 10 39-48 93-102 (176)
60 PF10372 YojJ: Bacterial membr 26.0 2E+02 0.0043 19.0 5.3 46 43-88 11-60 (70)
61 COG1327 Predicted transcriptio 26.0 1.2E+02 0.0026 23.1 3.9 47 53-99 62-118 (156)
62 PF11277 Med24_N: Mediator com 25.9 1.8E+02 0.004 28.1 5.9 45 6-50 706-752 (990)
63 KOG1510 RNA polymerase II holo 25.6 2.5E+02 0.0053 21.0 5.4 60 6-67 67-127 (139)
64 PF07818 HCNGP: HCNGP-like pro 25.2 1.6E+02 0.0036 20.2 4.2 42 5-50 11-53 (96)
65 PF02970 TBCA: Tubulin binding 24.9 2.2E+02 0.0048 19.1 6.1 58 24-84 23-80 (90)
66 PF11970 Git3_C: G protein-cou 24.2 51 0.0011 21.8 1.5 11 104-114 14-24 (76)
67 PF03563 Bunya_G2: Bunyavirus 24.0 52 0.0011 27.3 1.7 13 103-115 216-228 (285)
68 PF08424 NRDE-2: NRDE-2, neces 23.8 2.2E+02 0.0048 23.0 5.4 68 37-104 62-131 (321)
69 PF14357 DUF4404: Domain of un 23.4 1.2E+02 0.0026 20.3 3.2 19 7-25 2-20 (85)
70 KOG2141 Protein involved in hi 23.1 6.6E+02 0.014 23.9 10.6 90 4-99 316-405 (822)
71 PF08598 Sds3: Sds3-like; Int 23.1 43 0.00092 25.1 1.0 43 2-46 5-48 (205)
72 PF03858 Crust_neuro_H: Crusta 22.3 38 0.00083 20.4 0.5 22 71-92 5-26 (41)
73 TIGR00244 transcriptional regu 21.9 3.5E+02 0.0076 20.3 5.7 46 53-98 62-117 (147)
74 PLN02165 adenylate isopentenyl 21.9 3.1E+02 0.0067 23.0 6.0 24 4-27 185-208 (334)
75 PF07631 PSD4: Protein of unkn 21.7 3.1E+02 0.0067 19.6 5.3 58 4-61 35-100 (128)
76 COG3372 Predicted nuclease of 21.7 1.9E+02 0.004 25.2 4.7 48 37-84 23-72 (396)
77 PF05527 DUF758: Domain of unk 21.7 2.6E+02 0.0056 21.7 5.1 55 8-68 124-184 (186)
78 KOG1142 Transcription initiati 21.4 1.8E+02 0.0039 23.9 4.3 49 8-67 157-205 (258)
79 PF00726 IL10: Interleukin 10 21.3 2.5E+02 0.0054 21.3 4.9 30 23-54 61-90 (170)
80 COG2759 MIS1 Formyltetrahydrof 21.3 27 0.00059 31.2 -0.4 67 26-100 360-427 (554)
81 cd07299 PX_TCGAP The phosphoin 20.9 1.1E+02 0.0023 22.2 2.6 36 17-52 53-92 (113)
82 TIGR02120 GspF general secreti 20.8 3.8E+02 0.0083 22.0 6.3 24 41-64 345-368 (399)
No 1
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=99.94 E-value=2.3e-26 Score=170.91 Aligned_cols=99 Identities=54% Similarity=0.849 Sum_probs=94.3
Q ss_pred Chh-HHHHHHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhh
Q 033537 1 MDA-VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHV 79 (117)
Q Consensus 1 ~~~-~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~a 79 (117)
|++ +..++++...+.+|++++|++|+||.||++|+|+++|+||.+++..||+||++++++++.|++.+ .|+++++.+.
T Consensus 1 m~~~i~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~-~d~k~~~~~~ 79 (150)
T KOG4747|consen 1 MDLLIISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCE-RDFKKLGSHV 79 (150)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhH-hHHHHHHHHH
Confidence 443 67899999999999999999999999999999999999999999999999999999999999986 5999999999
Q ss_pred hhhhhhHHHHhHHHHHHHHHH
Q 033537 80 HQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 80 H~LKGSSasiGA~~l~~lC~~ 100 (117)
|+|||||++|||.+|.+.|..
T Consensus 80 hqlkgssssIGa~kvk~~c~~ 100 (150)
T KOG4747|consen 80 HQLKGSSSSIGALKVKKVCVG 100 (150)
T ss_pred HHccCchhhhhHHHHHHHHHH
Confidence 999999999999999999975
No 2
>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]
Probab=99.28 E-value=1.5e-11 Score=86.46 Aligned_cols=61 Identities=21% Similarity=0.449 Sum_probs=58.2
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
+.|+++.+++..|+++++..++.++.++..+ |+..+.+.+|+||||++|+|+.++..+|..
T Consensus 20 ~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~ 80 (122)
T COG2198 20 GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQ 80 (122)
T ss_pred CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHH
Confidence 5699999999999999999999999999986 889999999999999999999999999986
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=99.26 E-value=1.4e-11 Score=79.83 Aligned_cols=54 Identities=24% Similarity=0.464 Sum_probs=50.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHH---hcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 45 EVVNLYFKDSERLLNEITVAL---DQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 45 elI~~Fl~Ds~~~l~~L~~al---~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
|+++.|++++++.+..|++++ +. .|++.+++.+|+|||+++++|+.+++.+|+.
T Consensus 1 ell~~f~~~~~~~~~~l~~~~~~~~~--~d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~ 57 (90)
T PF01627_consen 1 ELLDIFLEEAPEDLEQLEQALQALEQ--EDWEELRRLAHRLKGSAGNLGAPRLAELAEQ 57 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSSHH--CHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhH--hhHHHHHHHHHHHhhhHHhcCHHHHHHHHHH
Confidence 689999999999999999999 65 4999999999999999999999999999975
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=99.18 E-value=3.8e-11 Score=78.59 Aligned_cols=54 Identities=26% Similarity=0.327 Sum_probs=50.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 45 EVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 45 elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
++++.|+++.++.+..|+++++. .|+..+.+.+|+||||++++|+.+|..+|..
T Consensus 2 e~~~~f~~~~~~~l~~l~~~~~~--~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~ 55 (87)
T smart00073 2 EELAEFLQSLEEGLLELEKALDA--QDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQ 55 (87)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCH--hHHHHHHHHHHhhhhhHHhcCHHHHHHHHHH
Confidence 68899999999999999999875 4999999999999999999999999999974
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=99.07 E-value=2.5e-10 Score=76.23 Aligned_cols=57 Identities=26% Similarity=0.452 Sum_probs=51.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHhc--CCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 44 AEVVNLYFKDSERLLNEITVALDQ--QNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 44 ~elI~~Fl~Ds~~~l~~L~~al~~--~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
.+++..|+++.++.+..|++++++ .+.|+..+...+|+||||++++|+.++..+|..
T Consensus 2 ~~l~~~f~~~~~~~l~~l~~~~~~~~~~~d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~ 60 (94)
T cd00088 2 EELLELFLEEAEELLEELERALLELEDAEDLNEIFRAAHTLKGSAASLGLQRLAQLAHQ 60 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhHHhcCChHHHHHHHHH
Confidence 589999999999999999999981 125999999999999999999999999999984
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=98.66 E-value=1e-07 Score=84.42 Aligned_cols=61 Identities=23% Similarity=0.316 Sum_probs=58.0
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
.+|+.+.+++..|+++.+..+..|..++..+ |+..++..+|.|||+++++||.+++.+|+.
T Consensus 876 ~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~ 936 (968)
T TIGR02956 876 LGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQ 936 (968)
T ss_pred cCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence 5889999999999999999999999999875 999999999999999999999999999974
No 7
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=98.07 E-value=1.8e-05 Score=70.16 Aligned_cols=61 Identities=26% Similarity=0.279 Sum_probs=56.8
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
.+++.+.+++..|.+++...+++++.+.+.+ |...++..+|.+||+++++|+.++..+|+.
T Consensus 820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~ 880 (914)
T PRK11466 820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQ 880 (914)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 5678889999999999999999999998875 999999999999999999999999999986
No 8
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=97.92 E-value=2.7e-05 Score=71.36 Aligned_cols=57 Identities=16% Similarity=0.246 Sum_probs=52.2
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 42 FVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 42 Fv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
+..+....|.+..+.-++.|..++.++ |+..+.+.||.|||+++++|+..++.+||+
T Consensus 808 ~~s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~ 864 (894)
T PRK10618 808 HASDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCET 864 (894)
T ss_pred hhhhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHH
Confidence 344567899999999999999999986 999999999999999999999999999984
No 9
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=97.86 E-value=7.4e-05 Score=65.62 Aligned_cols=60 Identities=17% Similarity=0.318 Sum_probs=56.0
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHH
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIE 99 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~ 99 (117)
-+++.+.+.+..|.+..+..++.+..++... |...+...+|.+||+++++|+.+++++|+
T Consensus 678 ~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~ 737 (779)
T PRK11091 678 VGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQ 737 (779)
T ss_pred cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 4678889999999999999999999999875 99999999999999999999999999996
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=97.48 E-value=0.00052 Score=60.53 Aligned_cols=62 Identities=19% Similarity=0.253 Sum_probs=56.3
Q ss_pred cCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 37 ESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 37 ~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
.+.++...+++..|.++.+..+..|..+++.. |...+...+|.+||+++++|+.++..+|..
T Consensus 820 ~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~ 881 (919)
T PRK11107 820 AGKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQL 881 (919)
T ss_pred CCCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 35688899999999999999999999999875 889999999999999999999999998864
No 11
>PRK10547 chemotaxis protein CheA; Provisional
Probab=97.24 E-value=0.00075 Score=60.57 Aligned_cols=57 Identities=19% Similarity=0.377 Sum_probs=47.4
Q ss_pred HHHHHHHHHhHHHHHHHHHHHH---hcCCCcHH---HHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 44 AEVVNLYFKDSERLLNEITVAL---DQQNVDFT---KVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 44 ~elI~~Fl~Ds~~~l~~L~~al---~~~~~D~~---~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
.+++..|++++.++++.|+..+ ++.+.|.+ .+=+.+|++||+|+.+|...+.++|-.
