Query psy6386
Match_columns 116
No_of_seqs 101 out of 141
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 16:33:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6386.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6386hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3046|consensus 100.0 3.3E-39 7.1E-44 239.6 12.2 105 9-113 38-143 (147)
2 PF09748 Med10: Transcription 100.0 1.4E-38 3E-43 231.5 11.9 97 10-106 24-128 (128)
3 cd08812 CARD_RIG-I_like Caspas 75.4 12 0.00025 25.4 5.5 72 29-106 7-79 (88)
4 PF11074 DUF2779: Domain of un 70.1 5.5 0.00012 29.0 3.1 63 43-108 42-106 (130)
5 PF02436 PYC_OADA: Conserved c 69.7 25 0.00054 27.4 6.8 93 10-108 48-159 (196)
6 PRK14002 potassium-transportin 63.2 32 0.00069 27.0 6.3 69 8-79 82-153 (186)
7 PRK14001 potassium-transportin 61.9 35 0.00076 26.8 6.3 68 8-78 86-156 (189)
8 PRK15364 pathogenicity island 61.1 10 0.00022 30.0 3.1 14 39-52 96-109 (196)
9 PRK13996 potassium-transportin 60.5 38 0.00082 26.8 6.3 67 8-77 92-161 (197)
10 PRK13997 potassium-transportin 58.7 43 0.00094 26.4 6.3 69 8-79 88-159 (193)
11 PF02669 KdpC: K+-transporting 58.6 43 0.00093 26.2 6.2 62 8-73 86-150 (188)
12 TIGR00681 kdpC K+-transporting 54.3 49 0.0011 25.9 6.0 68 8-79 85-155 (187)
13 PRK13995 potassium-transportin 53.0 61 0.0013 25.8 6.3 66 8-76 96-164 (203)
14 PF05430 Methyltransf_30: S-ad 51.3 9.9 0.00021 27.4 1.6 18 53-70 62-79 (124)
15 PRK00315 potassium-transportin 50.6 70 0.0015 25.2 6.3 67 8-78 87-156 (193)
16 smart00503 SynN Syntaxin N-ter 48.9 78 0.0017 21.1 6.1 27 83-109 85-111 (117)
17 PRK13994 potassium-transportin 48.8 66 0.0014 25.9 6.0 72 8-79 112-187 (222)
18 cd08327 CARD_RAIDD Caspase act 45.5 28 0.00062 24.1 3.1 26 79-109 67-92 (94)
19 PRK14000 potassium-transportin 45.2 82 0.0018 24.7 5.9 61 8-79 93-156 (185)
20 PRK13999 potassium-transportin 45.0 93 0.002 24.7 6.2 66 8-79 98-166 (201)
21 TIGR01235 pyruv_carbox pyruvat 44.5 46 0.00099 32.4 5.2 101 10-110 873-992 (1143)
22 PF05823 Gp-FAR-1: Nematode fa 42.9 40 0.00087 25.1 3.8 34 71-104 108-141 (154)
23 PF09164 VitD-bind_III: Vitami 42.8 28 0.00061 23.3 2.6 24 79-102 9-32 (68)
24 cd08789 CARD_IPS-1_RIG-I Caspa 42.5 47 0.001 22.3 3.7 58 41-106 18-75 (84)
25 TIGR02606 antidote_CC2985 puta 41.7 96 0.0021 20.0 5.4 54 39-99 3-62 (69)
26 PRK12999 pyruvate carboxylase; 41.7 54 0.0012 31.8 5.2 101 9-110 874-994 (1146)
27 PF04129 Vps52: Vps52 / Sac2 f 41.1 2E+02 0.0044 25.1 8.3 36 37-72 79-114 (508)
28 PF11315 Med30: Mediator compl 40.8 1.6E+02 0.0034 22.3 7.2 43 42-84 81-137 (150)
29 COG2156 KdpC K+-transporting A 40.6 41 0.00089 26.6 3.6 49 8-60 88-136 (190)
30 PRK13740 conjugal transfer pro 38.3 45 0.00097 22.4 3.0 39 58-102 20-58 (70)
31 PF15397 DUF4618: Domain of un 37.9 1.1E+02 0.0024 25.1 5.8 47 60-111 178-224 (258)
32 PF08535 KorB: KorB domain; I 37.2 64 0.0014 21.4 3.8 32 41-72 28-59 (93)
33 KOG0484|consensus 36.5 28 0.00062 25.5 2.0 16 50-65 36-51 (125)
34 PF13413 HTH_25: Helix-turn-he 36.5 1.1E+02 0.0023 19.3 4.5 30 39-68 19-52 (62)
35 TIGR03200 dearomat_oah 6-oxocy 36.0 51 0.0011 28.2 3.8 55 53-107 220-292 (360)
36 PF08060 NOSIC: NOSIC (NUC001) 35.5 1.1E+02 0.0023 18.8 4.5 35 69-103 4-38 (53)
37 PF06183 DinI: DinI-like famil 35.0 40 0.00087 21.9 2.4 20 80-99 5-24 (65)
38 PF02252 PA28_beta: Proteasome 34.9 1.9E+02 0.0042 21.6 7.8 36 39-82 37-72 (150)
39 PF03433 EspA: EspA-like secre 34.7 13 0.00028 29.3 0.0 59 15-82 76-140 (188)
40 PRK14806 bifunctional cyclohex 34.4 3.1E+02 0.0067 24.6 8.6 88 3-90 162-264 (735)
41 smart00787 Spc7 Spc7 kinetocho 34.1 68 0.0015 26.6 4.1 10 45-54 74-83 (312)
42 PRK05255 hypothetical protein; 34.0 2.2E+02 0.0047 21.9 7.8 89 11-99 16-134 (171)
43 PRK13998 potassium-transportin 33.3 1.5E+02 0.0033 23.2 5.7 62 8-80 92-156 (186)
44 PF03682 UPF0158: Uncharacteri 32.0 1.2E+02 0.0027 22.7 4.9 21 80-105 100-120 (163)
45 PF03693 RHH_2: Uncharacterise 31.3 89 0.0019 20.9 3.7 53 39-98 6-64 (80)
46 PRK13713 conjugal transfer pro 31.1 90 0.002 22.9 3.9 49 51-99 51-117 (118)
47 PRK08645 bifunctional homocyst 30.1 68 0.0015 28.7 3.7 49 24-72 527-575 (612)
48 cd08323 CARD_APAF1 Caspase act 29.7 66 0.0014 21.8 2.9 27 74-104 56-82 (86)
49 PRK06771 hypothetical protein; 29.4 1.6E+02 0.0034 20.8 4.7 43 29-93 38-84 (93)
50 PF00531 Death: Death domain; 29.2 1E+02 0.0022 19.2 3.5 46 41-89 23-68 (83)
51 TIGR03764 ICE_PFGI_1_parB inte 29.0 1.4E+02 0.0029 24.6 5.0 36 59-97 210-245 (258)
52 PRK07502 cyclohexadienyl dehyd 28.8 1.6E+02 0.0034 23.3 5.3 39 53-91 231-269 (307)
53 PF11577 NEMO: NF-kappa-B esse 28.8 1.5E+02 0.0032 19.6 4.3 30 63-92 18-47 (68)
54 PRK00676 hemA glutamyl-tRNA re 28.7 67 0.0015 27.1 3.3 57 36-95 256-312 (338)
55 PRK13663 hypothetical protein; 28.0 1.1E+02 0.0024 27.4 4.5 75 9-85 370-454 (493)
56 PF05261 Tra_M: TraM protein, 27.4 2.2E+02 0.0048 21.1 5.5 49 51-99 58-124 (127)
57 TIGR02684 dnstrm_HI1420 probab 27.1 1.3E+02 0.0028 20.4 4.0 46 15-64 32-78 (89)
58 PLN03229 acetyl-coenzyme A car 26.6 4.3E+02 0.0093 25.1 8.3 81 12-108 643-726 (762)
59 COG5094 TAF9 Transcription ini 26.5 1.3E+02 0.0028 22.7 4.1 54 36-96 31-87 (145)
60 PF00509 Hemagglutinin: Haemag 26.3 64 0.0014 29.3 2.9 77 15-92 375-454 (550)
61 PF01934 DUF86: Protein of unk 25.2 2E+02 0.0044 19.3 4.7 52 52-106 53-119 (119)
62 cd08785 CARD_CARD9-like Caspas 24.7 2E+02 0.0042 19.6 4.5 54 42-102 17-84 (86)
63 PLN02712 arogenate dehydrogena 24.3 4E+02 0.0088 24.3 7.6 78 15-93 221-307 (667)
64 PRK09432 metF 5,10-methylenete 24.3 1.3E+02 0.0029 24.4 4.2 32 24-56 214-245 (296)
65 cd00537 MTHFR Methylenetetrahy 23.5 1.5E+02 0.0033 23.2 4.3 40 25-65 199-239 (274)
66 KOG1961|consensus 23.4 4.8E+02 0.01 24.4 7.8 43 15-57 114-160 (683)
67 COG4121 Uncharacterized conser 23.2 32 0.00069 28.0 0.4 37 53-90 180-219 (252)
68 TIGR02044 CueR Cu(I)-responsiv 23.2 2.7E+02 0.0058 19.4 8.1 68 22-93 42-110 (127)
69 PF13318 DUF4089: Protein of u 22.9 92 0.002 19.2 2.4 28 18-45 16-43 (50)
70 COG3230 HemO Heme oxygenase [I 22.5 1.5E+02 0.0032 23.6 3.9 32 61-92 157-195 (196)
71 PRK14003 potassium-transportin 21.9 2.1E+02 0.0045 22.6 4.7 63 8-79 94-160 (194)
72 PF12554 MOZART1: Mitotic-spin 21.6 1.4E+02 0.0031 18.4 3.0 31 29-60 7-41 (48)
73 PHA02750 hypothetical protein; 21.5 2.4E+02 0.0051 22.5 4.9 62 4-67 132-203 (240)
74 PRK07417 arogenate dehydrogena 21.4 2.7E+02 0.0059 21.8 5.3 55 53-107 220-274 (279)
75 PF09894 DUF2121: Uncharacteri 21.4 86 0.0019 24.8 2.5 48 58-105 127-174 (194)
76 PF07818 HCNGP: HCNGP-like pro 21.1 2E+02 0.0043 19.9 4.0 18 10-27 7-24 (96)
77 TIGR02898 spore_YhcN_YlaJ spor 20.5 1.2E+02 0.0026 22.9 3.0 77 15-97 54-158 (158)
78 KOG2256|consensus 20.2 2E+02 0.0044 26.8 4.8 47 52-101 486-538 (661)
79 PRK10597 DNA damage-inducible 20.1 1E+02 0.0023 21.0 2.4 23 78-100 15-37 (81)
No 1
>KOG3046|consensus
Probab=100.00 E-value=3.3e-39 Score=239.63 Aligned_cols=105 Identities=49% Similarity=0.841 Sum_probs=99.4
Q ss_pred cCcchh-hHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHH
Q psy6386 9 LGEYSK-FISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAH 87 (116)
Q Consensus 9 ~g~~s~-~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~ 87 (116)
....++ +|..++++||.+|+.+++++++|+++.||+||++|||+|||||+|||+|+|+|+++||++|||++||++||++
T Consensus 38 F~~tsq~~L~qrl~tLv~~L~~l~~~s~k~n~i~IPleVl~yIddGrNPd~ytke~le~~~~kNq~vkGK~~~~K~fr~~ 117 (147)
T KOG3046|consen 38 FQPTSQDALNQRLNTLVRGLQDLDKLSSKLNDIQIPLEVLEYIDDGRNPDLYTKEFLEKCLAKNQYVKGKIDAFKKFRKH 117 (147)
T ss_pred CCCCcHHHHHHHHHHHHHHhhhhHHHHHhhccccCcHHHHHHHhcCCCccHHHHHHHHHHHHhhhHHhhhHHHHHHHHHH
Confidence 344555 9999999999999999999999988999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhChhhHHHHHHhhCCCCCC
Q psy6386 88 MLVELSGAFPNELAKYRAIRGGDETP 113 (116)
Q Consensus 88 L~~el~~~fPel~~~~~~ir~~~~~~ 113 (116)
|+++|+++|||+++.|+.||+.+.++
T Consensus 118 l~eEl~q~fPe~~~~yr~Ir~e~~~~ 143 (147)
T KOG3046|consen 118 LAEELSQEFPELVDPYRSIRAEDAPE 143 (147)
T ss_pred HHHHHHHHChHHHHHHHHHHhccCcc
Confidence 99999999999999999999887544
No 2
>PF09748 Med10: Transcription factor subunit Med10 of Mediator complex; InterPro: IPR019145 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med10 is one of the protein subunits of the Mediator complex, tethered to Med14 (Rgr1) protein. Med10 specifically mediates basal-level HIS4 transcription via Gcn4. In addition, there is a putative requirement for Med10 in Bas2-mediated transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=100.00 E-value=1.4e-38 Score=231.51 Aligned_cols=97 Identities=41% Similarity=0.735 Sum_probs=93.9
Q ss_pred Ccchh-hHHHHHHHHHHHHHHHHHhhhh-------cCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHH
Q psy6386 10 GEYSK-FISSFRQTMISGLQEIDKLKSQ-------VQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAY 81 (116)
Q Consensus 10 g~~s~-~l~~~in~lV~~L~~ld~~a~~-------~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~ 81 (116)
|++|+ +|..+|+.++++|++|++++.. +++++||+|||+|||+|||||+|||||||+|+++||++|||++||
T Consensus 24 ~~~s~~~L~~ki~~lv~~L~~l~~~~~~~~~~~~~~~~~~IP~evl~yID~GrNPDiyTre~vE~~~~~Nq~~kGK~~a~ 103 (128)
T PF09748_consen 24 GPPSQEALNQKINQLVTSLQELDKLAQQTNDPDSPLQDIQIPLEVLEYIDDGRNPDIYTREFVELVRRENQYVKGKMEAF 103 (128)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHhcccCCCCcccccCCCCHHHHHHHhCCCCchHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 67888 9999999999999999999998 669999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhChhhHHHHHHh
Q psy6386 82 RKFKAHMLVELSGAFPNELAKYRAI 106 (116)
Q Consensus 82 ~~fr~~L~~el~~~fPel~~~~~~i 106 (116)
++||++|+++|+++|||+.+.|++|
T Consensus 104 ~~fr~~L~~el~~~fPe~~~~~~~i 128 (128)
T PF09748_consen 104 KSFRDVLAEELASAFPELKEDVRRI 128 (128)
T ss_pred HHHHHHHHHHHHHHChHHHHHHhhC
Confidence 9999999999999999999999975
No 3
>cd08812 CARD_RIG-I_like Caspase activation and recruitment domains found in RIG-I-like DEAD box helicases. Caspase activation and recruitment domains (CARDs) found in Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. These helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I and MDA5 have been shown to recognize different sets of viruses. MDA5 and RIG-I associate with IPS-1 through a CARD-CARD interaction. 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 mec
Probab=75.44 E-value=12 Score=25.39 Aligned_cols=72 Identities=22% Similarity=0.358 Sum_probs=54.5
Q ss_pred HHHHhhhhcCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHH-HHHhhChhhHHHHHHh
Q psy6386 29 EIDKLKSQVQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLV-ELSGAFPNELAKYRAI 106 (116)
Q Consensus 29 ~ld~~a~~~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~-el~~~fPel~~~~~~i 106 (116)
.|......+-..-.|.+|+.|+-+ .+|.+..|...++ ...+|.+.|-..|=+.|.+ .=...||......++.
