Query psy9670
Match_columns 103
No_of_seqs 94 out of 96
Neff 4.0
Searched_HMMs 46136
Date Fri Aug 16 16:38:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9670.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9670hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10176 DUF2370: Protein of u 100.0 6.1E-46 1.3E-50 290.6 8.5 98 1-98 89-233 (233)
2 KOG4812|consensus 100.0 4.2E-45 9E-50 289.0 7.1 99 1-99 162-262 (262)
3 PF02656 DUF202: Domain of unk 94.2 0.083 1.8E-06 33.6 3.8 53 35-87 21-73 (73)
4 PF02060 ISK_Channel: Slow vol 82.2 2.2 4.8E-05 31.6 3.8 35 62-96 44-80 (129)
5 PRK02935 hypothetical protein; 73.7 4.8 0.0001 29.2 3.3 48 37-85 15-62 (110)
6 PF13239 2TM: 2TM domain 67.2 7.5 0.00016 25.3 3.0 34 56-89 37-74 (83)
7 PF12273 RCR: Chitin synthesis 65.0 7.2 0.00016 27.4 2.7 34 61-95 2-35 (130)
8 PF11023 DUF2614: Protein of u 62.9 14 0.00031 26.9 3.9 48 37-85 14-61 (114)
9 PF10066 DUF2304: Uncharacteri 48.3 30 0.00066 23.9 3.6 33 65-97 69-101 (115)
10 PF10812 DUF2561: Protein of u 45.8 23 0.00049 28.2 2.9 33 57-89 60-92 (207)
11 PF11694 DUF3290: Protein of u 43.7 31 0.00067 25.6 3.2 29 58-86 14-42 (149)
12 PF14002 YniB: YniB-like prote 42.3 46 0.001 25.7 4.0 32 60-91 77-108 (166)
13 COG3088 CcmH Uncharacterized p 41.9 40 0.00087 25.7 3.6 42 58-99 103-146 (153)
14 TIGR03141 cytochro_ccmD heme e 37.9 69 0.0015 19.0 3.5 32 60-93 8-39 (45)
15 PF11669 WBP-1: WW domain-bind 37.9 61 0.0013 22.4 3.8 27 59-85 20-46 (102)
16 PF04995 CcmD: Heme exporter p 36.6 69 0.0015 18.9 3.4 31 60-92 7-37 (46)
17 PF07332 DUF1469: Protein of u 36.2 72 0.0016 21.5 3.9 37 59-96 70-106 (121)
18 PF06628 Catalase-rel: Catalas 33.3 16 0.00035 23.2 0.3 22 79-100 8-29 (68)
19 COG2149 Predicted membrane pro 30.2 1E+02 0.0022 22.7 4.0 32 59-90 56-87 (120)
20 PRK04214 rbn ribonuclease BN/u 30.1 1.1E+02 0.0025 25.3 4.8 90 7-98 184-292 (412)
21 PF01788 PsbJ: PsbJ; InterPro 29.5 19 0.00041 21.9 0.1 11 31-41 30-40 (40)
22 PF12729 4HB_MCP_1: Four helix 29.4 91 0.002 20.6 3.5 31 63-93 9-39 (181)
23 PF09788 Tmemb_55A: Transmembr 28.4 1.4E+02 0.0029 24.5 4.8 22 58-79 228-249 (256)
24 PF06923 GutM: Glucitol operon 28.1 88 0.0019 21.9 3.3 34 63-96 2-35 (109)
25 PF10661 EssA: WXG100 protein 26.5 1.1E+02 0.0024 22.5 3.8 30 59-88 115-144 (145)
26 PF03918 CcmH: Cytochrome C bi 26.4 23 0.00051 26.1 0.1 42 58-99 99-143 (148)
27 PF14584 DUF4446: Protein of u 25.9 97 0.0021 22.9 3.4 33 61-93 2-34 (151)
28 PRK12585 putative monovalent c 25.2 97 0.0021 24.5 3.4 28 60-87 6-33 (197)
29 PF12158 DUF3592: Protein of u 24.2 1.6E+02 0.0034 19.8 3.9 26 62-87 7-32 (148)
30 PRK12586 putative monovalent c 23.9 1.1E+02 0.0025 22.7 3.4 27 60-86 9-35 (145)
31 PF02687 FtsX: FtsX-like perme 23.6 1.8E+02 0.0039 18.2 3.9 28 62-89 3-30 (121)
32 CHL00108 psbJ photosystem II p 23.4 22 0.00049 21.6 -0.4 11 31-41 30-40 (40)
33 PRK12592 putative monovalent c 23.0 1.2E+02 0.0027 22.0 3.4 32 60-91 8-39 (126)
34 PF02932 Neur_chan_memb: Neuro 22.0 85 0.0018 20.7 2.2 25 10-42 9-34 (237)
35 PF14068 YuiB: Putative membra 21.8 51 0.0011 23.6 1.2 17 11-27 13-29 (102)
36 PF10136 SpecificRecomb: Site- 21.8 51 0.0011 29.9 1.4 25 10-34 363-388 (643)
37 PRK02565 photosystem II reacti 21.7 25 0.00055 21.3 -0.4 12 30-41 28-39 (39)
38 PF00335 Tetraspannin: Tetrasp 21.1 32 0.0007 23.6 0.0 51 37-87 16-70 (221)
39 PRK12674 putative monovalent c 20.9 1.4E+02 0.003 20.4 3.2 32 60-91 4-35 (99)
40 PRK12587 putative monovalent c 20.7 1.5E+02 0.0033 21.2 3.4 32 60-91 7-38 (118)
41 PF03824 NicO: High-affinity n 20.2 1.8E+02 0.0039 22.6 4.0 27 18-44 26-52 (282)
No 1
>PF10176 DUF2370: Protein of unknown function (DUF2370); InterPro: IPR019325 Proteins in this family are conserved from fungi to humans. They include the human NEDD4 family-interacting proteins and the yeast BSD2 metal homeostatis proteins.
