Query 036039
Match_columns 508
No_of_seqs 199 out of 251
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 08:49:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036039.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036039hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14144 DOG1: Seed dormancy c 100.0 7.1E-33 1.5E-37 231.6 7.1 79 285-363 1-80 (80)
2 smart00338 BRLZ basic region l 98.6 8.4E-08 1.8E-12 76.7 6.6 45 203-250 2-46 (65)
3 PF00170 bZIP_1: bZIP transcri 98.5 1.5E-07 3.2E-12 75.2 5.8 43 205-250 4-46 (64)
4 PF07716 bZIP_2: Basic region 98.4 5.4E-07 1.2E-11 70.1 6.6 45 203-251 2-46 (54)
5 KOG3584 cAMP response element 97.8 2.2E-05 4.7E-10 80.2 4.7 32 204-235 289-320 (348)
6 PF13801 Metal_resist: Heavy-m 96.8 0.043 9.3E-07 46.2 13.1 85 365-454 40-124 (125)
7 KOG4343 bZIP transcription fac 96.2 0.0076 1.7E-07 66.3 6.0 47 201-250 273-322 (655)
8 COG3678 CpxP P pilus assembly/ 96.2 0.11 2.4E-06 49.4 13.0 111 341-462 35-145 (160)
9 PF03131 bZIP_Maf: bZIP Maf tr 96.0 0.0063 1.4E-07 52.2 3.5 34 205-238 29-62 (92)
10 KOG0709 CREB/ATF family transc 95.7 0.011 2.3E-07 64.2 4.1 44 204-247 249-292 (472)
11 PRK12750 cpxP periplasmic repr 95.2 0.67 1.5E-05 44.4 14.1 96 361-463 48-152 (170)
12 KOG0837 Transcriptional activa 92.7 0.22 4.7E-06 51.0 5.8 29 206-234 206-234 (279)
13 PRK10363 cpxP periplasmic repr 92.6 3.4 7.3E-05 40.0 13.3 109 363-481 48-157 (166)
14 PRK10455 periplasmic protein; 91.8 2.2 4.8E-05 40.6 11.1 110 343-469 35-148 (161)
15 KOG4005 Transcription factor X 91.8 0.95 2.1E-05 46.1 9.0 45 202-249 65-109 (292)
16 PF07813 LTXXQ: LTXXQ motif fa 91.2 1.3 2.8E-05 36.8 8.0 84 361-456 10-96 (100)
17 PRK12751 cpxP periplasmic stre 89.6 6.9 0.00015 37.5 12.2 100 362-471 53-153 (162)
18 KOG3119 Basic region leucine z 82.0 3.9 8.4E-05 41.8 6.8 50 198-250 186-235 (269)
19 KOG4571 Activating transcripti 71.5 14 0.0003 38.8 7.3 52 200-251 220-283 (294)
20 PF10552 ORF6C: ORF6C domain; 56.5 1.1E+02 0.0024 27.3 9.3 44 304-359 68-113 (116)
21 PF12240 Angiomotin_C: Angiomo 41.7 3.9E+02 0.0084 27.1 11.7 91 205-316 6-98 (205)
22 TIGR02889 spore_YpeB germinati 40.1 2.6E+02 0.0057 30.9 10.8 117 272-401 33-152 (435)
23 PF07889 DUF1664: Protein of u 40.0 1.1E+02 0.0023 28.6 6.7 55 344-398 21-75 (126)
24 KOG3725 SH3 domain protein SH3 39.5 1.6E+02 0.0034 31.1 8.5 22 303-324 237-258 (375)
25 PRK11702 hypothetical protein; 38.5 15 0.00032 33.5 1.0 14 219-232 5-18 (108)
26 PF09577 Spore_YpjB: Sporulati 37.4 3.1E+02 0.0068 28.0 10.2 89 302-403 80-186 (232)
27 PF06013 WXG100: Proteins of 1 36.6 2E+02 0.0044 22.3 7.5 52 227-292 18-69 (86)
28 KOG3745 Exocyst subunit - Sec1 35.6 1.5E+02 0.0033 35.0 8.5 97 305-404 5-105 (763)
29 KOG3759 Uncharacterized RUN do 34.7 1E+02 0.0022 34.8 6.6 100 220-348 142-246 (621)
30 PF11459 DUF2893: Protein of u 34.5 87 0.0019 26.5 4.8 41 424-464 21-61 (69)
31 PF14620 YPEB: YpeB sporulatio 32.3 3.9E+02 0.0084 28.7 10.4 115 273-401 24-142 (361)
32 PF10459 Peptidase_S46: Peptid 31.7 9.2E+02 0.02 28.5 15.7 178 214-404 335-540 (698)
33 TIGR01062 parC_Gneg DNA topois 30.8 5E+02 0.011 30.8 11.7 92 302-403 338-443 (735)
34 KOG4196 bZIP transcription fac 28.8 1.6E+02 0.0036 27.9 6.1 44 204-250 51-94 (135)
35 PF05227 CHASE3: CHASE3 domain 26.7 4.1E+02 0.009 22.8 8.2 68 239-319 15-84 (138)
36 PRK06569 F0F1 ATP synthase sub 25.5 6.2E+02 0.013 24.4 9.9 84 205-316 40-128 (155)
37 cd00223 TOPRIM_TopoIIB_SPO TOP 24.6 84 0.0018 29.2 3.5 39 344-383 89-127 (160)
38 PTZ00446 vacuolar sorting prot 24.6 1.6E+02 0.0035 29.2 5.5 40 209-248 59-99 (191)
39 KOG1656 Protein involved in gl 23.1 1.4E+02 0.0031 30.2 4.9 36 213-248 58-93 (221)
40 PF07047 OPA3: Optic atrophy 3 22.9 2.1E+02 0.0046 26.3 5.8 39 213-251 95-133 (134)
41 KOG0994 Extracellular matrix g 22.4 1.7E+03 0.038 28.5 17.6 46 425-471 1662-1716(1758)
42 COG3130 Rmf Ribosome modulatio 21.6 24 0.00053 28.4 -0.6 14 341-354 34-47 (55)
43 PF06210 DUF1003: Protein of u 21.4 2.4E+02 0.0051 25.5 5.6 40 210-250 54-93 (108)
44 PRK06669 fliH flagellar assemb 21.1 6.1E+02 0.013 25.7 9.1 79 205-292 77-155 (281)
45 KOG1241 Karyopherin (importin) 20.4 1.1E+03 0.025 28.4 11.9 99 302-405 589-690 (859)
46 KOG3863 bZIP transcription fac 20.2 80 0.0017 36.3 2.8 42 209-250 493-534 (604)
No 1
>PF14144 DOG1: Seed dormancy control
Probab=99.97 E-value=7.1e-33 Score=231.60 Aligned_cols=79 Identities=57% Similarity=1.044 Sum_probs=76.7
Q ss_pred HHHHHHHHhhccCC-CCchHHHHHHHHHHHHHHHHHHHHhhhccccchhccCCCcchHHHHHhHhcCCCchHHHHHHHhh
Q 036039 285 RHISELRSGLNQHY-SDGDLRIIVDAYISHYDEIFRLKGVAAKSDVFHLITGMWTTSAERCFLWMGGFRPSELIKMLISQ 363 (508)
Q Consensus 285 r~l~ELRaAL~s~~-sD~ELr~LVd~vlsHY~eyfr~Ks~AAk~DVF~llSg~W~TPlER~FLWIGGfRPSellkLL~~q 363 (508)
|++.|||++|+++. +|.+|+.||++||+||++||++|+.||++|||++|+|+|+||+|||||||||||||++||||+++
T Consensus 1 ~~l~eLr~al~~~~~~~~~L~~lV~~~~~Hy~~y~~~K~~aa~~DV~~~~s~~W~sp~Er~flWiGG~RPS~~~~ll~s~ 80 (80)
T PF14144_consen 1 RQLNELRAALQSHADSDDELRSLVDKVMSHYDEYYRAKSAAAKADVFHLLSPPWKSPLERCFLWIGGWRPSELFKLLYSQ 80 (80)
T ss_pred CcHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHhCCCCCCHHHHHHHHHhcCCHHHHHHHHhcC
Confidence 57899999999998 89999999999999999999999999999999999999999999999999999999999999875
No 2
>smart00338 BRLZ basic region leucin zipper.