T Consensus 4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~ 66 (670)
T PRK10547 4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHL 66 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHH
Confidence 4789999999999999999874 45555655 455789999999999999999998864
No 12
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.14 E-value=0.0011 Score=59.88 Aligned_cols=61 Identities=20% Similarity=0.338 Sum_probs=49.9
Q ss_pred hhHHHHHHHHHHhHHHHHHHHHHH---HhcCCCcHH---HHHHhhhhhhhhHHHHhHHHHHHHHHHh
Q 033537 41 DFVAEVVNLYFKDSERLLNEITVA---LDQQNVDFT---KVGGHVHQLKGSSSRFIFLHFIDLIESK 101 (117)
Q Consensus 41 dFv~elI~~Fl~Ds~~~l~~L~~a---l~~~~~D~~---~l~~~aH~LKGSSasiGA~~l~~lC~~~ 101 (117)
+-..++.+.|+.++++++..|+.. ++..+.|.+ .+-+.+|+|||+++.+|...+.++|-.-
T Consensus 4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~ 70 (716)
T COG0643 4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAM 70 (716)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHH
Confidence 445688999999999999999975 344445655 5577899999999999999999999653
No 13
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=93.93 E-value=0.69 Score=42.81 Aligned_cols=62 Identities=13% Similarity=0.268 Sum_probs=54.0
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHh
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESK 101 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~ 101 (117)
......+++...+...+..-+..+..+.+.+ |...++..+|.+||++..+|+..+...|+..
T Consensus 1097 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~ 1158 (1197)
T PRK09959 1097 NDLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQL 1158 (1197)
T ss_pred CCHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence 4567788899999998888888888888875 7889999999999999999999999999843
No 14
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=92.49 E-value=0.38 Score=42.74 Aligned_cols=52 Identities=17% Similarity=0.222 Sum_probs=42.3
Q ss_pred HHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHh
Q 033537 46 VVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESK 101 (117)
Q Consensus 46 lI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~ 101 (117)
+-..+.+.....+..+.++++.+ | .++..+|.+||+++.+|+.++...|..-
T Consensus 838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~ 889 (921)
T PRK15347 838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDL 889 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence 44455566677888888888864 4 8999999999999999999999998653
No 15
>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]
Probab=80.49 E-value=11 Score=28.42 Aligned_cols=59 Identities=14% Similarity=0.028 Sum_probs=50.1
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537 39 NPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 39 ~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~ 100 (117)
--+|...++.-++.| ..+.+|.+..+....|+ ..+-..|.||+|+.-+|-.+.+.-|++
T Consensus 12 ~~d~~~sl~~qgild--~qF~qlq~lqD~~~p~f-v~ev~~~fF~~s~~~i~~~r~ald~~~ 70 (150)
T KOG4747|consen 12 VSDYTKSLFDQGILD--SQFLQLQELQDDSSPDF-VEEVVGLFFEDSERLINNLRLALDCER 70 (150)
T ss_pred HHHHHHHHHHHHhhH--HHHHHHHHHhcccCccH-HHHHHHHHHHHHHHHHHHHHHHHhhHh
Confidence 467888888888888 77889999988865664 456778999999999999999999996
No 16
>PLN00061 photosystem II protein Psb27; Provisional
Probab=63.99 E-value=17 Score=27.51 Aligned_cols=62 Identities=16% Similarity=0.230 Sum_probs=44.7
Q ss_pred hhhcCchhHHHHHHhhccccCChhh-HHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhh
Q 033537 18 LFQEGILDNQFGHLQQLQDESNPDF-VAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLK 83 (117)
Q Consensus 18 l~~egiLD~qf~qL~~Lqd~~~pdF-v~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (117)
-..+|+++ .+..|.|++..-- =..+-..|.+|+...+..|+++++.++.|-.++++.+..=|
T Consensus 27 ~~~~~~~~----~~~~~fdp~e~tksg~~Lpg~Y~kdtr~VV~tLresl~l~p~D~~~~~~aa~~Ak 89 (150)
T PLN00061 27 EEGEGVVG----AIKSLFDPNEKTKSGKKLPKAYLKSAREVVKTLRESLKEDPKDEAKFRRTADAAK 89 (150)
T ss_pred cccccHHH----HHHHhcCccccccccccCchHHHHHHHHHHHHHHHHHccCCcchHHHHHHHHHHH
Confidence 34566776 7778877654322 22466789999999999999999987788888766554443
No 17
>KOG2716 consensus Polymerase delta-interacting protein PDIP1 and related proteins, contain BTB/POZ domain [Inorganic ion transport and metabolism]
Probab=62.93 E-value=8.4 Score=30.82 Aligned_cols=56 Identities=14% Similarity=0.303 Sum_probs=40.2
Q ss_pred HHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHhHHH
Q 033537 49 LYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIV 104 (117)
Q Consensus 49 ~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~~~~ 104 (117)
.|++-|++++.-+=..+..++++.+.-....-.|+.=+---+...|.++|+++|-.
T Consensus 48 IFIDRSpKHF~~ILNfmRdGdv~LPe~~kel~El~~EA~fYlL~~Lv~~C~~~i~~ 103 (230)
T KOG2716|consen 48 IFIDRSPKHFDTILNFMRDGDVDLPESEKELKELLREAEFYLLDGLVELCQSAIAR 103 (230)
T ss_pred EEecCChhHHHHHHHhhhcccccCccchHHHHHHHHHHHHhhHHHHHHHHHHHhhh
Confidence 56777777777777777776666665555555666666667788899999997654
No 18
>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1. Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effect
Probab=59.07 E-value=53 Score=22.18 Aligned_cols=65 Identities=9% Similarity=0.181 Sum_probs=46.8
Q ss_pred HHHHhchhhcCchhHH-HHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhh
Q 033537 12 VDYSNSLFQEGILDNQ-FGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVH 80 (117)
Q Consensus 12 ~~~~~sl~~egiLD~q-f~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH 80 (117)
..++..|..+|++++. .+.++.- +...+=.+.++++-..-+++-+.....+|... .|+.+....|
T Consensus 17 ~~ild~L~~~gvlt~~~~e~I~~~--~t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~ 82 (86)
T cd08323 17 SYIMDHMISDGVLTLDEEEKVKSK--ATQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLH 82 (86)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHcC--CChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHh
Confidence 4577788999999955 6666663 24467778888888888888888888888753 4666666554
No 19
>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=57.83 E-value=47 Score=21.17 Aligned_cols=44 Identities=18% Similarity=0.294 Sum_probs=32.5
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhh
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLK 83 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (117)
++.+=+.++....-.....++..|..+++.. |+......++.||
T Consensus 24 ~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kLk 67 (78)
T PF07743_consen 24 DDEAELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKLK 67 (78)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHHH
Confidence 4456666777777777788888888888764 8888888887775
No 20
>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=54.43 E-value=74 Score=23.51 Aligned_cols=26 Identities=15% Similarity=0.213 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHhcCCCcHHHHHHhhhhh
Q 033537 55 ERLLNEITVALDQQNVDFTKVGGHVHQL 82 (117)
Q Consensus 55 ~~~l~~L~~al~~~~~D~~~l~~~aH~L 82 (117)
..+.+.|.++++.+ |+......+..|
T Consensus 114 ~~~~~~l~~~~~~~--d~~~A~~~~~kL 139 (157)
T TIGR00714 114 QTRHQLLVEQLDNQ--TWAAAADYTRKL 139 (157)
T ss_pred HHHHHHHHHHHhcC--CHHHHHHHHHHH
Confidence 33444444444443 555444443333
No 21
>PRK03636 hypothetical protein; Provisional
Probab=54.29 E-value=44 Score=25.71 Aligned_cols=41 Identities=22% Similarity=0.288 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHh------HHHHHHHHHHHHhcCCCcHHHHHHhhhhhhh
Q 033537 42 FVAEVVNLYFKD------SERLLNEITVALDQQNVDFTKVGGHVHQLKG 84 (117)
Q Consensus 42 Fv~elI~~Fl~D------s~~~l~~L~~al~~~~~D~~~l~~~aH~LKG 84 (117)
-....++.+++. -+++...|.+||+++ |-+.+.++..+||-
T Consensus 129 ~~~~~ae~~L~~~~~~~r~~~L~~~ID~ALd~~--D~e~F~~Ls~~l~~ 175 (179)
T PRK03636 129 KDRLLAEQFLEQSVFQFRREKLLKQIDEALDRR--DKEAFHRLSDELNQ 175 (179)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHH
Confidence 344566667766 567889999999986 88888888877763
No 22
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=53.59 E-value=24 Score=20.18 Aligned_cols=36 Identities=14% Similarity=0.264 Sum_probs=26.9
Q ss_pred HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHH
Q 033537 26 NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEI 61 (117)
Q Consensus 26 ~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L 61 (117)
+...+|+++-+.-+++++..++..+=.|.+..+..|
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~L 38 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDAL 38 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 346788888888788888888887777777777655
No 23
>PRK03057 hypothetical protein; Provisional
Probab=53.35 E-value=43 Score=25.78 Aligned_cols=37 Identities=24% Similarity=0.337 Sum_probs=27.8
Q ss_pred HHHHHHHHh------HHHHHHHHHHHHhcCCCcHHHHHHhhhhhh
Q 033537 45 EVVNLYFKD------SERLLNEITVALDQQNVDFTKVGGHVHQLK 83 (117)
Q Consensus 45 elI~~Fl~D------s~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (117)
+.++.+++. -+++...|..||+.+ |.+.+.++.+.||
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 446667766 556778899999986 8888888777765
No 24
>PRK05260 condesin subunit F; Provisional
Probab=49.70 E-value=89 Score=27.43 Aligned_cols=16 Identities=44% Similarity=0.615 Sum_probs=9.9
Q ss_pred cCchhHHHHHHhhccc
Q 033537 21 EGILDNQFGHLQQLQD 36 (117)
Q Consensus 21 egiLD~qf~qL~~Lqd 36 (117)
+.+||+.=.+|++|||
T Consensus 205 e~LLdEtsgtLRELqd 220 (440)
T PRK05260 205 ELLLSETSGTLRELQD 220 (440)
T ss_pred HHHHHHHHhHHHHHHH
Confidence 4667766666666654
No 25
>PRK13916 plasmid segregation protein ParR; Provisional
Probab=48.12 E-value=28 Score=24.32 Aligned_cols=27 Identities=15% Similarity=0.407 Sum_probs=24.6
Q ss_pred HHHHhhccccCChhhHHHHHHHHHHhH
Q 033537 28 FGHLQQLQDESNPDFVAEVVNLYFKDS 54 (117)
Q Consensus 28 f~qL~~Lqd~~~pdFv~elI~~Fl~Ds 54 (117)
|+=|..+-++.-|.||+++++.|+++.