Probab=100.00 E-value=6.1e-46 Score=290.57 Aligned_cols=98 Identities=42% Similarity=0.761 Sum_probs=88.9
Q ss_pred CchhhhHHHHHHHHHHHHHHHHhhccccchhccccchhhHhhhhhheeccccc----------------------cC---
Q psy9670 1 MIMCCVPVAFLFNWIGFLLIICFCHTVAARYGALSGFGVSLAKWTFIVRTSTE----------------------VT--- 55 (103)
Q Consensus 1 ~F~~~f~vs~~Fq~vGFllty~LhtthAak~Gs~aGlGltliq~~~~~~~~~~----------------------~~--- 55 (103)
+||||++||++|||||||||||||||||||||||||||||||||++++|+++. +.
T Consensus 89 ~F~~n~~vs~~Fq~iGFllty~l~tthAar~Gs~aGlGltli~~~~~~~~~~~~~~~~~~~~~~~~~~~dPn~~d~~~~~ 168 (233)
T PF10176_consen 89 SFVWNFLVSFSFQWIGFLLTYCLHTTHAARYGSRAGLGLTLIKYGLIMRPSTVTSKGGKDDPPGRIEPPDPNSYDFDPSS 168 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcchHhhccchhhchHHHHhhhheEeeccCCCCCCCCCCcCccCCCCCccccCCccc
Confidence 59999999999999999999999999999999999999999999999997631 00
Q ss_pred -----------C----------CcchHHHHHHHHHHHHHHHhhhhhHHHHHHhhh-hcccchhhe
Q psy9670 56 -----------S----------HENDWLWWLIMAFGCLICIRAFLQYVTIKRSWN-TLSEQAQER 98 (103)
Q Consensus 56 -----------~----------~~~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~-~~s~~~r~r 98 (103)
+ .+++|+||+||++||||++||++||+||||||+ .+++++|||
T Consensus 169 ~~~~~~~d~~~s~~~~~~~~~~~~~~wla~~Lm~~G~fI~irsi~dY~rVKR~Er~iL~~~~r~~ 233 (233)
T PF10176_consen 169 VNAGGTVDGFTSSLSHGTDEASQSNPWLAYILMAFGWFIFIRSIIDYWRVKRMERLILSSPQREQ 233 (233)
T ss_pred ccCCCCCCCCccCcCCcccccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcccCCC
Confidence 0 137999999999999999999999999999999 668889886
No 2
>KOG4812|consensus
Probab=100.00 E-value=4.2e-45 Score=288.96 Aligned_cols=99 Identities=48% Similarity=0.959 Sum_probs=96.9
Q ss_pred CchhhhHHHHHHHHHHHHHHHHhhccccchhccccchhhHhhhhhheeccccccCCCcc--hHHHHHHHHHHHHHHHhhh
Q psy9670 1 MIMCCVPVAFLFNWIGFLLIICFCHTVAARYGALSGFGVSLAKWTFIVRTSTEVTSHEN--DWLWWLIMAFGCLICIRAF 78 (103)
Q Consensus 1 ~F~~~f~vs~~Fq~vGFllty~LhtthAak~Gs~aGlGltliq~~~~~~~~~~~~~~~~--~wl~~~lm~~G~fi~ir~i 78 (103)
||||||+||++|||||||+||||||||||||||++||||||+||.||+|+++|+++|+| +|+||++.++||+|++|++
T Consensus 162 ~F~~af~vAflFnwIGFlltycl~tT~agRYGA~~GfGLsLikwilIv~~sd~f~~y~n~q~wLwwi~~vlG~ll~lr~~ 241 (262)
T KOG4812|consen 162 IFMWAFIVAFLFNWIGFLLTYCLTTTHAGRYGAISGFGLSLIKWILIVRFSDDFESYFNGQYWLWWIFLVLGLLLFLRGF 241 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhhhhccchhhheeeEEeecccccccccccchHHHHHHHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999999999865 9999999999999999999
Q ss_pred hhHHHHHHhhhhcccchhhee
Q psy9670 79 LQYVTIKRSWNTLSEQAQERF 99 (103)
Q Consensus 79 ~~Y~rvkr~e~~~s~~~r~r~ 99 (103)
+||+||||||+++|.++|+|+
T Consensus 242 i~YikVrrm~~~~s~~~q~r~ 262 (262)
T KOG4812|consen 242 INYIKVRRMEEKYSNQSQTRA 262 (262)
T ss_pred HhHHHHhhHHHHHhcccccCC
Confidence 999999999999999999995
No 3
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=94.24 E-value=0.083 Score=33.55 Aligned_cols=53 Identities=21% Similarity=0.334 Sum_probs=35.4
Q ss_pred cchhhHhhhhhheeccccccCCCcchHHHHHHHHHHHHHHHhhhhhHHHHHHh
Q psy9670 35 SGFGVSLAKWTFIVRTSTEVTSHENDWLWWLIMAFGCLICIRAFLQYVTIKRS 87 (103)
Q Consensus 35 aGlGltliq~~~~~~~~~~~~~~~~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~ 87 (103)
.+.|+.+.+........+..+..-...+..+++++|.++++.|..+|.+++||
T Consensus 21 ~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ry~~~~~~ 73 (73)
T PF02656_consen 21 VGVGLALLRFFSLDHPSSSASRRVSKVLGLLLIVLGLLTLIYGIYRYRRRRRW 73 (73)
T ss_pred HHHHHHHHHhccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34555555554332221111122347789999999999999999999999985
No 4
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=82.15 E-value=2.2 Score=31.60 Aligned_cols=35 Identities=17% Similarity=0.376 Sum_probs=22.0
Q ss_pred HHHHHHHHHHH--HHHhhhhhHHHHHHhhhhcccchh
Q psy9670 62 LWWLIMAFGCL--ICIRAFLQYVTIKRSWNTLSEQAQ 96 (103)
