Query 030229
Match_columns 181
No_of_seqs 14 out of 16
Neff 1.7
Searched_HMMs 46136
Date Fri Mar 29 10:32:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030229hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12083 DUF3560: Domain of un 80.9 12 0.00026 29.5 7.7 39 94-132 39-77 (126)
2 PF04648 MF_alpha: Yeast matin 78.6 1.2 2.5E-05 24.2 1.0 11 90-100 2-12 (13)
3 TIGR01541 tape_meas_lam_C phag 67.8 57 0.0012 28.9 9.3 59 115-175 22-94 (332)
4 PRK06569 F0F1 ATP synthase sub 55.8 1.1E+02 0.0024 24.9 9.2 29 151-179 79-107 (155)
5 COG4942 Membrane-bound metallo 48.1 2.1E+02 0.0045 27.0 9.8 37 139-176 233-269 (420)
6 PF07946 DUF1682: Protein of u 42.1 1.9E+02 0.004 25.0 8.1 44 112-155 258-301 (321)
7 KOG4661 Hsp27-ERE-TATA-binding 39.8 2.5E+02 0.0054 28.8 9.5 39 137-175 639-678 (940)
8 PF07586 HXXSHH: Protein of un 38.5 67 0.0015 26.9 4.8 59 95-153 124-200 (302)
9 PF11875 DUF3395: Domain of un 37.1 2.1E+02 0.0045 22.6 7.4 18 142-159 25-42 (151)
10 PLN03086 PRLI-interacting fact 35.5 2.9E+02 0.0062 26.9 8.9 10 127-136 13-22 (567)
11 PTZ00121 MAEBL; Provisional 34.2 2.1E+02 0.0045 32.0 8.4 14 114-127 1573-1586(2084)
12 PF06364 DUF1068: Protein of u 31.9 1.1E+02 0.0023 26.2 4.9 19 120-138 105-123 (176)
13 PF14966 DNA_repr_REX1B: DNA r 31.0 53 0.0012 24.4 2.7 36 144-179 54-89 (97)
14 KOG2077 JNK/SAPK-associated pr 30.9 3.2E+02 0.007 27.9 8.7 45 126-172 362-421 (832)
15 cd07651 F-BAR_PombeCdc15_like 29.6 3E+02 0.0065 22.2 9.6 18 159-176 188-205 (236)
16 PTZ00266 NIMA-related protein 29.3 4.7E+02 0.01 27.1 9.7 65 111-176 432-498 (1021)
17 PF05400 FliT: Flagellar prote 28.4 66 0.0014 21.0 2.6 18 153-171 1-18 (84)
18 PF11092 Alveol-reg_P311: Neur 28.2 41 0.0009 25.0 1.7 29 60-88 18-54 (68)
19 PLN00180 NDF6 (NDH-dependent f 26.4 89 0.0019 26.7 3.6 17 152-168 146-162 (180)
20 COG3603 Uncharacterized conser 25.9 27 0.00058 28.5 0.4 28 4-31 78-105 (128)
21 PRK00247 putative inner membra 25.6 5.2E+02 0.011 24.2 8.6 28 125-152 328-355 (429)
22 PF07516 SecA_SW: SecA Wing an 25.3 3.5E+02 0.0076 21.5 7.5 32 143-174 139-170 (214)
23 KOG0338 ATP-dependent RNA heli 25.0 96 0.0021 31.0 4.0 46 121-166 613-658 (691)
24 KOG2391 Vacuolar sorting prote 24.8 4.4E+02 0.0094 24.8 7.9 13 84-96 164-176 (365)
25 KOG4702 Uncharacterized conser 24.3 1.8E+02 0.0039 22.1 4.5 29 127-155 44-72 (77)
26 PF02370 M: M protein repeat; 23.9 66 0.0014 19.1 1.7 13 167-179 8-20 (21)
27 PF01783 Ribosomal_L32p: Ribos 23.3 56 0.0012 21.9 1.5 48 67-114 2-52 (56)
28 PF09805 Nop25: Nucleolar prot 22.8 3.7E+02 0.008 20.9 7.8 38 135-172 38-75 (137)
29 PF08810 KapB: Kinase associat 22.3 77 0.0017 25.2 2.3 17 159-175 93-110 (112)
30 PF15290 Syntaphilin: Golgi-lo 22.1 1.8E+02 0.0039 26.7 4.9 30 122-151 102-131 (305)
31 COG1579 Zn-ribbon protein, pos 21.0 5.6E+02 0.012 22.3 8.5 48 129-176 58-105 (239)
32 PF10066 DUF2304: Uncharacteri 20.9 1.7E+02 0.0036 21.7 3.8 18 145-162 87-104 (115)
33 KOG2962 Prohibitin-related mem 20.9 6E+02 0.013 23.4 7.9 13 122-134 180-192 (322)
34 PF14738 PaaSYMP: Solute carri 20.6 2.7E+02 0.0058 22.5 5.1 8 118-125 54-61 (154)
35 PF04191 PEMT: Phospholipid me 20.2 35 0.00077 23.4 0.1 13 83-95 42-54 (106)
36 PF10388 YkuI_C: EAL-domain as 20.1 4.6E+02 0.01 20.9 6.6 26 116-141 8-34 (166)
No 1
>PF12083 DUF3560: Domain of unknown function (DUF3560); InterPro: IPR021944 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is about 120 amino acids in length. This domain has a conserved GHHSE sequence motif.