T Consensus 7 lL~~~~~~l~~~l~p~~il~~l~~-----~L~~~~~e~I~a~-~~~~g~~~aa~~Ll~~L~~~r~~~wf~~Fl~AL~~~ 79 (88)
T cd08812 7 LLERLQPLLKDTIIPRDILDHLPE-----CLTDEDKEQILAE-ERNKGNIAAAEELLDRLERCDKPGWFQAFLDALRRT 79 (88)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHH-----HcCHHHHHHHHHH-HhccChHHHHHHHHHHHHHhccCCcHHHHHHHHHHc
Confidence 344444444455689999999976 9999999998885 4556999999999888887 4567788887776654
No 4
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=70.09 E-value=5.5 Score=29.01 Aligned_cols=63 Identities=29% Similarity=0.445 Sum_probs=46.6
Q ss_pred chHHHHHHhc-CCCcchHHHHHHHHHHHHhHHHhhHHHHHHH-HHHHHHHHHHhhChhhHHHHHHhhC
Q psy6386 43 PLEVFDYIDQ-GRNPQLYTKDCIEKALTKNEQVKGKIDAYRK-FKAHMLVELSGAFPNELAKYRAIRG 108 (116)
Q Consensus 43 P~eVl~yID~-GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~-fr~~L~~el~~~fPel~~~~~~ir~ 108 (116)
+++-.+|+++ |.+|-...-+.+-.+..++- |-+=+|.+ |-+.-..+|++.||++.+....|..
T Consensus 42 ~~~h~efL~~~~~DPr~~~~~~L~~~i~~~~---g~ivvyN~sfE~~rL~ela~~~p~~~~~l~~I~~ 106 (130)
T PF11074_consen 42 ELEHVEFLADPGEDPRRELIEALIKAIGSIY---GSIVVYNKSFEKTRLKELAELFPDYAEKLNSIIE 106 (130)
T ss_pred chhhHHHhccCCCCchHHHHHHHHHHhhhhc---CeEEEechHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4455677754 68888766666666555543 77767766 8888888999999999999998864
No 5
>PF02436 PYC_OADA: Conserved carboxylase domain; InterPro: IPR003379 This domain represents a conserved region in pyruvate carboxylase (PYC) (6.4.1.1 from EC), oxaloacetate decarboxylase alpha chain (OADA) (4.1.1.3 from EC), and transcarboxylase 5s subunit (2.1.3.1 from EC). The domain is found adjacent to the HMGL-like domain (IPR000891 from INTERPRO) and often close to the biotin_lipoyl domain (IPR000089 from INTERPRO) of biotin requiring enzymes.; PDB: 2NX9_B 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1S3H_A 1RQE_A 1U5J_A 1RQB_A 2QF7_B ....
Probab=69.75 E-value=25 Score=27.39 Aligned_cols=93 Identities=16% Similarity=0.246 Sum_probs=59.1
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhc--CCCcchHHHHHHHHHHHHhHHHhhHHH------HH
Q psy6386 10 GEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQ--GRNPQLYTKDCIEKALTKNEQVKGKID------AY 81 (116)
Q Consensus 10 g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~--GrNPdiyTre~vE~~~~~Nq~~kGK~~------a~ 81 (116)
++.||.+.+-.--+|..-- ... .-..||-+|++|+-. |+=|--|-.++.+++.+..+...|.-. .|
T Consensus 48 TPsSqiVg~qA~~nV~~~~-----~g~-r~~~~p~~v~~~~~G~~G~pp~~~~~~l~~~vl~~~~~i~~RP~~~l~p~d~ 121 (196)
T PF02436_consen 48 TPSSQIVGDQAVFNVLNGL-----LGE-RYKDFPDSVVDYLLGKYGKPPGGFPEELRKKVLKGEEPITGRPGDLLPPADL 121 (196)
T ss_dssp TTHHHHHHHHHHHHHHTT------HHT-TTSS-BHHHHHHHTTTT---TTSS-HHHHHHHHTTS---SSSGGGCS----H
T ss_pred CcHHHHHHHHHHHHHHhhh-----cCc-cccchhHHHHHHhCcccCCCCCCCCHHHHHHHhcCCCCCCCCccccCChhhH
Confidence 5666666654444443311 233 467899999999955 999999999999999988776555421 68
Q ss_pred HHHHHHHHHHH-----------HhhChhhHHHHHHhhC
Q psy6386 82 RKFKAHMLVEL-----------SGAFPNELAKYRAIRG 108 (116)
Q Consensus 82 ~~fr~~L~~el-----------~~~fPel~~~~~~ir~ 108 (116)
+++|+.|.+.. .--||.....|.+-|.
T Consensus 122 ~~~r~~l~~~~g~~~~dedvlsyal~P~v~~~f~~~~~ 159 (196)
T PF02436_consen 122 DKLRKELEEKAGREPTDEDVLSYALFPKVAEDFLKFRA 159 (196)
T ss_dssp HHHHHHHHHHCTSTSCHHHHHHHHHCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHhcCchhHHHHHHHHH
Confidence 88888888743 3458999888887765
No 6
>PRK14002 potassium-transporting ATPase subunit C; Provisional
Probab=63.22 E-value=32 Score=26.96 Aligned_cols=69 Identities=12% Similarity=0.111 Sum_probs=49.3
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+++.+-+..+..-+ ..+...+||.|++..=--|=+|+| +-.=++.++++.......++.
T Consensus 82 Nl~psnp~L~~~v~~r~~~~~~~~---~~~~~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argl~~~~v~ 153 (186)
T PRK14002 82 NKGPSNPEYLAEVQARIDTFLVHH---PYLSRKDIPAEMVTASGSGLDPNISPQAAYVQVKRVAKARGMSEEKVK 153 (186)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CCCCCCCCCHHHHhccccCCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 578888888888888777665432 334456899999999999999998 445566777766555544443
No 7
>PRK14001 potassium-transporting ATPase subunit C; Provisional
Probab=61.89 E-value=35 Score=26.78 Aligned_cols=68 Identities=12% Similarity=0.162 Sum_probs=48.0
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcchH---HHHHHHHHHHHhHHHhhHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQLY---TKDCIEKALTKNEQVKGKI 78 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdiy---Tre~vE~~~~~Nq~~kGK~ 78 (116)
++|+.+..+.+++.+-+..+.+-+ ......+||.|++..==-|=+|||= -.-++.++++.......++
T Consensus 86 Nl~psnp~l~~~v~~r~~~~~~~~---~~~~~~~vP~DlvTaSgSGLDPhIS~~aA~~Qv~RVA~argl~~~~v 156 (189)
T PRK14001 86 NLGPTNEKLLAAVAERVTAYRKEN---NLPADTLVPVDAVTGSGSGLDPAISVVNAKLQAPRVAQARNISIRQV 156 (189)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CCccCCCCCHHHHhcccccCCCCCCHHHHHHHHHHHHHHhCcCHHHH
Confidence 567788888888888777665532 3333468999999999999999983 4456666666655544444
No 8
>PRK15364 pathogenicity island 2 effector protein SseB; Provisional
Probab=61.12 E-value=10 Score=30.00 Aligned_cols=14 Identities=29% Similarity=0.593 Sum_probs=11.7
Q ss_pred CCCCchHHHHHHhc
Q psy6386 39 DIHVPLEVFDYIDQ 52 (116)
Q Consensus 39 ~~~IP~eVl~yID~ 52 (116)
..++|.|||+|+.+
T Consensus 96 k~~LPddVI~Ymrd 109 (196)
T PRK15364 96 KEEVPEDVIKYMRD 109 (196)
T ss_pred cccCCHHHHHHHHH
Confidence 46899999999943
No 9
>PRK13996 potassium-transporting ATPase subunit C; Provisional
Probab=60.51 E-value=38 Score=26.79 Aligned_cols=67 Identities=13% Similarity=0.243 Sum_probs=47.4
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGK 77 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK 77 (116)
++|+.+..+.+++.+-+..+..-+ ..+...+||.|++..=--|=+||| +-.=++.++.+.......+
T Consensus 92 Nlgpsnp~L~~~v~~r~~~~~~~~---~~v~~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argls~~~ 161 (197)
T PRK13996 92 NLSPASKEYEALVQERVEKIRANH---PEQDEKPIPVDLVTCSGSGLDPHISVAAAKYQVDRIAKNNNMSVKD 161 (197)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CCCCCCCCCHHHHhccccCCCCCCCHHHHHHHHHHHHHHhCcCHHH
Confidence 567778888888888777666533 334356899999999999999998 4455666666665544433
No 10
>PRK13997 potassium-transporting ATPase subunit C; Provisional
Probab=58.72 E-value=43 Score=26.40 Aligned_cols=69 Identities=13% Similarity=0.188 Sum_probs=48.3
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+++.+-+..+..-+ +.+..-+||.|++..=--|=+|+| +-.=++.++++.......++.
T Consensus 88 Nl~psnp~l~~~v~~r~~~~~~~~---~~~~~~~vP~DlVTaSgSGLDPhISp~aA~~Qv~RVA~argls~~~v~ 159 (193)
T PRK13997 88 NYAPSNPDLEKRVEKSIEEWKKQN---PSVPVTEVPIDLVTNSGSGLDPDISPKAASVQVERISKLTNIPKETLD 159 (193)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CCCCCCCCCHHHHhccccCCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 567788888888877776655422 334346899999999999999998 445566777766555544443
No 11
>PF02669 KdpC: K+-transporting ATPase, c chain; InterPro: IPR003820 Kdp, the high affinity ATP-driven K+-transport system of Escherichia coli, is a complex of the membrane-bound subunits KdpA, KdpB, KdpC and the small peptide KdpF. KdpC forms strong interactions with the KdpA subunit, serving to assemble and stabilise the Kdp complex []. It has been suggested that KdpC could be one of the connecting links between the energy providing subunit KdpB and the K+- transporting subunit KdpA []. The K+ transport system actively transports K+ ions via ATP hydrolysis.; GO: 0008556 potassium-transporting ATPase activity, 0006813 potassium ion transport, 0016020 membrane
Probab=58.58 E-value=43 Score=26.24 Aligned_cols=62 Identities=15% Similarity=0.192 Sum_probs=44.5
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQ 73 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~ 73 (116)
++|+.++.+.+++.+-+..+..-+ .....+||.|++..=--|=+||| +-+=++.++++..-.
T Consensus 86 Nl~psn~~l~~~v~~~~~~~~~~~----~~~~~~vP~dlvtaSgSGLDP~IS~~aA~~Qv~RVA~argl 150 (188)
T PF02669_consen 86 NLGPSNPELRERVEERIAALRKEN----PVAPSPVPADLVTASGSGLDPHISPAAALIQVPRVAKARGL 150 (188)
T ss_pred cCCCCChHHHHHHHHHHHHHHhhc----ccCCCCCCHHHHhcccccCCCCcCHHHHHHHHHHHHHHhCc
Confidence 567777788888887777664433 22366899999999999999998 445566676666443
No 12
>TIGR00681 kdpC K+-transporting ATPase, C subunit. This chain has a single predicted transmembrane region near the amino end. It is part of a K+-transport ATPase that contains two other membrane-bound subunits, KdpA and KdpB, and a small subunit KdpF. KdpA is the K+-translocating subunit, KdpB the ATP-hydrolyzing subunit. During assembly of the complex, KdpA and KdpC bind to each other. This interaction is thought to stabilize the complex [PubMed:9858692]. Data indicates that KdpC might connect the KdpA, the K+-transporting subunit, to KdpB, the ATP-hydrolyzing (energy providing) subunit [PubMed:9858692].
Probab=54.28 E-value=49 Score=25.92 Aligned_cols=68 Identities=9% Similarity=0.155 Sum_probs=48.7
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+++.+-+..+..-+ .. ...+||.|++..=--|=+||| +-.-++.++++.......++.
T Consensus 85 Nl~psnp~l~~~v~~r~~~~~~~~---~~-~~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argl~~~~v~ 155 (187)
T TIGR00681 85 NLAPSNPDLLSRIAARVEAQRLEN---LD-AAVQVPVDLVTSSGSGLDPHISPAAAQAQFPRVAKARNISPQQLQ 155 (187)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CC-CCCCCCHHHHhcccccCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 567778888888888777765422 11 257899999999999999998 445567777776655555443
No 13
>PRK13995 potassium-transporting ATPase subunit C; Provisional
Probab=52.97 E-value=61 Score=25.76 Aligned_cols=66 Identities=11% Similarity=0.129 Sum_probs=44.7
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhh
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKG 76 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kG 76 (116)
++|+++..+.+.+.+-+..+.+-+ ..+..-+||.|++..=--|=+|+| +-+-++.++++.......