Q Consensus 62 l~~~lm~~G~f--i~ir~i~~Y~rvkr~e~~~s~~~r 96 (103)
..|+|+++|+| +.+.=+++|+|-||.|++=+|=|+
T Consensus 44 ~lYIL~vmgfFgff~~gImlsyvRSKK~E~s~DPyh~ 80 (129)
T PF02060_consen 44 YLYILVVMGFFGFFTVGIMLSYVRSKKREHSHDPYHQ 80 (129)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHHHHHHH-----TTTT
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHhhhccccChHHH
Confidence 47899998887 334457899999999997776553
No 5
>PRK02935 hypothetical protein; Provisional
Probab=73.67 E-value=4.8 Score=29.19 Aligned_cols=48 Identities=27% Similarity=0.264 Sum_probs=36.4
Q ss_pred hhhHhhhhhheeccccccCCCcchHHHHHHHHHHHHHHHhhhhhHHHHH
Q psy9670 37 FGVSLAKWTFIVRTSTEVTSHENDWLWWLIMAFGCLICIRAFLQYVTIK 85 (103)
Q Consensus 37 lGltliq~~~~~~~~~~~~~~~~~wl~~~lm~~G~fi~ir~i~~Y~rvk 85 (103)
++|+++--|+++++-.-+. .+++|+.-++|++|++.++-|.+-|..+-
T Consensus 15 ~aL~lvfiG~~vMy~Giff-~~~~~~m~ifm~~G~l~~l~S~vvYFwiG 62 (110)
T PRK02935 15 FALSLVFIGFIVMYLGIFF-RESIIIMTIFMLLGFLAVIASTVVYFWIG 62 (110)
T ss_pred HHHHHHHHHHHHHHHHHHh-cccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5666666666666554222 46789999999999999999999888765
No 6
>PF13239 2TM: 2TM domain
Probab=67.16 E-value=7.5 Score=25.32 Aligned_cols=34 Identities=21% Similarity=0.306 Sum_probs=25.8
Q ss_pred CCcchHHHHHHHHHHHHHHHhhhhhH----HHHHHhhh
Q psy9670 56 SHENDWLWWLIMAFGCLICIRAFLQY----VTIKRSWN 89 (103)
Q Consensus 56 ~~~~~wl~~~lm~~G~fi~ir~i~~Y----~rvkr~e~ 89 (103)
+.+..|..|.++.-|..+.+.++.-| ...|++|+
T Consensus 37 ~~~~~W~~~~~~~Wgi~L~~h~~~vf~~~~~~~~~We~ 74 (83)
T PF13239_consen 37 GPGYFWPLWPILGWGIGLAIHALKVFGSKYFFGKDWEE 74 (83)
T ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHcccccccchHHH
Confidence 34556999999999999999998765 44556666
No 7
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=64.96 E-value=7.2 Score=27.41 Aligned_cols=34 Identities=18% Similarity=0.319 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHhhhhcccch
Q psy9670 61 WLWWLIMAFGCLICIRAFLQYVTIKRSWNTLSEQA 95 (103)
Q Consensus 61 wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~~~ 95 (103)
|+.++++++.++|++-++.- .+.||..+...+..
T Consensus 2 W~l~~iii~~i~l~~~~~~~-~~rRR~r~G~~P~~ 35 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYC-HNRRRRRRGLQPIY 35 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHH-HHHHHhhcCCCCcC
Confidence 78888888777777766532 24455444454433
No 8
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=62.87 E-value=14 Score=26.88 Aligned_cols=48 Identities=21% Similarity=0.184 Sum_probs=35.3
Q ss_pred hhhHhhhhhheeccccccCCCcchHHHHHHHHHHHHHHHhhhhhHHHHH
Q psy9670 37 FGVSLAKWTFIVRTSTEVTSHENDWLWWLIMAFGCLICIRAFLQYVTIK 85 (103)
Q Consensus 37 lGltliq~~~~~~~~~~~~~~~~~wl~~~lm~~G~fi~ir~i~~Y~rvk 85 (103)
++|+|+--|+++++-.-+- ..++|+..++|++|.+..+-|.+-|.-+=
T Consensus 14 ~al~lif~g~~vmy~gi~f-~~~~~im~ifmllG~L~~l~S~~VYfwIG 61 (114)
T PF11023_consen 14 FALSLIFIGMIVMYIGIFF-KASPIIMVIFMLLGLLAILASTAVYFWIG 61 (114)
T ss_pred HHHHHHHHHHHHHhhhhhh-cccHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5667777777777654222 35689999999999998888888887553
No 9
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=48.29 E-value=30 Score=23.88 Aligned_cols=33 Identities=27% Similarity=0.241 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHhhhhcccchhh
Q psy9670 65 LIMAFGCLICIRAFLQYVTIKRSWNTLSEQAQE 97 (103)
Q Consensus 65 ~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~~~r~ 97 (103)
++.+.-.++++..+..|.++.|+|+++....||
T Consensus 69 lf~~~i~~ll~~~~~l~~~is~le~~i~~L~qe 101 (115)
T PF10066_consen 69 LFYLGILFLLVIIFSLYVRISRLEEKIKRLAQE 101 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444556677888999999999998877776
No 10
>PF10812 DUF2561: Protein of unknown function (DUF2561); InterPro: IPR024381 This family of proteins with unknown function appears to be found predominantly in Mycobacterium spp.