Probab=80.93 E-value=12 Score=29.51 Aligned_cols=39 Identities=21% Similarity=0.229 Sum_probs=25.2
Q ss_pred cCCCCCCCCCCCCcccccchhHHHHHHHHHHHHHHHHHH
Q 030229 94 YTPGQPISPNNPNQGSVKRRNEKKRMRQRRAFILSEAKK 132 (181)
Q Consensus 94 ~~PgepI~~n~pNeGSVk~RnekKRm~qr~aFi~aE~kK 132 (181)
.++||||++..-.|+.=++--++--=..+++|-+.++-.
T Consensus 39 ip~GQPIlVGHHSE~R~Rr~~eR~~~~m~kav~~~~kA~ 77 (126)
T PF12083_consen 39 IPFGQPILVGHHSEKRHRRYRERIHNRMGKAVEAMDKAE 77 (126)
T ss_pred cCCCCCeeccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356999999998888655544443334556666555443
No 2
>PF04648 MF_alpha: Yeast mating factor alpha hormone; InterPro: IPR006742 This repeated sequence,WHWLQLKPGQPMY, characterises the mating factor alpha-1 or alpha-1 mating pheromone [contains: Mating factor alpha].The hormone is excreted into the culture medium by haploid cells of the alpha mating type and acts on cells of the opposite mating type (type A) by binding to a cognate G-protein coupled receptor which is coupled to a downstream signal transduction pathway. It inhibits DNA synthesis in type A cells synchronising them with type alpha, and so mediates the conjugation process.; GO: 0000772 mating pheromone activity, 0019953 sexual reproduction, 0005576 extracellular region
Probab=78.57 E-value=1.2 Score=24.15 Aligned_cols=11 Identities=45% Similarity=1.368 Sum_probs=10.2
Q ss_pred eeeecCCCCCC
Q 030229 90 AWVQYTPGQPI 100 (181)
Q Consensus 90 awvq~~PgepI 100 (181)
-|++..|||||
T Consensus 2 hWL~~~~GqP~ 12 (13)
T PF04648_consen 2 HWLRLSPGQPM 12 (13)
T ss_pred cceeccCCCcC
Confidence 59999999998
No 3
>TIGR01541 tape_meas_lam_C phage tail tape measure protein, lambda family. This model represents a relatively well-conserved region near the C-terminus of the tape measure protein of a lambda and related phage. This protein, which controls phage tail length, is typically about 1000 residues in length. Both low-complexity sequence and insertion/deletion events appear common in this family. Mutational studies suggest a ruler or template role in the determination of phage tail length. Similar behavior is attributed to proteins from distantly related or unrelated families in other phage.
Probab=67.82 E-value=57 Score=28.92 Aligned_cols=59 Identities=19% Similarity=0.270 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 115 EKKRMRQRRAFILSEAKKRKAQLQEANRKKRAQ--------------RVERKMAAVARERAWAERLAELQRLEEE 175 (181)
Q Consensus 115 ekKRm~qr~aFi~aE~kKRkaQ~~~A~rrK~~~--------------rvErKMAAVAReRaWaeRL~eLqqlEee 175 (181)
.+|.+.+|.+-|-++.|- +.++ |+.++|.+. +.++.+|.+--.-...+||.++++++.+
T Consensus 22 ~qk~l~~~~~l~~~~~k~-~~~~-e~~~~k~~~~~~~~~~~~~~~~~~~~~~la~~G~g~~~~~r~~~~~~i~~~ 94 (332)
T TIGR01541 22 DEKSLQSRSDEIIALIKL-EKLL-EEAERKALEALKKLAEATASIRAQNKRQLDRFGLGDKQRERLDARLQIDRT 94 (332)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHH-HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHH
Confidence 578888888877776542 2233 334444433 3334444554455677888888887754
No 4
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=55.80 E-value=1.1e+02 Score=24.88 Aligned_cols=29 Identities=21% Similarity=0.172 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030229 151 RKMAAVARERAWAERLAELQRLEEEKKIS 179 (181)
Q Consensus 151 rKMAAVAReRaWaeRL~eLqqlEeekk~s 179 (181)
..+++-||++.=++-+++.+.+|++.+++
T Consensus 79 ~~I~~e~~~~~~a~~~~~~~~~ea~L~~~ 107 (155)
T PRK06569 79 DRLKKEKIDSLESEFLIKKKNLEQDLKNS 107 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777789999999999999999988765
No 5
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=48.12 E-value=2.1e+02 Score=27.04 Aligned_cols=37 Identities=24% Similarity=0.152 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 139 EANRKKRAQRVERKMAAVARERAWAERLAELQRLEEEK 176 (181)
Q Consensus 139 ~A~rrK~~~rvErKMAAVAReRaWaeRL~eLqqlEeek 176 (181)
+..=++.|.+.|.-+|.++..++=+++ ++..+.++|.