T Consensus 21 F~FL~~~P~GT~~~~iR~~L~rYI~~~ 47 (97)
T PRK13916 21 FDFLENVPRGTKTAHIREALRRYIEEI 47 (97)
T ss_pred HHHHHHCCCCCccHHHHHHHHHHHHhc
Confidence 888999999999999999999999864
No 26
>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=45.80 E-value=75 Score=21.09 Aligned_cols=47 Identities=15% Similarity=0.308 Sum_probs=34.0
Q ss_pred HHHHHHHHHhchhhcCchhHHHHHHhhcccc-CChhhHHHHHHHHHHh
Q 033537 7 LHRQLVDYSNSLFQEGILDNQFGHLQQLQDE-SNPDFVAEVVNLYFKD 53 (117)
Q Consensus 7 l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~-~~pdFv~elI~~Fl~D 53 (117)
+|+++...+..-+..|=.++....|.+|.-+ -.++||..+++.-++.
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 4677788888888888777889999998544 3467777777777766
No 27
>PHA02666 hypothetical protein; Provisional
Probab=43.19 E-value=32 Score=27.94 Aligned_cols=53 Identities=11% Similarity=0.209 Sum_probs=39.9
Q ss_pred CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhh----hHHHHhHHHH
Q 033537 38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKG----SSSRFIFLHF 94 (117)
Q Consensus 38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKG----SSasiGA~~l 94 (117)
|.|++-.. |.+.+.|.|+.|..|++.|+. .+.-++++.|--|. -+||||-..|
T Consensus 202 gkpNLQ~D-IcTLC~DIEtQLSALEKSLES---ElnFYrrYIqDTKsLLatRAANIgsKAL 258 (287)
T PHA02666 202 GKPNLQSD-ICTLCHDIETQLSALEKSLES---ELNFYRRYIQDTKSLLATRAANIGSKAL 258 (287)
T ss_pred CCCchhhH-HHHhhhhHHHHHHHHHHHHHH---HHHHHHHHHHhHHHHHHHHhhcccccee
Confidence 45666555 556799999999999999997 57778888888775 4567765543
No 28
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=42.67 E-value=1.3e+02 Score=22.43 Aligned_cols=11 Identities=9% Similarity=-0.067 Sum_probs=6.3
Q ss_pred ChhhHHHHHHH
Q 033537 39 NPDFVAEVVNL 49 (117)
Q Consensus 39 ~pdFv~elI~~ 49 (117)
+|+|+.++++.
T Consensus 88 d~~fLme~me~ 98 (166)
T PRK01356 88 SPLELSIFWDE 98 (166)
T ss_pred CHHHHHHHHHH
Confidence 46666665544
No 29
>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=41.88 E-value=1.3e+02 Score=25.83 Aligned_cols=65 Identities=12% Similarity=0.243 Sum_probs=47.7
Q ss_pred HHHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHH-HHHHHHHHhcCCCcHHHHHHhhh
Q 033537 7 LHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERL-LNEITVALDQQNVDFTKVGGHVH 80 (117)
Q Consensus 7 l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~-l~~L~~al~~~~~D~~~l~~~aH 80 (117)
+.+.+...+.++|.+.=+-..+.+++++ +|+|-. +.|+..++.- +..|-.|..++ |.+.|+..++
T Consensus 210 itdkv~~~~~~lF~ete~a~~l~eIk~~----DPsFd~---~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~ls 275 (378)
T TIGR00984 210 VTDKIGGVFSGMFSETEVSEVLTEFKKI----DPTFDK---EHFLRFLREYIVPEILEAYVKG--DLEVLKSWCS 275 (378)
T ss_pred hhhhhhhhhhcccCCCHHHHHHHHHHHh----CCCCCH---HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhhC
Confidence 3445556777788888888888899988 455542 5778888888 57788888876 8888887654
No 30
>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=40.54 E-value=79 Score=22.07 Aligned_cols=55 Identities=20% Similarity=0.288 Sum_probs=36.8
Q ss_pred HHhhccccC--ChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHH
Q 033537 30 HLQQLQDES--NPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSS 87 (117)
Q Consensus 30 qL~~Lqd~~--~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa 87 (117)
-+..|..++ +..+-+.+++.|++|++..+.++..- +. .--+.++....++-|...
T Consensus 23 ~~~RLk~~~~~~~~~~q~l~~~~~~d~~~~l~~~gv~-d~--~~~k~~k~l~~~~~g~~~ 79 (141)
T PF03981_consen 23 VLRRLKAEGKEGKELEQALFDKFFEDMDERLREMGVG-DL--SVGKRMKKLQEQFYGRLL 79 (141)
T ss_pred HHHHHccccccHHHHHHHHHHHHHHHHHHHHHHhcCc-ch--hhhHHHHHHHHHHHHHHH
Confidence 344455544 67899999999999999999877542 11 113456666666666655
No 31
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=40.50 E-value=51 Score=18.79 Aligned_cols=36 Identities=11% Similarity=0.243 Sum_probs=26.8
Q ss_pred HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHH
Q 033537 26 NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEI 61 (117)
Q Consensus 26 ~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L 61 (117)
+.+.+|+++-+.-+++.+..++..+-.|.+..++.|
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~L 39 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNL 39 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 457788888777777777777777777777776554
No 32
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.70 E-value=7.5 Score=26.26 Aligned_cols=19 Identities=21% Similarity=0.267 Sum_probs=15.1
Q ss_pred hhhhhhHHHHhHHHHHHHH
Q 033537 80 HQLKGSSSRFIFLHFIDLI 98 (117)
Q Consensus 80 H~LKGSSasiGA~~l~~lC 98 (117)
-++|||++-|+|..+...|
T Consensus 27 k~I~GSCGGi~alGi~K~C 45 (77)
T COG2991 27 KSIKGSCGGIAALGIEKVC 45 (77)
T ss_pred cccccccccHHhhccchhc
Confidence 4689999988887777666
No 33
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=38.51 E-value=90 Score=22.45 Aligned_cols=75 Identities=23% Similarity=0.386 Sum_probs=51.4
Q ss_pred HHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHH
Q 033537 14 YSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLH 93 (117)
Q Consensus 14 ~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~ 93 (117)
++.-+.++|++| .+-+++...+++.+.+-+..-++..++....|.+.++.++.| .=.+.|-.+-.+-.|
T Consensus 10 ~l~~l~~~~~~d----~~~~~E~~~g~~~~~~~l~~~l~~~~~i~~~i~~~~~~~~~~-------vv~ltGvG~l~P~~R 78 (126)
T PF08747_consen 10 FLEILEERGILD----KIIEMEEKKGSDALLKQLQGILDMQEKIAEYIQEELEDDDRD-------VVFLTGVGSLFPFIR 78 (126)
T ss_pred HHHHHHhcChHH----HHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHhccCCCCc-------EEEEeCcchhcchhh
Confidence 344456667777 677788778999999999999988788888888875543222 345666666666555
Q ss_pred HHHHHH
Q 033537 94 FIDLIE 99 (117)
Q Consensus 94 l~~lC~ 99 (117)
..++-.
T Consensus 79 ~h~lL~ 84 (126)
T PF08747_consen 79 SHELLN 84 (126)
T ss_pred HHHHHH
Confidence 555443
No 34
>PF08858 IDEAL: IDEAL domain; InterPro: IPR014957 This entry represents the C-terminal domain of Bacteriophage SPP1, p90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. his domain may also be referred to as the IDEAL domain, after the sequence of the most conserved region of the domain.; PDB: 3DO9_A.
Probab=36.31 E-value=78 Score=18.07 Aligned_cols=26 Identities=31% Similarity=0.245 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhcCCCcHHHHHHhhhh
Q 033537 54 SERLLNEITVALDQQNVDFTKVGGHVHQ 81 (117)
Q Consensus 54 s~~~l~~L~~al~~~~~D~~~l~~~aH~ 81 (117)
-+++...|..||+++ |-+.+..+..+
T Consensus 11 ~~~L~~~ID~ALd~~--D~e~F~~Ls~e 36 (37)
T PF08858_consen 11 KEQLLELIDEALDNR--DKEWFYELSEE 36 (37)
T ss_dssp HHHHHHHHHHHHHTT---HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcC--CHHHHHHHHhh
Confidence 357888999999986 87787776554
No 35
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.90 E-value=1.7e+02 Score=21.22 Aligned_cols=61 Identities=20% Similarity=0.274 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHH--HhHHHHH-----HHHHHhHHHHHHHHHH
Q 033537 43 VAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSR--FIFLHFI-----DLIESKIIVFFYPILY 111 (117)
Q Consensus 43 v~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSas--iGA~~l~-----~lC~~~~~~~~~~~~~ 111 (117)
|.+|+..--++.++.++.= .-.+.+++-+-+|-.+|+. =+|.+|+ .-|..+||..+.-++.
T Consensus 38 vdeVv~IMr~NV~KVlER~--------ekL~~L~drad~L~~~as~F~~~A~klkrk~wWkn~Km~~il~~v~~i~ 105 (116)
T KOG0860|consen 38 VDEVVDIMRENVEKVLERG--------EKLDELDDRADQLQAGASQFEKTAVKLKRKMWWKNCKMRIILGLVIIIL 105 (116)
T ss_pred HHHHHHHHHHhHHHHHHhc--------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666656555555332 2233444444444444442 2444444 4577777665544433
No 36
>PF05218 DUF713: Protein of unknown function (DUF713); InterPro: IPR007883 This family contains proteins of unknown function from Caenorhabditis species.
Probab=35.80 E-value=1.4e+02 Score=22.70 Aligned_cols=94 Identities=19% Similarity=0.263 Sum_probs=59.3
Q ss_pred HHHHHHHHHHhchh-hcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhc---CCCcHHHHHHhhhh
Q 033537 6 RLHRQLVDYSNSLF-QEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQ---QNVDFTKVGGHVHQ 81 (117)
Q Consensus 6 ~l~~ql~~~~~sl~-~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~---~~~D~~~l~~~aH~ 81 (117)
.++.++..|.++.. ....|-..|.+|..|.+.-.....-.|+..-+.|....|-.+-..+++ ++.+|..++...-.