T Consensus 96 Nlgpsnp~L~~~v~~r~~~~~~~~---p~~~~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argl~~~ 164 (203)
T PRK13995 96 NYAPTNPELHDRVQKDIDKFLKTN---PTVKKEDIPTDLLTASGSGLDPHISPKSAAIQIPAVSKATGISES 164 (203)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CCCCCCCCCHHHHhccccCCCCCCCHHHHHHHHHHHHHHhCcCHH
Confidence 567777778887777665554422 334457899999999999999998 444566666655444333
No 14
>PF05430 Methyltransf_30: S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR008471 This entry contains several uncharacterised bacterial proteins with no known function.; GO: 0016645 oxidoreductase activity, acting on the CH-NH group of donors, 0055114 oxidation-reduction process; PDB: 2E58_D 3SGL_A 3PVC_A 3AWI_D 3PS9_A 2QY6_A.
Probab=51.28 E-value=9.9 Score=27.38 Aligned_cols=18 Identities=22% Similarity=0.538 Sum_probs=15.7
Q ss_pred CCCcchHHHHHHHHHHHH
Q psy6386 53 GRNPQLYTKDCIEKALTK 70 (116)
Q Consensus 53 GrNPdiyTre~vE~~~~~ 70 (116)
.+||++||.+++..+.+-
T Consensus 62 ~~nPelWs~e~~~~l~~~ 79 (124)
T PF05430_consen 62 AKNPELWSEELFKKLARL 79 (124)
T ss_dssp TTSGGGSSHHHHHHHHHH
T ss_pred cCCcccCCHHHHHHHHHH
Confidence 899999999999987653
No 15
>PRK00315 potassium-transporting ATPase subunit C; Reviewed
Probab=50.56 E-value=70 Score=25.20 Aligned_cols=67 Identities=10% Similarity=0.200 Sum_probs=48.3
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKI 78 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~ 78 (116)
++|+.+..+.+++.+-+..+..-+ .. ..-+||.|++..==-|=+|+| +-.-++.++++.......++
T Consensus 87 Nl~psnp~l~~~v~~r~~~~~~~~---~~-~~~~vP~DlvTaSgSGLDPhIS~~aA~~Qv~RVA~argl~~~~v 156 (193)
T PRK00315 87 NLAPSNPALDDAIKARVAALRAAN---PG-ASSPVPVDLVTASGSGLDPHISPAAAAYQIPRVAAARQLPVEQV 156 (193)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---CC-CCCCCCHHHHhccccCCCCCCCHHHHHHHHHHHHHHhCcCHHHH
Confidence 567778888888888887765532 22 246899999999999999998 45556777776665555444
No 16
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=48.86 E-value=78 Score=21.07 Aligned_cols=27 Identities=7% Similarity=0.231 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhhChhhHHHHHHhhCC
Q psy6386 83 KFKAHMLVELSGAFPNELAKYRAIRGG 109 (116)
Q Consensus 83 ~fr~~L~~el~~~fPel~~~~~~ir~~ 109 (116)
.-|....+.|...|=+....|+.++..
T Consensus 85 r~~~~q~~~L~~~f~~~m~~fq~~Q~~ 111 (117)
T smart00503 85 RTRKAQTEKLRKKFKEVMNEFQRLQRK 111 (117)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566777888888888888887653
No 17
>PRK13994 potassium-transporting ATPase subunit C; Provisional
Probab=48.75 E-value=66 Score=25.93 Aligned_cols=72 Identities=11% Similarity=0.214 Sum_probs=49.8
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhh-cCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQ-VQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~-~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+.+.+-+..+.+-+..-.. +...+||.|++..==-|=+||| +-.-++.++++.+.....++.
T Consensus 112 Nlgpsnp~L~~~v~~r~~~~~~~~~~p~~~~~~~~VP~DlVTaSGSGLDPhISp~aA~~Qv~RVA~argls~~~V~ 187 (222)
T PRK13994 112 NRSADNEELIQWVKDAKAAVVEDNSVPGYEVKPSDVPADAVTSSGSGLDPDISPAYADLQVHRVAARNGLNVARVQ 187 (222)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhCCCCccccCCCCCCHHHHhcccccCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 56777778888888877776653310110 2346899999999999999998 555677777777665554443
No 18
>cd08327 CARD_RAIDD Caspase activation and recruitment domain of RIP-associated ICH-1 homologous protein with a death domain. Caspase activation and recruitment domain (CARD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal CARD, which interacts with the caspase-2 CARD, and a C-terminal Death domain (DD), which interacts with the DD of PIDD. In general, CARDs are DDs associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodime
Probab=45.53 E-value=28 Score=24.09 Aligned_cols=26 Identities=23% Similarity=0.307 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHhhChhhHHHHHHhhCC
Q psy6386 79 DAYRKFKAHMLVELSGAFPNELAKYRAIRGG 109 (116)
Q Consensus 79 ~a~~~fr~~L~~el~~~fPel~~~~~~ir~~ 109 (116)
.||..|.++|.+ ||-+.+.....+..
T Consensus 67 ~AF~~F~~aL~e-----~~~l~~~l~~~~~~ 92 (94)
T cd08327 67 KAFHAFLDSLEE-----FPWVRDKLLKLREE 92 (94)
T ss_pred hHHHHHHHHHHH-----HHHHHHHHHHHHhc
Confidence 689999999953 99999998877643
No 19
>PRK14000 potassium-transporting ATPase subunit C; Provisional
Probab=45.23 E-value=82 Score=24.68 Aligned_cols=61 Identities=13% Similarity=0.206 Sum_probs=44.6
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+++.+-+.. + ..+||.|++..==-|=+|+| +-+-++.++++.+.....++.
T Consensus 93 Nl~psn~~l~~~v~~r~~~-------~----~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argls~~~v~ 156 (185)
T PRK14000 93 NYGNSNPELKKRVQETIKQ-------E----GKKISSDAVTASGSGLDPDITVDNAKQQVKRIAKERNIDASKIN 156 (185)
T ss_pred CCCCCCHHHHHHHHHHHHH-------c----CCCCCHHHHhcccccCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 5677777777777776554 1 46899999999999999998 556677777777655555544
No 20
>PRK13999 potassium-transporting ATPase subunit C; Provisional
Probab=45.01 E-value=93 Score=24.71 Aligned_cols=66 Identities=14% Similarity=0.232 Sum_probs=47.2
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+++.+-+..+..-+ . ..+||.|++..==-|=+|+| +-+-++.++.+.......++.
T Consensus 98 Nlgpsnp~L~~~v~~r~~~~~~~~---~---~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argls~~~v~ 166 (201)
T PRK13999 98 NLGPTSKALADRVKEDVDALKAEN---P---GAPVPVDLVTTSGSGLDPDISPEAALFQVPRVAKARGLPEDRLR 166 (201)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhC---C---CCCCCHHHHhcccccCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 567777788888887776665432 1 13899999999899999998 455667777776655554443
No 21
>TIGR01235 pyruv_carbox pyruvate carboxylase. This enzyme plays a role in gluconeogensis but not glycolysis.
Probab=44.55 E-value=46 Score=32.41 Aligned_cols=101 Identities=12% Similarity=0.243 Sum_probs=64.3
Q ss_pred CcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhc--CCCcchHHHHHHHHHHHHhHHHhhHHH------HH
Q psy6386 10 GEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQ--GRNPQLYTKDCIEKALTKNEQVKGKID------AY 81 (116)
Q Consensus 10 g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~--GrNPdiyTre~vE~~~~~Nq~~kGK~~------a~ 81 (116)
++.||.+++-.--+|+.--.-++.-..-....||-+|++|+-. |+=|--|-.++.+++++..+...+.-. -|
T Consensus 873 TP~Sq~vg~~A~~~v~~~l~~~~v~~~~~~~~~~~~v~~~~~G~~G~pp~~~~~~~~~~vl~~~~~~~~rp~~~l~p~~~ 952 (1143)
T TIGR01235 873 TPSSKVVGDMALFMVSNDLTVDDVVEPAEELSFPDSVVEFLKGDIGQPHGGFPEPLQKKVLKGEKPITVRPGSLLEPADL 952 (1143)
T ss_pred CChhHhHHHHHHHHHHhccChhhhccccccccCCHHHHHHhCcCCCCCCCCCCHHHHHHHhCCCCCCcCCccccCCcccH
Confidence 5667776665544443211111111111246899999999954 899999988888888876544333321 37
Q ss_pred HHHHHHHHHHHH-----------hhChhhHHHHHHhhCCC
Q psy6386 82 RKFKAHMLVELS-----------GAFPNELAKYRAIRGGD 110 (116)
Q Consensus 82 ~~fr~~L~~el~-----------~~fPel~~~~~~ir~~~ 110 (116)
+++|+.|.+... --||+....|.+-+...
T Consensus 953 ~~~~~~~~~~~~~~~~~ed~~~y~~~p~v~~~~~~~~~~~ 992 (1143)
T TIGR01235 953 DAIRKDLQEKHEREVSDFDVASYAMYPKVFTDFAKARDTY 992 (1143)
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHHcCcHHHHHHHHHHHhc
Confidence 777877776542 34899999998887653
No 22
>PF05823 Gp-FAR-1: Nematode fatty acid retinoid binding protein (Gp-FAR-1); InterPro: IPR008632 Parasitic nematodes produce at least two structurally novel classes of small helix-rich retinol- and fatty-acid-binding proteins that have no counterparts in their plant or animal hosts and thus represent potential targets for new nematicides. Gp-FAR-1 is a member of the nematode-specific fatty-acid- and retinol-binding (FAR) family of proteins but localises to the surface of the organism, placing it in a strategic position for interaction with the host. Gp-FAR-1 functions as a broad-spectrum retinol- and fatty-acid-binding protein, and it is thought that it is involved in the evasion of primary host plant defence systems [].; GO: 0008289 lipid binding; PDB: 2W9Y_A.
Probab=42.91 E-value=40 Score=25.08 Aligned_cols=34 Identities=21% Similarity=0.305 Sum_probs=19.6
Q ss_pred hHHHhhHHHHHHHHHHHHHHHHHhhChhhHHHHH
Q psy6386 71 NEQVKGKIDAYRKFKAHMLVELSGAFPNELAKYR 104 (116)
Q Consensus 71 Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~~~ 104 (116)
.+..++-+..|+.+-..-.+.|.++||..+.-..
T Consensus 108 k~~~k~~~~~ykaLs~~ak~dL~k~FP~i~~~~~ 141 (154)
T PF05823_consen 108 KQLAKKVIDSYKALSPEAKDDLKKNFPIIASFLQ 141 (154)
T ss_dssp HHHH----HHHHTS-HHHHHHHHHH-TT------
T ss_pred HHHHhhhHHHHHcCCHHHHHHHHHHCccchhhhh
Confidence 5667788889999999999999999999876544
No 23
>PF09164 VitD-bind_III: Vitamin D binding protein, domain III; InterPro: IPR015247 This domain is predominantly found in Vitamin D binding proteins, and adopts a multihelical structure. It is required for formation of an actin 'clamp', allowing the protein to bind to actin []. ; PDB: 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A.
Probab=42.78 E-value=28 Score=23.28 Aligned_cols=24 Identities=13% Similarity=0.450 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHhhChhhHHH
Q psy6386 79 DAYRKFKAHMLVELSGAFPNELAK 102 (116)
Q Consensus 79 ~a~~~fr~~L~~el~~~fPel~~~ 102 (116)
..|-.|++.|.+.+..-||+....
T Consensus 9 ~tFtEyKKrL~e~l~~k~P~at~~ 32 (68)
T PF09164_consen 9 NTFTEYKKRLAERLRAKLPDATPT 32 (68)
T ss_dssp S-HHHHHHHHHHHHHHH-TTS-HH
T ss_pred ccHHHHHHHHHHHHHHHCCCCCHH
Confidence 368899999999999999986544
No 24
>cd08789 CARD_IPS-1_RIG-I Caspase activation and recruitment domains (CARDs) found in IPS-1 and RIG-I-like RNA helicases. Caspase activation and recruitment domains (CARDs) found in IPS-1 (Interferon beta promoter stimulator protein 1) and Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. RIG-I-like helicases and IPS-1 play important roles in the induction of interferons in response to viral infection. They are crucial in triggering innate immunity and in developing adaptive immunity against viral pathogens. RIG-I-like helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. MDA5 and RIG-I associate with IPS-1 through a CARD-CAR
Probab=42.49 E-value=47 Score=22.35 Aligned_cols=58 Identities=19% Similarity=0.158 Sum_probs=45.0
Q ss_pred CCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChhhHHHHHHh
Q psy6386 41 HVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPNELAKYRAI 106 (116)
Q Consensus 41 ~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~~~~i 106 (116)
-.|.+|+.|+- .+|.+-.|...+. ...+|.++|-..|=+.|. .=...||.+.+..++-
T Consensus 18 l~~~~il~~L~------~Lt~~d~e~I~a~-~~~~G~~~aa~~Ll~~L~-r~~~Wf~~Fl~AL~~~ 75 (84)
T cd08789 18 IDVEEVLPYLT------CLTAEDKERIQAA-ENNSGNIKAAWTLLDTLV-RRDNWLEPFLDALREC 75 (84)
T ss_pred CcHHHHHhhCC------cCCHHHHHHHHHH-HhcCChHHHHHHHHHHHh-ccCChHHHHHHHHHHc
Confidence 57899999886 9999999988887 445788888888888888 4556777776666554
No 25
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=41.68 E-value=96 Score=20.03 Aligned_cols=54 Identities=6% Similarity=0.111 Sum_probs=41.0
Q ss_pred CCCCchHHHHHHh----cCC--CcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChhh
Q psy6386 39 DIHVPLEVFDYID----QGR--NPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPNE 99 (116)
Q Consensus 39 ~~~IP~eVl~yID----~Gr--NPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel 99 (116)
++.+|.+.-.+|+ .|+ |..-+-|+-+......++ .++.+|+.+.+.+++..++.