Probab=45.81 E-value=23 Score=28.21 Aligned_cols=33 Identities=9% Similarity=0.260 Sum_probs=30.4
Q ss_pred CcchHHHHHHHHHHHHHHHhhhhhHHHHHHhhh
Q psy9670 57 HENDWLWWLIMAFGCLICIRAFLQYVTIKRSWN 89 (103)
Q Consensus 57 ~~~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~ 89 (103)
.+++|+-|..+++...+.+-++-=-+|+||+.+
T Consensus 60 s~T~WvLY~VI~VSaaVIagAVPlLLRARR~a~ 92 (207)
T PF10812_consen 60 SGTPWVLYAVIGVSAAVIAGAVPLLLRARRMAQ 92 (207)
T ss_pred CCCCEeehHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 357999999999999999999999999999766
No 11
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=43.69 E-value=31 Score=25.58 Aligned_cols=29 Identities=24% Similarity=0.526 Sum_probs=25.8
Q ss_pred cchHHHHHHHHHHHHHHHhhhhhHHHHHH
Q psy9670 58 ENDWLWWLIMAFGCLICIRAFLQYVTIKR 86 (103)
Q Consensus 58 ~~~wl~~~lm~~G~fi~ir~i~~Y~rvkr 86 (103)
-++|+.++++++..++++-..+-|+|-|+
T Consensus 14 ~~~~~~~~~i~~ll~~l~~~~~~Y~r~r~ 42 (149)
T PF11694_consen 14 QNDYLRYILIIILLLVLIFFFIKYLRNRL 42 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 36899999999999999999999999874
No 12
>PF14002 YniB: YniB-like protein
Probab=42.26 E-value=46 Score=25.66 Aligned_cols=32 Identities=13% Similarity=0.185 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhc
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRSWNTL 91 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~ 91 (103)
=|+.|++|.+|.-+...|---+.|+|..++.+
T Consensus 77 F~vIy~liFvGlAL~aSG~rm~rqvk~ire~I 108 (166)
T PF14002_consen 77 FWVIYLLIFVGLALQASGARMSRQVKFIREGI 108 (166)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhH
Confidence 68899999999999999999999999877655
No 13
>COG3088 CcmH Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]
Probab=41.90 E-value=40 Score=25.66 Aligned_cols=42 Identities=17% Similarity=0.185 Sum_probs=20.5
Q ss_pred cchHHHHHHHHHHHHHHHhhhhhHHHHH--Hhhhhcccchhhee
Q psy9670 58 ENDWLWWLIMAFGCLICIRAFLQYVTIK--RSWNTLSEQAQERF 99 (103)
Q Consensus 58 ~~~wl~~~lm~~G~fi~ir~i~~Y~rvk--r~e~~~s~~~r~r~ 99 (103)
.++|+-|++=++=.++-..-+..+.|-| ..++.+|+++++|+
T Consensus 103 ~~T~lLW~~Pv~llllG~~~~~~~~rrr~~~~~~~Ls~ee~~rl 146 (153)
T COG3088 103 GQTLLLWGLPVVLLLLGGVLLVRRARRRVREPPQTLSAEEEARL 146 (153)
T ss_pred hhHHHHHHhHHHHHHHHHHHHHHHHhhhhccCCCCCChhHHHHH
Confidence 4678777654332222222222333333 23347888777764
No 14
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=37.88 E-value=69 Score=18.97 Aligned_cols=32 Identities=22% Similarity=0.117 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhccc
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRSWNTLSE 93 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~ 93 (103)
=|.+|.+-++.+..++-.. ..+-|+..+.+..
T Consensus 8 VW~sYg~t~l~l~~li~~~--~~~~r~~~~~l~~ 39 (45)
T TIGR03141 8 VWLAYGITALVLAGLILWS--LLDRRRLLRELRR 39 (45)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 4888888776664443222 3444555445533
No 15
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=37.86 E-value=61 Score=22.41 Aligned_cols=27 Identities=15% Similarity=0.362 Sum_probs=13.5
Q ss_pred chHHHHHHHHHHHHHHHhhhhhHHHHH
Q psy9670 59 NDWLWWLIMAFGCLICIRAFLQYVTIK 85 (103)
Q Consensus 59 ~~wl~~~lm~~G~fi~ir~i~~Y~rvk 85 (103)
+.|..|++.++..++..=.+..+.|.|
T Consensus 20 ~~w~FWlv~~liill~c~c~~~~~r~r 46 (102)
T PF11669_consen 20 ELWYFWLVWVLIILLSCCCACRHRRRR 46 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555554454444444445555554
No 16
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=36.57 E-value=69 Score=18.95 Aligned_cols=31 Identities=16% Similarity=0.035 Sum_probs=16.2
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhcc
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRSWNTLS 92 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s 92 (103)
=|.+|.+-++-+..++-. ...+-|+..+.+.
