Query 015936
Match_columns 398
No_of_seqs 171 out of 219
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 02:17:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015936.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015936hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05542 DUF760: Protein of un 100.0 5.5E-32 1.2E-36 222.1 8.5 85 79-163 1-86 (86)
2 PF05542 DUF760: Protein of un 99.9 1.7E-27 3.7E-32 195.6 10.1 86 266-382 1-86 (86)
3 PF04508 Pox_A_type_inc: Viral 71.3 5.6 0.00012 26.1 2.9 20 231-250 3-22 (23)
4 PF04977 DivIC: Septum formati 55.2 28 0.00061 27.0 4.9 41 232-285 20-62 (80)
5 PF11157 DUF2937: Protein of u 41.2 3E+02 0.0065 25.6 10.8 115 222-355 20-137 (167)
6 PF06698 DUF1192: Protein of u 41.2 74 0.0016 25.2 5.1 28 220-247 18-46 (59)
7 PRK00888 ftsB cell division pr 30.6 1.5E+02 0.0032 25.5 5.8 25 231-255 29-53 (105)
8 PF06005 DUF904: Protein of un 27.6 2.9E+02 0.0062 22.5 6.6 55 226-306 15-69 (72)
9 smart00338 BRLZ basic region l 27.5 1.5E+02 0.0032 22.8 4.8 29 227-255 24-52 (65)
10 PF07531 TAFH: NHR1 homology t 24.0 68 0.0015 27.7 2.5 26 279-304 12-38 (96)
11 COG1080 PtsA Phosphoenolpyruva 23.5 82 0.0018 34.9 3.6 45 259-303 448-494 (574)
12 KOG4119 G protein gamma subuni 23.4 1.5E+02 0.0032 24.5 4.2 40 230-278 8-47 (71)
13 PF07716 bZIP_2: Basic region 22.8 2.3E+02 0.0049 21.2 4.9 26 228-253 24-49 (54)
14 PF09577 Spore_YpjB: Sporulati 22.5 3.5E+02 0.0076 26.7 7.4 26 281-306 165-190 (232)
15 KOG4797 Transcriptional regula 22.4 1.7E+02 0.0037 26.2 4.7 46 233-287 64-109 (123)
16 PF00170 bZIP_1: bZIP transcri 22.3 2E+02 0.0044 22.0 4.7 24 228-251 25-48 (64)
17 PF01706 FliG_C: FliG C-termin 21.9 61 0.0013 27.5 1.9 33 77-109 29-61 (110)
18 PF10224 DUF2205: Predicted co 20.7 1.8E+02 0.0038 24.4 4.3 41 229-275 23-63 (80)
19 TIGR02209 ftsL_broad cell divi 20.5 3.8E+02 0.0081 21.2 6.1 29 229-257 24-52 (85)
20 PF08336 P4Ha_N: Prolyl 4-Hydr 20.3 1.9E+02 0.004 25.3 4.6 30 224-253 17-46 (134)
21 PF13591 MerR_2: MerR HTH fami 20.1 1.7E+02 0.0037 23.8 4.1 27 223-249 57-83 (84)
No 1
>PF05542 DUF760: Protein of unknown function (DUF760); InterPro: IPR008479 This entry contains uncharacterised proteins.
Probab=99.97 E-value=5.5e-32 Score=222.09 Aligned_cols=85 Identities=47% Similarity=0.682 Sum_probs=83.7
Q ss_pred hHHHHHhhhcCchhhhhhcccCChHHHHHHHHHHHHhhcCC-CCCCeeeEEEecchhHHHHHHHHHhhhHhhhhhhhhhH
Q 015936 79 SVLASMIQEVEPLDVTLIQKDVPPTTLDAMKRTISSMLGLL-PSDRFHVFIEALWEPLSKLLVSSMMTGYTLRNAEYRLC 157 (398)
Q Consensus 79 n~L~~yvqs~~Pe~v~~~sk~~speV~e~i~~~v~~lLG~L-p~~~f~v~i~tsre~La~Llas~mMtGYfLrnaE~Rl~ 157 (398)
|.||+|||+++|+.+++|+++|||||+|+|++||.+|||.+ |+++|+++|+|+|++||+||+|+|||||||||||||++
T Consensus 1 n~L~~yi~~l~pe~~~~l~~~~s~ev~e~m~~~v~~llG~l~p~~~~~~~i~~s~~~La~L~~~~mm~GYfLr~~E~R~~ 80 (86)
T PF05542_consen 1 NDLLQYIQSLKPERIQQLSEPASPEVLEAMKQHVSGLLGNLSPSDQFNVTIQTSRENLAQLLAWSMMTGYFLRNAEQRLE 80 (86)
T ss_pred ChHHHHHHHCCHHHHHHhhccCCHHHHHHHHHHHHHHHcCCCCcccCcceeEECHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred hhhhcc
Q 015936 158 LERNLD 163 (398)
Q Consensus 158 Le~sl~ 163 (398)
||++|+
T Consensus 81 Le~sL~ 86 (86)
T PF05542_consen 81 LERSLK 86 (86)
T ss_pred HHHhcC
Confidence 999985
No 2
>PF05542 DUF760: Protein of unknown function (DUF760); InterPro: IPR008479 This entry contains uncharacterised proteins.