T Consensus 233 ~~~L~~~Ias~e~~aA~~re~~aa~~a-a~~~~~~~e~ 269 (420)
T COG4942 233 ESRLKNEIASAEAAAAKAREAAAAAEA-AAARARAAEA 269 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhh
Confidence 445567888899888855544444444 4444433333
No 6
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=42.06 E-value=1.9e+02 Score=25.00 Aligned_cols=44 Identities=20% Similarity=0.416 Sum_probs=21.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 112 RRNEKKRMRQRRAFILSEAKKRKAQLQEANRKKRAQRVERKMAA 155 (181)
Q Consensus 112 ~RnekKRm~qr~aFi~aE~kKRkaQ~~~A~rrK~~~rvErKMAA 155 (181)
.+..|-|-+...++.....+.|.+..|+.+..+..+.=|++++.
T Consensus 258 ~K~~k~R~~~~~~~~K~~~~~r~E~~~~~k~e~kr~e~~~~~~~ 301 (321)
T PF07946_consen 258 KKAKKNREEEEEKILKEAHQERQEEAQEKKEEKKREERERKLSK 301 (321)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444455555555555555555555444444433333444443
No 7
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=39.77 E-value=2.5e+02 Score=28.80 Aligned_cols=39 Identities=28% Similarity=0.379 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Q 030229 137 LQEANRKKRAQRVERKMAAVARERAWAER-LAELQRLEEE 175 (181)
Q Consensus 137 ~~~A~rrK~~~rvErKMAAVAReRaWaeR-L~eLqqlEee 175 (181)
++.|+.+++.+|++.-...++|+|.-.|| -+|+.+||-|
T Consensus 639 ~~a~~ERee~eRl~~erlrle~qRQrLERErmErERLEre 678 (940)
T KOG4661|consen 639 RKAAVEREELERLKAERLRLERQRQRLERERMERERLERE 678 (940)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444433332 1345555544
No 8
>PF07586 HXXSHH: Protein of unknown function (DUF1552); InterPro: IPR011447 This is a family of proteins identified in Rhodopirellula baltica.
Probab=38.51 E-value=67 Score=26.92 Aligned_cols=59 Identities=32% Similarity=0.648 Sum_probs=35.5
Q ss_pred CCCCCCCC-CCCCc------ccccch--hHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHH
Q 030229 95 TPGQPISP-NNPNQ------GSVKRR--NEKKRMRQRR---AFILSEAKKRKAQLQEANRKKR------AQRVERKM 153 (181)
Q Consensus 95 ~PgepI~~-n~pNe------GSVk~R--nekKRm~qr~---aFi~aE~kKRkaQ~~~A~rrK~------~~rvErKM 153 (181)
.||+|||+ ++|.. |++..- ....++..|+ +++..+.+.-+.+|..+-|.|- |..||..+
T Consensus 124 ~~g~p~p~~~~P~~~f~~LFg~~~~~~~~~~~~~~~r~SvLD~v~~d~~~L~~~Lg~~Dr~kLd~yl~sireiE~rl 200 (302)
T PF07586_consen 124 GPGQPIPPENNPRAAFDRLFGSGSPGRAQRARRLARRKSVLDLVREDAKSLRRRLGAEDRQKLDQYLDSIREIEKRL 200 (302)
T ss_pred CCCCcCCCcCCHHHHHHHHhCCCCCcHHHHHHHHHhcccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 58999997 66643 333322 1222233332 6888888888888887776652 44555554
No 9
>PF11875 DUF3395: Domain of unknown function (DUF3395); InterPro: IPR024586 Chaperone DnaJ was originally characterised from Escherichia coli as a 41 kDa heat shock protein. DnaJ has a modular structure consisting of a J-domain, a proximal G/F-domain, and a distal zinc finger domain, followed by less conserved C-terminal sequences. Since then, a large number of DnaJ-related proteins containing a J-domain have been characterised from a variety of different organisms. In the genome of Arabidopsis thaliana a total of 89 J-domain proteins have been identified []. This entry represents a C-terminal domain found in some eukaryotic DnaJ-like proteins, including member 11 from the subfamily C1 and protein DnaJ 13 from Arabidopsis. This domain is typically between 147 to 176 amino acids in length.