T Consensus 7 VW~sYg~t~~~l~~l~~~--~~~~~r~~~~~l~ 37 (46)
T PF04995_consen 7 VWSSYGVTALVLAGLIVW--SLRRRRRLRKELK 37 (46)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 378887776544433322 2445555555443
No 17
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=36.22 E-value=72 Score=21.49 Aligned_cols=37 Identities=19% Similarity=0.309 Sum_probs=18.8
Q ss_pred chHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhcccchh
Q psy9670 59 NDWLWWLIMAFGCLICIRAFLQYVTIKRSWNTLSEQAQ 96 (103)
Q Consensus 59 ~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~~~r 96 (103)
++|.+..+ +.|.++.+-.+.-....||..+.-.+.++
T Consensus 70 ~~~~a~li-v~~~~l~la~i~~~~~~~~l~~~~~~~~~ 106 (121)
T PF07332_consen 70 PPWLAFLI-VAGLYLLLALILLLIGRRRLRRAPPPFEE 106 (121)
T ss_pred hHHHHHHH-HHHHHHHHHHHHHHHHHHHHhcCCCCHHH
Confidence 45644333 44555555565656666666543333333
No 18
>PF06628 Catalase-rel: Catalase-related immune-responsive; InterPro: IPR010582 Catalases (1.11.1.6 from EC) are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen, serving to protect cells from its toxic effects []. Hydrogen peroxide is produced as a consequence of oxidative cellular metabolism and can be converted to the highly reactive hydroxyl radical via transition metals, this radical being able to damage a wide variety of molecules within a cell, leading to oxidative stress and cell death. Catalases act to neutralise hydrogen peroxide toxicity, and are produced by all aerobic organisms ranging from bacteria to man. Most catalases are mono-functional, haem-containing enzymes, although there are also bifunctional haem-containing peroxidase/catalases (IPR000763 from INTERPRO) that are closely related to plant peroxidases, and non-haem, manganese-containing catalases (IPR007760 from INTERPRO) that are found in bacteria []. This entry represents a small conserved region within catalase enzymes that carries the immune-responsive amphipathic octa-peptide that is recognised by T cells [].; PDB: 2CAH_A 1NM0_A 1H7K_A 1E93_A 1H6N_A 3HB6_A 2CAG_A 1M85_A 1MQF_A 1A4E_C ....
Probab=33.31 E-value=16 Score=23.21 Aligned_cols=22 Identities=18% Similarity=0.416 Sum_probs=18.9
Q ss_pred hhHHHHHHhhhhcccchhheee
Q psy9670 79 LQYVTIKRSWNTLSEQAQERFF 100 (103)
Q Consensus 79 ~~Y~rvkr~e~~~s~~~r~r~~ 100 (103)
-||-.++..++.+++.+|+|+.
T Consensus 8 ddf~Qa~~ly~~l~~~er~~lv 29 (68)
T PF06628_consen 8 DDFSQARDLYRVLSDEERERLV 29 (68)
T ss_dssp CSSHHHHHHHHHSSHHHHHHHH
T ss_pred cchhhHHHHHHHCCHHHHHHHH
Confidence 4788899999999999999863
No 19
>COG2149 Predicted membrane protein [Function unknown]
Probab=30.23 E-value=1e+02 Score=22.71 Aligned_cols=32 Identities=16% Similarity=0.324 Sum_probs=27.8
Q ss_pred chHHHHHHHHHHHHHHHhhhhhHHHHHHhhhh
Q psy9670 59 NDWLWWLIMAFGCLICIRAFLQYVTIKRSWNT 90 (103)
Q Consensus 59 ~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~ 90 (103)
.+=+..+++++|..+..-|...|.|++|-++.
T Consensus 56 r~~lg~fii~~gil~~a~g~~r~~~~~~amrr 87 (120)
T COG2149 56 RELLGVFLILVGILLAALGALRWQRVERAMRR 87 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 36677888889999999999999999988874
No 20
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=30.10 E-value=1.1e+02 Score=25.32 Aligned_cols=90 Identities=14% Similarity=0.200 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHHHhhccccchh------ccccchhhHhhhhhh--eecccc-ccCCCcc----------hHHHHHHH
Q psy9670 7 PVAFLFNWIGFLLIICFCHTVAARY------GALSGFGVSLAKWTF--IVRTST-EVTSHEN----------DWLWWLIM 67 (103)
Q Consensus 7 ~vs~~Fq~vGFllty~LhtthAak~------Gs~aGlGltliq~~~--~~~~~~-~~~~~~~----------~wl~~~lm 67 (103)
++++...+++|.+-|..-.+.--|. |-.|+.+..+.||++ |+.+.. +-.-||. -+++|.+.
T Consensus 184 ~~~~~~~~~~f~~lY~~~Pn~~v~~r~al~Gai~a~vl~~~~~~~f~~yv~~~~~y~~iYGs~a~v~i~LlWlyls~~I~ 263 (412)
T PRK04214 184 LAPLAFETVCLTLLYRVVPNHFVPLRHALPGALLTAVLLELVKWGFGFYLGNFQTYQRIYGAFAAVPILLLWIYLLWVLV 263 (412)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccchHHhHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677778877777766554443 456788888888744 444322 2222331 23455566
Q ss_pred HHHHHHHHhhhhhHHHHHHhhhhcccchhhe
Q psy9670 68 AFGCLICIRAFLQYVTIKRSWNTLSEQAQER 98 (103)
Q Consensus 68 ~~G~fi~ir~i~~Y~rvkr~e~~~s~~~r~r 98 (103)
.+|--+. +..+++|.++.++..++.+|++
T Consensus 264 L~Gael~--~~~~~~~~~~~~~~~~~~~~~~ 292 (412)
T PRK04214 264 LLGASLT--SSLSYWRGQPFRRRLPSGGRFY 292 (412)
T ss_pred HHHHHHH--HHHHHHhccccccCCCcchhHH
Confidence 6666543 3345666666556666666654
No 21
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=29.48 E-value=19 Score=21.91 Aligned_cols=11 Identities=64% Similarity=1.153 Sum_probs=8.3
Q ss_pred hccccchhhHh
Q psy9670 31 YGALSGFGVSL 41 (103)
Q Consensus 31 ~Gs~aGlGltl 41 (103)
|||-+|+|-+|
T Consensus 30 YGsYsGlGSsl 40 (40)
T PF01788_consen 30 YGSYSGLGSSL 40 (40)
T ss_dssp HCTTTSTTS--
T ss_pred ecccCCcccCC
Confidence 89999999775
No 22
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=29.40 E-value=91 Score=20.60 Aligned_cols=31 Identities=10% Similarity=0.005 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHhhhhhHHHHHHhhhhccc
Q psy9670 63 WWLIMAFGCLICIRAFLQYVTIKRSWNTLSE 93 (103)
Q Consensus 63 ~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~ 93 (103)
...+.++..++++-|++.+...+++.+.+..