Probab=99.95 E-value=1.7e-27 Score=195.56 Aligned_cols=86 Identities=48% Similarity=0.797 Sum_probs=81.2
Q ss_pred hHHHHHHhccChHHHHhhcCCCChHHHHHHHHHHHHHhcccCccccCCCCCCccccccccccccchhhhHhhhccCCccC
Q 015936 266 NDLLDYLRSLQPEKVVELSEPTCPELKETIHSVVHGLLATLSPKMHSKVPPLENTATGMVNIWSKDCAELVENTSLHFQP 345 (398)
Q Consensus 266 N~LL~YLrSL~pe~l~~Ls~~~S~EV~e~I~~~VqgLLg~l~~~~~s~~~p~e~~~~G~~n~g~~d~~Elv~~~~~~f~~ 345 (398)
|+||+||++++||.++++++++||||+|+|+++|++|||.++| +++|++
T Consensus 1 n~L~~yi~~l~pe~~~~l~~~~s~ev~e~m~~~v~~llG~l~p-------------------------------~~~~~~ 49 (86)
T PF05542_consen 1 NDLLQYIQSLKPERIQQLSEPASPEVLEAMKQHVSGLLGNLSP-------------------------------SDQFNV 49 (86)
T ss_pred ChHHHHHHHCCHHHHHHhhccCCHHHHHHHHHHHHHHHcCCCC-------------------------------cccCcc
Confidence 7899999999999999999999999999999999999999932 147899
Q ss_pred ceeecHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHhc
Q 015936 346 QISLTRDYLARLLFWCMLLGHYLRGLEYRMELMELLS 382 (398)
Q Consensus 346 ~I~~sr~~LarLl~w~M~~Gy~LR~lE~R~eL~~~L~ 382 (398)
+|++++++|||||+||||+|||||++|+|++|+++|+
T Consensus 50 ~i~~s~~~La~L~~~~mm~GYfLr~~E~R~~Le~sL~ 86 (86)
T PF05542_consen 50 TIQTSRENLAQLLAWSMMTGYFLRNAEQRLELERSLK 86 (86)
T ss_pred eeEECHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999984
No 3
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=71.32 E-value=5.6 Score=26.07 Aligned_cols=20 Identities=30% Similarity=0.665 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 015936 231 ILNLQSRLSSIKKELCEVKR 250 (398)
Q Consensus 231 I~~Lqsel~sl~keL~~~k~ 250 (398)
|..|+.+|++|++||.++++
T Consensus 3 ~~rlr~rI~dLer~L~~C~~ 22 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSECRR 22 (23)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 67899999999999988754
No 4
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=55.17 E-value=28 Score=26.98 Aligned_cols=41 Identities=20% Similarity=0.502 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHhhhhccccchHHHHHHhcc--ChHHHHhhcC
Q 015936 232 LNLQSRLSSIKKELCEVKRKSSALQMQQFVGEEKNDLLDYLRSL--QPEKVVELSE 285 (398)
Q Consensus 232 ~~Lqsel~sl~keL~~~k~k~~~l~m~~~~g~~~N~LL~YLrSL--~pe~l~~Ls~ 285 (398)
..++.++.++++++++++..+ .+|-..+..| +|+.+.++|.
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~-------------~~L~~ei~~l~~~~~~ie~~AR 62 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKEN-------------EELKEEIERLKNDPDYIEKVAR 62 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHhcCCHHHHHHHHH
Confidence 467777888888877766543 3444455554 5666555543
No 5
>PF11157 DUF2937: Protein of unknown function (DUF2937); InterPro: IPR022584 This family of proteins with unknown function appears to be found mainly in Proteobacteria.