T Consensus 71 ~~~~E~~~l~~~v~~a~~~l~~~f~~L~~L~~~~~D~iFlkvLqK~i~~va~~L~~il~~l~~~~~~~~~~~~L~~~~s~ 150 (182)
T PF05218_consen 71 DLQSEISNLHKSVMSAYNMLENAFENLKKLSEKFPDKIFLKVLQKCISDVANKLLEILESLDELENDKDWFQKLREAFSR 150 (182)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHc
Confidence 35666666666643 334566789999999765444555667777777776666666666543 34567788877777
Q ss_pred hhhhHHHHhHHHHHHHHHH
Q 033537 82 LKGSSSRFIFLHFIDLIES 100 (117)
Q Consensus 82 LKGSSasiGA~~l~~lC~~ 100 (117)
|+.|+- -.-.+|...|..
T Consensus 151 l~~~~I-ptT~~Lr~ic~~ 168 (182)
T PF05218_consen 151 LDPSDI-PTTSQLRRICKN 168 (182)
T ss_pred CCcccC-CCHHHHHHHhcc
Confidence 776432 233455566543
No 37
>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=35.36 E-value=60 Score=22.62 Aligned_cols=43 Identities=14% Similarity=0.288 Sum_probs=29.6
Q ss_pred HHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhh
Q 033537 28 FGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHV 79 (117)
Q Consensus 28 f~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~a 79 (117)
+.++++. .|+|- ...|+..+++.+..+.+|..++ |.+.++..+
T Consensus 5 ~~~i~~~----dp~Fd---~~~F~~~ak~~f~~i~~A~~~~--D~~~l~~~~ 47 (147)
T PF04280_consen 5 IKQIKQR----DPGFD---PAAFLEEAKEAFLPIQEAWAKG--DLEALRPLL 47 (147)
T ss_dssp HCCHHHH-----TT-----HHHHHHHHHHTHHHHHHHHHHT---HHHHHHHB
T ss_pred HHHHHhc----CCCCC---HHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHh
Confidence 4445555 45565 4688899999999999999986 888887653
No 38
>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=34.79 E-value=37 Score=24.61 Aligned_cols=37 Identities=22% Similarity=0.466 Sum_probs=26.4
Q ss_pred hchhhcCchhHHHHHHhhcccc----CChhhHHHHHHHHHH
Q 033537 16 NSLFQEGILDNQFGHLQQLQDE----SNPDFVAEVVNLYFK 52 (117)
Q Consensus 16 ~sl~~egiLD~qf~qL~~Lqd~----~~pdFv~elI~~Fl~ 52 (117)
..+.+.=+-|..|++|.+|.+. .+|++|+.++..|+.
T Consensus 54 D~~LHrCvyDRrfS~L~eLp~~~~l~~~~~~v~~~l~~YL~ 94 (115)
T cd07298 54 DKHLHLCIYDRRFSQLPELPRSDSLKDSPESVTQMLMAYLS 94 (115)
T ss_pred HHHHHHHHHhhhhhccccCCCcccccccHHHHHHHHHHHHH
Confidence 3344555667778889888663 257888888888875
No 39
>PF14493 HTH_40: Helix-turn-helix domain
Probab=34.43 E-value=1.1e+02 Score=20.10 Aligned_cols=38 Identities=13% Similarity=0.113 Sum_probs=24.6
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHH
Q 033537 39 NPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGG 77 (117)
Q Consensus 39 ~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~ 77 (117)
+++....+.+.|-......+..+.+++... .||..++-
T Consensus 51 ~~e~~~~I~~~~~~~~~~~lk~i~e~l~~~-~sy~~iRl 88 (91)
T PF14493_consen 51 SEEEIKQIEDAIEKLGSEKLKPIKEALPGD-YSYFEIRL 88 (91)
T ss_pred CHHHHHHHHHHHHHcCcccHHHHHHHCCCC-CCHHHHHH
Confidence 344555666666555556777787777753 78887763
No 40
>PF03882 KicB: KicB killing factor; InterPro: IPR005582 This family contains MukF, which are proteins involved in chromosome condensation, segregation and cell cycle progression. MukE (IPR007385 from INTERPRO) along with MukF interact with MukB (IPR007406 from INTERPRO) in vivo forming a complex, which is required for chromosome condensation and segregation in Escherichia coli []. The Muk complex appears to be similar to the SMC-ScpA-ScpB complex in other prokaryotes where MukB is the homologue of SMC []. ScpA (IPR003768 from INTERPRO) and ScpB (IPR005234 from INTERPRO) have little sequence similarity to MukE or MukF, though they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. ; GO: 0005509 calcium ion binding, 0006260 DNA replication, 0007059 chromosome segregation, 0005737 cytoplasm; PDB: 1T98_B 3RPU_X 3EUH_B 3EUK_J 3EUJ_B.
Probab=34.21 E-value=1.2e+02 Score=26.57 Aligned_cols=18 Identities=11% Similarity=0.091 Sum_probs=10.2
Q ss_pred CcHHHHHHhhhhhhhhHH
Q 033537 70 VDFTKVGGHVHQLKGSSS 87 (117)
Q Consensus 70 ~D~~~l~~~aH~LKGSSa 87 (117)
.+...++.+++.|.+.=-
T Consensus 244 ~~l~~v~~l~~~Lq~kLD 261 (440)
T PF03882_consen 244 DELEFVDNLIFDLQMKLD 261 (440)
T ss_dssp SS-HHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHH
Confidence 355666666666666543
No 41
>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=32.82 E-value=60 Score=20.51 Aligned_cols=37 Identities=27% Similarity=0.420 Sum_probs=27.8
Q ss_pred HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHH
Q 033537 26 NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITV 63 (117)
Q Consensus 26 ~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~ 63 (117)
.+|.+++++-. .||+.+..++..--..-+++++.|++
T Consensus 8 Pqf~~lR~~vq-~NP~lL~~lLqql~~~nP~l~q~I~~ 44 (59)
T PF09280_consen 8 PQFQQLRQLVQ-QNPQLLPPLLQQLGQSNPQLLQLIQQ 44 (59)
T ss_dssp HHHHHHHHHHH-C-GGGHHHHHHHHHCCSHHHHHHHHH
T ss_pred hHHHHHHHHHH-HCHHHHHHHHHHHhccCHHHHHHHHH
Confidence 56889998754 48999999888888888877766554
No 42
>PRK10987 regulatory protein AmpE; Provisional
Probab=32.78 E-value=1.5e+02 Score=23.83 Aligned_cols=61 Identities=8% Similarity=0.126 Sum_probs=38.9
Q ss_pred HhHHHHHHHHHHHHhcCCCcHHHHHHhhhhh---hhhHHHHhHHHHHHHHHHhH-----HHHHHHHHHHHH
Q 033537 52 KDSERLLNEITVALDQQNVDFTKVGGHVHQL---KGSSSRFIFLHFIDLIESKI-----IVFFYPILYLYI 114 (117)
Q Consensus 52 ~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~L---KGSSasiGA~~l~~lC~~~~-----~~~~~~~~~~~~ 114 (117)
.+-.+...++.++++++ |.+.-++.+..+ .|-..+.....+.+.+.+.+ =.+|-|++|..+
T Consensus 85 r~L~~~~~~v~~AL~~g--Dl~aAR~~l~~l~~~~grd~~l~~~~i~~~~~e~~~~~~~~~~~a~lFwf~l 153 (284)
T PRK10987 85 GKQRLHYKAYLQAACRG--DSQACYHMAEELTLIHGLPADVSERELLRELQQALLWINYRYYLAPLFWFIV 153 (284)
T ss_pred chHHHHHHHHHHHHHCC--CHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 56667777888888886 888888876676 44433355555544444444 346777777644
No 43
>PF01764 Lipase_3: Lipase (class 3); InterPro: IPR002921 Triglyceride lipases are lipolytic enzymes that hydrolyse ester linkages of triglycerides []. Lipases are widely distributed in animals, plants and prokaryotes. This family of lipases have been called Class 3 as they are not closely related to other lipase families.; GO: 0004806 triglyceride lipase activity, 0006629 lipid metabolic process; PDB: 1LGY_A 1DTE_A 1DT5_F 4DYH_B 1DU4_C 4EA6_B 1GT6_B 1EIN_A 1DT3_A 1TIB_A ....
Probab=30.95 E-value=57 Score=22.03 Aligned_cols=51 Identities=10% Similarity=0.098 Sum_probs=35.3
Q ss_pred HHHHHHH-HhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHH
Q 033537 45 EVVNLYF-KDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDL 97 (117)
Q Consensus 45 elI~~Fl-~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~l 97 (117)
...+.|. .-.++....+.+..++.+ + .++--..|+|-|+=|++-|..+...
T Consensus 37 g~~~~~~~~~~~~~~~~l~~~~~~~~-~-~~i~itGHSLGGalA~l~a~~l~~~ 88 (140)
T PF01764_consen 37 GFLDAAEDSLYDQILDALKELVEKYP-D-YSIVITGHSLGGALASLAAADLASH 88 (140)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHHHHST-T-SEEEEEEETHHHHHHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccc-C-ccchhhccchHHHHHHHHHHhhhhc
Confidence 3444444 445566677777666543 3 5777789999999999999887653
No 44
>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=29.71 E-value=1.5e+02 Score=18.64 Aligned_cols=55 Identities=15% Similarity=0.358 Sum_probs=38.0
Q ss_pred HHHHHhchhhcCchhHH-HHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhc
Q 033537 11 LVDYSNSLFQEGILDNQ-FGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQ 67 (117)
Q Consensus 11 l~~~~~sl~~egiLD~q-f~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~ 67 (117)
+...+..+...|++.+. ...+.. ..+..+=+..+++.-..-+++....+-.++.+
T Consensus 18 ~~~ild~L~~~~vlt~~e~e~I~~--~~t~~~k~~~LLd~l~~kg~~a~~~F~~~L~~ 73 (85)
T PF00619_consen 18 LDDILDHLLSRGVLTEEEYEEIRS--EPTRQDKARKLLDILKRKGPEAFDIFCQALRE 73 (85)
T ss_dssp HHHHHHHHHHTTSSSHHHHHHHHT--SSSHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHc--cCChHHHHHHHHHHHHHHCHHHHHHHHHHHHh
Confidence 44566667778888844 666666 23455678888888777777777777777765
No 45
>PRK08582 hypothetical protein; Provisional
Probab=29.14 E-value=79 Score=22.90 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHHhc
Q 033537 42 FVAEVVNLYFKDSERLLNEITVALDQ 67 (117)
Q Consensus 42 Fv~elI~~Fl~Ds~~~l~~L~~al~~ 67 (117)
=.+..+..|+.||++.|++|++-.+.