T Consensus 9 ~~~f~~~~~l~~~~~~~~~~~l~~~~~~~~~ 39 (181)
T PF12729_consen 9 ILGFGLIILLLLIVGIVGLYSLSQINQNVEE 39 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666677788889999999888776654
No 23
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=28.43 E-value=1.4e+02 Score=24.54 Aligned_cols=22 Identities=14% Similarity=0.158 Sum_probs=18.3
Q ss_pred cchHHHHHHHHHHHHHHHhhhh
Q psy9670 58 ENDWLWWLIMAFGCLICIRAFL 79 (103)
Q Consensus 58 ~~~wl~~~lm~~G~fi~ir~i~ 79 (103)
+-++.|..+++++++.++||+.
T Consensus 228 giY~~wv~~~l~a~~~~~rs~y 249 (256)
T PF09788_consen 228 GIYVSWVGLFLIALICLIRSIY 249 (256)
T ss_pred cEeHHHHHHHHHHHHHHHHhhe
Confidence 4567888888899999999983
No 24
>PF06923 GutM: Glucitol operon activator protein (GutM); InterPro: IPR009693 This family consists of several glucitol operon activator (GutM) proteins. Expression of the glucitol (gut) operon in Escherichia coli is regulated by an unusual, complex system, which consists of an activator (encoded by the gutM gene) and a repressor (encoded by the gutR gene) in addition to the cAMP-CRP complex (CRP, cAMP receptor protein). Synthesis of the mRNA, which initiates at the promoter specific to the gutR gene, occurs within the gutM gene. Expressional control of the gut operon appears to occur as a consequence of the antagonistic action of the products of the autogenously regulated gutM and gutR genes [].
Probab=28.15 E-value=88 Score=21.88 Aligned_cols=34 Identities=18% Similarity=0.169 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhhhhhHHHHHHhhhhcccchh
Q psy9670 63 WWLIMAFGCLICIRAFLQYVTIKRSWNTLSEQAQ 96 (103)
Q Consensus 63 ~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~~~r 96 (103)
++++.++....++.++..|+++|+--+.+..-.|
T Consensus 2 ~~lii~~~~~~~lQ~~l~~~Qik~f~~~~~~l~~ 35 (109)
T PF06923_consen 2 IILIILLVIAWLLQILLGWFQIKNFNKAYKELRK 35 (109)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3556667778889999999999999887766544
No 25
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=26.55 E-value=1.1e+02 Score=22.48 Aligned_cols=30 Identities=13% Similarity=0.283 Sum_probs=20.3
Q ss_pred chHHHHHHHHHHHHHHHhhhhhHHHHHHhh
Q psy9670 59 NDWLWWLIMAFGCLICIRAFLQYVTIKRSW 88 (103)
Q Consensus 59 ~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e 88 (103)
.++.+++++++|-.|++-+..=|.-.|+.+
T Consensus 115 ~~~~~~i~~~i~g~ll~i~~giy~~~r~~~ 144 (145)
T PF10661_consen 115 KPISPTILLSIGGILLAICGGIYVVLRKVW 144 (145)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 466667777776666665555688788765
No 26
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=26.36 E-value=23 Score=26.06 Aligned_cols=42 Identities=24% Similarity=0.322 Sum_probs=0.0
Q ss_pred cchHHHHHHHHHHHHHHHhhhhhHHHHHHhh---hhcccchhhee
Q psy9670 58 ENDWLWWLIMAFGCLICIRAFLQYVTIKRSW---NTLSEQAQERF 99 (103)
Q Consensus 58 ~~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e---~~~s~~~r~r~ 99 (103)
+..|+.|+.=++.+.+-+-.+.-++|.+|-. +.+|+++|+|+
T Consensus 99 ~~~~~lW~~P~~~l~~g~~~~~~~~rr~~~~~~~~~ls~~e~~rl 143 (148)
T PF03918_consen 99 GFTWLLWLGPFLLLLLGGALLFRRLRRWRRRAAQEELSEEERRRL 143 (148)
T ss_dssp ---------------------------------------------
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCCCHHHHHHH
Confidence 4577777665544444444444455555444 35788888875
No 27
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=25.93 E-value=97 Score=22.94 Aligned_cols=33 Identities=3% Similarity=0.149 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHhhhhccc
Q psy9670 61 WLWWLIMAFGCLICIRAFLQYVTIKRSWNTLSE 93 (103)
Q Consensus 61 wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~s~ 93 (103)
|+..++.++-..+++..++...|.+|+.+++..
T Consensus 2 ~i~i~l~~l~iilli~~~~~~~kl~kl~r~Y~~ 34 (151)
T PF14584_consen 2 YIIIGLLVLVIILLILIIILNIKLRKLKRRYDA 34 (151)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666677777888889999999999887644
No 28
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=25.19 E-value=97 Score=24.49 Aligned_cols=28 Identities=14% Similarity=0.288 Sum_probs=23.9
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHh
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRS 87 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~ 87 (103)
+|+..+++++|.++++-|.++-+|-.--
T Consensus 6 eiI~~vLLliG~~f~ligaIGLlRfPD~ 33 (197)
T PRK12585 6 EIIISIMILIGGLLSILAAIGVIRLPDV 33 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCcH
Confidence 6889999999999999999988875543
No 29
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=24.22 E-value=1.6e+02 Score=19.82 Aligned_cols=26 Identities=19% Similarity=0.335 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHh
Q psy9670 62 LWWLIMAFGCLICIRAFLQYVTIKRS 87 (103)
Q Consensus 62 l~~~lm~~G~fi~ir~i~~Y~rvkr~ 87 (103)
++.++.++|++++..+...+.+.++.