Probab=98.63 E-value=8.4e-08 Score=76.70 Aligned_cols=45 Identities=53% Similarity=0.660 Sum_probs=38.6
Q ss_pred ccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 203 LDAKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 203 ~d~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
.|+|-.||+.+||+||++||.|||.|++.||. ++..|+.+....+
T Consensus 2 ~~~k~~rR~~rNR~aA~~~R~rKk~~~~~Le~---~~~~L~~en~~L~ 46 (65)
T smart00338 2 EDEKRRRRRERNREAARRSRERKKAEIEELER---KVEQLEAENERLK 46 (65)
T ss_pred ccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
Confidence 46799999999999999999999999999999 5666666666554
No 3
>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=98.54 E-value=1.5e-07 Score=75.17 Aligned_cols=43 Identities=49% Similarity=0.702 Sum_probs=37.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 205 AKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 205 ~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
.|..+|+.+||+|||+||.|||.|++.||. ++..|+.+....+
T Consensus 4 ~k~~~rr~rNR~AAr~~R~RKk~~~~~Le~---~~~~L~~en~~L~ 46 (64)
T PF00170_consen 4 DKRERRRERNREAARRSRQRKKQYIEELEE---KVEELESENEELK 46 (64)
T ss_dssp -CHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhHHHHHH---HHHHHHHHHHHHH
Confidence 567899999999999999999999999999 6777777766654
No 4
>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=98.45 E-value=5.4e-07 Score=70.11 Aligned_cols=45 Identities=44% Similarity=0.571 Sum_probs=38.3
Q ss_pred ccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHhh
Q 036039 203 LDAKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRARS 251 (508)
Q Consensus 203 ~d~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar~ 251 (508)
.|++..||. +||+||++||-|||.|++.||. ++.+|+.+....++
T Consensus 2 ~~~~~~rR~-rNr~AA~r~R~rkk~~~~~le~---~~~~L~~en~~L~~ 46 (54)
T PF07716_consen 2 DEEKRERRE-RNREAARRSRQRKKQREEELEQ---EVQELEEENEQLRQ 46 (54)
T ss_dssp CHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence 467889999 9999999999999999999999 57777777666553
No 5
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=97.79 E-value=2.2e-05 Score=80.23 Aligned_cols=32 Identities=50% Similarity=0.623 Sum_probs=28.9
Q ss_pred cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh
Q 036039 204 DAKTLRRLAQNREAARKSRLRKKAYVQQLETS 235 (508)
Q Consensus 204 d~k~~RRLAQNREaARkSRlRKKaYvqqLE~s 235 (508)
.-|..-||-+||||||.+|+.||-||..||+.
T Consensus 289 trKRevRLmKNREAARECRRKKKEYVKCLENR 320 (348)
T KOG3584|consen 289 TRKREVRLMKNREAARECRRKKKEYVKCLENR 320 (348)
T ss_pred hhHHHHHHHhhHHHHHHHHHhHhHHHHHHHhH
Confidence 34666799999999999999999999999994
No 6
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=96.80 E-value=0.043 Score=46.22 Aligned_cols=85 Identities=27% Similarity=0.255 Sum_probs=67.0
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 365 DPLTEQQVMGIYSLQQSTQQAEEALSQGLEQLQQSLIETIAGGPVVDGMQQMVVALGKLENLEGFVRQADNLRQQTLHQL 444 (508)
Q Consensus 365 epLTeqQL~~I~~LqqstqqaEdALSqgMe~LQqsLAD~la~g~v~d~~~qma~Am~KL~~Le~fl~qAD~LR~qTL~ql 444 (508)
-+||++|..+|..+.......-..+-+.|......|...+...++ | .+.+-..++.+...-.+....|.+++.++
T Consensus 40 l~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~~r~~l~~ll~~~~~-D----~~~i~a~~~~~~~~~~~l~~~~~~~~~~~ 114 (125)
T PF13801_consen 40 LNLTPEQQAKLRALMDEFRQEMRALRQELRAARQELRALLAAPPP-D----EAAIEALLEEIREAQAELRQERLEHLLEI 114 (125)
T ss_dssp S-TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSSS------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC-C----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 369999999999999999999999999999999999998876554 2 11122334566666677778899999999
Q ss_pred HHhcCHHHHH
Q 036039 445 RRILTVRQAA 454 (508)
Q Consensus 445 ~~ILTprQAA 454 (508)
..+|||.|=+
T Consensus 115 ~~~LtpeQR~ 124 (125)
T PF13801_consen 115 RAVLTPEQRA 124 (125)
T ss_dssp HHTT-GGGHH
T ss_pred HHcCCHHHhC
Confidence 9999999855
No 7
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=96.20 E-value=0.0076 Score=66.26 Aligned_cols=47 Identities=38% Similarity=0.521 Sum_probs=39.5
Q ss_pred ccccHHHH---HHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 201 RQLDAKTL---RRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 201 ~~~d~k~~---RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
-+.|+|++ .|..+|||.|-.||.|||-|++-||. +|..|++|-+..|
T Consensus 273 ~~~d~kv~krqQRmIKNResA~~SRkKKKEy~~~Le~---rLq~ll~Ene~Lk 322 (655)
T KOG4343|consen 273 VGSDIKVLKRQQRMIKNRESACQSRKKKKEYMLGLEA---RLQALLSENEQLK 322 (655)
T ss_pred CccCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
Confidence 34577765 48999999999999999999999999 6888888776655
No 8
>COG3678 CpxP P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]
Probab=96.19 E-value=0.11 Score=49.43 Aligned_cols=111 Identities=24% Similarity=0.249 Sum_probs=72.8
Q ss_pred HHHHHhHhcCCCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCchhhHHHHHH
Q 036039 341 AERCFLWMGGFRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQQAEEALSQGLEQLQQSLIETIAGGPVVDGMQQMVVAL 420 (508)
Q Consensus 341 lER~FLWIGGfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALSqgMe~LQqsLAD~la~g~v~d~~~qma~Am 420 (508)
+... +|.|+|-|=-.= .....| +||++|..+|..+...-+ .++.+-+..-...+-+.+.++.. | -+.|-
T Consensus 35 ~~~~-~~~g~~~~~~~~-~~~~~l-~lT~~Qrqqi~~i~~~~~---~a~~~~~~~~r~~l~~li~a~~~-D----~aka~ 103 (160)