T Consensus 104 ~fe~~l~~flk~s~~~~~~l~~~~~~ 129 (139)
T PRK08582 104 DFEQKMSRFLKDSEDRLTSIKRNTES 129 (139)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 45788999999999999999887654
No 46
>COG1283 NptA Na+/phosphate symporter [Inorganic ion transport and metabolism]
Probab=28.98 E-value=3.1e+02 Score=24.70 Aligned_cols=54 Identities=17% Similarity=0.281 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHhHHHHHHHHH
Q 033537 55 ERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPIL 110 (117)
Q Consensus 55 ~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~~~~~~~~~~ 110 (117)
.+.++++++...+. -+.++++-..+++.|+--+.-.+-.+.-.+.+.+.-||++
T Consensus 477 k~~~r~~e~~~~k~--H~~Rl~~g~~s~~t~~l~lDii~dlkrIn~h~~siA~~vl 530 (533)
T COG1283 477 KKRVRRLERRSSKR--HLDRLRDGAASVETSSLHLDILRDLKRINSHIASVAYPVL 530 (533)
T ss_pred HHHHHHHHHHHHHH--HHHHHHcCcchhhhchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566666666554 5668888889999999999999999999999999999986
No 47
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=28.95 E-value=1.8e+02 Score=26.71 Aligned_cols=55 Identities=27% Similarity=0.394 Sum_probs=36.6
Q ss_pred HHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhh----hhhHHHHhHHH--------------HHHHHHHhHHH
Q 033537 50 YFKDSERLLNEITVALDQQNVDFTKVGGHVHQL----KGSSSRFIFLH--------------FIDLIESKIIV 104 (117)
Q Consensus 50 Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~L----KGSSasiGA~~--------------l~~lC~~~~~~ 104 (117)
-|.|+..+-.++-..-....|||+++.+...+| |.|=-++-+.. ....|++||+.
T Consensus 526 ~FpessDLYSEiGA~tRSAkVDf~qL~DNL~qlErrCKaSWe~L~~Iakhe~~p~l~~r~~~fl~~cA~RI~~ 598 (817)
T KOG1925|consen 526 TFPESSDLYSEIGALTRSAKVDFEQLTDNLGQLERRCKASWESLRSIAKHELAPALRARLTHFLDQCARRIAM 598 (817)
T ss_pred hCCcchhHHHHhHhhhhhhhccHHHHHHHHHHHHHHhhHHHHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777776666679999998777766 44444444433 44569998874
No 48
>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=28.72 E-value=1.6e+02 Score=19.55 Aligned_cols=46 Identities=11% Similarity=0.180 Sum_probs=33.9
Q ss_pred HHHHHHHHhchhhcCchhHHHHHHhhcccc-CChhhHHHHHHHHHHh
Q 033537 8 HRQLVDYSNSLFQEGILDNQFGHLQQLQDE-SNPDFVAEVVNLYFKD 53 (117)
Q Consensus 8 ~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~-~~pdFv~elI~~Fl~D 53 (117)
|+++...+++-+..|=.++.+.-+.+|.-+ -.++||..+|..-++.
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 556667777777777777888899998644 3467888888777765
No 49
>PF07072 DUF1342: Protein of unknown function (DUF1342); InterPro: IPR009777 This family consists of several hypothetical bacterial proteins of around 250 residues in length. Members of this family are often known as YacF after the Escherichia coli protein P36680 from SWISSPROT. The function of this family is unknown.; PDB: 2OEZ_A.
Probab=28.67 E-value=2.7e+02 Score=21.73 Aligned_cols=47 Identities=15% Similarity=0.128 Sum_probs=33.1
Q ss_pred HHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHH
Q 033537 47 VNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLH 93 (117)
Q Consensus 47 I~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~ 93 (117)
=.-.+.|-++.-..|....+.+.+|-.+++.....++-++..+.+..
T Consensus 42 K~eLlKELeRq~~~L~~~~~~p~vd~~~l~~~l~~l~~~~~~L~~~~ 88 (211)
T PF07072_consen 42 KSELLKELERQRQKLNQWRDNPGVDQEALDALLQELDQALQALQQAP 88 (211)
T ss_dssp HHHHHHHHHHHHHHHHCTTT-TTS-HHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHhCc
Confidence 33456677888888888777888999888888888887777766654
No 50
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=28.61 E-value=65 Score=28.09 Aligned_cols=46 Identities=11% Similarity=0.229 Sum_probs=32.5
Q ss_pred HHHHHHHHHhcCCCcH-------HHHHHhhhhhhhhHHHHhHHHHHHHHHHhH
Q 033537 57 LLNEITVALDQQNVDF-------TKVGGHVHQLKGSSSRFIFLHFIDLIESKI 102 (117)
Q Consensus 57 ~l~~L~~al~~~~~D~-------~~l~~~aH~LKGSSasiGA~~l~~lC~~~~ 102 (117)
++.+-...+....++. +++...|.+.-.++-||||+||....|+-.
T Consensus 352 LikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlL 404 (444)
T COG1220 352 LIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLL 404 (444)
T ss_pred HHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHH
Confidence 3444444455443432 367778888888899999999999998764
No 51
>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=28.20 E-value=1.7e+02 Score=18.87 Aligned_cols=49 Identities=12% Similarity=0.200 Sum_probs=29.5
Q ss_pred HHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhc
Q 033537 8 HRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQ 67 (117)
Q Consensus 8 ~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~ 67 (117)
+++|..+++.+....-+|.. -.+++.++.+.|+++.-..--.+.+--..
T Consensus 2 K~~l~~Lv~~iDp~~~ld~~-----------vee~Ll~laddFv~~v~~~ac~lAKhR~s 50 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDPD-----------VEELLLELADDFVDDVVSFACRLAKHRKS 50 (68)
T ss_dssp HHHHHHHHHCC-SS----HH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred hHHHHHHHHHcCCCCCCCHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 46788888888666666622 35667777777777777776666665444
No 52
>PRK05287 hypothetical protein; Provisional
Probab=28.20 E-value=3.2e+02 Score=22.05 Aligned_cols=61 Identities=20% Similarity=0.187 Sum_probs=44.3
Q ss_pred HHHHhhccccC-ChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHH
Q 033537 28 FGHLQQLQDES-NPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFL 92 (117)
Q Consensus 28 f~qL~~Lqd~~-~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~ 92 (117)
|..|-++-|-. -+| +=..-+.|-++.-..|....+.+.+|-..++.....++.+...+.+.
T Consensus 44 ~~~Lfelldv~~R~D----lKsdLlKeLerq~~~L~~~~~~p~vd~~~l~~~l~~l~~~~~~L~~~ 105 (250)
T PRK05287 44 FRTLFELLDVLERGD----LKSDLLKELERQRQKLQKWRGNPGVDQEALEALLQELEQASAALNAA 105 (250)
T ss_pred HHHHHHHHHHhhhHH----HHHHHHHHHHHHHHHHHHHhcCCCcCHHHHHHHHHHHHHHHHHHHhc
Confidence 44555544422 243 33445677888888888888888899999999999999998887765
No 53
>PF12178 INCENP_N: Chromosome passenger complex (CPC) protein INCENP N terminal; InterPro: IPR022006 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. INCENP is a regulatory protein in the chromosome passenger complex. It is involved in regulation of the catalytic protein Aurora B. It performs this function in association with two other proteins - Survivin and Borealin. These proteins form a tight three-helical bundle. The N-terminal domain is the domain involved in formation of this three helical bundle. ; PDB: 2QFA_C.
Probab=27.88 E-value=69 Score=18.91 Aligned_cols=21 Identities=14% Similarity=0.257 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHhHHHHHHHHH
Q 033537 90 IFLHFIDLIESKIIVFFYPIL 110 (117)
Q Consensus 90 GA~~l~~lC~~~~~~~~~~~~ 110 (117)
|-.+|.+.|..|+.-|..-+=
T Consensus 3 g~~~L~e~~~~Kl~efl~~vd 23 (38)
T PF12178_consen 3 GPQHLLEVCDQKLQEFLCNVD 23 (38)
T ss_dssp SGGGHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHhcc
Confidence 556889999999999876553
No 54
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=27.70 E-value=45 Score=23.03 Aligned_cols=19 Identities=11% Similarity=0.046 Sum_probs=17.0
Q ss_pred hhHHHHhHHHHHHHHHHhH
Q 033537 84 GSSSRFIFLHFIDLIESKI 102 (117)
Q Consensus 84 GSSasiGA~~l~~lC~~~~ 102 (117)
|.||++-|.++.+.|+++=
T Consensus 10 GaSSs~la~km~~~a~~~g 28 (99)
T cd05565 10 GGTSGLLANALNKGAKERG 28 (99)
T ss_pred CCCHHHHHHHHHHHHHHCC
Confidence 6899999999999999863
No 55
>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []. This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....
Probab=27.38 E-value=1e+02 Score=19.55 Aligned_cols=63 Identities=17% Similarity=0.175 Sum_probs=39.4
Q ss_pred ChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHhHHHHH
Q 033537 39 NPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFF 106 (117)
Q Consensus 39 ~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~~~~~~ 106 (117)
+++-+.+|++..+++-.+.+.+ .. ++=. .|=..++..+. +|-+...||+.+...-++.|-.-.
T Consensus 2 ~~~~l~~I~~~~l~~l~~~l~~-~~-i~l~-~~~~~~~~l~~--~~~~~~~GAR~l~r~i~~~i~~~l 64 (81)
T PF10431_consen 2 SEEDLEKIADLQLKKLNERLKE-KG-IELE-FDDAVVDYLAE--KGYDPEYGARPLRRIIEREIEPPL 64 (81)
T ss_dssp -HHHHHHHHHSHHHHHHHHHHH-TT-EEEE-E-HHHHHHHHH--HHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHH-CC-CeEE-ecHHHHHHHHH--hCcccCCCHHHHHHHHHHHHHHHH
Confidence 3566778888888777777755 22 1110 23234444333 367889999999999998775433
No 56
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=26.82 E-value=1.3e+02 Score=22.32 Aligned_cols=22 Identities=23% Similarity=0.226 Sum_probs=14.5
Q ss_pred HHHHhHHHHHHHHHHHHhcCCC
Q 033537 49 LYFKDSERLLNEITVALDQQNV 70 (117)
Q Consensus 49 ~Fl~Ds~~~l~~L~~al~~~~~ 70 (117)
..++|++++|+-|...++++..