Probab=37.07 E-value=2.1e+02 Score=22.57 Aligned_cols=18 Identities=17% Similarity=0.226 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 030229 142 RKKRAQRVERKMAAVARE 159 (181)
Q Consensus 142 rrK~~~rvErKMAAVARe 159 (181)
+|.++...-.-|..+|..
T Consensus 25 ~r~eA~~~~~lm~~~a~r 42 (151)
T PF11875_consen 25 KRAEAESAIELMKETAER 42 (151)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444445555443
No 10
>PLN03086 PRLI-interacting factor K; Provisional
Probab=35.47 E-value=2.9e+02 Score=26.89 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=5.1
Q ss_pred HHHHHHHHHH
Q 030229 127 LSEAKKRKAQ 136 (181)
Q Consensus 127 ~aE~kKRkaQ 136 (181)
.+|.++|++|
T Consensus 13 ~~~~~~~~~~ 22 (567)
T PLN03086 13 EREQRERKQR 22 (567)
T ss_pred HHHHHHHHHH
Confidence 4455555554
No 11
>PTZ00121 MAEBL; Provisional
Probab=34.23 E-value=2.1e+02 Score=31.99 Aligned_cols=14 Identities=36% Similarity=0.302 Sum_probs=8.2
Q ss_pred hHHHHHHHHHHHHH
Q 030229 114 NEKKRMRQRRAFIL 127 (181)
Q Consensus 114 nekKRm~qr~aFi~ 127 (181)
.|.|+|.||+|=++
T Consensus 1573 eE~k~~a~rkaee~ 1586 (2084)
T PTZ00121 1573 EEDKNMALRKAEEA 1586 (2084)
T ss_pred hhhhhhhhhhHHHH
Confidence 45566667766443
No 12
>PF06364 DUF1068: Protein of unknown function (DUF1068); InterPro: IPR010471 This family consists of several hypothetical plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown.
Probab=31.92 E-value=1.1e+02 Score=26.19 Aligned_cols=19 Identities=42% Similarity=0.462 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030229 120 RQRRAFILSEAKKRKAQLQ 138 (181)
Q Consensus 120 ~qr~aFi~aE~kKRkaQ~~ 138 (181)
.+|-+-.+.|+||---|||
T Consensus 105 ~~~~~~~lleAkk~asqYQ 123 (176)
T PF06364_consen 105 QRRADMALLEAKKMASQYQ 123 (176)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455677889999889998
No 13
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=31.03 E-value=53 Score=24.42 Aligned_cols=36 Identities=28% Similarity=0.241 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030229 144 KRAQRVERKMAAVARERAWAERLAELQRLEEEKKIS 179 (181)
Q Consensus 144 K~~~rvErKMAAVAReRaWaeRL~eLqqlEeekk~s 179 (181)
++|-.+|..+.-..=.-.||+-+-+||+.|.+|..-
T Consensus 54 ~ei~~ie~~L~~~~~~~~la~~i~~lQ~~Ek~KL~l 89 (97)
T PF14966_consen 54 KEILAIEAELRDEHERPDLAELIRELQEQEKEKLEL 89 (97)
T ss_pred HHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHH
Confidence 445566666553333468999999999999998653
No 14
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=30.86 E-value=3.2e+02 Score=27.89 Aligned_cols=45 Identities=49% Similarity=0.612 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 030229 126 ILSEAKKRKAQLQEANR--------------KKRAQRVERKMAAVARER-AWAERLAELQRL 172 (181)
Q Consensus 126 i~aE~kKRkaQ~~~A~r--------------rK~~~rvErKMAAVAReR-aWaeRL~eLqql 172 (181)
.--|-|+-|+.+-+|.+ ||+--||| ||.|--|| ++.|||.|||..