T Consensus 3 ~isL~~~~~~~i~~~V~sG~Y~s~SEVir~aLR~le~~e~-------~~~~Lr~~i~~g~~sg~~~~ 62 (69)
T TIGR02606 3 SVSLGEHLESFIRSQVQSGRYGSASEVVRAALRLLEERET-------KLQALRDAIEEGEQSGEAGR 62 (69)
T ss_pred eeecCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhCCCCCC
Confidence 6778888877764 466 777788888877766652 36789999999998887765
No 26
>PRK12999 pyruvate carboxylase; Reviewed
Probab=41.66 E-value=54 Score=31.83 Aligned_cols=101 Identities=17% Similarity=0.277 Sum_probs=65.6
Q ss_pred cCcchhhHHHHHHHHHHH-HHHHHHhhhhcCCCCCchHHHHHHhc--CCCcchHHHHHHHHHHHHhHHHhhHH-----H-
Q psy6386 9 LGEYSKFISSFRQTMISG-LQEIDKLKSQVQDIHVPLEVFDYIDQ--GRNPQLYTKDCIEKALTKNEQVKGKI-----D- 79 (116)
Q Consensus 9 ~g~~s~~l~~~in~lV~~-L~~ld~~a~~~~~~~IP~eVl~yID~--GrNPdiyTre~vE~~~~~Nq~~kGK~-----~- 79 (116)
+++.||.+.+-.--+|.. |. .++.-..-....||-+|++|+-. |+=|.-|-.++.+++++..+...++- .
T Consensus 874 VTP~Sq~vg~~A~~~v~~~~~-~~~~~~~~~~~~~~~~v~~~~~G~~G~~~~~~~~~~~~~~l~~~~~~~~rp~~~~~~~ 952 (1146)
T PRK12999 874 VTPSSKVVGDMALFMVQNGLT-PEDVYEPGEDLDFPDSVVSFLKGELGQPPGGFPEPLQKKVLKGEEPITVRPGELLEPV 952 (1146)
T ss_pred eCccchhhHHHHHHHHhhccc-hhhhhccCceeeCCHHHHHHhCcCCCCCCCCCCHHHHHHHhCCCCCCcCChhhhCCcc
Confidence 366677666655544432 21 11111111245799999999954 89999999999999987655433331 2
Q ss_pred HHHHHHHHHHHHHH-----------hhChhhHHHHHHhhCCC
Q psy6386 80 AYRKFKAHMLVELS-----------GAFPNELAKYRAIRGGD 110 (116)
Q Consensus 80 a~~~fr~~L~~el~-----------~~fPel~~~~~~ir~~~ 110 (116)
-|+++|+.|.+... --||+....|.+-|...
T Consensus 953 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~ 994 (1146)
T PRK12999 953 DFEAERAELEEKLGREVTDRDVLSYLLYPKVFEDYIKHREEY 994 (1146)
T ss_pred cHHHHHHHHHHHhcCCCCHHHHHHHHhCcHHHHHHHHHHHhc
Confidence 27778887777642 24899999998887653
No 27
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=41.10 E-value=2e+02 Score=25.13 Aligned_cols=36 Identities=22% Similarity=0.324 Sum_probs=24.9
Q ss_pred cCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhH
Q psy6386 37 VQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNE 72 (116)
Q Consensus 37 ~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq 72 (116)
+.++-||+++++-|-+|.==+-|-++.++...+...
T Consensus 79 i~~i~ipP~lI~~I~~~~v~e~~~~~~~~~~~k~~~ 114 (508)
T PF04129_consen 79 IDDIVIPPDLIRSICEGPVNEQYIEELLELLKKKIF 114 (508)
T ss_pred HHHHcCCHHHHHhHhcCCCCHHHHHHHHHHHHHHHH
Confidence 468899999999998884334566665555544433
No 28
>PF11315 Med30: Mediator complex subunit 30; InterPro: IPR021019 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med30 is a metazoan-specific subunit of Mediator [], having no homologues in yeasts.
Probab=40.84 E-value=1.6e+02 Score=22.30 Aligned_cols=43 Identities=35% Similarity=0.532 Sum_probs=30.9
Q ss_pred CchH-HHHHHhcCCCcchHH-------------HHHHHHHHHHhHHHhhHHHHHHHH
Q psy6386 42 VPLE-VFDYIDQGRNPQLYT-------------KDCIEKALTKNEQVKGKIDAYRKF 84 (116)
Q Consensus 42 IP~e-Vl~yID~GrNPdiyT-------------re~vE~~~~~Nq~~kGK~~a~~~f 84 (116)
.|+| +|-|+|+..+..--+ ++.+|.+..+|+.+|--|+-++.+
T Consensus 81 ~~iEsLIP~~~~~~~k~e~~~~s~~~~~~~~er~el~e~v~~KN~qLk~iid~lR~~ 137 (150)
T PF11315_consen 81 TPIESLIPYKEEPRNKEEERDSSEEYRQLLEERKELIEQVKQKNQQLKEIIDQLRNI 137 (150)
T ss_pred CCHHHhccccCCccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4554 568999988866442 567888888999888887765543
No 29
>COG2156 KdpC K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]
Probab=40.57 E-value=41 Score=26.57 Aligned_cols=49 Identities=18% Similarity=0.325 Sum_probs=36.4
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcchHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQLYT 60 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdiyT 60 (116)
++|.++..|.+++++-++.|+.- +...+.+||.|++.+=--|=+|+|=-
T Consensus 88 Nl~psNp~L~~rv~~~~~~lr~~----~~~~~~~vP~dlvt~SgSGLDP~Isp 136 (190)
T COG2156 88 NLGPSNPELLERVKARVAALRAE----NPVNDSEVPVDLVTASGSGLDPHISP 136 (190)
T ss_pred CCCCCCHHHHHHHHHHHHHHHhc----CCCCCCCCCHHHHhccccCCCCCCCH
Confidence 46677778888877765555432 23458899999999999999999843
No 30
>PRK13740 conjugal transfer protein TraY; Provisional
Probab=38.29 E-value=45 Score=22.45 Aligned_cols=39 Identities=15% Similarity=0.197 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChhhHHH
Q psy6386 58 LYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPNELAK 102 (116)
Q Consensus 58 iyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~ 102 (116)
--|-+.+..+...+-..|.+-..+ .++|+|.. ||+.+..
T Consensus 20 ~etn~lL~~A~~RSGRSK~~EA~l-RL~DHL~r-----FpDfy~s 58 (70)
T PRK13740 20 EDTNNKLIEAKERSGRSKTNEVQI-RLRDHLKR-----FPDFYNS 58 (70)
T ss_pred HHHHHHHHHHHHHcCCcccHHHHH-HHHHHHHh-----Cccccch
Confidence 346667777777777777775555 78899876 9998765
No 31
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=37.91 E-value=1.1e+02 Score=25.08 Aligned_cols=47 Identities=13% Similarity=0.232 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChhhHHHHHHhhCCCC
Q psy6386 60 TKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPNELAKYRAIRGGDE 111 (116)
Q Consensus 60 Tre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~~~~ir~~~~ 111 (116)
..-.+.++ ..|+.++--|..|+.|-+.|.++ .|.|.+.+..++....
T Consensus 178 ~~~l~~~~-~~N~~m~kei~~~re~i~el~e~----I~~L~~eV~~L~~~~~ 224 (258)
T PF15397_consen 178 QPALLQRT-LENQVMQKEIVQFREEIDELEEE----IPQLRAEVEQLQAQAQ 224 (258)
T ss_pred hHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhhc
Confidence 33333444 89999999999888887666555 5899999998887654
No 32
>PF08535 KorB: KorB domain; InterPro: IPR013741 This entry contains several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This domain includes the DNA-binding HTH motif []. ; PDB: 1R71_C.
Probab=37.16 E-value=64 Score=21.42 Aligned_cols=32 Identities=22% Similarity=0.314 Sum_probs=21.7
Q ss_pred CCchHHHHHHhcCCCcchHHHHHHHHHHHHhH
Q psy6386 41 HVPLEVFDYIDQGRNPQLYTKDCIEKALTKNE 72 (116)
Q Consensus 41 ~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq 72 (116)
..|.+|.+.|++|+-.++.+..-+.....+|.
T Consensus 28 ~lP~~i~~~v~~g~~~~~~a~~~L~~~~~~~~ 59 (93)
T PF08535_consen 28 DLPEEIKELVRSGRISDIRALYELRKLAEKNP 59 (93)
T ss_dssp S--HHHHHHHHTTS---HHHHHHHHHHHHH-H
T ss_pred cCCHHHHHHHHcCCCchHHHHHHHHHHHHhCH
Confidence 58999999999999999998877777666664
No 33
>KOG0484|consensus
Probab=36.52 E-value=28 Score=25.51 Aligned_cols=16 Identities=25% Similarity=0.594 Sum_probs=12.3
Q ss_pred HhcCCCcchHHHHHHH
Q psy6386 50 IDQGRNPQLYTKDCIE 65 (116)
Q Consensus 50 ID~GrNPdiyTre~vE 65 (116)
.-+.+=|||||||-+-
T Consensus 36 F~ETHYPDIYTREEiA 51 (125)
T KOG0484|consen 36 FAETHYPDIYTREEIA 51 (125)
T ss_pred HHhhcCCcchhHHHHH
Confidence 3456789999999664
No 34
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=36.49 E-value=1.1e+02 Score=19.34 Aligned_cols=30 Identities=13% Similarity=0.424 Sum_probs=20.2
Q ss_pred CCCCchHHHHHHhcCC----CcchHHHHHHHHHH
Q psy6386 39 DIHVPLEVFDYIDQGR----NPQLYTKDCIEKAL 68 (116)
Q Consensus 39 ~~~IP~eVl~yID~Gr----NPdiyTre~vE~~~ 68 (116)
...||...|+.||+|. .+..|.|-||..-.
T Consensus 19 ~t~I~~~~l~aiE~~~~~~lp~~~y~rg~lr~Ya 52 (62)
T PF13413_consen 19 ETKISVSYLEAIENGDFDSLPSPVYARGYLRKYA 52 (62)
T ss_dssp HCS--HHHHHHHHCT-GCCSSSHHHHHHHHHHHH
T ss_pred HhCCCHHHHHHHHCcChhhCCcHHHHHHHHHHHH
Confidence 3489999999999874 34578888876543
No 35
>TIGR03200 dearomat_oah 6-oxocyclohex-1-ene-1-carbonyl-CoA hydrolase. Members of this protein family are 6-oxocyclohex-1-ene-1-carbonyl-CoA hydrolase, a ring-hydrolyzing enzyme in the anaerobic metabolism of aromatic enzymes by way of benzoyl-CoA, as seen in Thauera aromatica, Geobacter metallireducens, and Azoarcus sp. Note that Rhodopseudomonas palustris uses a different pathway to perform a similar degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA.
Probab=36.00 E-value=51 Score=28.16 Aligned_cols=55 Identities=16% Similarity=0.271 Sum_probs=29.3
Q ss_pred CCCcchHHHHHHHHHH-HHhHHHhh--HHHHHHH-----------HHHH---HHHHHHhhChhh-HHHHHHhh
Q psy6386 53 GRNPQLYTKDCIEKAL-TKNEQVKG--KIDAYRK-----------FKAH---MLVELSGAFPNE-LAKYRAIR 107 (116)
Q Consensus 53 GrNPdiyTre~vE~~~-~~Nq~~kG--K~~a~~~-----------fr~~---L~~el~~~fPel-~~~~~~ir 107 (116)
-+||++.|-+.+.... .-+-.-+. ...+.+. +... |..++...||+- ......+|
T Consensus 220 ~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 292 (360)
T TIGR03200 220 VANPLVVTDRYLDEFGRIVHGEFKAGDELKAGKELIKQGTIDLSLLDEAVEALCAKLLNTFPECLTKSIEELR 292 (360)
T ss_pred hcCcccchHHHHHHHhHHhcCCCcchhHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHhchHHHHHHHHHhh
Confidence 4899999988887622 11111111 2222222 3333 777788899973 33334444
No 36
>PF08060 NOSIC: NOSIC (NUC001) domain; InterPro: IPR012976 This is the central domain in Nop56/SIK1-like proteins [].; PDB: 3PLA_K 3ICX_B 3ID6_A 3ID5_E 3NVM_A 3NMU_B 2NNW_C 3NVI_A 3NVK_A 2OZB_E ....
Probab=35.49 E-value=1.1e+02 Score=18.78 Aligned_cols=35 Identities=14% Similarity=0.022 Sum_probs=24.2
Q ss_pred HHhHHHhhHHHHHHHHHHHHHHHHHhhChhhHHHH
Q psy6386 69 TKNEQVKGKIDAYRKFKAHMLVELSGAFPNELAKY 103 (116)
Q Consensus 69 ~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~~ 103 (116)
+.|+.+----+....|-..+.+.-+..||||..-+
T Consensus 4 ~~~~l~~~id~ei~~~~~~lre~Y~~~FPEL~~lv 38 (53)
T PF08060_consen 4 QANELLDDIDKEINLLHMRLREWYSWHFPELESLV 38 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTTSTTHHHHS
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHc
Confidence 34444444445566777788888899999998743
No 37
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=35.03 E-value=40 Score=21.87 Aligned_cols=20 Identities=15% Similarity=0.414 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHhhChhh
Q psy6386 80 AYRKFKAHMLVELSGAFPNE 99 (116)
Q Consensus 80 a~~~fr~~L~~el~~~fPel 99 (116)
|+..|+..|...|...||+.
T Consensus 5 a~~AL~~EL~kRl~~~yPd~ 24 (65)
T PF06183_consen 5 ALEALESELTKRLHRQYPDA 24 (65)
T ss_dssp HHHHHHHHHHHHHHHH-SS-
T ss_pred HHHHHHHHHHHHHHHHCCCc
Confidence 56778999999999999983
No 38
>PF02252 PA28_beta: Proteasome activator pa28 beta subunit; InterPro: IPR003186 PA28 activator complex (also known as 11S regulator of 20S proteasome) is a ring shaped hexameric structure of alternating alpha (PA28alpha) and beta (PA28beta) subunits. The catalytic properties of PA28alpha and PA28beta-activated proteosome are similar [, ]. This entry represents the beta subunit. The activator complex binds to the 20S proteasome and stimulates peptidase activity in and ATP-independent manner.; GO: 0008537 proteasome activator complex; PDB: 1AVO_N.