T COG3678 35 MADA-HHGGQFGPRHQG-GMFKGL-DLTRAQRQQIRDLMQAQR---RAQREQLRSKRRALHELIAADQF-D----EAKAR 103 (160)
T ss_pred cccc-ccCCCCCccccc-cccccc-cccHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCc-C----HHHHH
Confidence 4444 577777665320 011223 699999999998877755 34444444444455555544332 2 12334
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Q 036039 421 GKLENLEGFVRQADNLRQQTLHQLRRILTVRQAARCFLVIGE 462 (508)
Q Consensus 421 ~KL~~Le~fl~qAD~LR~qTL~ql~~ILTprQAArfLLA~~e 462 (508)
...+.++....+.+.+|.++-.+|..||||.|.+.+=-..++
T Consensus 104 a~~~~m~~~~~~~~~~r~k~~~~m~~vLTPEQr~~l~~~~~~ 145 (160)
T COG3678 104 AQAEKMENQRQALRELRVKSDNQMYQVLTPEQRAKLQELLAQ 145 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 566788889999999999999999999999999877554444
No 9
>PF03131 bZIP_Maf: bZIP Maf transcription factor; InterPro: IPR004826 There are several different types of Maf transcription factors with different roles in the cell. MafG and MafH are small Mafs which lack a putative transactivation domain. They behave as transcriptional repressors when they dimerize among themselves. However they also serve as transcriptional activators by dimerizing with other (usually larger) basic-zipper proteins and recruiting them to specific DNA-binding sites. Maf transcription factors contain a conserved basic region leucine zipper (bZIP) domain, which mediates their dimerization and DNA binding property. Neural retina-specific leucine zipper proteins also belong to this family. Together with the basic region, the Maf extended homology region (EHR), conserved only within the Maf family, defines the DNA binding specific to Mafs. This structure enables Mafs to make a broader area of contact with DNA and to recognise longer DNA sequences. In particular, the two residues at the beginning of helix H2 are positioned to recognise the flanking region []. Small Maf proteins heterodimerize with Fos and may act as competitive repressors of the NF2-E2 transcription factor. In mouse, Maf1 may play an early role in axial patterning. Defects in these proteins are a cause of autosomal dominant retinitis pigmentosa. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2KZ5_A 3A5T_A 1K1V_A 1SKN_P 2WT7_B 2WTY_B.
Probab=96.03 E-value=0.0063 Score=52.24 Aligned_cols=34 Identities=32% Similarity=0.341 Sum_probs=30.3
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHH
Q 036039 205 AKTLRRLAQNREAARKSRLRKKAYVQQLETSRIK 238 (508)
Q Consensus 205 ~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~k 238 (508)
=|-.||.-+||.||++||.||+.++..||.....
T Consensus 29 lK~~RRr~KNR~~A~~cR~rk~~~~~~Le~e~~~ 62 (92)
T PF03131_consen 29 LKQRRRRLKNRGYAQNCRKRKLDQIEELEEEIEQ 62 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999999999999999996433
No 10
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=95.66 E-value=0.011 Score=64.21 Aligned_cols=44 Identities=36% Similarity=0.483 Sum_probs=34.2
Q ss_pred cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHH
Q 036039 204 DAKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQ 247 (508)
Q Consensus 204 d~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~ 247 (508)
+=|..||..+|-+.|-.||.|||-||..||.....-..=.|||+
T Consensus 249 iLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~ 292 (472)
T KOG0709|consen 249 ILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQ 292 (472)
T ss_pred HHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHH
Confidence 45778999999999999999999999999996443333333333
No 11
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=95.19 E-value=0.67 Score=44.40 Aligned_cols=96 Identities=17% Similarity=0.146 Sum_probs=59.9
Q ss_pred HhhCCCCcHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHhhhCCCCCchhhHHHHHHHHH-HHHHHHHH
Q 036039 361 ISQLDPLTEQQVMGIYSLQQSTQQAEEA--------LSQGLEQLQQSLIETIAGGPVVDGMQQMVVALGKL-ENLEGFVR 431 (508)
Q Consensus 361 ~~qLepLTeqQL~~I~~LqqstqqaEdA--------LSqgMe~LQqsLAD~la~g~v~d~~~qma~Am~KL-~~Le~fl~ 431 (508)
...| +||++|...|..|+...+..-.+ .-..|....+.+.+.+.+.+.... ++..+ +.+...-.
T Consensus 48 ~~~L-~LTdeQk~qik~i~~~~r~~~k~~~~~~r~~~~~~m~a~~~~~~~Ll~a~~FDea------avral~~~~~~~~~ 120 (170)
T PRK12750 48 MRQL-DLTDAQKEQLKEMREANRAEMKAKYSGNREQSHAEMKAHHAKVQALVLADDFDEA------AANDLAKQMVEKQV 120 (170)
T ss_pred HhhC-CCCHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHhcCCCCHH------HHHHHHHHHHHHHH
Confidence 3456 59999999999998777664333 455566677777777766554221 11111 11111112
Q ss_pred HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Q 036039 432 QADNLRQQTLHQLRRILTVRQAARCFLVIGEY 463 (508)
Q Consensus 432 qAD~LR~qTL~ql~~ILTprQAArfLLA~~ey 463 (508)
+.---|.++.+++..||||-|=+.|---..+.
T Consensus 121 e~~v~~~~~~~~~~~vLTpEQRak~~e~~~~r 152 (170)
T PRK12750 121 ERRVKMLEKRHQMLSILTPEQKAKFQELQQER 152 (170)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 22223667889999999999999996554443
No 12
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=92.71 E-value=0.22 Score=51.04 Aligned_cols=29 Identities=45% Similarity=0.499 Sum_probs=23.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 036039 206 KTLRRLAQNREAARKSRLRKKAYVQQLET 234 (508)
Q Consensus 206 k~~RRLAQNREaARkSRlRKKaYvqqLE~ 234 (508)
|..|+=++|||||+|||.||---|-+||.