T Consensus 362 lEEElk~~k~ea~~ar~~~~~~e~ddiPmAqRkRFTRvE--MaRVLMeRNqYKErLMELqEa 421 (832)
T KOG2077|consen 362 LEEELKKAKAEAEDARQKAKDDEDDDIPMAQRKRFTRVE--MARVLMERNQYKERLMELQEA 421 (832)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccccccHHHHhhhHHHH--HHHHHHHHhHHHHHHHHHHHH
Confidence 33455555665555533 45556665 99999888 689999999864
No 15
>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation
Probab=29.63 E-value=3e+02 Score=22.17 Aligned_cols=18 Identities=44% Similarity=0.872 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 030229 159 ERAWAERLAELQRLEEEK 176 (181)
Q Consensus 159 eRaWaeRL~eLqqlEeek 176 (181)
+..|.+=+..+|++||+-
T Consensus 188 ~~~~~~~~~~~Q~lEe~R 205 (236)
T cd07651 188 NREWKAALDDFQDLEEER 205 (236)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 457888888899999875
No 16
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=29.26 E-value=4.7e+02 Score=27.12 Aligned_cols=65 Identities=29% Similarity=0.408 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 111 KRRNEKKRMRQRRAFILSEAKKRKAQL-QEANRKKRAQRVER-KMAAVARERAWAERLAELQRLEEEK 176 (181)
Q Consensus 111 k~RnekKRm~qr~aFi~aE~kKRkaQ~-~~A~rrK~~~rvEr-KMAAVAReRaWaeRL~eLqqlEeek 176 (181)
+...|++|+++-.+-..+..+++.++- +|-..+.+-++.|| ++....|||.=.||+.. .++|.|.
T Consensus 432 ke~~ER~r~e~e~~er~~~er~~~E~er~er~e~e~~er~Erer~er~erer~Erer~er-Er~erer 498 (1021)
T PTZ00266 432 KDHAERARIEKENAHRKALEMKILEKKRIERLEREERERLERERMERIERERLERERLER-ERLERDR 498 (1021)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
No 17
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=28.44 E-value=66 Score=20.96 Aligned_cols=18 Identities=39% Similarity=0.604 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030229 153 MAAVARERAWAERLAELQR 171 (181)
Q Consensus 153 MAAVAReRaWaeRL~eLqq 171 (181)
|.+.|++..| +.|.+|..
T Consensus 1 ml~aa~~~dW-e~l~~l~~ 18 (84)
T PF05400_consen 1 MLEAAEAGDW-EELEELLD 18 (84)
T ss_dssp HHHHHHCT-H-HHHHHHHH
T ss_pred ChHHHhhCcH-HHHHHHHH
Confidence 7788888889 77777654
No 18
>PF11092 Alveol-reg_P311: Neuronal protein 3.1 (p311); InterPro: IPR024417 Neuronal protein 3.1, also known as P311, is found in neurone and muscle cells []. It contains a conserved PEST (Pro, Glu, Ser, and Thr) motif, which is involved in protein-protein interactions, as well as in targeting proteins for degradation by the ubiquitin/proteasome system. In addition to a potential role in neural function, P311 may be involved in regulating glioma motility [] and could have some function in myo-fibroblast transformation and prevention of fibrosis []. It has also been identified as a potential regulator of alveolar generation [].
Probab=28.19 E-value=41 Score=24.96 Aligned_cols=29 Identities=45% Similarity=0.658 Sum_probs=21.2
Q ss_pred CccccCCCCCCC---CCCcccccc-----ccCCCCCC
Q 030229 60 HSLTDTRFPKRR---PVEKPRRKR-----ASLRPPGP 88 (181)
Q Consensus 60 ~sLtdtRfPKRR---P~~k~rrKR-----AsLrP~GP 88 (181)
.+-+|.||||-| |....|.|- |||-|+|-
T Consensus 18 ~~~~egrlpkg~LPVpKEVNRKK~~e~~aAsltP~gs 54 (68)
T PF11092_consen 18 NKEMEGRLPKGRLPVPKEVNRKKMDETEAASLTPLGS 54 (68)
T ss_pred CcccccccccCCcCCchhhcccccccccceeccCCCC
Confidence 346899999977 455567663 78888874
No 19
>PLN00180 NDF6 (NDH-dependent flow 6); Provisional
Probab=26.42 E-value=89 Score=26.75 Aligned_cols=17 Identities=35% Similarity=0.642 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 030229 152 KMAAVARERAWAERLAE 168 (181)
Q Consensus 152 KMAAVAReRaWaeRL~e 168 (181)
-|-|-|||--|.|-|+|
T Consensus 146 d~E~sAReeL~REELiE 162 (180)
T PLN00180 146 DIEESARAELWREELIE 162 (180)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 35677999999988876
No 20
>COG3603 Uncharacterized conserved protein [Function unknown]
Probab=25.86 E-value=27 Score=28.50 Aligned_cols=28 Identities=36% Similarity=0.393 Sum_probs=21.4
Q ss_pred hhhhhhhhhhhhhhcccCCCcccccccc
Q 030229 4 GVLRSIIRPLSRTLISRSPTSTSSTTPF 31 (181)
Q Consensus 4 Galr~iiRPLsrtl~s~~~~~t~~t~~f 31 (181)
|.|-+|++|||-.=+.--.-||++|--.