T Consensus 7 ~~~i~l~~g~~~~~~~~~~~~~~~~~ 32 (148)
T PF12158_consen 7 FGIIFLLIGLVLLIGGIFLYWRRKRR 32 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677789999999998888774433
No 30
>PRK12586 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=23.90 E-value=1.1e+02 Score=22.75 Aligned_cols=27 Identities=11% Similarity=0.298 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHH
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKR 86 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr 86 (103)
+|+..+++++|.++++-|.++-+|-.-
T Consensus 9 ~il~~ill~lG~~f~ligaIGllRfPD 35 (145)
T PRK12586 9 SLIAAIMILLGSIIALISAIGIVKFQD 35 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 799999999999999999988887543
No 31
>PF02687 FtsX: FtsX-like permease family; InterPro: IPR003838 This domain is found in predicted permeases and hypothetical transmembrane proteins. P57382 from SWISSPROT has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both P57382 and O54500 from SWISSPROT have been shown to require ATP. This domain contains three transmembrane helices.; GO: 0016020 membrane
Probab=23.64 E-value=1.8e+02 Score=18.20 Aligned_cols=28 Identities=11% Similarity=0.100 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHhhh
Q psy9670 62 LWWLIMAFGCLICIRAFLQYVTIKRSWN 89 (103)
Q Consensus 62 l~~~lm~~G~fi~ir~i~~Y~rvkr~e~ 89 (103)
+.+++++++.+++...+..+.+.||.|-
T Consensus 3 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~ 30 (121)
T PF02687_consen 3 ISVLLLLIAIFILFNIISSSIRERRREI 30 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566777888888888888888888775
No 32
>CHL00108 psbJ photosystem II protein J
Probab=23.39 E-value=22 Score=21.58 Aligned_cols=11 Identities=64% Similarity=1.153 Sum_probs=9.2
Q ss_pred hccccchhhHh
Q psy9670 31 YGALSGFGVSL 41 (103)
Q Consensus 31 ~Gs~aGlGltl 41 (103)
|||-+|+|-+|
T Consensus 30 yGsY~GlGSsl 40 (40)
T CHL00108 30 YGSYSGLGSSL 40 (40)
T ss_pred eecccccCCCC
Confidence 89999999764
No 33
>PRK12592 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=23.05 E-value=1.2e+02 Score=22.01 Aligned_cols=32 Identities=9% Similarity=0.267 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhc
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRSWNTL 91 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~ 91 (103)
+|+.++++++|.++++-|-++-+|=..-=.++
T Consensus 8 ~il~~~lll~G~~f~l~gaiGllRfPD~ytRl 39 (126)
T PRK12592 8 DIVSLVFILSGAFLSFSASIGLIRFRDTMSRV 39 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHc
Confidence 78899999999999999998888754433333
No 34
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=21.98 E-value=85 Score=20.72 Aligned_cols=25 Identities=20% Similarity=0.557 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHhhccccchhc-cccchhhHhh
Q psy9670 10 FLFNWIGFLLIICFCHTVAARYG-ALSGFGVSLA 42 (103)
Q Consensus 10 ~~Fq~vGFllty~LhtthAak~G-s~aGlGltli 42 (103)
....|+||.+- .+-| +|-+||+|.+
T Consensus 9 ~~~s~~~f~~~--------~~~~~~rv~l~it~l 34 (237)
T PF02932_consen 9 VVLSWLSFWLP--------PESGPERVTLGITTL 34 (237)
T ss_dssp HHHHHHHHHHH--------HHSTHHHHHHHHHHH
T ss_pred HHHHHhheEeC--------ccccccccccchhHH
Confidence 34568888864 4556 8899999865
No 35
>PF14068 YuiB: Putative membrane protein
Probab=21.84 E-value=51 Score=23.59 Aligned_cols=17 Identities=41% Similarity=0.489 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHhhccc
Q psy9670 11 LFNWIGFLLIICFCHTV 27 (103)
Q Consensus 11 ~Fq~vGFllty~Lhtth 27 (103)
.|==|||+|.++|-||=
T Consensus 13 lfFGIGFiLNMLLr~TW 29 (102)
T PF14068_consen 13 LFFGIGFILNMLLRMTW 29 (102)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44469999999999884
No 36
>PF10136 SpecificRecomb: Site-specific recombinase; InterPro: IPR011385 This group represents a site-specific recombinase Gcr. Please see the following relevant reference: [].
Probab=21.75 E-value=51 Score=29.90 Aligned_cols=25 Identities=36% Similarity=0.459 Sum_probs=21.0
Q ss_pred HHHH-HHHHHHHHHhhccccchhccc
Q psy9670 10 FLFN-WIGFLLIICFCHTVAARYGAL 34 (103)
Q Consensus 10 ~~Fq-~vGFllty~LhtthAak~Gs~ 34 (103)
.++| -+||++-++||-|.|.|+=|.