Probab=41.23 E-value=3e+02 Score=25.59 Aligned_cols=115 Identities=20% Similarity=0.303 Sum_probs=66.2
Q ss_pred CCCHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhccccchHHHHHHhccChHHHHhhcCCCChHHHHHHHHHH--
Q 015936 222 EMTPEVQQYILNLQSRLSSIKKELCEVKRKSSALQMQQFVGEEKNDLLDYLRSLQPEKVVELSEPTCPELKETIHSVV-- 299 (398)
Q Consensus 222 ~l~~eA~~YI~~Lqsel~sl~keL~~~k~k~~~l~m~~~~g~~~N~LL~YLrSL~pe~l~~Ls~~~S~EV~e~I~~~V-- 299 (398)
+++.=+++|-+.|...+.+++.++....+- + .++++...+.++...+.-+...++.=++. +..++.++-
T Consensus 20 Q~P~F~~qY~QrL~g~~~e~~~~v~~F~~~--A---~~~f~~~~~~li~~~~~s~dp~~~~~a~~----~~~~~~R~~~L 90 (167)
T PF11157_consen 20 QIPEFAQQYQQRLGGHLDELRRQVAGFQAT--A---ARYFGGDREALIAHYRQSSDPVFRARAES----MQATIERYQRL 90 (167)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHH--H---HHHcCCCHHHHHHHHHhCCCHHHHhhHHH----HHHHHHHHHHH
Confidence 456668999999999999999999887652 2 24455566666666655554445544332 233333321
Q ss_pred -HHHhcccCccccCCCCCCccccccccccccchhhhHhhhccCCccCceeecHHHHH
Q 015936 300 -HGLLATLSPKMHSKVPPLENTATGMVNIWSKDCAELVENTSLHFQPQISLTRDYLA 355 (398)
Q Consensus 300 -qgLLg~l~~~~~s~~~p~e~~~~G~~n~g~~d~~Elv~~~~~~f~~~I~~sr~~La 355 (398)
+++-. + ...+|. + -.+........++.++|-.+|+|.|.+|.+.++
T Consensus 91 ~~~~~~-l----~~~~~~-~----r~~~~~~~~d~~i~~~t~~~f~p~vplt~~gi~ 137 (167)
T PF11157_consen 91 SQQLQA-L----AQASPF-E----RAWYFLRPADPEIAQETWQNFSPAVPLTPEGIV 137 (167)
T ss_pred HHHHHH-H----hcCChH-H----HHHHHHhcccHHHHHHHHHhCCCcCcCCHHHHH
Confidence 11111 1 000000 0 000000112356788888999999999999875
No 6
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=41.20 E-value=74 Score=25.18 Aligned_cols=28 Identities=14% Similarity=0.357 Sum_probs=22.7
Q ss_pred CCCCCH-hHHHHHHHHHHHHHHHHHHHHH
Q 015936 220 LGEMTP-EVQQYILNLQSRLSSIKKELCE 247 (398)
Q Consensus 220 lG~l~~-eA~~YI~~Lqsel~sl~keL~~ 247 (398)
|..+++ |-.+||..|+.||..++.++..
T Consensus 18 Ls~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 18 LSLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred chhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555 7789999999999999998753
No 7
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=30.60 E-value=1.5e+02 Score=25.53 Aligned_cols=25 Identities=8% Similarity=0.260 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHHH
Q 015936 231 ILNLQSRLSSIKKELCEVKRKSSAL 255 (398)
Q Consensus 231 I~~Lqsel~sl~keL~~~k~k~~~l 255 (398)
...++.++.++++|+.+++++|..|
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L 53 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQL 53 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467888888888888887766555
No 8
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=27.61 E-value=2.9e+02 Score=22.50 Aligned_cols=55 Identities=20% Similarity=0.258 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhccccchHHHHHHhccChHHHHhhcCCCChHHHHHHHHHHHHHhcc
Q 015936 226 EVQQYILNLQSRLSSIKKELCEVKRKSSALQMQQFVGEEKNDLLDYLRSLQPEKVVELSEPTCPELKETIHSVVHGLLAT 305 (398)
Q Consensus 226 eA~~YI~~Lqsel~sl~keL~~~k~k~~~l~m~~~~g~~~N~LL~YLrSL~pe~l~~Ls~~~S~EV~e~I~~~VqgLLg~ 305 (398)
.|.+=|..||-++..|+++-.++++. +..|..-...|. +=....+..+.+|||.