Probab=34.86 E-value=1.9e+02 Score=21.57 Aligned_cols=36 Identities=22% Similarity=0.459 Sum_probs=16.8
Q ss_pred CCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHH
Q psy6386 39 DIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYR 82 (116)
Q Consensus 39 ~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~ 82 (116)
...||- |++|.| |-...=|.+..+-..+..+..+|.
T Consensus 37 ~l~IPk-----iEDGNN---FGV~VQeevl~~l~~v~~~a~~~~ 72 (150)
T PF02252_consen 37 QLLIPK-----IEDGNN---FGVSVQEEVLEELRAVESKAENFL 72 (150)
T ss_dssp HHT----------SS-----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhCcc-----cccCCc---ccHHHHHHHHHHHHHHHHHHHHHH
Confidence 335664 799998 444555555666666666665553
No 39
>PF03433 EspA: EspA-like secreted protein ; InterPro: IPR005095 EspA is the prototypical member of this family. EspA, together with EspB, EspD and Tir are exported by a type III secretion system. These proteins are essential for attaching and effacing lesion formation. EspA is a structural protein and a major component of a large, transiently expressed, filamentous surface organelle which forms a direct link between the bacterium and the host cell [, ].; PDB: 1XOU_A.
Probab=34.73 E-value=13 Score=29.27 Aligned_cols=59 Identities=20% Similarity=0.333 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhc------CCCcchHHHHHHHHHHHHhHHHhhHHHHHH
Q psy6386 15 FISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQ------GRNPQLYTKDCIEKALTKNEQVKGKIDAYR 82 (116)
Q Consensus 15 ~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~------GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~ 82 (116)
-++++++++|-.+++=+. +. ..++|.|||+|+++ |++=+-|-++.-. -+.-+|+..|.+
T Consensus 76 ~maN~vDevIA~~~k~~d---k~-k~~lp~dVi~Ym~~ngI~VdG~si~~Yl~~n~~-----~~LdkG~LqaVK 140 (188)
T PF03433_consen 76 DMANRVDEVIAEVAKSDD---KA-KAPLPDDVIDYMRDNGIKVDGKSIDDYLKKNGS-----GGLDKGQLQAVK 140 (188)
T ss_dssp --------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHhccCCCc---cc-cccCCHHHHHHHHHcCCeecCeeccchhhhhhh-----ccCCchhHHHHH
Confidence 445555555554443332 22 45899999999965 6666666665433 344555555543
No 40
>PRK14806 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional
Probab=34.39 E-value=3.1e+02 Score=24.59 Aligned_cols=88 Identities=13% Similarity=0.132 Sum_probs=45.4
Q ss_pred hhhhcccCc-c---hhhHHHHHHHHHHHHHHHH--HhhhhcCCCCCchHHHHHHhc---------CCCcchHHHHHHHHH
Q psy6386 3 IHILNHLGE-Y---SKFISSFRQTMISGLQEID--KLKSQVQDIHVPLEVFDYIDQ---------GRNPQLYTKDCIEKA 67 (116)
Q Consensus 3 ~~~~~~~g~-~---s~~l~~~in~lV~~L~~ld--~~a~~~~~~~IP~eVl~yID~---------GrNPdiyTre~vE~~ 67 (116)
..++..+|. + +....+.+-++++++..+- .+.+.+.+..+..+..++.-. +.||++|..-+....
T Consensus 162 ~~l~~~~G~~~~~~~~~~hD~~~a~~~~~ph~~~~~l~~~l~~~~~~~~~~~~a~~~f~~~tRia~~~p~~~~di~~~n~ 241 (735)
T PRK14806 162 DRLWRAVGADVLHMDVAHHDEVLAATSHLPHLLAFSLVDQLANREDNLDIFRYAAGGFRDFTRIAASDPVMWHDIFLANK 241 (735)
T ss_pred HHHHHHcCCEEEEcCHHHHhHHHHHhcchHHHHHHHHHHHHhhcCChhHHHhhhccchhcccccccCCHHHHHHHHHHhH
Confidence 345666663 1 2355677777777777621 112222233333344444332 589999988776543
Q ss_pred HHHhHHHhhHHHHHHHHHHHHHH
Q psy6386 68 LTKNEQVKGKIDAYRKFKAHMLV 90 (116)
Q Consensus 68 ~~~Nq~~kGK~~a~~~fr~~L~~ 90 (116)
..--+...--.+.+..|++.|.+
T Consensus 242 ~~~~~~l~~~~~~l~~~~~~l~~ 264 (735)
T PRK14806 242 EAVLRALDHFRDDLDALRAAIEA 264 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 33223333334445556666653
No 41
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=34.08 E-value=68 Score=26.63 Aligned_cols=10 Identities=50% Similarity=0.929 Sum_probs=5.3
Q ss_pred HHHHHHhcCC
Q psy6386 45 EVFDYIDQGR 54 (116)
Q Consensus 45 eVl~yID~Gr 54 (116)
|+-.||.+||
T Consensus 74 EL~~~I~egr 83 (312)
T smart00787 74 ELKKYISEGR 83 (312)
T ss_pred HHHHHHHHHH
Confidence 4455666553
No 42
>PRK05255 hypothetical protein; Provisional
Probab=34.02 E-value=2.2e+02 Score=21.91 Aligned_cols=89 Identities=16% Similarity=0.226 Sum_probs=58.6
Q ss_pred cchh-hHHHHHHHHHHHHHHHHHhh-hhcCCCCCchHHHHHHhcCCCc--------------------c-hHHHHHHHHH
Q psy6386 11 EYSK-FISSFRQTMISGLQEIDKLK-SQVQDIHVPLEVFDYIDQGRNP--------------------Q-LYTKDCIEKA 67 (116)
Q Consensus 11 ~~s~-~l~~~in~lV~~L~~ld~~a-~~~~~~~IP~eVl~yID~GrNP--------------------d-iyTre~vE~~ 67 (116)
.||+ -+...+.++-..=.+|-++. .++..+++|.+++..|..++.= | .=-+..++..
T Consensus 16 ~~SKSq~KRe~~alq~LG~~L~~Ls~~ql~~lpL~e~L~~Ai~ea~ri~~~eA~RRqlqyIGKLmR~~d~e~I~~al~~~ 95 (171)
T PRK05255 16 WVSKSQIKRDAEALQDLGEELVELSKDQLAKLPLDEDLRDAILEAQRITSHEARRRQLQYIGKLMRNEDVEPIRAALDKL 95 (171)
T ss_pred CCChHHHHHHHHHHHHHHHHHHhCCHHHHhcCCCCHHHHHHHHHHhhhccchHHHHHHHHHHHHHhhCCHHHHHHHHHHH
Confidence 3566 45444444333333444443 4566788999999877654322 1 1245677778
Q ss_pred HHHhHHHhhHHHHHHHHHHHHHHH-------HHhhChhh
Q psy6386 68 LTKNEQVKGKIDAYRKFKAHMLVE-------LSGAFPNE 99 (116)
Q Consensus 68 ~~~Nq~~kGK~~a~~~fr~~L~~e-------l~~~fPel 99 (116)
...++....+.+.++..|+.|.++ +.+.||+.
T Consensus 96 ~~~~~~~~~~~h~lE~wRdrLi~~~d~al~e~~~~~P~~ 134 (171)
T PRK05255 96 KNKHNQETARFHKLERWRDRLLAEGDDALTEFLEEYPDA 134 (171)
T ss_pred hchhHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHCchh
Confidence 888888999999999999999884 66677753
No 43
>PRK13998 potassium-transporting ATPase subunit C; Provisional
Probab=33.31 E-value=1.5e+02 Score=23.23 Aligned_cols=62 Identities=5% Similarity=0.044 Sum_probs=43.8
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcchH---HHHHHHHHHHHhHHHhhHHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQLY---TKDCIEKALTKNEQVKGKIDA 80 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdiy---Tre~vE~~~~~Nq~~kGK~~a 80 (116)
++|+.+..+.+++.+-+.. ...+||.|++..=--|=+|+|= -.-++.++++.......++..
T Consensus 92 Nl~psnp~l~~~v~~r~~~-----------~~~~vP~DlvTaSgSGLDPhISp~aA~~Qv~RVA~argl~~~~v~~ 156 (186)
T PRK13998 92 NESNGNTELIARMKHHVKF-----------GNSNVTIDAATSSGSGLDPHITVENALKQAPRIADARHVSTSRVAD 156 (186)
T ss_pred CCCCCCHHHHHHHHHHHHh-----------cCCCCCHHHHhcccccCCCCCCHHHHHHHHHHHHHHhCcCHHHHHH
Confidence 5667777777777776551 1478999999998999999984 455667777666555555443
No 44
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=31.96 E-value=1.2e+02 Score=22.73 Aligned_cols=21 Identities=29% Similarity=0.594 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHhhChhhHHHHHH
Q psy6386 80 AYRKFKAHMLVELSGAFPNELAKYRA 105 (116)
Q Consensus 80 a~~~fr~~L~~el~~~fPel~~~~~~ 105 (116)
||+.||+.|.+ +|++...+-+
T Consensus 100 afrrFKd~L~~-----~~~~~e~Wy~ 120 (163)
T PF03682_consen 100 AFRRFKDILSE-----YPELRERWYA 120 (163)
T ss_pred HHHHHHHHHHH-----CHHHHHHHHH
Confidence 89999998853 5555444433
No 45
>PF03693 RHH_2: Uncharacterised protein family (UPF0156); InterPro: IPR022789 This family of proteins are about 80 amino acids in length and their function is unknown. The proteins contain a conserved GRY motif. This family appears to be related to ribbon-helix-helix DNA-binding proteins. ; PDB: 3KXE_C.
Probab=31.33 E-value=89 Score=20.85 Aligned_cols=53 Identities=9% Similarity=0.213 Sum_probs=34.8
Q ss_pred CCCCchHHHHHHhc----C--CCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChh
Q psy6386 39 DIHVPLEVFDYIDQ----G--RNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPN 98 (116)
Q Consensus 39 ~~~IP~eVl~yID~----G--rNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPe 98 (116)
+|.+|.+.-.||++ | .|-.-|.|+.|......+. -++.||+.|.+.+.+..|.
T Consensus 6 sisL~~~~~~~i~~~V~sG~Y~s~SEvvR~aLRlle~~e~-------~~~~Lr~~l~~g~~sG~~~ 64 (80)
T PF03693_consen 6 SISLTPELEAFIEEQVASGRYSSASEVVREALRLLEEREA-------KLEALREALQEGLESGESE 64 (80)
T ss_dssp EE---HHHHHHHHHHHCTTS-SSHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHCT-EES
T ss_pred eEecCHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhCCCCC
Confidence 67889988888765 5 4778888888765544332 3456899999888776665
No 46
>PRK13713 conjugal transfer protein TraM; Provisional
Probab=31.06 E-value=90 Score=22.93 Aligned_cols=49 Identities=18% Similarity=0.338 Sum_probs=37.7
Q ss_pred hcCCCcchHHHHHHHHHHHHhHHHh-------------hH-----HHHHHHHHHHHHHHHHhhChhh
Q psy6386 51 DQGRNPQLYTKDCIEKALTKNEQVK-------------GK-----IDAYRKFKAHMLVELSGAFPNE 99 (116)
Q Consensus 51 D~GrNPdiyTre~vE~~~~~Nq~~k-------------GK-----~~a~~~fr~~L~~el~~~fPel 99 (116)
+.|-|-+.|.|-.+|.|.+.+..+. |+ ......+|+...++|..=||+.
T Consensus 51 es~Fnq~eFnK~lLE~v~kt~~~~~~IL~~~~lsp~v~~~~~~ey~~mv~~I~~~v~e~m~~FFpe~ 117 (118)
T PRK13713 51 ESGFNQTEFNKLLLECVVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSEEMERFFPEN 117 (118)
T ss_pred cCcccHHHHHHHHHHHHHHHHHHHHHHHccccccHhhcCCCcccHHHHHHHHHHHHHHHHHhcCCCC
Confidence 6799999999999999998865432 21 2345677888888899889873
No 47
>PRK08645 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed
Probab=30.07 E-value=68 Score=28.70 Aligned_cols=49 Identities=12% Similarity=0.182 Sum_probs=35.1
Q ss_pred HHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhH
Q psy6386 24 ISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNE 72 (116)
Q Consensus 24 V~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq 72 (116)
+.+...+..++..+..+.||.++++-++.+.+|+-+-..-++.|...=+
T Consensus 527 i~s~k~~~~~~~~~~Gv~vP~~l~~~l~~~~d~~~~~~~gv~~a~e~i~ 575 (612)
T PRK08645 527 LVSYRNAEFLHNEVPGITLPEEIRERMRAVEDKEEAREEGVAIARELID 575 (612)
T ss_pred cCCHHHHHHHHhCCCCCCCCHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence 3455566666666779999999999999999887655555555554433
No 48
>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=29.69 E-value=66 Score=21.84 Aligned_cols=27 Identities=19% Similarity=0.262 Sum_probs=19.8
Q ss_pred HhhHHHHHHHHHHHHHHHHHhhChhhHHHHH
Q psy6386 74 VKGKIDAYRKFKAHMLVELSGAFPNELAKYR 104 (116)
Q Consensus 74 ~kGK~~a~~~fr~~L~~el~~~fPel~~~~~ 104 (116)
.||. .||..|++.|.+ ..||.|.+-..