T Consensus 363 ~slNYa~gFvlI~llhfTvATKQPAM 388 (643)
T PF10136_consen 363 ASLNYALGFVLIHLLHFTVATKQPAM 388 (643)
T ss_pred HHHHHHHHHHHHHHHhhhhhcCChHh
Confidence 4455 589999999999999998664
No 37
>PRK02565 photosystem II reaction center protein J; Provisional
Probab=21.73 E-value=25 Score=21.25 Aligned_cols=12 Identities=50% Similarity=0.938 Sum_probs=9.5
Q ss_pred hhccccchhhHh
Q psy9670 30 RYGALSGFGVSL 41 (103)
Q Consensus 30 k~Gs~aGlGltl 41 (103)
=|||-+|+|-++
T Consensus 28 fyGsY~GlGSsl 39 (39)
T PRK02565 28 FYGSYAGLGSSL 39 (39)
T ss_pred EeecccccCCCC
Confidence 389999999764
No 38
>PF00335 Tetraspannin: Tetraspanin family RDS_ROM1 subfamily; InterPro: IPR018499 A number of eukaryotic CD antigens have been shown to be related []. CD9 (also called DRAP-27, MRP-1 or p24) upregulates HB-EGF activity as a receptor for diphtheria toxin as well as its juxtacrine activity. CD9 mAbs modulate cell adhesion and migration and trigger platelet activation that is blocked by mAbs directed to the platelet Fc receptor CD32. In mice, CD9 mAb KMC8.8 has been shown to inhibit the production of myeloid cells in vitro and has a costimulatory activity for T cells. CD9 is a type III membrane protein, with four putative transmembrane domains. CD37 (or gp52-40) is involved in signal transduction and serves as a stable marker for malignancies derived from mature B cells, like B-CLL, HCL, and all types of B-NHL. CD63 transfection reduced melanoma cell motility on fibronectin, collagen and laminin, and reduced the growth and metastasis of melanoma cells in nude mice []. CD63 has been used as a marker for late endosomes and for primary melanomas. These proteins are all type II membrane proteins: they contain an N-terminal transmembrane (TM) domain, which acts both as a signal sequence and a membrane anchor, and 3 additional TM regions (hence the name 'TM4'). The sequences contain a number of conserved cysteine residues. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0016021 integral to membrane; PDB: 1IV5_A 1G8Q_A.
Probab=21.06 E-value=32 Score=23.63 Aligned_cols=51 Identities=18% Similarity=0.270 Sum_probs=0.0
Q ss_pred hhhHhhhhhheec-ccccc---CCCcchHHHHHHHHHHHHHHHhhhhhHHHHHHh
Q psy9670 37 FGVSLAKWTFIVR-TSTEV---TSHENDWLWWLIMAFGCLICIRAFLQYVTIKRS 87 (103)
Q Consensus 37 lGltliq~~~~~~-~~~~~---~~~~~~wl~~~lm~~G~fi~ir~i~~Y~rvkr~ 87 (103)
+|+.++..+.+++ ...+. ..+......++++.+|.++++-++++..=++|.
T Consensus 16 ~g~~li~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~~~~~~~~~G~~~~~~~ 70 (221)
T PF00335_consen 16 LGLALIGVGIWLLVNNQYLSEFSSSFISYVIIILIFIGIFILIISFLGCIGACRK 70 (221)
T ss_dssp -------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHhhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4555555555552 22211 122345666677778888887788877766643
No 39
>PRK12674 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=20.89 E-value=1.4e+02 Score=20.42 Aligned_cols=32 Identities=9% Similarity=0.313 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhc
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRSWNTL 91 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~ 91 (103)
||+..+++++|.+..+-+.++-+|-+.-=.++
T Consensus 4 ~il~~~ll~~G~~f~~~gaiGllR~pD~y~Rl 35 (99)
T PRK12674 4 EIIVSVLLLLGAFFALVGAIGLVRLPDVYTRL 35 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccHHHHh
Confidence 68899999999999999998888755433333
No 40
>PRK12587 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=20.69 E-value=1.5e+02 Score=21.23 Aligned_cols=32 Identities=16% Similarity=0.212 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHhhhhhHHHHHHhhhhc
Q psy9670 60 DWLWWLIMAFGCLICIRAFLQYVTIKRSWNTL 91 (103)
Q Consensus 60 ~wl~~~lm~~G~fi~ir~i~~Y~rvkr~e~~~ 91 (103)
+|+..+++++|.+.++-|.++-+|-+.-=.++
T Consensus 7 ~~l~~ill~~G~~~~ligaiGllR~PD~y~Rl 38 (118)
T PRK12587 7 ISLALIFVIIGALISALAAIGLLRLEDVYSRA 38 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHh
Confidence 78999999999999999988877755433333
No 41
>PF03824 NicO: High-affinity nickel-transport protein; InterPro: IPR011541 High affinity nickel transporters are involved in the incorporation of nickel into H2-uptake hydrogenase [, ] and urease [] enzymes and are essential for the expression of catalytically active hydrogenase and urease. Ion uptake is dependent on proton motive force. HoxN in Ralstonia eutropha (Alcaligenes eutrophus) is thought to be an integral membrane protein with seven transmembrane helices []. The family also includes a cobalt transporter. ; GO: 0046872 metal ion binding, 0030001 metal ion transport, 0055085 transmembrane transport, 0016021 integral to membrane
Probab=20.21 E-value=1.8e+02 Score=22.56 Aligned_cols=27 Identities=26% Similarity=0.289 Sum_probs=23.6
Q ss_pred HHHHHhhccccchhccccchhhHhhhh
Q psy9670 18 LLIICFCHTVAARYGALSGFGVSLAKW 44 (103)
Q Consensus 18 llty~LhtthAak~Gs~aGlGltliq~ 44 (103)
..+|....-.+-|.|...|+|.++.+-
T Consensus 26 ~~~~~~~~~~~~~~g~~~~lg~s~~~~ 52 (282)
T PF03824_consen 26 IASYLLSSRRALRVGLFFGLGHSLTHG 52 (282)
T ss_pred HHHHHhhcCchHHHHHHHHHHHHHHHH
Confidence 458888888899999999999999985
Done!