T Consensus 206 kleRkrlrnreaa~Kcr~rkLdrisrLEd 234 (279)
T KOG0837|consen 206 KLERKRLRNREAASKCRKRKLDRISRLED 234 (279)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHh
Confidence 55677788999999999999777777766
No 13
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=92.55 E-value=3.4 Score=39.98 Aligned_cols=109 Identities=16% Similarity=0.128 Sum_probs=61.3
Q ss_pred hCCCCcHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 363 QLDPLTEQQVMGIYSLQQSTQQAEEALSQ-GLEQLQQSLIETIAGGPVVDGMQQMVVALGKLENLEGFVRQADNLRQQTL 441 (508)
Q Consensus 363 qLepLTeqQL~~I~~LqqstqqaEdALSq-gMe~LQqsLAD~la~g~v~d~~~qma~Am~KL~~Le~fl~qAD~LR~qTL 441 (508)
.| +||++|...|..|.+.-+.+...++. ++++++ +.+.+++..+ ..+....+|+. ..=.+.-=-|.++-
T Consensus 48 gL-dLTdaQRqQmRdLm~~~r~~~~~~~~~er~amh----~LI~ad~FDE--aavra~a~kma---~~~~e~~Vem~k~~ 117 (166)
T PRK10363 48 GI-SLTEHQRQQMRDLMQQARHEQPPVNVSEMETMH----RLVTAENFDE--NAVRAQAEKMA---QEQVARQVEMAKVR 117 (166)
T ss_pred CC-CCCHHHHHHHHHHHHHHHhcccccCHHHHHHHH----HHHhcCCCCH--HHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence 44 69999999999999887765444432 444444 3333433311 11111123331 11111112355667
Q ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHHhhhcccccCCCcc
Q 036039 442 HQLRRILTVRQAARCFLVIGEYYGRLRALSSLWASRPRET 481 (508)
Q Consensus 442 ~ql~~ILTprQAArfLLA~~ey~~RLRaLSslW~~Rpre~ 481 (508)
++|..||||-|-+.|=--.-+....+|.++.+=.+-+-.+
T Consensus 118 nqmy~lLTPEQKaq~~~~~~~rm~~~~~~~~~q~~s~~~~ 157 (166)
T PRK10363 118 NQMYRLLTPEQQAVLNEKHQQRMEQLRDVTQWQKSSSLKL 157 (166)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHHHHHhcCccccccc
Confidence 8999999999999994444445566677664444444333
No 14
>PRK10455 periplasmic protein; Reviewed
Probab=91.83 E-value=2.2 Score=40.61 Aligned_cols=110 Identities=15% Similarity=0.174 Sum_probs=60.9
Q ss_pred HHHhHhcC---CCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhCCCCCchhhHHHH
Q 036039 343 RCFLWMGG---FRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQQAEEALS-QGLEQLQQSLIETIAGGPVVDGMQQMVV 418 (508)
Q Consensus 343 R~FLWIGG---fRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALS-qgMe~LQqsLAD~la~g~v~d~~~qma~ 418 (508)
.+.+|-|| ..+..+| ..| +||++|..+|..|.+..+..-...+ +..+.++ +.+.+++... ..+..
T Consensus 35 ~~~~~~~~~~g~~~~~m~----~~L-~LT~~Qrqqir~im~~~r~~~~~~~~~~r~~l~----~li~ad~FDe--aavra 103 (161)
T PRK10455 35 KPMMHHKGKFGPHHDMMF----KGL-NLTDAQKQQIRDIMKAQRDQMKRPPLEERRAMH----DIIASDTFDK--AKAEA 103 (161)
T ss_pred CccccCCCCCCchhhhhh----hhC-CCCHHHHHHHHHHHHHHHHhhccccHHHHHHHH----HHHccCccCH--HHHHH
Confidence 34566553 3344333 445 6999999999998776655432222 2333333 3344433211 11111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHh
Q 036039 419 ALGKLENLEGFVRQADNLRQQTLHQLRRILTVRQAARCFLVIGEYYGRLRA 469 (508)
Q Consensus 419 Am~KL~~Le~fl~qAD~LR~qTL~ql~~ILTprQAArfLLA~~ey~~RLRa 469 (508)
.++++ ...-.+.-..|.++-.+|..||||-|=+.|= ..+..|+..
T Consensus 104 ~~~k~---~~~~~~~~~~~~~~~~qiy~vLTPEQr~q~~---~~~ekr~~~ 148 (161)
T PRK10455 104 QITKM---EAQRKARMLAHMETQNKIYNVLTPEQKKQFN---ANFEKRLTE 148 (161)
T ss_pred HHHHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHH---HHHHHHHHh
Confidence 12333 3333333346788889999999999999883 233455444
No 15
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=91.81 E-value=0.95 Score=46.15 Aligned_cols=45 Identities=33% Similarity=0.419 Sum_probs=35.7
Q ss_pred cccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHH
Q 036039 202 QLDAKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRA 249 (508)
Q Consensus 202 ~~d~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~ra 249 (508)
....|++||=-.||=||..+|=||||-...+|-. +..|++|-++.
T Consensus 65 S~EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~~---i~dL~een~~L 109 (292)
T KOG4005|consen 65 SWEEKVQRRKLKNRVAAQTARDRKKARMEEMEYE---IKDLTEENEIL 109 (292)
T ss_pred CHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 3468999999999999999999999999988874 44444444443
No 16
>PF07813 LTXXQ: LTXXQ motif family protein; InterPro: IPR012899 This five residue motif is found in a number of bacterial proteins bearing similarity to the protein CpxP (P32158 from SWISSPROT). This is a periplasmic protein that aids in combating extracytoplasmic protein-mediated toxicity, and may also be involved in the response to alkaline pH []. Another member of this family, Spy (P77754 from SWISSPROT) is also a periplasmic protein that may be involved in the response to stress []. The homology between CpxP and Spy may indicate that these two proteins are functionally related []. The motif is found repeated twice in many members of this entry. ; GO: 0042597 periplasmic space; PDB: 3ITF_B 3QZC_B 3OEO_D 3O39_A.