T Consensus 15 ~aveti~~Lq~e~eeLke~n~~L~~e-------------~~~L~~en~~L~-------------~e~~~~~~rl~~LL~k 68 (72)
T PF06005_consen 15 QAVETIALLQMENEELKEKNNELKEE-------------NEELKEENEQLK-------------QERNAWQERLRSLLGK 68 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHH-------------HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHH-------------HHHHHHHHHHHH-------------HHHHHHHHHHHHHHHh
Confidence 35566666676666666654443332 333333333322 4456677778888886
Q ss_pred c
Q 015936 306 L 306 (398)
Q Consensus 306 l 306 (398)
+
T Consensus 69 l 69 (72)
T PF06005_consen 69 L 69 (72)
T ss_dssp H
T ss_pred h
Confidence 6
No 9
>smart00338 BRLZ basic region leucin zipper.
Probab=27.53 E-value=1.5e+02 Score=22.80 Aligned_cols=29 Identities=17% Similarity=0.251 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 015936 227 VQQYILNLQSRLSSIKKELCEVKRKSSAL 255 (398)
Q Consensus 227 A~~YI~~Lqsel~sl~keL~~~k~k~~~l 255 (398)
-+.||..|+.++..|+.+-.+++.+-..+
T Consensus 24 Kk~~~~~Le~~~~~L~~en~~L~~~~~~l 52 (65)
T smart00338 24 KKAEIEELERKVEQLEAENERLKKEIERL 52 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36788999888888888777766654444
No 10
>PF07531 TAFH: NHR1 homology to TAF; InterPro: IPR003894 The TAF homology (TAFH) or Nervy homology region 1 (NHR1) domain is a domain of 95-100 amino acids present in eukaryotic proteins of the MTG/ETO family and whereof the core ~75-80 residues occur in TAF proteins. The transcription initiation TFIID complex is composed of TATA binding protein (TBP) and a number of TBP-associated factors (TAFs). The TAFH/NHR1 domain is named after fruit fly TATA-box-associated factor 110 (TAF110), human TAF105 and TAF130, and the fruit fly protein Nervy, which is a homologue of human MTG8/ETO [, ]. The human eight twenty-one (ETO or MTG8) and related myeloid transforming gene products MTGR1 and MTG16 as well as the Nervy protein contain the NHR1-4 domains. The NHR1/TAFH domain occurs in the N-terminal part of these proteins, while a MYND-type zinc finger forms the NHR4 domain []. The TAFH/NHR1 domain can be involved in protein-protein interactions, e.g in MTG8/ETO with HSP90 and Gfi-1 []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2P6V_A 2KNH_A 2PP4_A 2H7B_A.
Probab=23.99 E-value=68 Score=27.71 Aligned_cols=26 Identities=23% Similarity=0.560 Sum_probs=22.8
Q ss_pred HHHhhcCC-CChHHHHHHHHHHHHHhc
Q 015936 279 KVVELSEP-TCPELKETIHSVVHGLLA 304 (398)
Q Consensus 279 ~l~~Ls~~-~S~EV~e~I~~~VqgLLg 304 (398)
+|.+|+.. .|||+.+.++.+|++|+.