T Consensus 78 GilasV~~pLsd~gigIFavStydtDhi 105 (128)
T COG3603 78 GILASVSQPLSDNGIGIFAVSTYDTDHI 105 (128)
T ss_pred hhhhhhhhhHhhCCccEEEEEeccCceE
Confidence 8999999999987776665577766543
No 21
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=25.62 E-value=5.2e+02 Score=24.24 Aligned_cols=28 Identities=25% Similarity=0.233 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 125 FILSEAKKRKAQLQEANRKKRAQRVERK 152 (181)
Q Consensus 125 Fi~aE~kKRkaQ~~~A~rrK~~~rvErK 152 (181)
=+.++++.|++...+++.+|...+-||+
T Consensus 328 ~~~~~~~~~~~~~~~~k~~~k~~~~~~~ 355 (429)
T PRK00247 328 ENAEIKKTRTAEKNEAKARKKEIAQKRR 355 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677777776666655544444444
No 22
>PF07516 SecA_SW: SecA Wing and Scaffold domain; InterPro: IPR011116 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner. This domain is composed of two C-terminal alpha helical subdomains: the wing and scaffold subdomains.; GO: 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 2IPC_D 3JUX_A 3DIN_B ....
Probab=25.33 E-value=3.5e+02 Score=21.52 Aligned_cols=32 Identities=22% Similarity=0.482 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 143 KKRAQRVERKMAAVARERAWAERLAELQRLEE 174 (181)
Q Consensus 143 rK~~~rvErKMAAVAReRaWaeRL~eLqqlEe 174 (181)
......+||...=-+=|..|.+-|..+++|.+
T Consensus 139 ~~~~~~~eR~ilL~~ID~~W~~HL~~m~~Lr~ 170 (214)
T PF07516_consen 139 EEQFNEFERYILLKAIDQNWKDHLDNMDQLRE 170 (214)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHH
Confidence 46678889998888999999999999999875
No 23
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=25.02 E-value=96 Score=31.03 Aligned_cols=46 Identities=30% Similarity=0.381 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 121 QRRAFILSEAKKRKAQLQEANRKKRAQRVERKMAAVARERAWAERL 166 (181)
Q Consensus 121 qr~aFi~aE~kKRkaQ~~~A~rrK~~~rvErKMAAVAReRaWaeRL 166 (181)
-|+-|.+.|+.|.+..-..++++|.-..--+||-.||-+|+--+..
T Consensus 613 prRtWFqte~~kk~~K~a~~~kkk~~~~~kkk~E~~ak~ra~~~~~ 658 (691)
T KOG0338|consen 613 PRRTWFQTEKDKKASKRAKAEKKKAGNPAKKKGELVAKERAEKEIE 658 (691)
T ss_pred ccchhhhhhHHHHHHHHHHHhhhhhcCchhcchhhhccchhhHHHH
Confidence 4677888887766555556666665555555677777666654443
No 24
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.84 E-value=4.4e+02 Score=24.83 Aligned_cols=13 Identities=23% Similarity=0.373 Sum_probs=8.3
Q ss_pred CCCCCeeeeecCC
Q 030229 84 RPPGPYAWVQYTP 96 (181)
Q Consensus 84 rP~GPyawvq~~P 96 (181)
.|+|+.+.-.++|
T Consensus 164 ~p~~~~~~~p~p~ 176 (365)
T KOG2391|consen 164 KPKGSAYKPPLPP 176 (365)
T ss_pred CCCCcCcCCCCCC
Confidence 5666666666665
No 25
>KOG4702 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.26 E-value=1.8e+02 Score=22.08 Aligned_cols=29 Identities=28% Similarity=0.307 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 127 LSEAKKRKAQLQEANRKKRAQRVERKMAA 155 (181)
Q Consensus 127 ~aE~kKRkaQ~~~A~rrK~~~rvErKMAA 155 (181)
-.|+++++..|+++-|..-+.+-+.||-+
T Consensus 44 ppe~~~~~EE~~~~lRe~~a~~eaK~~R~ 72 (77)
T KOG4702|consen 44 PPEATKRKEEYENFLREQMAFEEAKKIRG 72 (77)