Probab=91.21 E-value=1.3 Score=36.76 Aligned_cols=84 Identities=20% Similarity=0.258 Sum_probs=45.9
Q ss_pred HhhCCCCcHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhhhCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 361 ISQLDPLTEQQVMGIYSLQQSTQQAEEAL---SQGLEQLQQSLIETIAGGPVVDGMQQMVVALGKLENLEGFVRQADNLR 437 (508)
Q Consensus 361 ~~qLepLTeqQL~~I~~LqqstqqaEdAL---SqgMe~LQqsLAD~la~g~v~d~~~qma~Am~KL~~Le~fl~qAD~LR 437 (508)
...| +||++|...|..|....+..-..+ .+.+.++.. +.. + ..-..++.+++.+...-.+.-..|
T Consensus 10 ~~~L-~LT~eQ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~--------~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~ 77 (100)
T PF07813_consen 10 KEEL-NLTDEQKAKWRAIRQAMKAKMKPLKAMREQLRALRD--------PSF-D--EAAPEALAAMAEMMELRAEMMEER 77 (100)
T ss_dssp TTTS---THHHHHHHHHHHHHHCTTS------HHHHHHHHH--------SS-----HHHHHHHH--HHCHHHHHHHHHHH
T ss_pred HhhC-CCCHHHHHHHHHHHHHHHHHHHhhcccHHHHHHhcc--------ccC-C--hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455 499999999999988877766666 222222222 111 0 000111222234444445555567
Q ss_pred HHHHHHHHHhcCHHHHHHH
Q 036039 438 QQTLHQLRRILTVRQAARC 456 (508)
Q Consensus 438 ~qTL~ql~~ILTprQAArf 456 (508)
..+...|..||||-|=..|
T Consensus 78 ~~~~~~~~~vLt~eQk~~~ 96 (100)
T PF07813_consen 78 AKAQHALYAVLTPEQKEKF 96 (100)
T ss_dssp HHHHHHHHTTS-HHHHHHH
T ss_pred HHHHHHHHhcCCHHHHHHH
Confidence 7888999999999998877
No 17
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=89.58 E-value=6.9 Score=37.54 Aligned_cols=100 Identities=17% Similarity=0.122 Sum_probs=59.1
Q ss_pred hhCCCCcHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 362 SQLDPLTEQQVMGIYSLQQSTQQAEEAL-SQGLEQLQQSLIETIAGGPVVDGMQQMVVALGKLENLEGFVRQADNLRQQT 440 (508)
Q Consensus 362 ~qLepLTeqQL~~I~~LqqstqqaEdAL-SqgMe~LQqsLAD~la~g~v~d~~~qma~Am~KL~~Le~fl~qAD~LR~qT 440 (508)
..| +||++|...|..+....+...... -..++ .+-+.+.+.+... ..+...+++ +...-...--.+.++
T Consensus 53 ~~l-~LTd~QR~qmr~im~~~r~~~~~~~~~~~~----~m~~Li~Ad~FDe--aAvra~~~k---ma~~~~e~~v~~~~~ 122 (162)
T PRK12751 53 DGI-NLTEQQRQQMRDLMRQSHQSQPRLDLEDRE----AMHKLITADKFDE--AAVRAQAEK---MSQNQIERHVEMAKV 122 (162)
T ss_pred ccC-CCCHHHHHHHHHHHHHhhhcccchhHHHHH----HHHHHHhcCCCCH--HHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 344 699999999999887766643111 11233 3344444444311 111111222 222222333356778
Q ss_pred HHHHHHhcCHHHHHHHHHHHHHHHHHHHhhh
Q 036039 441 LHQLRRILTVRQAARCFLVIGEYYGRLRALS 471 (508)
Q Consensus 441 L~ql~~ILTprQAArfLLA~~ey~~RLRaLS 471 (508)
..++..+|||-|-+.|=--..+...++|.+.
T Consensus 123 ~~qmy~lLTPEQra~l~~~~e~r~~~~~~~~ 153 (162)
T PRK12751 123 RNQMYNLLTPEQKEALNKKHQERIEKLQQKP 153 (162)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 8999999999999999766666667777653
No 18
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=81.98 E-value=3.9 Score=41.79 Aligned_cols=50 Identities=30% Similarity=0.312 Sum_probs=35.9
Q ss_pred CCCccccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 198 TSDRQLDAKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 198 ~~~~~~d~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
......|++-..|..+|=+|+||||...|.=- .|. .+|+..||.|.+..|
T Consensus 186 ~~~~~~~~~y~err~rNN~A~~kSR~~~k~~~--~e~-~~r~~~leken~~lr 235 (269)
T KOG3119|consen 186 SPVEKKDPEYKERRRRNNEAVRKSRDKRKQKE--DEM-AHRVAELEKENEALR 235 (269)
T ss_pred CchhcCCHHHHHHHHhhhHHHHHhhhhHHHHH--HHH-HHHHHHHHHHHHHHH
Confidence 33445678888899999999999998766433 332 457777777777666
No 19
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=71.46 E-value=14 Score=38.81 Aligned_cols=52 Identities=27% Similarity=0.332 Sum_probs=36.9
Q ss_pred CccccHHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHh-----------HHHHhhHHHHHHHHhh
Q 036039 200 DRQLDAKTLRRLAQNREA-ARKSRLRKKAYVQQLETS-----------RIKLNQLEQELQRARS 251 (508)
Q Consensus 200 ~~~~d~k~~RRLAQNREa-ARkSRlRKKaYvqqLE~s-----------r~kL~qLeqel~rar~ 251 (508)
..+.+.|++||-+|+|.+ |-.=|-||||=-|.||.. |.++..||-||+.-|+
T Consensus 220 ~~~~~~~~~~rkr~qnk~AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKq 283 (294)
T KOG4571|consen 220 PYKTPEKKLRRKRQQNKAAATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQ 283 (294)
T ss_pred CCCCchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445567888888777765 888899999998888753 2334466777766664
No 20
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=56.49 E-value=1.1e+02 Score=27.32 Aligned_cols=44 Identities=16% Similarity=0.357 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHh--hhccccchhccCCCcchHHHHHhHhcCCCchHHHHH
Q 036039 304 RIIVDAYISHYDEIFRLKGV--AAKSDVFHLITGMWTTSAERCFLWMGGFRPSELIKM 359 (508)
Q Consensus 304 r~LVd~vlsHY~eyfr~Ks~--AAk~DVF~llSg~W~TPlER~FLWIGGfRPSellkL 359 (508)
+.+-..+-..+..+|...+. ..+.| +|.++-+|-+|+|+..++.
T Consensus 68 ~k~f~~i~~~lk~~F~V~sY~~I~~kd------------fd~A~~~I~~W~p~~~l~~ 113 (116)
T PF10552_consen 68 RKLFSDIYRDLKRHFGVPSYKDIPRKD------------FDEALEFINNWEPSTALKM 113 (116)
T ss_pred HHHHHHHHHHHHHHhCCchHHhhhHHH------------HHHHHHHHHHcCCCHHHHH
Confidence 34566677777777776433 44555 8999999999999987764
No 21
>PF12240 Angiomotin_C: Angiomotin C terminal; InterPro: IPR024646 This domain represents the C-terminal region of angiomotin. Angiomotin regulates the action of angiogenesis-inhibitor angiostatin []. The C-terminal region of angiomotin appears to be involved in directing the protein chemotactically [].