T Consensus 12 tLi~las~~~spev~~~Vr~LV~~L~~ 38 (96)
T PF07531_consen 12 TLIQLASDKQSPEVGENVRELVQNLVD 38 (96)
T ss_dssp HHHHHHCCSC-CCHHHHHHHHHHHHHT
T ss_pred HHHHHhcCCCChHHHHHHHHHHHHHHc
Confidence 68889988 999999999999999984
No 11
>COG1080 PtsA Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]
Probab=23.50 E-value=82 Score=34.94 Aligned_cols=45 Identities=27% Similarity=0.413 Sum_probs=38.0
Q ss_pred hhccccchHHHHHHhccCh--HHHHhhcCCCChHHHHHHHHHHHHHh
Q 015936 259 QFVGEEKNDLLDYLRSLQP--EKVVELSEPTCPELKETIHSVVHGLL 303 (398)
Q Consensus 259 ~~~g~~~N~LL~YLrSL~p--e~l~~Ls~~~S~EV~e~I~~~VqgLL 303 (398)
.|+.-..|||.+|....+. +.|+.+.++..|-|..+|+++|++-=
T Consensus 448 DFfSIGTNDLtQYtLA~DR~n~~vs~ly~pl~PAVLrlI~~vi~~ah 494 (574)
T COG1080 448 DFFSIGTNDLTQYTLAVDRGNAKVSHLYDPLHPAVLRLIKQVIDAAH 494 (574)
T ss_pred CEeeecccHHHHHHHHHhcCChhhhhhcCCCCHHHHHHHHHHHHHHH
Confidence 3444579999999987764 57999999999999999999998753
No 12
>KOG4119 consensus G protein gamma subunit [Signal transduction mechanisms]
Probab=23.39 E-value=1.5e+02 Score=24.46 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhccccchHHHHHHhccChH
Q 015936 230 YILNLQSRLSSIKKELCEVKRKSSALQMQQFVGEEKNDLLDYLRSLQPE 278 (398)
Q Consensus 230 YI~~Lqsel~sl~keL~~~k~k~~~l~m~~~~g~~~N~LL~YLrSL~pe 278 (398)
-+.++++.+.+|+.|+...+-+= .....+|++|+-...++
T Consensus 8 ~~~q~k~~VeqLk~e~~~~R~~v---------S~a~~el~~y~E~~~~~ 47 (71)
T KOG4119|consen 8 KKPQMKKEVEQLKLEANIERIKV---------SKAAAELLEYCETHATE 47 (71)
T ss_pred chHHHHHHHHHHHHHHHhhHhhH---------HHHHHHHHHHHHhcCcc
Confidence 35678888888888886653321 12356788887666554
No 13
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=22.77 E-value=2.3e+02 Score=21.16 Aligned_cols=26 Identities=12% Similarity=0.224 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhH
Q 015936 228 QQYILNLQSRLSSIKKELCEVKRKSS 253 (398)
Q Consensus 228 ~~YI~~Lqsel~sl~keL~~~k~k~~ 253 (398)
+.|++.|+.++..|+.+-..++....
T Consensus 24 k~~~~~le~~~~~L~~en~~L~~~i~ 49 (54)
T PF07716_consen 24 KQREEELEQEVQELEEENEQLRQEIA 49 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777776666555544333
No 14
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=22.54 E-value=3.5e+02 Score=26.71 Aligned_cols=26 Identities=15% Similarity=0.235 Sum_probs=17.3
Q ss_pred HhhcCCCChHHHHHHHHHHHHHhccc
Q 015936 281 VELSEPTCPELKETIHSVVHGLLATL 306 (398)
Q Consensus 281 ~~Ls~~~S~EV~e~I~~~VqgLLg~l 306 (398)
+.+......+..+.|+..++.||++-
T Consensus 165 ~~~~~~~~~~~l~~le~~l~~lF~~~ 190 (232)
T PF09577_consen 165 QQLDQKEVQEALEQLEEDLQKLFDGV 190 (232)
T ss_pred cccChHHHHHHHHHHHHHHHHHhCcc
Confidence 33444455666677788888888765
No 15
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=22.44 E-value=1.7e+02 Score=26.20 Aligned_cols=46 Identities=28% Similarity=0.520 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHhhhhccccchHHHHHHhccChHHHHhhcCCC
Q 015936 233 NLQSRLSSIKKELCEVKRKSSALQMQQFVGEEKNDLLDYLRSLQPEKVVELSEPT 287 (398)
Q Consensus 233 ~Lqsel~sl~keL~~~k~k~~~l~m~~~~g~~~N~LL~YLrSL~pe~l~~Ls~~~ 287 (398)
..+.|++-||.+..++.+++.++ +..|.||.-+ .+||+|++|...-
T Consensus 64 AVREEVe~Lk~qI~eL~er~~~L-------e~EN~lLk~~--~spe~L~ql~~~~ 109 (123)
T KOG4797|consen 64 AVREEVEVLKEQIRELEERNSAL-------ERENSLLKTL--ASPEQLAQLPAQL 109 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHhh--CCHHHHHHHHHhc
Confidence 34778888888888888777777 3466666533 3577777765443
No 16
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=22.28 E-value=2e+02 Score=22.00 Aligned_cols=24 Identities=29% Similarity=0.544 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 015936 228 QQYILNLQSRLSSIKKELCEVKRK 251 (398)
Q Consensus 228 ~~YI~~Lqsel~sl~keL~~~k~k 251 (398)
++||..|+.++..|+.+...++..