T ss_pred ChHHHhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 45999999999999887655555555433
No 26
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=23.92 E-value=66 Score=19.14 Aligned_cols=13 Identities=62% Similarity=0.787 Sum_probs=9.4
Q ss_pred HHHHHHHHHHhhc
Q 030229 167 AELQRLEEEKKIS 179 (181)
Q Consensus 167 ~eLqqlEeekk~s 179 (181)
+++|.||+|+.++
T Consensus 8 a~~qkLe~e~q~~ 20 (21)
T PF02370_consen 8 ADHQKLEAEKQIS 20 (21)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhc
Confidence 5678888887654
No 27
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=23.29 E-value=56 Score=21.94 Aligned_cols=48 Identities=29% Similarity=0.421 Sum_probs=30.9
Q ss_pred CCCCCCCCccccccccCCCCCCeeeeecCC-CCCCCCCC--CCcccccchh
Q 030229 67 FPKRRPVEKPRRKRASLRPPGPYAWVQYTP-GQPISPNN--PNQGSVKRRN 114 (181)
Q Consensus 67 fPKRRP~~k~rrKRAsLrP~GPyawvq~~P-gepI~~n~--pNeGSVk~Rn 114 (181)
-||+|-+--.++.|.+-+--.+..-+.|.- ||+..+-. |+-|..++|.
T Consensus 2 vPKrk~Sksr~~~Rrs~~~l~~~~l~~c~~cg~~~~~H~vc~~cG~y~~r~ 52 (56)
T PF01783_consen 2 VPKRKTSKSRKRMRRSHWKLKAPNLVKCPNCGEPKLPHRVCPSCGYYKGRQ 52 (56)
T ss_dssp --SS-SCHHHHHHHTTTTS--TTSEEESSSSSSEESTTSBCTTTBBSSSSS
T ss_pred CCCCcCChhHccchhccccccccceeeeccCCCEecccEeeCCCCeECCEE
Confidence 489999988888887766544556677765 88777653 5667777664
No 28
>PF09805 Nop25: Nucleolar protein 12 (25kDa); InterPro: IPR019186 Nop12 is a novel nucleolar protein required for pre-large subunit rRNA processing and in yeast normal rates of cell growth at low temperatures [].
Probab=22.83 E-value=3.7e+02 Score=20.90 Aligned_cols=38 Identities=29% Similarity=0.341 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 135 AQLQEANRKKRAQRVERKMAAVARERAWAERLAELQRL 172 (181)
Q Consensus 135 aQ~~~A~rrK~~~rvErKMAAVAReRaWaeRL~eLqql 172 (181)
||-+...+-+....-|||=.--.|...+.+.|.++..+
T Consensus 38 Aqe~~~~k~r~er~eeRk~~R~erk~~~~~~~~~~~~~ 75 (137)
T PF09805_consen 38 AQEQAEEKEREERIEERKEIREERKEELEENLAEFEEA 75 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 44444444444444455555555666666666555443
No 29
>PF08810 KapB: Kinase associated protein B; InterPro: IPR014916 This bacterial protein forms an anti-parallel beta sheet with an extending alpha helical region. ; PDB: 1Y71_B.
Probab=22.33 E-value=77 Score=25.23 Aligned_cols=17 Identities=41% Similarity=0.911 Sum_probs=13.2
Q ss_pred HHHHHHH-HHHHHHHHHH
Q 030229 159 ERAWAER-LAELQRLEEE 175 (181)
Q Consensus 159 eRaWaeR-L~eLqqlEee 175 (181)
+-+||+| |..|++|++|
T Consensus 93 ~~~~a~~sL~~L~~L~~e 110 (112)
T PF08810_consen 93 DSEWAQRSLENLEELKKE 110 (112)
T ss_dssp -SHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHh
Confidence 4679987 7788888876
No 30
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=22.08 E-value=1.8e+02 Score=26.71 Aligned_cols=30 Identities=23% Similarity=0.395 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 122 RRAFILSEAKKRKAQLQEANRKKRAQRVER 151 (181)
Q Consensus 122 r~aFi~aE~kKRkaQ~~~A~rrK~~~rvEr 151 (181)
|.+||--|=+.=.|||+--.-||+|+++-.