Probab=41.74 E-value=3.9e+02 Score=27.07 Aligned_cols=91 Identities=21% Similarity=0.284 Sum_probs=50.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHH-hhHHHHHHHHhhcccccCCCCCCCCCChh-hhhhHHHHHHHHHH
Q 036039 205 AKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKL-NQLEQELQRARSQVNFDPQLNLMNLSVPR-AAIFDMEYARWLED 282 (508)
Q Consensus 205 ~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL-~qLeqel~rar~qg~~~~~~~~~~~~~sg-a~~F~~~Y~rWleE 282 (508)
++.++=|+|--.|-.|. ++||. || .+||+||+..|.|----++. +++.+ ++ +..+... +.|
T Consensus 6 ~~LQ~AL~~LQaa~ekR--------E~lE~---rLR~~lE~EL~~lr~qq~~~~~~-~~~~~-~~~~~~L~~~----LrE 68 (205)
T PF12240_consen 6 ERLQQALAQLQAACEKR--------EQLER---RLRTRLERELESLRAQQRQGNSS-GSSSP-SNNASNLKEL----LRE 68 (205)
T ss_pred HHHHHHHHHHHHHHHHH--------HHHHH---HHHHHHHHHHHHHHHhhccCCCC-CCCCC-CCcHHHHHHH----HHH
Confidence 46778888888776653 67776 44 49999999888553322111 12222 21 2222222 445
Q ss_pred HHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHH
Q 036039 283 DQRHISELRSGLNQHYSDGDLRIIVDAYISHYDE 316 (508)
Q Consensus 283 q~r~l~ELRaAL~s~~sD~ELr~LVd~vlsHY~e 316 (508)
-...|-.|.+.+ .-.|-+-|.+..|.+|.-
T Consensus 69 kEErILaLEad~----~kWEqkYLEEs~mrq~a~ 98 (205)
T PF12240_consen 69 KEERILALEADM----TKWEQKYLEESAMRQFAM 98 (205)
T ss_pred HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
Confidence 555555555443 234555677777766543
No 22
>TIGR02889 spore_YpeB germination protein YpeB. Members of this family are YpeB, a protein usually encoded with the putative spore-cortex-lytic enzyme SleB and required, together with SleB, for normal germination. This family is retricted to endospore-forming species in the Firmicutes lineage of bacteria, and found in all such species to date except Clostridium perfringens. The matching phenotypes of mutants in SleB (called a lytic transglycosylase) and YpeB suggests that YpeB is necessary to allow SleB to function.
Probab=40.09 E-value=2.6e+02 Score=30.95 Aligned_cols=117 Identities=15% Similarity=0.232 Sum_probs=80.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhccCC--CCchHHHHHHHHHHHHHHHHHHHHhhhccccchh-ccCCCcchHHHHHhHh
Q 036039 272 FDMEYARWLEDDQRHISELRSGLNQHY--SDGDLRIIVDAYISHYDEIFRLKGVAAKSDVFHL-ITGMWTTSAERCFLWM 348 (508)
Q Consensus 272 F~~~Y~rWleEq~r~l~ELRaAL~s~~--sD~ELr~LVd~vlsHY~eyfr~Ks~AAk~DVF~l-lSg~W~TPlER~FLWI 348 (508)
.+..|.|=|-+.--++..|+..|...+ ++. .....++.+.++.- .+|.+|+-.| ++.+=..-.|.|+-=+
T Consensus 33 ~en~YqRaf~dL~~~vd~l~~~L~k~l~~~s~------~q~~~~l~~vwr~a-s~A~~~l~qLPl~~~~~~~T~kFLsqi 105 (435)
T TIGR02889 33 LQAQYQRAFYELTYHVEQIEAQLGKTLAMGSQ------RQNTPVLADVWRHA-SAANESLSQLPLTQESLEKTSKFLSQV 105 (435)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHhhhCCH------HHHHHHHHHHHHHH-HHHHHHHhcCCCCCcchhhHHHHHHHH
Confidence 455577777777777888777763321 111 11334555666654 4677888777 7777777788899999
Q ss_pred cCCCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 349 GGFRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQQAEEALSQGLEQLQQSLI 401 (508)
Q Consensus 349 GGfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALSqgMe~LQqsLA 401 (508)
|+|-=+...+.+.. +|||+++...|..|+.. =..|.+.|..+|..+.
T Consensus 106 GDfsy~la~~~~~g--~~lt~~e~~tL~~L~~~----a~~l~~~L~~~q~~v~ 152 (435)
T TIGR02889 106 GDFTYTLSVKDAEG--KSLSDKEYKTLTTLYNQ----AVKLENQLRKVQNIVM 152 (435)
T ss_pred HHHHHHHHhhhccC--CCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence 98877766665433 48999999999999887 4567777777777663
No 23
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=40.01 E-value=1.1e+02 Score=28.62 Aligned_cols=55 Identities=15% Similarity=0.322 Sum_probs=28.4
Q ss_pred HHhHhcCCCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 344 CFLWMGGFRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQQAEEALSQGLEQLQQ 398 (508)
Q Consensus 344 ~FLWIGGfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALSqgMe~LQq 398 (508)
+++|.-||.=|++.=+-...|.+=-..=-..+.++..++..+-+.|+++++.+=.
T Consensus 21 ~Y~wwKGws~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~ 75 (126)
T PF07889_consen 21 GYMWWKGWSFSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDD 75 (126)
T ss_pred eeeeecCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 7899999998877644333333211111123333344555555555555554433
No 24
>KOG3725 consensus SH3 domain protein SH3GLB [Signal transduction mechanisms]
Probab=39.47 E-value=1.6e+02 Score=31.13 Aligned_cols=22 Identities=27% Similarity=0.354 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 036039 303 LRIIVDAYISHYDEIFRLKGVA 324 (508)
Q Consensus 303 Lr~LVd~vlsHY~eyfr~Ks~A 324 (508)
|+..|+.-|..|.+-|+.-..+
T Consensus 237 L~dFVeaQmtyYAQcyq~MlDL 258 (375)
T KOG3725|consen 237 LRDFVEAQMTYYAQCYQLMLDL 258 (375)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 7788999999999988865443
No 25
>PRK11702 hypothetical protein; Provisional
Probab=38.47 E-value=15 Score=33.47 Aligned_cols=14 Identities=43% Similarity=0.695 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHH
Q 036039 219 RKSRLRKKAYVQQL 232 (508)
Q Consensus 219 RkSRlRKKaYvqqL 232 (508)
|+.|||||-||-..