T Consensus 65 r~~~D~~KRL~iLfd~ln~g~L 86 (157)
T PF07304_consen 65 RVVDDIEKRLNILFDHLNNGKL 86 (157)
T ss_dssp HHHHHHHHHHHHHHHHHHHT-S
T ss_pred hHHHHHHHHHHHHHHHHhcCCC
Confidence 3456888888777777776533
No 57
>PF09130 DUF1932: Domain of unknown function (DUF1932); InterPro: IPR015814 This domain has been found in a number of eukaryotic and prokaryotic proteins, some of which are predicted to be 6-phosphogluconate dehydrogenase, NAD-binding proteins.; PDB: 3QSG_A 1I36_A 4EZB_A.
Probab=26.82 E-value=1.7e+02 Score=18.54 Aligned_cols=48 Identities=15% Similarity=0.101 Sum_probs=37.5
Q ss_pred hcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhc
Q 033537 20 QEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQ 67 (117)
Q Consensus 20 ~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~ 67 (117)
..|+.|+-+.+|.+-.+....+++...|+.-..-+.+...+|++..+.
T Consensus 3 ~~Gv~~~ll~sl~~s~p~~~~~~~~~~v~~~~~hA~Rr~~EM~Eia~t 50 (73)
T PF09130_consen 3 RYGVEDELLASLAESFPGLDWALAERLVPRMAPHAYRRAAEMEEIADT 50 (73)
T ss_dssp HTT-HHHHHHHHHHHSCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHCCcchHHHHHHHcccchhhHHHHHHHHHHHHHH
Confidence 357888888899888644333899999999999999999999988653
No 58
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=26.57 E-value=39 Score=27.77 Aligned_cols=24 Identities=13% Similarity=0.411 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHhchhhcCchhHH
Q 033537 4 VTRLHRQLVDYSNSLFQEGILDNQ 27 (117)
Q Consensus 4 ~~~l~~ql~~~~~sl~~egiLD~q 27 (117)
.+.|+++++.=+..|+++|++||.
T Consensus 197 r~~L~~rI~~Rv~~Ml~~GlieEv 220 (300)
T PRK14729 197 MEEMKSRIISRVNNMIDCGLLSEI 220 (300)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHH
Confidence 468999999999999999999965
No 59
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=26.33 E-value=2.9e+02 Score=20.84 Aligned_cols=10 Identities=20% Similarity=0.574 Sum_probs=6.4
Q ss_pred ChhhHHHHHH
Q 033537 39 NPDFVAEVVN 48 (117)
Q Consensus 39 ~pdFv~elI~ 48 (117)
+|+|+.++++
T Consensus 93 d~~fLme~mE 102 (176)
T PRK03578 93 PPAFLMQQME 102 (176)
T ss_pred CHHHHHHHHH
Confidence 4677766665
No 60
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=26.03 E-value=2e+02 Score=18.95 Aligned_cols=46 Identities=17% Similarity=0.387 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCC----CcHHHHHHhhhhhhhhHHH
Q 033537 43 VAEVVNLYFKDSERLLNEITVALDQQN----VDFTKVGGHVHQLKGSSSR 88 (117)
Q Consensus 43 v~elI~~Fl~Ds~~~l~~L~~al~~~~----~D~~~l~~~aH~LKGSSas 88 (117)
+.+=+..++++..+.+.++.+++++.+ .+++.++...-.+.+-+||
T Consensus 11 ~K~~lk~~L~~I~~~~~~i~~~ld~~~~ClL~e~e~i~~~f~~~q~~Ass 60 (70)
T PF10372_consen 11 LKEQLKQYLEQIEEEISQIIQTLDEDDCCLLCEFEEIREKFLDIQTLASS 60 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-TT--GGGGHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCceechhHHHHHHHHHHHHHHHHH
Confidence 345567788888888888888888742 3667777665555444443
No 61
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=26.02 E-value=1.2e+02 Score=23.12 Aligned_cols=47 Identities=26% Similarity=0.280 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHHHhcCCCcHHHHHHhh----hhhhhh------HHHHhHHHHHHHHH
Q 033537 53 DSERLLNEITVALDQQNVDFTKVGGHV----HQLKGS------SSRFIFLHFIDLIE 99 (117)
Q Consensus 53 Ds~~~l~~L~~al~~~~~D~~~l~~~a----H~LKGS------SasiGA~~l~~lC~ 99 (117)
|-+++++.|..|+.+.|++.+++...+ |+|.++ |.-||-.-|..|-+
T Consensus 62 ~r~Kl~~gl~~A~~KRpVs~e~ie~~v~~ie~~Lr~~g~~EV~S~~IG~~VM~~Lk~ 118 (156)
T COG1327 62 DREKLRRGLIRACEKRPVSSEQIEEAVSHIERQLRSSGEREVPSKEIGELVMEELKK 118 (156)
T ss_pred CHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHh
Confidence 567999999999999999999886654 666665 56677766665544
No 62
>PF11277 Med24_N: Mediator complex subunit 24 N-terminal; InterPro: IPR021429 This subunit of the Mediator complex appears to be conserved only from insects to humans. It is essential for correct retinal development in fish. Subunit composition of the mediator contributes to the control of differentiation in the vertebrate CNS as there are divergent functions of the mediator subunits Crsp34/Med27, Trap100/Med24, and Crsp150/Med14 [].
Probab=25.86 E-value=1.8e+02 Score=28.10 Aligned_cols=45 Identities=20% Similarity=0.189 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhchhhcCchh-HHHHHHhhccccCCh-hhHHHHHHHH
Q 033537 6 RLHRQLVDYSNSLFQEGILD-NQFGHLQQLQDESNP-DFVAEVVNLY 50 (117)
Q Consensus 6 ~l~~ql~~~~~sl~~egiLD-~qf~qL~~Lqd~~~p-dFv~elI~~F 50 (117)
.+.+|+...|+...+.|++| +....+..|-.-|+| -|+..+|+--
T Consensus 706 p~~E~l~~~f~~~~~~Gw~~~~~~~~~d~ll~~gG~~W~~~~lvkel 752 (990)
T PF11277_consen 706 PILEQLRSVFSAARQRGWLDIRAIQLFDSLLNMGGVFWFCTNLVKEL 752 (990)
T ss_pred chHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHccchhHHHHHHHHHH
Confidence 56789999999999999999 445555555554675 5665655544
No 63
>KOG1510 consensus RNA polymerase II holoenzyme and mediator subcomplex, subunit SURB7/SRB7 [Transcription]
Probab=25.55 E-value=2.5e+02 Score=21.05 Aligned_cols=60 Identities=25% Similarity=0.437 Sum_probs=44.1
Q ss_pred HHHHHHHHHHhchh-hcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhc
Q 033537 6 RLHRQLVDYSNSLF-QEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQ 67 (117)
Q Consensus 6 ~l~~ql~~~~~sl~-~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~ 67 (117)
.=-.|++.++.|+- .+|---.|+..|.+||.+ +.+-..|+++ -..++++++..+...++.
T Consensus 67 ~~akqId~LIdsLP~~~~~~e~Ql~~i~kLq~e-n~e~~~el~~-~v~~~e~Ll~~vq~~le~ 127 (139)
T KOG1510|consen 67 KKAKQIDTLIDSLPGEEGSAEAQLEKIKKLQEE-NEEVALELEE-LVSKGEKLLEQVQSLLED 127 (139)
T ss_pred HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHH-HHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 33568899999974 445556778899999755 6666666655 467889999999888873
No 64
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=25.24 E-value=1.6e+02 Score=20.19 Aligned_cols=42 Identities=12% Similarity=0.470 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhchhhcCc-hhHHHHHHhhccccCChhhHHHHHHHH
Q 033537 5 TRLHRQLVDYSNSLFQEGI-LDNQFGHLQQLQDESNPDFVAEVVNLY 50 (117)
Q Consensus 5 ~~l~~ql~~~~~sl~~egi-LD~qf~qL~~Lqd~~~pdFv~elI~~F 50 (117)
.+|++++..|..-.. +|+ .++.+.+=..+ .||.+.+.+|+-|
T Consensus 11 ~~l~~Ki~~fl~lk~-~G~~fN~~L~~s~~f---rNP~i~ekLi~~~ 53 (96)
T PF07818_consen 11 PELQAKIAKFLELKR-QGIHFNDRLQNSKSF---RNPSILEKLIEFF 53 (96)
T ss_pred HHHHHHHHHHHHHHH-cCCCHHHHHHHcccc---CChHHHHHHHHHc
Confidence 578899999887655 674 55555555555 6999999999865
No 65
>PF02970 TBCA: Tubulin binding cofactor A; InterPro: IPR004226 The folding pathway of tubulins includes highly specific interactions with a series of cofactors (A, B, C, D and E) after they are released from the eukaryotic chaperonin CCT. Cofactors A and D capture and stabilise tubulin in a quasi-native conformation. Cofactor E binds to the cofactor D-tubulin complex, and interaction with cofactor C then causes the release of tubulin poypeptides in the native state. This family is the tubulin-specific chaperone A.; GO: 0051082 unfolded protein binding, 0007021 tubulin complex assembly, 0005874 microtubule; PDB: 3MXZ_A 1QSD_A 1H7C_A.
Probab=24.86 E-value=2.2e+02 Score=19.11 Aligned_cols=58 Identities=9% Similarity=0.279 Sum_probs=43.1
Q ss_pred hhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhh
Q 033537 24 LDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKG 84 (117)
Q Consensus 24 LD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKG 84 (117)
++.+-..+..+..+|..++...--..-++++..+|-+...-+.. -+..|...++.-+|
T Consensus 23 ~~~q~~rle~~k~~~~de~~iKkq~~vl~Et~~mipd~~~RL~~---a~~~L~~~l~~~~~ 80 (90)
T PF02970_consen 23 VEEQEARLEKMKAEGEDEYDIKKQEEVLEETKMMIPDCQQRLEK---AVEDLEEFLEEEEG 80 (90)
T ss_dssp HHHHHHHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHhHHHHHHHHH---HHHHHHHHHHHCcC
Confidence 34455677888888888888888888899999999888887776 35566665555544
No 66
>PF11970 Git3_C: G protein-coupled glucose receptor regulating Gpa2 C-term; InterPro: IPR022596 This entry contains a functionally uncharacterised region belonging to the Git3 G-protein coupled receptor. Git3 is one of six proteins required for glucose-triggered adenylate cyclase activation, and is a G protein-coupled receptor responsible for the activation of adenylate cyclase through Gpa2 - heterotrimeric G protein alpha subunit, part of the glucose-detection pathway. Git3 contains seven predicted transmembrane domains, a third cytoplasmic loop and a cytoplasmic tail []. This family is the conserved C-terminal domain of the member proteins.