T Consensus 102 rEDWIEEECHRVEAQLALKEARkEIkQLkQ 131 (305)
T PF15290_consen 102 REDWIEEECHRVEAQLALKEARKEIKQLKQ 131 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999999998888899987644
No 31
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=21.03 E-value=5.6e+02 Score=22.30 Aligned_cols=48 Identities=25% Similarity=0.279 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030229 129 EAKKRKAQLQEANRKKRAQRVERKMAAVARERAWAERLAELQRLEEEK 176 (181)
Q Consensus 129 E~kKRkaQ~~~A~rrK~~~rvErKMAAVAReRaWaeRL~eLqqlEeek 176 (181)
+.+..+-+.....-++.+++.|-||.+|-.+++...=..|++.+++..
T Consensus 58 e~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~ 105 (239)
T COG1579 58 ENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERI 105 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHH
Confidence 333444444445556778899999999999888777777776666544
No 32
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=20.95 E-value=1.7e+02 Score=21.67 Aligned_cols=18 Identities=39% Similarity=0.517 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 030229 145 RAQRVERKMAAVARERAW 162 (181)
Q Consensus 145 ~~~rvErKMAAVAReRaW 162 (181)
.+.+.|+|+-..++|=|=
T Consensus 87 ~is~le~~i~~L~qeiAl 104 (115)
T PF10066_consen 87 RISRLEEKIKRLAQEIAL 104 (115)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467788888888887653
No 33
>KOG2962 consensus Prohibitin-related membrane protease subunits [General function prediction only]
Probab=20.90 E-value=6e+02 Score=23.40 Aligned_cols=13 Identities=62% Similarity=0.754 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHH
Q 030229 122 RRAFILSEAKKRK 134 (181)
Q Consensus 122 r~aFi~aE~kKRk 134 (181)
|+.|-++|+.|-|
T Consensus 180 RrN~E~ME~EkTK 192 (322)
T KOG2962|consen 180 RRNFELMEAEKTK 192 (322)
T ss_pred HHhHHHHHHHhhh
Confidence 4455555555544
No 34
>PF14738 PaaSYMP: Solute carrier (proton/amino acid symporter), TRAMD3 or PAT1
Probab=20.64 E-value=2.7e+02 Score=22.54 Aligned_cols=8 Identities=50% Similarity=0.991 Sum_probs=4.0
Q ss_pred HHHHHHHH
Q 030229 118 RMRQRRAF 125 (181)
Q Consensus 118 Rm~qr~aF 125 (181)
|++.+++|
T Consensus 54 RaR~KRaw 61 (154)
T PF14738_consen 54 RAREKRAW 61 (154)
T ss_pred HHHHHHHH
Confidence 44455555
No 35
>PF04191 PEMT: Phospholipid methyltransferase ; InterPro: IPR007318 The Saccharomyces cerevisiae (Baker's yeast) phospholipid methyltransferase (2.1.1.16 from EC) has a broad substrate specificity of unsaturated phospholipids [].; GO: 0008170 N-methyltransferase activity, 0006644 phospholipid metabolic process
Probab=20.23 E-value=35 Score=23.40 Aligned_cols=13 Identities=38% Similarity=0.782 Sum_probs=11.6
Q ss_pred CCCCCCeeeeecC
Q 030229 83 LRPPGPYAWVQYT 95 (181)
Q Consensus 83 LrP~GPyawvq~~ 95 (181)
|--.|||.||+++
T Consensus 42 Lvt~G~Y~~vRhP 54 (106)
T PF04191_consen 42 LVTTGPYRYVRHP 54 (106)
T ss_pred ccccCCccCcCCh
Confidence 8899999999974
No 36
>PF10388 YkuI_C: EAL-domain associated signalling protein domain; InterPro: IPR018842 In most cases this highly conserved region of the YkuI protein lies immediately downstream of the EAL (diguanylate cyclase/phosphodiesterase) domain IPR001633 from INTERPRO so that together they form a monomer which dimerises for its enzymatic action. This region contains three alpha helices and five beta strands and forms C-terminal half of the structure. ; PDB: 3BY9_A 2BAS_B 2W27_A.
Probab=20.08 E-value=4.6e+02 Score=20.95 Aligned_cols=26 Identities=31% Similarity=0.414 Sum_probs=20.6
Q ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHH
Q 030229 116 KKRMR-QRRAFILSEAKKRKAQLQEAN 141 (181)
Q Consensus 116 kKRm~-qr~aFi~aE~kKRkaQ~~~A~ 141 (181)
|.+|+ +...||..|+++++++++..+
T Consensus 8 k~~l~~~~~~Fi~~~~~~~~~~~~~~~ 34 (166)
T PF10388_consen 8 KEKLKKEFEQFIQHEKKKLEKQYQLEE 34 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44565 678899999999999987643
Done!