T Consensus 56 trG~-~Af~~F~~aL~~---~~~~~La~lL~ 82 (86)
T cd08323 56 TKDN-HAYVSFYNALLH---EGYKDLALLLH 82 (86)
T ss_pred hcCH-HHHHHHHHHHHh---cCChHHHHHHh
Confidence 4554 589999999974 55888887654
No 49
>PRK06771 hypothetical protein; Provisional
Probab=29.45 E-value=1.6e+02 Score=20.81 Aligned_cols=43 Identities=14% Similarity=0.295 Sum_probs=27.5
Q ss_pred HHHHhhhhc--CCC--CCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHH
Q psy6386 29 EIDKLKSQV--QDI--HVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELS 93 (116)
Q Consensus 29 ~ld~~a~~~--~~~--~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~ 93 (116)
+|+.++..+ .+. .++-||.+.+.+|+ |++|.+.+|+.-.-.|.
T Consensus 38 ~L~~I~~~~Gi~~~~~~~~~e~~~Li~~Gk----------------------ki~AIK~~Re~tG~~L~ 84 (93)
T PRK06771 38 RLQLITKEMGIVDREPPVNKELRQLMEEGQ----------------------TVTAVKRVREAFGFSLL 84 (93)
T ss_pred HHHHHHHHcCCCCCcccccHHHHHHHHcCC----------------------chHHHHHHHHHcCCCHH
Confidence 445555444 122 56788888888887 46777777776655443
No 50
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=29.17 E-value=1e+02 Score=19.18 Aligned_cols=46 Identities=13% Similarity=0.198 Sum_probs=30.7
Q ss_pred CCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHH
Q psy6386 41 HVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHML 89 (116)
Q Consensus 41 ~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~ 89 (116)
.+|...|+.|+. .||+ .++....++..=+...|.-.+++.+.++|.
T Consensus 23 g~~~~~i~~i~~-~~~~--~~~~~~~~L~~W~~~~~~~at~~~L~~aL~ 68 (83)
T PF00531_consen 23 GLSESEIENIEE-ENPD--LREQTYEMLQRWRQREGPNATVDQLIQALR 68 (83)
T ss_dssp TS-HHHHHHHHH-HSTS--HHHHHHHHHHHHHHHHGSTSSHHHHHHHHH
T ss_pred CcCHHHHHHHHH-hCCC--hHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence 788889999988 7887 555555555544444777777766666664
No 51
>TIGR03764 ICE_PFGI_1_parB integrating conjugative element, PFGI_1 class, ParB family protein. Members of this protein family carry the ParB-type nuclease domain and are found in integrating conjugative elements (ICE) in the same class as PFGI-1 of Pseudomonas fluorescens Pf-5.
Probab=28.95 E-value=1.4e+02 Score=24.58 Aligned_cols=36 Identities=11% Similarity=0.161 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhCh
Q psy6386 59 YTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFP 97 (116)
Q Consensus 59 yTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fP 97 (116)
|.-=|-+.|.+=| .+-.=+++.|||.|..+|.++.|
T Consensus 210 f~~~f~~~~~~~d---~~~~~~~~~~~deli~~~~~~l~ 245 (258)
T TIGR03764 210 FEEVFQEVLARFD---DPEEFSLERFRDELIGEMAKALG 245 (258)
T ss_pred HHHHHHHHHHhcC---CcccCCHHHHHHHHHHHHHHHcC
Confidence 5555555665555 34444678999999999999999
No 52
>PRK07502 cyclohexadienyl dehydrogenase; Validated
Probab=28.85 E-value=1.6e+02 Score=23.35 Aligned_cols=39 Identities=5% Similarity=0.070 Sum_probs=29.3
Q ss_pred CCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHH
Q psy6386 53 GRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVE 91 (116)
Q Consensus 53 GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~e 91 (116)
+-||++|+-=|+...-.--+....-++.++.||+.|...
T Consensus 231 ~~~~~~w~~i~~~N~~~~~~~l~~~~~~l~~~~~~l~~~ 269 (307)
T PRK07502 231 ASDPTMWRDVFLHNKDAVLEMLGRFTEDLAALQRAIRWG 269 (307)
T ss_pred cCChHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 569999988777654444466788888888888888643
No 53
>PF11577 NEMO: NF-kappa-B essential modulator NEMO; InterPro: IPR021063 This entry represents a conserved domain found at the N-terminal of NF-kappa-B essential modulator (NEMO) and optineurin proteins. NEMO is a regulatory protein which is part of the IKK complex along with the catalytic IKKalpha and beta kinases. The IKK complex phosphorylates IkappaB targeting it for degradation which results in the release of NF-kappaB which initiates the inflammatory response, cell proliferation or cell differentiation []. NEMO activates the IKK complex's activity by associating with the unphosphorylated IKK kinase C termini. The core domain of NEMO is a dimer which binds to two fragments of IKK []. ; PDB: 3BRT_B 3BRV_D.
Probab=28.81 E-value=1.5e+02 Score=19.59 Aligned_cols=30 Identities=13% Similarity=0.138 Sum_probs=24.2
Q ss_pred HHHHHHHHhHHHhhHHHHHHHHHHHHHHHH
Q psy6386 63 CIEKALTKNEQVKGKIDAYRKFKAHMLVEL 92 (116)
Q Consensus 63 ~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el 92 (116)
.=|.....|+.+|++.+.+..+++.-.++-
T Consensus 18 LKealrQ~N~~Mker~e~l~~wqe~~~~e~ 47 (68)
T PF11577_consen 18 LKEALRQNNQAMKERFEELLAWQEKQKEER 47 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 336778899999999999999988766553
No 54
>PRK00676 hemA glutamyl-tRNA reductase; Validated
Probab=28.72 E-value=67 Score=27.10 Aligned_cols=57 Identities=18% Similarity=0.079 Sum_probs=42.8
Q ss_pred hcCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhh
Q psy6386 36 QVQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGA 95 (116)
Q Consensus 36 ~~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~ 95 (116)
-+-|+.||.+|=. +....|--+|+-|.+.....+|...+ .+...+-+..+.+++.+-
T Consensus 256 ~~iDLAvPRdId~-v~~~~~v~Ly~iDdL~~i~~~n~~~R--~~~~~~ae~iI~~~~~~~ 312 (338)
T PRK00676 256 IVFDFNVPRTFPW-SETPFPHRYLDMDFISEWVQKHLQCR--KEVNNKHKLSLREAAYKQ 312 (338)
T ss_pred EEEEecCCCCCcc-ccccCCcEEEEhHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence 3459999999844 77777778999999999999998766 444556667777666543
No 55
>PRK13663 hypothetical protein; Provisional
Probab=28.05 E-value=1.1e+02 Score=27.41 Aligned_cols=75 Identities=16% Similarity=0.336 Sum_probs=52.3
Q ss_pred cCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHH-------hcCCCcchHHHHHHH---HHHHHhHHHhhHH
Q psy6386 9 LGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYI-------DQGRNPQLYTKDCIE---KALTKNEQVKGKI 78 (116)
Q Consensus 9 ~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yI-------D~GrNPdiyTre~vE---~~~~~Nq~~kGK~ 78 (116)
+|.+|..+.-.--.+.+.|..|......+ --|+.++|+=| =.++||-+.|-|.+- .++..|..++--+
T Consensus 370 TGKtS~LlgasaA~lLNAlK~LA~I~~~i--~Lisp~~iepIq~LKt~~Lgs~nprLh~dEvLIALSisA~tn~~A~~Al 447 (493)
T PRK13663 370 TGKTSELLGATAAVLLNALKHLAGIDDEI--HLISPEIIEPIQNLKTNHLGSRNPRLHTDEVLIALSISAATNPTAQRAM 447 (493)
T ss_pred eCCCccccchHHHHHHHHHHHHcCCCccc--cccCHHHhhhHHHHhHHHhCCCCCCCCHHHHHHHHHHHhcCCHHHHHHH
Confidence 37888877777777777777776665544 24677777754 348999999999876 4566777776655
Q ss_pred HHHHHHH
Q psy6386 79 DAYRKFK 85 (116)
Q Consensus 79 ~a~~~fr 85 (116)
+.+..+|
T Consensus 448 ~qL~~L~ 454 (493)
T PRK13663 448 EQLGNLK 454 (493)
T ss_pred Hhhhhcc
Confidence 5555444
No 56
>PF05261 Tra_M: TraM protein, DNA-binding; InterPro: IPR007925 The TraM protein is an essential part of the DNA transfer machinery of the conjugative resistance plasmid R1 (IncFII). On the basis of mutational analyses, it was shown that the essential transfer protein TraM has at least two functions. First, a functional TraM protein was found to be required for normal levels of transfer gene expression. Second, experimental evidence was obtained that TraM stimulates efficient site-specific single-stranded DNA cleavage at the oriT, in vivo. Furthermore, a specific interaction of the cytoplasmic TraM protein with the membrane protein TraD was demonstrated, suggesting that the TraM protein creates a physical link between the relaxosomal nucleoprotein complex and the membrane-bound DNA transfer apparatus [].; GO: 0003677 DNA binding, 0000746 conjugation; PDB: 3ON0_A 3OMY_B 1DP3_A 2G9E_A 3D8A_B 2G7O_A.
Probab=27.43 E-value=2.2e+02 Score=21.15 Aligned_cols=49 Identities=18% Similarity=0.262 Sum_probs=35.2
Q ss_pred hcCCCcchHHHHHHHHHHHHhHHHhhH------------------HHHHHHHHHHHHHHHHhhChhh
Q psy6386 51 DQGRNPQLYTKDCIEKALTKNEQVKGK------------------IDAYRKFKAHMLVELSGAFPNE 99 (116)
Q Consensus 51 D~GrNPdiyTre~vE~~~~~Nq~~kGK------------------~~a~~~fr~~L~~el~~~fPel 99 (116)
+.|=|-+-|.|..+|.|.+.+..+.-- -.....+|+...++|..=||+.
T Consensus 58 ~s~Fnq~eFnk~lLe~v~kt~~~~~~ILg~~~ls~~v~~~~~~ey~~m~~~I~~~v~e~m~~FFpe~ 124 (127)
T PF05261_consen 58 ESGFNQEEFNKVLLENVSKTRFTVSKILGMSSLSPEVKGNPKFEYENMVEKIREKVSEEMERFFPEN 124 (127)
T ss_dssp SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHCCHCGG-HHHHHHHHHHHHHHHHHHHS-CC
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccHhhccCCcccHHHHHHHHHHHHHHHHHhcCCCc
Confidence 568899999999999998876654331 1234678888899999999975
No 57
>TIGR02684 dnstrm_HI1420 probable addiction module antidote protein. gene pairs, when found on the bacterial chromosome, are located often with prophage regions, but also both in integrated plasmid regions and in housekeeping gene regions. Analysis suggests that the gene pair may serve as an addiction module.
Probab=27.13 E-value=1.3e+02 Score=20.41 Aligned_cols=46 Identities=15% Similarity=0.153 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhcCCCCCchHHHHHHhcCC-CcchHHHHHH
Q psy6386 15 FISSFRQTMISGLQEIDKLKSQVQDIHVPLEVFDYIDQGR-NPQLYTKDCI 64 (116)
Q Consensus 15 ~l~~~in~lV~~L~~ld~~a~~~~~~~IP~eVl~yID~Gr-NPdiyTre~v 64 (116)
.+...+..+.... .+..++..+ .|+..-|.-|++|+ ||.+-|-.-|
T Consensus 32 ~~~~~l~~~r~~~-glSqLAe~~---GIs~stLs~iE~g~~~Ps~~tL~kI 78 (89)
T TIGR02684 32 YIAHALGYIARAR-GMTQLARKT---GLSRESLYKALSGKGNPTFDTILKV 78 (89)
T ss_pred HHHHHHHHHHHHC-ChHHHHHHH---CCCHHHHHHHHcCCCCCCHHHHHHH
Confidence 5556666665553 455555444 67999999999996 9987665444
No 58
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=26.61 E-value=4.3e+02 Score=25.13 Aligned_cols=81 Identities=12% Similarity=0.239 Sum_probs=46.6
Q ss_pred chhhHHHHHHHHHHHHH-HHHHhhhhcCCCCCchHHH--HHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHH
Q psy6386 12 YSKFISSFRQTMISGLQ-EIDKLKSQVQDIHVPLEVF--DYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHM 88 (116)
Q Consensus 12 ~s~~l~~~in~lV~~L~-~ld~~a~~~~~~~IP~eVl--~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L 88 (116)
|+....++|.+|-+..+ .|..+-+.. ++.==.|.| +..+.|+-||.-.++-||+.-+ ..|..|
T Consensus 643 p~~~~k~KIe~L~~eIkkkIe~av~ss-~LK~k~E~Lk~Evaka~~~pd~~~k~kieal~~-------------qik~~~ 708 (762)
T PLN03229 643 PPPNLQEKIESLNEEINKKIERVIRSS-DLKSKIELLKLEVAKASKTPDVTEKEKIEALEQ-------------QIKQKI 708 (762)
T ss_pred CChhhHHHHHHHHHHHHHHHHHHhcch-hHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHH-------------HHHHHH
Confidence 55566888888877776 444442211 222112333 2378999999988887776543 234444
Q ss_pred HHHHHhhChhhHHHHHHhhC
Q psy6386 89 LVELSGAFPNELAKYRAIRG 108 (116)
Q Consensus 89 ~~el~~~fPel~~~~~~ir~ 108 (116)
++.| .++++.+.|.+++.