Probab=24.19 E-value=51 Score=21.78 Aligned_cols=11 Identities=36% Similarity=1.268 Sum_probs=8.7
Q ss_pred HHHHHHHHHHH
Q 033537 104 VFFYPILYLYI 114 (117)
Q Consensus 104 ~~~~~~~~~~~ 114 (117)
-|.||+.|+.+
T Consensus 14 mfiYP~~Yi~l 24 (76)
T PF11970_consen 14 MFIYPLVYIVL 24 (76)
T ss_pred HHHHHHHHHHH
Confidence 47899999765
No 67
>PF03563 Bunya_G2: Bunyavirus glycoprotein G2; InterPro: IPR005168 Bunyavirus has three genomic segments: small (S), middle-sized (M), and large (L). The S segment encodes the nucleocapsid and a non-structural protein. The M segment codes for two glycoproteins, G1 and G2, and another non-structural protein (NSm). The L segment codes for an RNA polymerase. This entry represents the polyprotein region forming the G2 glycoprotein, which interacts with the IPR005167 from INTERPRO G1 glycoprotein [].
Probab=24.03 E-value=52 Score=27.27 Aligned_cols=13 Identities=62% Similarity=1.047 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHh
Q 033537 103 IVFFYPILYLYIV 115 (117)
Q Consensus 103 ~~~~~~~~~~~~~ 115 (117)
|..||||.|+|-+
T Consensus 216 iPiF~P~~~~Yg~ 228 (285)
T PF03563_consen 216 IPIFYPIAYLYGW 228 (285)
T ss_pred HHHHHHHHHHHHH
Confidence 5578999999854
No 68
>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function.
Probab=23.85 E-value=2.2e+02 Score=23.01 Aligned_cols=68 Identities=12% Similarity=-0.018 Sum_probs=50.6
Q ss_pred cCChhhHHHHHHHHH--HhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHhHHH
Q 033537 37 ESNPDFVAEVVNLYF--KDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIV 104 (117)
Q Consensus 37 ~~~pdFv~elI~~Fl--~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~~~~ 104 (117)
++++......+..+- .+++++.+..++++...+.++.-+..+....-|+.++.+...+....++.+-.
T Consensus 62 p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~ 131 (321)
T PF08424_consen 62 PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRA 131 (321)
T ss_pred CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHH
Confidence 345544444333332 27778899999999988889999999999999999988888877777666543
No 69
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=23.35 E-value=1.2e+02 Score=20.34 Aligned_cols=19 Identities=32% Similarity=0.274 Sum_probs=12.2
Q ss_pred HHHHHHHHHhchhhcCchh
Q 033537 7 LHRQLVDYSNSLFQEGILD 25 (117)
Q Consensus 7 l~~ql~~~~~sl~~egiLD 25 (117)
|+++|..+.+-+.+..-+|
T Consensus 2 L~~~L~~L~~eL~~~~~ld 20 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPLD 20 (85)
T ss_pred HHHHHHHHHHHHhcCCCCC
Confidence 5666666666666665566
No 70
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=23.11 E-value=6.6e+02 Score=23.93 Aligned_cols=90 Identities=13% Similarity=0.142 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhh
Q 033537 4 VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLK 83 (117)
Q Consensus 4 ~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LK 83 (117)
...|+++++..++.|-+..+.- -...|.+|.......-|.+-++.++.++--....+-..+. ..|..+-..+|.+-
T Consensus 316 l~rl~rkv~g~LNKLSdaNi~~-I~~~i~~Ly~~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~---~~y~AL~~~l~~~v 391 (822)
T KOG2141|consen 316 LQRLRRKVNGSLNKLSDANIIK-IIAGIAELYMNNSRYDVTSSLTKLLLKALLGPFRLLDSLL---TTYAALAAMLHTMV 391 (822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhcchhhHHHHHHHHHHHHhhhhHHHHHHHH---HHHHHHHHHHHHHH
Confidence 5678888888888887765543 2347777877777788888888888776554444444433 37999999999999
Q ss_pred hhHHHHhHHHHHHHHH
Q 033537 84 GSSSRFIFLHFIDLIE 99 (117)
Q Consensus 84 GSSasiGA~~l~~lC~ 99 (117)
|+ -|||.-+....|
T Consensus 392 g~--eigahf~q~~ve 405 (822)
T KOG2141|consen 392 GN--EIGAHFLQTFVE 405 (822)
T ss_pred hh--HHHHHHHHHHHH
Confidence 86 488887765544
No 71
>PF08598 Sds3: Sds3-like; InterPro: IPR013907 Repression of gene transcription is mediated by histone deacetylases containing repressor-co-repressor complexes, which are recruited to promoters of target genes via interactions with sequence-specific transcription factors. The co-repressor complex contains a core of at least seven proteins []. This entry represents the conserved region found in Sds3, Dep1 and BRMS1-homologue p40 proteins. ; PDB: 2XUS_A.
Probab=23.10 E-value=43 Score=25.06 Aligned_cols=43 Identities=26% Similarity=0.654 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHHHHhchhhcCchh-HHHHHHhhccccCChhhHHHH
Q 033537 2 DAVTRLHRQLVDYSNSLFQEGILD-NQFGHLQQLQDESNPDFVAEV 46 (117)
Q Consensus 2 ~~~~~l~~ql~~~~~sl~~egiLD-~qf~qL~~Lqd~~~pdFv~el 46 (117)
|.++.|..+...+...++.+.+-. +. ++.+|+++..|+|+..+
T Consensus 5 ~~l~~le~~F~~~Rd~lY~e~l~~L~~--el~~l~~~t~pe~l~~l 48 (205)
T PF08598_consen 5 DDLAKLEKQFAELRDQLYRERLAQLQQ--ELEQLQEGTHPEYLRRL 48 (205)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH--CHHHH------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHhCCCcHHHHHHH
Confidence 346778888888888888888755 33 44445567789888764
No 72
>PF03858 Crust_neuro_H: Crustacean neurohormone H; InterPro: IPR005558 Arthropod express a family of neuropeptides [] which so far consist of the following types of neurohormones: Crustacean hyperglycemic hormone (CHH). CHH is primarily involved in blood sugar regulation, but also plays a role in the control of molting and reproduction. Molt-inhibiting hormone (MIH). MIH inhibits Y-organs where molting hormone (ecdysteroid) is secreted. A molting cycle is initiated when MIH secretion diminishes or stops. Gonad-inhibiting hormone (GIH), also known as vitellogenesis-inhibiting hormone (VIH) because of its role in inhibiting vitellogenesis in female animals. Mandibular organ-inhibiting hormone (MOIH). MOIH represses the synthesis of methyl farnesoate, the precursor of insect juvenile hormone III in the mandibular organ. Ion transport peptide (ITP) from locust. ITP stimulates salt and water reabsorption and inhibits acid secretion in the ileum of the locust. Caenorhabditis elegans hypothetical protein ZC168.2. These neurohormones are peptides of 70 to 80 residues which are processed from larger size precursors. They contain six conserved cysteines that are involved in disulphide bonds, as shown in the following schematic representation. Crustacean neurohormone H proteins are referred to as precursor-related peptides as they are typically co-transcribed and translated with the CHH neurohormone (IPR001166 from INTERPRO). However, in some species this neuropeptide is synthesized as a separate protein. Furthermore, neurohormone H can undergo proteolysis to give rise to 5 different neuropeptides [].
Probab=22.26 E-value=38 Score=20.36 Aligned_cols=22 Identities=23% Similarity=0.327 Sum_probs=17.0
Q ss_pred cHHHHHHhhhhhhhhHHHHhHH
Q 033537 71 DFTKVGGHVHQLKGSSSRFIFL 92 (117)
Q Consensus 71 D~~~l~~~aH~LKGSSasiGA~ 92 (117)
-|-++.++.-+||||+.+.++.
T Consensus 5 G~GRMerLLaSlrg~~~s~~pl 26 (41)
T PF03858_consen 5 GFGRMERLLASLRGSADSSTPL 26 (41)
T ss_pred chhhHHHHHHHHhccCCCCcch
Confidence 3678889999999888765543
No 73
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=21.90 E-value=3.5e+02 Score=20.32 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhh----------hHHHHhHHHHHHHH
Q 033537 53 DSERLLNEITVALDQQNVDFTKVGGHVHQLKG----------SSSRFIFLHFIDLI 98 (117)
Q Consensus 53 Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKG----------SSasiGA~~l~~lC 98 (117)
|-+++++.|..|+.+.|+..++++..+..+.- +|.-||-.-|..|-
T Consensus 62 dr~Kl~~gl~~Ac~KRpVs~e~ie~~v~~Ie~~l~~~~~~EI~S~~IGe~Vm~~L~ 117 (147)
T TIGR00244 62 NREKLLRGMVRACEKRPVSFDDLEHAINHIEAQLRAQGEREVPSELIGQMVMQYLK 117 (147)
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHh
Confidence 56789999999999999999998877754432 45667766555553
No 74
>PLN02165 adenylate isopentenyltransferase
Probab=21.85 E-value=3.1e+02 Score=23.04 Aligned_cols=24 Identities=13% Similarity=0.286 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhchhhcCchhHH
Q 033537 4 VTRLHRQLVDYSNSLFQEGILDNQ 27 (117)
Q Consensus 4 ~~~l~~ql~~~~~sl~~egiLD~q 27 (117)
.+.|+++++.=+..|+++|++||.
T Consensus 185 r~~L~~RI~~Rvd~Ml~~GlldEv 208 (334)
T PLN02165 185 EPVLFEYLSKRVDEMMDSGMFEEL 208 (334)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHH
Confidence 467899999999999999999955
No 75
>PF07631 PSD4: Protein of unknown function (DUF1592); InterPro: IPR013042 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013043 from INTERPRO.