T Consensus 5 RsRRlRKKL~v~EF 18 (108)
T PRK11702 5 RSRRLRKKMHIDEF 18 (108)
T ss_pred hhHHHHhhhhhHhh
Confidence 68899999998654
No 26
>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=37.38 E-value=3.1e+02 Score=27.98 Aligned_cols=89 Identities=24% Similarity=0.297 Sum_probs=52.2
Q ss_pred hHHHHHHHHHHHHHHHHH------------HHHhhhccccchhccCCCcchHHHHHhHhcCCCchHHHHHHHhhCCCCcH
Q 036039 302 DLRIIVDAYISHYDEIFR------------LKGVAAKSDVFHLITGMWTTSAERCFLWMGGFRPSELIKMLISQLDPLTE 369 (508)
Q Consensus 302 ELr~LVd~vlsHY~eyfr------------~Ks~AAk~DVF~llSg~W~TPlER~FLWIGGfRPSellkLL~~qLepLTe 369 (508)
.||..||.+.+.|+-++. +|-.+++.|- ..+...++.++-=..=.|||..+. +++
T Consensus 80 ~~RLavDAl~~~~qPLW~~~e~~i~~~~~~mk~a~~~~~~-----~~f~~~~n~f~~~y~~I~Psl~I~--------~~~ 146 (232)
T PF09577_consen 80 QFRLAVDALTHKHQPLWLQYEKPIMEDFQRMKQAAQKGDK-----EAFRASLNEFLSHYELIRPSLTID--------RPP 146 (232)
T ss_pred HHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHhCCH-----HHHHHHHHHHHHHHHHhcchhhcc--------CCH
Confidence 488899998865543332 5666776663 223455666666666667776654 577
Q ss_pred HHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHh
Q 036039 370 QQVMGIYSLQQSTQQ------AEEALSQGLEQLQQSLIET 403 (508)
Q Consensus 370 qQL~~I~~Lqqstqq------aEdALSqgMe~LQqsLAD~ 403 (508)
+++.+|+..-.-+.. ....+.+.++.+..+|...
T Consensus 147 ~~v~~v~s~i~yl~~~~~~~~~~~~~~~~l~~le~~l~~l 186 (232)
T PF09577_consen 147 EQVQRVDSHISYLERLRFQQLDQKEVQEALEQLEEDLQKL 186 (232)
T ss_pred HHHHHHHHHHHHHHHhhhcccChHHHHHHHHHHHHHHHHH
Confidence 777777654443332 2234444455555555444
No 27
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=36.62 E-value=2e+02 Score=22.32 Aligned_cols=52 Identities=19% Similarity=0.374 Sum_probs=33.9
Q ss_pred HHHHHHHHhHHHHhhHHHHHHHHhhcccccCCCCCCCCCChhhhhhHHHHHHHHHHHHHHHHHHHH
Q 036039 227 AYVQQLETSRIKLNQLEQELQRARSQVNFDPQLNLMNLSVPRAAIFDMEYARWLEDDQRHISELRS 292 (508)
Q Consensus 227 aYvqqLE~sr~kL~qLeqel~rar~qg~~~~~~~~~~~~~sga~~F~~~Y~rWleEq~r~l~ELRa 292 (508)
.+...|++ .+.+|+..++... +-+-| .++..|...|..|-....+.+..|..
T Consensus 18 ~~~~~l~~---~~~~l~~~~~~l~--~~W~G---------~a~~af~~~~~~~~~~~~~~~~~L~~ 69 (86)
T PF06013_consen 18 AQADELQS---QLQQLESSIDSLQ--ASWQG---------EAADAFQDKFEEWNQAFRQLNEALEE 69 (86)
T ss_dssp HHHHHHHH---HHHHHHHHHHHHG--GGBTS---------STSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH---HHHHHHHHHHHHh--hhCCc---------hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555 4667777777662 22211 45678999999999888777766643
No 28
>KOG3745 consensus Exocyst subunit - Sec10p [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.56 E-value=1.5e+02 Score=35.01 Aligned_cols=97 Identities=15% Similarity=0.317 Sum_probs=77.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccccchhccCCCcchH-HHHHhHhcCCCchHHHHHHHhhCCC---CcHHHHHHHHHHHH
Q 036039 305 IIVDAYISHYDEIFRLKGVAAKSDVFHLITGMWTTSA-ERCFLWMGGFRPSELIKMLISQLDP---LTEQQVMGIYSLQQ 380 (508)
Q Consensus 305 ~LVd~vlsHY~eyfr~Ks~AAk~DVF~llSg~W~TPl-ER~FLWIGGfRPSellkLL~~qLep---LTeqQL~~I~~Lqq 380 (508)
.|++..++.|.++|.-|...+..-|+.+ .|++|. -+.+-|--.+.|--+++.....+.+ |-++...++.-++.
T Consensus 5 ~l~~~~v~~~~~l~~~~~~~~~e~Ie~~---~~~~~~~~~~~~~~~~~~~~~l~~~f~~~~~eL~~L~e~~qnk~~~~e~ 81 (763)
T KOG3745|consen 5 YLERRHVQQFASLFSCKDINSDEFIEKL---VWRLPLVNRSFQQSKDLDPKGLIKTFENEIKELTLLDERYQNKIRMLEE 81 (763)
T ss_pred hhhHHHHHHHHHHhcCCCcchHHHHHHH---HhcCccccccccchhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888999999998876555555554 599997 6789999999999999988776554 55677788888888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 036039 381 STQQAEEALSQGLEQLQQSLIETI 404 (508)
Q Consensus 381 stqqaEdALSqgMe~LQqsLAD~l 404 (508)
.+.+++..-.+...++++.++.++
T Consensus 82 ~~~~~q~s~~kkv~~lr~k~~~a~ 105 (763)
T KOG3745|consen 82 QMSTEQNSYKKKVDKLREKNSTAL 105 (763)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHH
Confidence 888888888889999998877765
No 29
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=34.70 E-value=1e+02 Score=34.80 Aligned_cols=100 Identities=26% Similarity=0.316 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHHHHHhHHHHhhHHHHHHHHhhcccccCCCCCCCCCChhhhhhHHHHHHHHHHHHHHHHHHHHhhccC--
Q 036039 220 KSRLRKKAYVQQLETSRIKLNQLEQELQRARSQVNFDPQLNLMNLSVPRAAIFDMEYARWLEDDQRHISELRSGLNQH-- 297 (508)
Q Consensus 220 kSRlRKKaYvqqLE~sr~kL~qLeqel~rar~qg~~~~~~~~~~~~~sga~~F~~~Y~rWleEq~r~l~ELRaAL~s~-- 297 (508)
|-+=|.|-.|+||-+ .|..||+ -| |=.|. |.+. . . --++.|+-.+.|||.-|+-+
T Consensus 142 kq~e~qkeLi~QLk~---Ql~dLE~---~A-----Ye~Ge--g~LP-q-----~----viLekQk~ilDeLr~Kl~lnl~ 198 (621)
T KOG3759|consen 142 KQNERQKELIKQLKE---QLEDLER---TA-----YENGE--GELP-Q-----T----VILEKQKAILDELREKLELNLD 198 (621)
T ss_pred hhcchHHHHHHHHHH---HHHHHHH---HH-----HhcCC--CcCc-h-----H----HHHHHHHHHHHHHHHHhhccCC
Confidence 344578889999977 4655554 22 22211 1111 1 1 12778888999999998554
Q ss_pred ---CCCchHHHHHHHHHHHHHHHHHHHHhhhccccchhccCCCcchHHHHHhHh
Q 036039 298 ---YSDGDLRIIVDAYISHYDEIFRLKGVAAKSDVFHLITGMWTTSAERCFLWM 348 (508)