T Consensus 709 ~~a~--~~~~lkek~e~l~~ 726 (762)
T PLN03229 709 AEAL--NSSELKEKFEELEA 726 (762)
T ss_pred HHHh--ccHhHHHHHHHHHH
Confidence 4444 34566666665543
No 59
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=26.52 E-value=1.3e+02 Score=22.69 Aligned_cols=54 Identities=22% Similarity=0.511 Sum_probs=45.3
Q ss_pred hcCCCCCchHHHHHHhcCCCcchHHHHHHHHHHHHhHHH-hhHHHH--HHHHHHHHHHHHHhhC
Q psy6386 36 QVQDIHVPLEVFDYIDQGRNPQLYTKDCIEKALTKNEQV-KGKIDA--YRKFKAHMLVELSGAF 96 (116)
Q Consensus 36 ~~~~~~IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq~~-kGK~~a--~~~fr~~L~~el~~~f 96 (116)
++ .-.||++++++- ..||.+.++-++--|... +|.+.. .+..|=+|+.++...|
T Consensus 31 ~y-e~~VplQLl~FA------hRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~v~~~F 87 (145)
T COG5094 31 EY-EPKVPLQLLEFA------HRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATKVGRHF 87 (145)
T ss_pred hh-CccchHHHHHHH------HHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHHhcCCc
Confidence 44 667999999985 579999999999999988 777665 5788889999998888
No 60
>PF00509 Hemagglutinin: Haemagglutinin; InterPro: IPR001364 Haemagglutinin (HA) is one of two main surface fusion glycoproteins embedded in the envelope of influenza viruses, the other being neuraminidase (NA). There are sixteen known HA subtypes (H1-H16) and nine NA subtypes (N1-N9), which together are used to classify influenza viruses (e.g. H5N1). The antigenic variations in HA and NA enable the virus to evade host antibodies made to previous influenza strains, accounting for recurrent influenza epidemics []. The HA glycoprotein is present in the viral membrane as a single polypeptide (HA0), which must be cleaved by the host's trypsin-like proteases to produce two peptides (HA1 and HA2) in order for the virus to be infectious. Once HA0 is cleaved, the newly exposed N-terminal of the HA2 peptide then acts to fuse the viral envelope to the cellular membrane of the host cell, which allows the viral negative-stranded RNA to infect the host cell. The type of host protease can influence the infectivity and pathogenicity of the virus. The haemagglutinin glycoprotein is a trimer containing three structurally distinct regions: a globular head consisting of anti-parallel beta-sheets that form a beta-sandwich with a jelly-roll fold (contains the receptor binding site and the HA1/HA2 cleavage site); a triple-stranded, coiled-coil, alpha-helical stalk; and a globular foot composed of anti-parallel beta-sheets [, ]. Each monomer consists of an intact HA0 polypeptide with the HA1 and HA2 regions linked by disulphide bonds. The N terminus of HA1 provides the central strand in the 5-stranded globular foot, while the rest of the HA1 chain makes its way to the 8-stranded globular head. HA2 provides two alpha helices, which form part of the triple-stranded coiled-coil that stabilises the trimer, its C terminus providing the remaining strands of the 5-stranded globular foot. This entry represents the entire haemagglutinin protein (HA0) consisting of both the HA1 and HA2 regions, as found in influenza A and B viruses.; GO: 0046789 host cell surface receptor binding, 0019064 viral envelope fusion with host membrane, 0019031 viral envelope; PDB: 2WR5_A 2IBX_A 2WR0_B 2WR1_C 2XN9_F 2WRF_I 3S11_E 3BT6_A 3SM5_E 2FK0_H ....
Probab=26.31 E-value=64 Score=29.29 Aligned_cols=77 Identities=9% Similarity=0.208 Sum_probs=45.3
Q ss_pred hHHHHHHHHHHHHH-HHHHhhhhcCCCCCchH-HHHHHhcCCCcchHHHHHHHHHHHHhHHHhhHHHH-HHHHHHHHHHH
Q psy6386 15 FISSFRQTMISGLQ-EIDKLKSQVQDIHVPLE-VFDYIDQGRNPQLYTKDCIEKALTKNEQVKGKIDA-YRKFKAHMLVE 91 (116)
Q Consensus 15 ~l~~~in~lV~~L~-~ld~~a~~~~~~~IP~e-Vl~yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a-~~~fr~~L~~e 91 (116)
-+-.++|++|+.+. +.+.+...+..+.==++ +-++||++.+ |+||-..=..++-+||.+---.++ ++.|-+.+..+
T Consensus 375 ~it~kvN~iiek~n~~fe~i~~ef~~ve~Ri~~l~~~v~d~~~-d~wsynaELlVlleN~~tld~~Ds~~~~L~ekvk~q 453 (550)
T PF00509_consen 375 QITKKVNSIIEKMNKQFEQIDKEFNEVEKRIDNLEKKVDDKIA-DVWSYNAELLVLLENQRTLDLHDSNVNNLYEKVKRQ 453 (550)
T ss_dssp HHHHHHHHHHHTTTCEEEECSCSSSTTGHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHhhhccch-hhhcccHHHHHHhccccchhhhHHHHHHHHHHHHHH
Confidence 34455666665553 22333334444433333 4468999998 999999888999999986544443 33333333333
Q ss_pred H
Q psy6386 92 L 92 (116)
Q Consensus 92 l 92 (116)
|
T Consensus 454 L 454 (550)
T PF00509_consen 454 L 454 (550)
T ss_dssp H
T ss_pred H
Confidence 3
No 61
>PF01934 DUF86: Protein of unknown function DUF86; InterPro: IPR008201 This entry describes prokaryotic proteins of unknown function.; PDB: 1YLM_A.
Probab=25.15 E-value=2e+02 Score=19.30 Aligned_cols=52 Identities=13% Similarity=0.165 Sum_probs=31.6
Q ss_pred cCCCcchHHHHHHHHHHHHh---HHHhhHHHHHHHHHHHHH------------HHHHhhChhhHHHHHHh
Q psy6386 52 QGRNPQLYTKDCIEKALTKN---EQVKGKIDAYRKFKAHML------------VELSGAFPNELAKYRAI 106 (116)
Q Consensus 52 ~GrNPdiyTre~vE~~~~~N---q~~kGK~~a~~~fr~~L~------------~el~~~fPel~~~~~~i 106 (116)
..+.|+-| +++.....+ ....-+...+.+||..|. +-+.+..|++.+..+.|
T Consensus 53 ~~~~p~~~---~~~~L~~~~ii~~~~~~~l~~~~g~RN~lvH~Y~~id~~~i~~~i~~~l~~l~~~~~~i 119 (119)
T PF01934_consen 53 GLGKPGSY---IFEILAEHGIISEEPAEPLRKMVGFRNRLVHDYDSIDDEIIYEIIKEDLPDLEEFIEEI 119 (119)
T ss_dssp T----SSH---HHHHHHHTTSS-HHHHHHHHHHHTTHHHHHT-GGG--HHHHHHHHHHTHHHHHHHHHHH
T ss_pred CCCCCccH---HHHHHHHcCCccchhHHHHHHHHHHHHHHccccccCCHHHHHHHHHHHHHHHHHHHHhC
Confidence 46667777 777766666 667777778888887776 34455566666555543
No 62
>cd08785 CARD_CARD9-like Caspase activation and recruitment domain of CARD9 and related proteins. Caspase activation and recruitment domain (CARD) found in CARD9, CARD14 (CARMA2), CARD10 (CARMA3), CARD11 (CARMA1) and BCL10. BCL10 (B-cell lymphoma 10), together with Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), are integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells), and with CARD11 to form L-CBM (CBM complex in lymphoid immune cells), which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. BCL10/Malt1 also associates with CARD10, which is more widely expressed and is not restricted to hematopoietic cells, to play a role in GPCR-induced NF-kB activation. CARD14 has also been shown to associate with BCL10. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inf
Probab=24.75 E-value=2e+02 Score=19.58 Aligned_cols=54 Identities=17% Similarity=0.294 Sum_probs=35.4
Q ss_pred CchHHHHHHhcCCCcchHHHHHHHHHHHHhH-----HHhhHH---------HHHHHHHHHHHHHHHhhChhhHHH
Q psy6386 42 VPLEVFDYIDQGRNPQLYTKDCIEKALTKNE-----QVKGKI---------DAYRKFKAHMLVELSGAFPNELAK 102 (116)
Q Consensus 42 IP~eVl~yID~GrNPdiyTre~vE~~~~~Nq-----~~kGK~---------~a~~~fr~~L~~el~~~fPel~~~ 102 (116)
.|-+|+.|+-+-+ ++|.+-.|.+..+=. ...|+. .||..|.+.|. +.||.+...
T Consensus 17 ~~~~l~d~L~q~~---VLt~~d~EeI~~~~t~~~r~~ka~~LLdiL~~rG~~Af~~F~~aL~----~~yp~L~~~ 84 (86)
T cd08785 17 NPSRLTPYLRQCK---VLDEQDEEEVLSSPRLPIRANRTGRLLDILATRGKRGYVAFLESLE----FYYPELYTL 84 (86)
T ss_pred hHHHHHHHHHhcC---CCCHHHHHHHhCCCccccHHHHHHHHHHHHHhcCcchHHHHHHHHH----HhCHHHHHH
Confidence 5666788876654 888888887766411 222222 57888888883 459988754
No 63
>PLN02712 arogenate dehydrogenase
Probab=24.35 E-value=4e+02 Score=24.31 Aligned_cols=78 Identities=9% Similarity=0.031 Sum_probs=49.3
Q ss_pred hHHHHHHHHHHHHHHHHHhh-hhcC------CCCCchHHHHHHhc--CCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHH
Q psy6386 15 FISSFRQTMISGLQEIDKLK-SQVQ------DIHVPLEVFDYIDQ--GRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFK 85 (116)
Q Consensus 15 ~l~~~in~lV~~L~~ld~~a-~~~~------~~~IP~eVl~yID~--GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr 85 (116)
.-.+++-+.|++|..+=... .... ..+....+++++.. +-||++|.-=|+..- .--+..+--.++|..+|
T Consensus 221 eeHD~~~A~vshLpH~la~~L~~~~~~~~~~~~~~~~~~l~l~~Ria~~~p~L~~dI~~~N~-~~~~~l~~~~~~l~~~~ 299 (667)
T PLN02712 221 TEHDKYAAESQFITHTVGRVLEMLKLESTPINTKGYESLLDLVENTCGDSFDLYYGLFMYNK-NSLEMLERLDLAFEALR 299 (667)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccccccCCccHHHHHHHHHHHhcCCHHHHHHHHHhCH-HHHHHHHHHHHHHHHHH
Confidence 44577888888888642221 1110 22335667788855 889999987666544 44455666667777777
Q ss_pred HHHHHHHH
Q psy6386 86 AHMLVELS 93 (116)
Q Consensus 86 ~~L~~el~ 93 (116)
+.|...|.
T Consensus 300 ~~l~~~~~ 307 (667)
T PLN02712 300 KQLFGRLH 307 (667)
T ss_pred HHHHHHHH
Confidence 77766553
No 64
>PRK09432 metF 5,10-methylenetetrahydrofolate reductase; Provisional
Probab=24.32 E-value=1.3e+02 Score=24.43 Aligned_cols=32 Identities=13% Similarity=0.321 Sum_probs=24.1
Q ss_pred HHHHHHHHHhhhhcCCCCCchHHHHHHhcCCCc
Q psy6386 24 ISGLQEIDKLKSQVQDIHVPLEVFDYIDQGRNP 56 (116)
Q Consensus 24 V~~L~~ld~~a~~~~~~~IP~eVl~yID~GrNP 56 (116)
+.+++.+..++.-+ .+.||.++++-++...+.
T Consensus 214 i~s~~~~~~~~~~~-Gv~vP~~l~~~l~~~~d~ 245 (296)
T PRK09432 214 VSNFKQLKKFADMT-NVRIPAWMAKMFDGLDDD 245 (296)
T ss_pred cCCHHHHHHHHHcc-CCCCCHHHHHHHHhcCCC
Confidence 34566777775445 999999999999987543
No 65
>cd00537 MTHFR Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase to convert homocysteine to methionine. The enzymatic mechanism is a ping-pong bi-bi mechanism, in which NAD(P)+ release precedes the binding of methylenetetrahydrofolate and the acceptor is free FAD. The family includes the 5,10-methylenetetrahydrofolate reductase EC:1.7.99.5 from prokaryotes and methylenetetrahydrofolate reductase EC: 1.5.1.20 from eukaryotes. The bacterial enzyme is a homotetramer and NADH is the preferred reductant while the eukaryotic enzyme is a homodimer and NADPH is the preferred reductant. In humans, there are several clinically significant mutations in MTHFR that result in hyperhomocysteinemia, which is a risk factor for the development of cardiovascular disease.
Probab=23.46 E-value=1.5e+02 Score=23.20 Aligned_cols=40 Identities=8% Similarity=0.281 Sum_probs=27.5
Q ss_pred HHHHHHHHhhhhcCCCCCchHHHHHHhc-CCCcchHHHHHHH
Q psy6386 25 SGLQEIDKLKSQVQDIHVPLEVFDYIDQ-GRNPQLYTKDCIE 65 (116)
Q Consensus 25 ~~L~~ld~~a~~~~~~~IP~eVl~yID~-GrNPdiyTre~vE 65 (116)
.+++.+..++..+ .+.||.++++-++. +.+|+..-+.-++
T Consensus 199 ~s~~~l~~~~~~~-Gv~vP~~~~~~l~~~~~~~~~~~~~g~~ 239 (274)
T cd00537 199 TSYKQAKRFAKLC-GVEIPDWLLERLEKLKDDAEAVRAEGIE 239 (274)
T ss_pred CCHHHHHHHHHhh-CCCCCHHHHHHHHhcCCCHHHHHHHHHH
Confidence 4566777777888 99999999999884 4555543333333
No 66
>KOG1961|consensus
Probab=23.45 E-value=4.8e+02 Score=24.43 Aligned_cols=43 Identities=23% Similarity=0.298 Sum_probs=31.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhh----hcCCCCCchHHHHHHhcCCCcc
Q psy6386 15 FISSFRQTMISGLQEIDKLKS----QVQDIHVPLEVFDYIDQGRNPQ 57 (116)
Q Consensus 15 ~l~~~in~lV~~L~~ld~~a~----~~~~~~IP~eVl~yID~GrNPd 57 (116)
.|.++=+++-..|.+.....+ -+.++-||+++|.-|=+|.=-+
T Consensus 114 ~lqekS~~m~~~L~Nrq~v~s~Ls~fVdd~iVpp~lI~~I~~g~vne 160 (683)
T KOG1961|consen 114 ILQEKSNDMQLRLENRQAVESKLSQFVDDLIVPPELIKTIVDGDVNE 160 (683)
T ss_pred HHHHHhhHHHHHHHhHHHHHHHHHHHhccccCCHHHHHHHHcCCCCc
Confidence 677777777777776655543 4579999999999997775433
No 67
>COG4121 Uncharacterized conserved protein [Function unknown]
Probab=23.21 E-value=32 Score=28.03 Aligned_cols=37 Identities=5% Similarity=0.197 Sum_probs=27.9
Q ss_pred CCCcchHHHHHHHHHHHHhHHHhhHHHHHH---HHHHHHHH
Q psy6386 53 GRNPQLYTKDCIEKALTKNEQVKGKIDAYR---KFKAHMLV 90 (116)
Q Consensus 53 GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~---~fr~~L~~ 90 (116)
.+|||.||-|++....+. -+-+|+..+|. ..|+-|.+
T Consensus 180 ~kNP~mW~~e~l~~~a~~-~~~~~~l~t~ssA~~vRr~L~~ 219 (252)
T COG4121 180 VKNPEMWEDELLNLMARI-PYRDPTLATFAAAIAVRRRLEQ 219 (252)
T ss_pred cCChhhccHHHHHHHHhh-cCCCCceechHHHHHHHHHHHH
Confidence 799999999999987776 77778877764 34555543
No 68
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=23.19 E-value=2.7e+02 Score=19.44 Aligned_cols=68 Identities=15% Similarity=0.271 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHhhhhcCCCCCchHHHH-HHhcCCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHH
Q psy6386 22 TMISGLQEIDKLKSQVQDIHVPLEVFD-YIDQGRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELS 93 (116)
Q Consensus 22 ~lV~~L~~ld~~a~~~~~~~IP~eVl~-yID~GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~ 93 (116)
+-+..|..+..++ ..-+|++-|. +++...+|+.-..+..+.....-+.+..++..++..++.|...+.