Probab=21.72 E-value=3.1e+02 Score=19.59 Aligned_cols=58 Identities=12% Similarity=0.237 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhchhhcCchhHHHHHHhhccc--------cCChhhHHHHHHHHHHhHHHHHHHH
Q 033537 4 VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQD--------ESNPDFVAEVVNLYFKDSERLLNEI 61 (117)
Q Consensus 4 ~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd--------~~~pdFv~elI~~Fl~Ds~~~l~~L 61 (117)
.+.|++|..+|++..-....+++=+.|-..+.. +.-|+|-..+......++...+..+
T Consensus 35 ~~~l~~q~~RML~dpr~~~~~~~F~~qWL~l~~~~~~~~d~~~~p~~~~~l~~~m~~E~~~f~~~v 100 (128)
T PF07631_consen 35 PEQLRAQAERMLADPRARRFVERFFRQWLDLDRLDSIVKDPEKFPEFSPDLREAMREETDEFFEHV 100 (128)
T ss_pred HHHHHHHHHHHHcCccHHHHHHHHHHHHhCCCcccccCCChhhccccCHHHHHHHHHHHHHHHHHH
Confidence 467889999999887666666644444444432 1237777788888888888888776
No 76
>COG3372 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]
Probab=21.67 E-value=1.9e+02 Score=25.19 Aligned_cols=48 Identities=17% Similarity=0.198 Sum_probs=35.9
Q ss_pred cCChhhHHHHHHHHHHhHHHHHHHHHHHHhc--CCCcHHHHHHhhhhhhh
Q 033537 37 ESNPDFVAEVVNLYFKDSERLLNEITVALDQ--QNVDFTKVGGHVHQLKG 84 (117)
Q Consensus 37 ~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~--~~~D~~~l~~~aH~LKG 84 (117)
+.+-+..++||++|-+..-++-.+|.+.+.. ...+++.+|.+||=|+-
T Consensus 23 ~~~~~lA~evI~~Fks~~Gkt~geL~e~l~~le~~~~~K~VRGlA~iler 72 (396)
T COG3372 23 PEDLDLAEEVIETFKSSLGKTYGELEEDLRDLEYAAKDKLVRGLAKILER 72 (396)
T ss_pred hhhHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHh
Confidence 3456788899999999888888888777653 12344788988888873
No 77
>PF05527 DUF758: Domain of unknown function (DUF758) ; InterPro: IPR008477 This is a family of eukaryotic proteins with unknown function, which are induced by tumour necrosis factor.; PDB: 3F4M_A.
Probab=21.66 E-value=2.6e+02 Score=21.75 Aligned_cols=55 Identities=18% Similarity=0.393 Sum_probs=32.9
Q ss_pred HHHHHHHHhchhh---cCchhHHHHHHhhccccCChhhHHHHHHH---HHHhHHHHHHHHHHHHhcC
Q 033537 8 HRQLVDYSNSLFQ---EGILDNQFGHLQQLQDESNPDFVAEVVNL---YFKDSERLLNEITVALDQQ 68 (117)
Q Consensus 8 ~~ql~~~~~sl~~---egiLD~qf~qL~~Lqd~~~pdFv~elI~~---Fl~Ds~~~l~~L~~al~~~ 68 (117)
|+.|...+++... -|=+|+.|+-+ ++|+|+..+.+- |-+.-.++...|.++++++
T Consensus 124 ~~~L~~lv~~HLT~KS~~Ri~~vF~~f------~~~efL~~lf~~~~~~~~~L~~i~~~Lnklld~g 184 (186)
T PF05527_consen 124 RDLLHQLVEPHLTPKSHGRIDHVFNFF------SDPEFLDALFSPDEEYRDHLGKICDGLNKLLDEG 184 (186)
T ss_dssp HHHHHHHHTTTS-HHHHHHHHHHHHHH------T-HHHHHHHTSG--GGHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhCChhhHHHHHHHHHhh------CChHHHHHHhCcccchHHHHHHHHHHHHHHHhCC
Confidence 4444444444322 23345445443 688888888776 6666677788888888765
No 78
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=21.42 E-value=1.8e+02 Score=23.86 Aligned_cols=49 Identities=14% Similarity=0.167 Sum_probs=31.2
Q ss_pred HHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhc
Q 033537 8 HRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQ 67 (117)
Q Consensus 8 ~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~ 67 (117)
+..|..+++.+.-++.||+. -.|++.+|.+.|.++.-..--.|.+--..
T Consensus 157 k~kl~dLvqqId~~~~LD~d-----------VedlLleiADdFV~sii~~sC~LAKHRKs 205 (258)
T KOG1142|consen 157 KRKLDDLVQQIDGTTKLDDD-----------VEDLLLEIADDFVSSIIHRSCKLAKHRKS 205 (258)
T ss_pred ccchhHHHHhhcCcccccHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34566777777777777732 35666777777777766666666555444
No 79
>PF00726 IL10: Interleukin 10 This family is a subset of the SCOP family; InterPro: IPR020443 Interleukin-10 (IL-10) is a protein that 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. Structurally, IL-10 is a protein of about 160 amino acids that contains four conserved cysteines involved in disulphide bonds []. IL-10 is highly similar to the Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4) BCRF1 protein which inhibits the synthesis of gamma-interferon and to Equid herpesvirus 2 (Equine herpesvirus 2) protein E7. It is also similar, but to a lesser degree, with human protein mda-7 [], a protein which has antiproliferative properties in human melanoma cells. Mda-7 only contains two of the four cysteines of IL-10.; PDB: 1VLK_A 1Y6N_L 1Y6M_L 2ILK_A 1LK3_A 2H24_A 1J7V_L 1ILK_A 1Y6K_L 1INR_A ....
Probab=21.29 E-value=2.5e+02 Score=21.32 Aligned_cols=30 Identities=23% Similarity=0.493 Sum_probs=23.3
Q ss_pred chhHHHHHHhhccccCChhhHHHHHHHHHHhH
Q 033537 23 ILDNQFGHLQQLQDESNPDFVAEVVNLYFKDS 54 (117)
Q Consensus 23 iLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds 54 (117)
+++.. -|+++++..+..++.++++-|+++.
T Consensus 61 Ll~~~--ll~~~k~~~~C~~~~~lL~FYLd~V 90 (170)
T PF00726_consen 61 LLDKS--LLQDFKGPDGCCFLSELLRFYLDRV 90 (170)
T ss_dssp SSTHH--HHHHHHSTTHHHHHHHHHHHHHHTH
T ss_pred hccHH--HHHhcCCCCccHHHHHHHHHHHHHH
Confidence 45544 2667777789999999999999765
No 80
>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]
Probab=21.26 E-value=27 Score=31.21 Aligned_cols=67 Identities=18% Similarity=0.256 Sum_probs=49.5
Q ss_pred HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHh-HHHHHHHHHH
Q 033537 26 NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFI-FLHFIDLIES 100 (117)
Q Consensus 26 ~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiG-A~~l~~lC~~ 100 (117)
.+.+.++.. +=|-.| -|+.|..|++.-++.|+++.++..+ .+...-|.=||+.+.+. |.+|.++|++
T Consensus 360 ~Hi~Nikkf---gvp~VV--AIN~F~tDt~~Ei~~i~~~~~~~gv---~~~ls~vwakGg~Gg~eLA~kVv~~~~~ 427 (554)
T COG2759 360 KHIENIKKF---GVPVVV--AINKFPTDTEAEIAAIEKLCEEHGV---EVALSEVWAKGGEGGIELAKKVVEAIEQ 427 (554)
T ss_pred HHHHHHHHc---CCCeEE--EeccCCCCCHHHHHHHHHHHHHcCC---ceeehhhhhccCccHHHHHHHHHHHHhC
Confidence 344555544 455333 3788999999999999999988644 34445588899998876 7799999997
No 81
>cd07299 PX_TCGAP The phosphoinositide binding Phox Homology domain of Tc10/Cdc42 GTPase-activating protein. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. TCGAP (Tc10/Cdc42 GTPase-activating protein) contains N-terminal PX and Src Homology 3 (SH3) domains, a central Rho GAP domain, and C-terminal proline-rich regions. It is widely expressed in the brain where it is involved in regulating the outgrowth of axons and dendrites and is regulated by the protein tyrosine kinase Fyn. It interacts with cdc42 and TC10beta through its GAP domain and with phosphatidylinositol-(4,5)-bisphosphate [PI(4,5)P2] through its PX domain. It is translocated to the plasma membrane in adipocytes in response to insulin and may be involved in the regulation of insulin-stimulated glucose transport. TCGAP has also been named sorting nexins 26 (SNX26). SNXs
Probab=20.87 E-value=1.1e+02 Score=22.22 Aligned_cols=36 Identities=17% Similarity=0.380 Sum_probs=25.4
Q ss_pred chhhcCchhHHHHHHhhcccc----CChhhHHHHHHHHHH
Q 033537 17 SLFQEGILDNQFGHLQQLQDE----SNPDFVAEVVNLYFK 52 (117)
Q Consensus 17 sl~~egiLD~qf~qL~~Lqd~----~~pdFv~elI~~Fl~ 52 (117)
.+.+.=+-|..|++|.+|.+. ..++.|+.++..|++
T Consensus 53 ~~LHrCiyDRr~S~L~eL~~~~~l~~~~~~~~~~l~~YL~ 92 (113)
T cd07299 53 AHLHRCIFDRRFSQLLELPPLCEIGDRLQILTPLLSEYLN 92 (113)
T ss_pred HHHHHHHHhhhhhhhhccCccccccchHHHHHHHHHHHHH
Confidence 344555677888999998762 345678888888875
No 82
>TIGR02120 GspF general secretion pathway protein F. This membrane protein is a component of the terminal branch complex of the general secretion pathway (GSP), also known as the"Type II" secretion pathway. The GSP transports proteins (generally virulence-associated cell wall hydrolases) across the outer membrase of the bacterial cell. Transport across the inner membrane is often, but not exclusively handled by the Sec system. This model was constructed from the broader subfamily model, pfam00482 which includes components of pilin complexes (PilC) as well as other related genes. GspF is nearly always gene clustered with other GSP subunits. Some genes from Xylella and Xanthomonas strains score below the trusted cutoff due to excessive divergence from the family such that a sequence from Deinococcus which does not appear to be GspF scores higher.
Probab=20.78 E-value=3.8e+02 Score=21.99 Aligned_cols=24 Identities=13% Similarity=0.181 Sum_probs=10.5
Q ss_pred hhHHHHHHHHHHhHHHHHHHHHHH
Q 033537 41 DFVAEVVNLYFKDSERLLNEITVA 64 (117)
Q Consensus 41 dFv~elI~~Fl~Ds~~~l~~L~~a 64 (117)
+.+.++-+.|.++.++.++.+...
T Consensus 345 ~~L~~~a~~~~~~~~~~~~~~~~l 368 (399)
T TIGR02120 345 TMLERAADNQEREFERRIATLTAL 368 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444333
Done!