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~ 48 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKE 48 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHH
Confidence 568888888888877776666553
No 17
>PF01706 FliG_C: FliG C-terminal domain; InterPro: IPR023087 The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour []. The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour []. CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated. The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN []. Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N- or C-termini being less important []. Such clustering suggests that FliG-FliM interaction plays a central role in switching. Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins []. This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring [, ]. FliG is present in about 25 copies per flagellum. This entry represents the C-terminal domain of FliG, the structure of which is known. This domain functions specifically in motor rotation [].; PDB: 3USY_B 3USW_A 3HJL_A 3AJC_A 1LKV_X 1QC7_B.
Probab=21.88 E-value=61 Score=27.47 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=22.6
Q ss_pred cchHHHHHhhhcCchhhhhhcccCChHHHHHHH
Q 015936 77 KKSVLASMIQEVEPLDVTLIQKDVPPTTLDAMK 109 (398)
Q Consensus 77 ~~n~L~~yvqs~~Pe~v~~~sk~~speV~e~i~ 109 (398)
....|-..+++++++++...-+.+++++++.|-
T Consensus 29 ~~~~l~~ll~~v~~~~la~ALkga~~e~~~~il 61 (110)
T PF01706_consen 29 DDRDLQKLLREVDPDDLALALKGASEELREKIL 61 (110)
T ss_dssp -HHHHHHHHTTS-HHHHHHHHCTS-HHHHHHHH
T ss_pred CHHHHHHHHHHCCHhHHHHHHccCCHHHHHHHH
Confidence 466777888888888888888888887666543
No 18
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=20.74 E-value=1.8e+02 Score=24.37 Aligned_cols=41 Identities=34% Similarity=0.509 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhccccchHHHHHHhcc
Q 015936 229 QYILNLQSRLSSIKKELCEVKRKSSALQMQQFVGEEKNDLLDYLRSL 275 (398)
Q Consensus 229 ~YI~~Lqsel~sl~keL~~~k~k~~~l~m~~~~g~~~N~LL~YLrSL 275 (398)
+-|..||..+..|-...+++|..+..|. .++.-|-+||.+|
T Consensus 23 ~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~------~EN~~Lq~YI~nL 63 (80)
T PF10224_consen 23 QEILELQDSLEALSDRVEEVKEENEKLE------SENEYLQQYIGNL 63 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH
Confidence 4455677777777777777766555441 2456678899887
No 19
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=20.47 E-value=3.8e+02 Score=21.19 Aligned_cols=29 Identities=17% Similarity=0.314 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHh
Q 015936 229 QYILNLQSRLSSIKKELCEVKRKSSALQM 257 (398)
Q Consensus 229 ~YI~~Lqsel~sl~keL~~~k~k~~~l~m 257 (398)
..+..++.++.++++|+++.+.++..|+.
T Consensus 24 ~~~~~~~~~~~~~~~~~~~l~~en~~L~~ 52 (85)
T TIGR02209 24 HQTRQLNNELQKLQLEIDKLQKEWRDLQL 52 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456777777777777776665555533
No 20
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=20.28 E-value=1.9e+02 Score=25.32 Aligned_cols=30 Identities=33% Similarity=0.557 Sum_probs=25.0
Q ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q 015936 224 TPEVQQYILNLQSRLSSIKKELCEVKRKSS 253 (398)
Q Consensus 224 ~~eA~~YI~~Lqsel~sl~keL~~~k~k~~ 253 (398)
...-..||..+|.++..+++-+++.++...
T Consensus 17 ~~~L~~Yi~~~~~kl~~l~~~~~~~~~~~~ 46 (134)
T PF08336_consen 17 ISNLRNYIEELQEKLDTLKRFLDEMKREHE 46 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345689999999999999999998887544
No 21
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=20.07 E-value=1.7e+02 Score=23.82 Aligned_cols=27 Identities=30% Similarity=0.514 Sum_probs=24.1
Q ss_pred CCHhHHHHHHHHHHHHHHHHHHHHHHH
Q 015936 223 MTPEVQQYILNLQSRLSSIKKELCEVK 249 (398)
Q Consensus 223 l~~eA~~YI~~Lqsel~sl~keL~~~k 249 (398)
+..++..-|..|-.++..|++|+..+|
T Consensus 57 in~~gi~lil~LLd~i~~L~~el~~L~ 83 (84)
T PF13591_consen 57 INLEGIALILDLLDRIEQLRRELRELR 83 (84)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 678999999999999999999997764
Done!