T Consensus 42 ~~l~~l~~I~~lr----~~G~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T TIGR02044 42 QHLDELRLISRAR----QVGFSLEECKELLNLWNDPNRTSADVKARTLEKVAEIERKISELQSMRDQLEALAQ 110 (127)
T ss_pred HHHHHHHHHHHHH----HCCCCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555544 3456776664 566544554444566667778889999999999999999988764
No 69
>PF13318 DUF4089: Protein of unknown function (DUF4089)
Probab=22.87 E-value=92 Score=19.21 Aligned_cols=28 Identities=18% Similarity=0.427 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCCchH
Q psy6386 18 SFRQTMISGLQEIDKLKSQVQDIHVPLE 45 (116)
Q Consensus 18 ~~in~lV~~L~~ld~~a~~~~~~~IP~e 45 (116)
+....++.++..+.++++.+...++|.+
T Consensus 16 ~~r~~V~~n~~ri~~mA~~v~~fpL~~~ 43 (50)
T PF13318_consen 16 EWRPGVVANFERIAAMAQLVMEFPLPDE 43 (50)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCcc
Confidence 4678899999999999998877777754
No 70
>COG3230 HemO Heme oxygenase [Inorganic ion transport and metabolism]
Probab=22.45 E-value=1.5e+02 Score=23.57 Aligned_cols=32 Identities=19% Similarity=0.287 Sum_probs=25.5
Q ss_pred HHHHHHHHHH-------hHHHhhHHHHHHHHHHHHHHHH
Q psy6386 61 KDCIEKALTK-------NEQVKGKIDAYRKFKAHMLVEL 92 (116)
Q Consensus 61 re~vE~~~~~-------Nq~~kGK~~a~~~fr~~L~~el 92 (116)
|+|+|..-+. -..+.|--++|..||+.|.+.+
T Consensus 157 rsF~e~L~~~~l~~E~e~~av~gA~~aF~~fr~~l~~~~ 195 (196)
T COG3230 157 RSFVEHLDAINLTPEAEAEAVAGARAAFAAFRRVLQETF 195 (196)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6777766554 3568999999999999998765
No 71
>PRK14003 potassium-transporting ATPase subunit C; Provisional
Probab=21.94 E-value=2.1e+02 Score=22.60 Aligned_cols=63 Identities=13% Similarity=0.178 Sum_probs=42.1
Q ss_pred ccCcchhhHHHHHHHHHHHHHHHHHhhhhcCCCCCc-hHHHHHHhcCCCcch---HHHHHHHHHHHHhHHHhhHHH
Q psy6386 8 HLGEYSKFISSFRQTMISGLQEIDKLKSQVQDIHVP-LEVFDYIDQGRNPQL---YTKDCIEKALTKNEQVKGKID 79 (116)
Q Consensus 8 ~~g~~s~~l~~~in~lV~~L~~ld~~a~~~~~~~IP-~eVl~yID~GrNPdi---yTre~vE~~~~~Nq~~kGK~~ 79 (116)
++|+.+..+.+++.+-+..+..- + .+| .|++..=--|=+||| +-+=++.++++.......++.
T Consensus 94 Nl~psnp~l~~~v~~r~~~~~~~--------~-~~pp~DlVTaSgSGLDPhISp~aA~~Qv~RVA~argl~~~~v~ 160 (194)
T PRK14003 94 NLAPSNPALIERIKEEANRLQDA--------G-IQPTADLVYTSGSGLDPHISPEAARAQIERVAKARGLPPDQLE 160 (194)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHc--------C-CCCChhheecccccCCCCCCHHHHHHHHHHHHHHhCcCHHHHH
Confidence 56777778888887755554421 1 355 888888788999998 455567777776655554443
No 72
>PF12554 MOZART1: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR022214 This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 105 amino acids in length. There is a single completely conserved residue L that may be functionally important.
Probab=21.58 E-value=1.4e+02 Score=18.45 Aligned_cols=31 Identities=13% Similarity=0.344 Sum_probs=18.3
Q ss_pred HHHHhhhhcCCCCCchHH----HHHHhcCCCcchHH
Q psy6386 29 EIDKLKSQVQDIHVPLEV----FDYIDQGRNPQLYT 60 (116)
Q Consensus 29 ~ld~~a~~~~~~~IP~eV----l~yID~GrNPdiyT 60 (116)
-++.+++-+ +..+..+- ++.+|.|-||+-..
T Consensus 7 ~l~eiS~lL-ntgLd~etL~ici~L~e~GVnPeaLA 41 (48)
T PF12554_consen 7 VLHEISDLL-NTGLDRETLSICIELCENGVNPEALA 41 (48)
T ss_pred HHHHHHHHH-cCCCCHHHHHHHHHHHHCCCCHHHHH
Confidence 334444444 44455544 46889999998543
No 73
>PHA02750 hypothetical protein; Provisional
Probab=21.52 E-value=2.4e+02 Score=22.53 Aligned_cols=62 Identities=15% Similarity=0.335 Sum_probs=39.7
Q ss_pred hhhcccCcch--hhHHHHHHHHHHHHHHHHHhhhhcCCCCCch-------HHHHHH-hcCCCcchHHHHHHHHH
Q psy6386 4 HILNHLGEYS--KFISSFRQTMISGLQEIDKLKSQVQDIHVPL-------EVFDYI-DQGRNPQLYTKDCIEKA 67 (116)
Q Consensus 4 ~~~~~~g~~s--~~l~~~in~lV~~L~~ld~~a~~~~~~~IP~-------eVl~yI-D~GrNPdiyTre~vE~~ 67 (116)
|||.-+-.+. +++.+...-|-....++.+.++-. ++||- +++.+- -+|.|||+-.++-.+..
T Consensus 132 ~iy~yvrd~evaq~~~eardmlkaaypqirr~sdyy--isi~amel~~vadiiaeakakgen~di~ar~~aea~ 203 (240)
T PHA02750 132 EIYEYVRDFEVAQFLFEARDMLKAAYPQIRRASDYY--ISIPAMELDAVADIIAEAKAKGENDDIRARAEAEAE 203 (240)
T ss_pred HHHHHhcChhHHHHHHHHHHHHHhhhhhhhhhhhee--EecchhhchhHHHHHHHHHhcCCChHHHHHHHHHhc
Confidence 4555443333 377777776767777777776544 56665 444444 67999999888776643
No 74
>PRK07417 arogenate dehydrogenase; Reviewed
Probab=21.44 E-value=2.7e+02 Score=21.80 Aligned_cols=55 Identities=15% Similarity=0.127 Sum_probs=33.7
Q ss_pred CCCcchHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChhhHHHHHHhh
Q psy6386 53 GRNPQLYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPNELAKYRAIR 107 (116)
Q Consensus 53 GrNPdiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~~~~ir 107 (116)
+-||++|+-=|....-.-=+....-.+.+..||+.|.++=.+++-++-+.-+..|
T Consensus 220 ~~~p~~w~~i~~~N~~~i~~~l~~~~~~l~~~~~~l~~~d~~~l~~~~~~~~~~r 274 (279)
T PRK07417 220 GGNPELGVMMAEYNRAALLRSLASYRQSLDQLEELIEQENWSALEQKLEQTQELR 274 (279)
T ss_pred CCChHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 5689999877776544334556677777778888886543334444444444433
No 75
>PF09894 DUF2121: Uncharacterized protein conserved in archaea (DUF2121); InterPro: IPR016754 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. They do show distant similarity to NTPases and to nucleic acid binding enzymes.
Probab=21.44 E-value=86 Score=24.83 Aligned_cols=48 Identities=19% Similarity=0.253 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHhhChhhHHHHHH
Q psy6386 58 LYTKDCIEKALTKNEQVKGKIDAYRKFKAHMLVELSGAFPNELAKYRA 105 (116)
Q Consensus 58 iyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fPel~~~~~~ 105 (116)
-|||+.++.+.+++-..++...-....-..+.++.++.=|-+...|.-
T Consensus 127 k~~K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~ 174 (194)
T PF09894_consen 127 KFTKEIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDI 174 (194)
T ss_pred HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEE
Confidence 489999999999998866666656555566666666667766665543
No 76
>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=21.13 E-value=2e+02 Score=19.91 Aligned_cols=18 Identities=6% Similarity=-0.022 Sum_probs=11.5
Q ss_pred CcchhhHHHHHHHHHHHH
Q psy6386 10 GEYSKFISSFRQTMISGL 27 (116)
Q Consensus 10 g~~s~~l~~~in~lV~~L 27 (116)
|+++..+..++..+.+..
T Consensus 7 g~~~~~l~~Ki~~fl~lk 24 (96)
T PF07818_consen 7 GSCDPELQAKIAKFLELK 24 (96)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 666667777776655443
No 77
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic 40-residue C-terminal domain that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=20.46 E-value=1.2e+02 Score=22.91 Aligned_cols=77 Identities=10% Similarity=0.149 Sum_probs=48.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhc--------------CCCCCch----HHHHHHhc----------CCCcchHHHHHHHH
Q psy6386 15 FISSFRQTMISGLQEIDKLKSQV--------------QDIHVPL----EVFDYIDQ----------GRNPQLYTKDCIEK 66 (116)
Q Consensus 15 ~l~~~in~lV~~L~~ld~~a~~~--------------~~~~IP~----eVl~yID~----------GrNPdiyTre~vE~ 66 (116)
.++++|-.++..+..++++.--+ .+-...- +|-+.|.. .-|||+|+| |+
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vgv~~~~~~~~~~~~~iK~~Va~~Vk~~dp~~~~VyVsaDpd~~~R--i~- 130 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVGVDLTNGLEGSVTDELKEKVAETVKSTDNRIANVYVSADPDTVER--IR- 130 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEEEEcCCCcchhhHHHHHHHHHHHHHhhCCCcceEEEEcCHHHHHH--HH-
Confidence 78888888888888888774211 0122222 33433333 357777775 22
Q ss_pred HHHHhHHHhhHHHHHHHHHHHHHHHHHhhCh
Q psy6386 67 ALTKNEQVKGKIDAYRKFKAHMLVELSGAFP 97 (116)
Q Consensus 67 ~~~~Nq~~kGK~~a~~~fr~~L~~el~~~fP 97 (116)
.-.+...+|+ .+..|-+.|.+-+..-||
T Consensus 131 -~~~~~i~~G~--pv~~~~~e~~~iv~Rv~P 158 (158)
T TIGR02898 131 -RYGKGIKEGR--PVEGFLDELAEIVRRVFP 158 (158)
T ss_pred -HHHHHhHcCC--ChHHHHHHHHHHHHhcCC
Confidence 2244566774 478888888888888887
No 78
>KOG2256|consensus
Probab=20.20 E-value=2e+02 Score=26.77 Aligned_cols=47 Identities=15% Similarity=0.147 Sum_probs=31.2
Q ss_pred cCCCcchHH-HHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHH-----hhChhhHH
Q psy6386 52 QGRNPQLYT-KDCIEKALTKNEQVKGKIDAYRKFKAHMLVELS-----GAFPNELA 101 (116)
Q Consensus 52 ~GrNPdiyT-re~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~-----~~fPel~~ 101 (116)
.++++|.++ -.+=..+.+.+++..|=++. +-+.|.+.++ -+||||+-
T Consensus 486 ~~k~~D~~~~Lk~sk~~L~sk~yq~~~ieq---v~~lL~ey~a~~s~~IaFPELv~ 538 (661)
T KOG2256|consen 486 SVKPIDFDSTLKLSKRYLRSKAYQDGVIEQ---VIELLLEYFALFSKSIAFPELVL 538 (661)
T ss_pred ccCCCCeeEEeecCHHHhccHHHHHHHHHH---HHHHHHHHHHHHhccCCchhhhH
Confidence 356777763 34455667888888887764 4556666654 38999864
No 79
>PRK10597 DNA damage-inducible protein I; Provisional
Probab=20.08 E-value=1e+02 Score=20.98 Aligned_cols=23 Identities=17% Similarity=0.265 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHhhChhhH
Q psy6386 78 IDAYRKFKAHMLVELSGAFPNEL 100 (116)
Q Consensus 78 ~~a~~~fr~~L~~el~~~fPel~ 100 (116)
..|+..++..|...|...||+..
T Consensus 15 ~ga~~AL~~EL~kRl~~~fPd~~ 37 (81)
T PRK10597 15 AGAIDALAGELSRRIQYAFPDNE 37 (81)
T ss_pred hhHHHHHHHHHHHHHHhhCCCCC
Confidence 45677889999999999999975
Done!