Q Consensus 298 ---~sD~ELr~LVd~vlsHY~eyfr~Ks~AAk~DVF~llSg~W~TPlER~FLWI 348 (508)
++-.|||.-||..+..+-.-|++|.-+...=- +=.|-+||+.-+|
T Consensus 199 i~~lsteelr~qVD~A~~q~VnP~k~KeQLV~QLk------TQItDLErFInFl 246 (621)
T KOG3759|consen 199 IDKLSTEELRRQVDDALKQLVNPFKEKEQLVDQLK------TQITDLERFINFL 246 (621)
T ss_pred cccccHHHHHHHHHHHHHHHhChHHHHHHHHHHHH------HHHHHHHHHHHHH
Confidence 34578999999999999999999986543110 1134577766554
No 30
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=34.52 E-value=87 Score=26.48 Aligned_cols=41 Identities=27% Similarity=0.348 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Q 036039 424 ENLEGFVRQADNLRQQTLHQLRRILTVRQAARCFLVIGEYY 464 (508)
Q Consensus 424 ~~Le~fl~qAD~LR~qTL~ql~~ILTprQAArfLLA~~ey~ 464 (508)
+....++.-..+||-+.|+++.+--|-+++.|-++.+++.+
T Consensus 21 e~a~~l~egL~nLrp~~lq~LL~~C~svKvkRLfl~lA~~~ 61 (69)
T PF11459_consen 21 EEADELMEGLRNLRPRVLQELLEHCTSVKVKRLFLYLAERA 61 (69)
T ss_pred HHHHHHHHHHhhcCHHHHHHHHHHCccHHHHHHHHHHHHHc
Confidence 45567778888999999999999999999999999999865
No 31
>PF14620 YPEB: YpeB sporulation
Probab=32.27 E-value=3.9e+02 Score=28.72 Aligned_cols=115 Identities=23% Similarity=0.364 Sum_probs=75.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccCC---CCchHHHHHHHHHHHHHHHHHHHHhhhccccchh-ccCCCcchHHHHHhHh
Q 036039 273 DMEYARWLEDDQRHISELRSGLNQHY---SDGDLRIIVDAYISHYDEIFRLKGVAAKSDVFHL-ITGMWTTSAERCFLWM 348 (508)
Q Consensus 273 ~~~Y~rWleEq~r~l~ELRaAL~s~~---sD~ELr~LVd~vlsHY~eyfr~Ks~AAk~DVF~l-lSg~W~TPlER~FLWI 348 (508)
+..|.|=|.+..-++..|+..|...+ +...+- ..+.+.+|. +.+|.+|+-.| ++.+=.+-.|.|+-=|
T Consensus 24 en~YqRaf~dL~~~v~~l~~~l~k~l~~~s~~q~~-------~~l~~vwr~-a~~A~~~l~qLPl~~~~~~~t~~FLsqv 95 (361)
T PF14620_consen 24 ENQYQRAFHDLSYHVDNLEDELGKTLAANSPEQLS-------PLLAEVWRQ-ASEAQNDLGQLPLSQMPFNKTEKFLSQV 95 (361)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHH-------HHHHHHHHH-HHHHHHHHHhCCCCCcchhHHHHHHHHH
Confidence 34566666777777777777663321 112222 333444554 44678888887 6666677788899999
Q ss_pred cCCCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036039 349 GGFRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQQAEEALSQGLEQLQQSLI 401 (508)
Q Consensus 349 GGfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALSqgMe~LQqsLA 401 (508)
|.|==+...+.+ .=+|||+++...|..|+..+. .|++.|..+|..+.
T Consensus 96 Gdfsy~la~~~~--~g~~Lt~~e~~tL~~L~~~s~----~l~~~L~~~~~~v~ 142 (361)
T PF14620_consen 96 GDFSYSLAVRDL--DGEPLTDEEYKTLKELYEQSG----ELNKELQDVQNKVL 142 (361)
T ss_pred HHHHHHHHHhhc--CCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence 977666555543 224899999999999998854 46666666776553
No 32
>PF10459 Peptidase_S46: Peptidase S46; InterPro: IPR019500 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents S46 peptidases, where dipeptidyl-peptidase 7 (DPP-7) is the best-characterised member of this family. It is a serine peptidase that is located on the cell surface and is predicted to have two N-terminal transmembrane domains.
Probab=31.67 E-value=9.2e+02 Score=28.46 Aligned_cols=178 Identities=17% Similarity=0.203 Sum_probs=96.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHhhcccccCCCCCCCCCChhhhhhHHHHHHHHHH-----------
Q 036039 214 NREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRARSQVNFDPQLNLMNLSVPRAAIFDMEYARWLED----------- 282 (508)
Q Consensus 214 NREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar~qg~~~~~~~~~~~~~sga~~F~~~Y~rWleE----------- 282 (508)
-|+.+++.--||+.|-..|+. |.+|-++.......-.|++....+. +....+-.-+.+..++
T Consensus 335 l~~wi~~~~~~~~~yg~~~~~----l~~~~~~~~~~~~~~~~l~~~~~~~---~~l~~~A~~l~rla~e~~Kpd~er~~~ 407 (698)
T PF10459_consen 335 LRAWIKADPERQAKYGDVLDE----LAALYAERRDYARRDFYLEEAFRGG---SELFSFARRLVRLAEEREKPDAEREPG 407 (698)
T ss_pred HHHHHhcCchhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhcc---cHHHHHHHHHHHHHHhhcCCchhhccc
Confidence 345555666677788777776 6666666655554444443211110 0111222222222222
Q ss_pred -HHHHHHHHHHhhccC-CC-CchHH-HHHHHHHHHHHHHHHHH------Hhhhccc-------cchhccCCCcchHHHHH
Q 036039 283 -DQRHISELRSGLNQH-YS-DGDLR-IIVDAYISHYDEIFRLK------GVAAKSD-------VFHLITGMWTTSAERCF 345 (508)
Q Consensus 283 -q~r~l~ELRaAL~s~-~s-D~ELr-~LVd~vlsHY~eyfr~K------s~AAk~D-------VF~llSg~W~TPlER~F 345 (508)
+++.+..|+..+... .+ |.++. .++...+..|.++.... ..+.+.. +-.++.++-.+..|...
T Consensus 408 ~~~~~~~~l~~~l~~~~~~~~~~vd~~~l~~~L~~~~~~~~~~~~p~~~~~l~~~~~~~~~~~a~~l~~~S~l~d~~~~~ 487 (698)
T PF10459_consen 408 YQDRDLPRLKKRLESFYKDYDPEVDKALLAALLEEYRELPPADRIPAVDRVLGKKSKGDPEAYADRLYAGSKLADPAKRL 487 (698)
T ss_pred hhHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHhCchhcchHHHHHHhhhcCCCHHHHHHHHHHhCcCCCHHHHH
Confidence 356677777777553 22 33443 34556666666655532 2333333 56788889999999999
Q ss_pred hHhcCCCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036039 346 LWMGGFRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQQAEEALSQGLEQLQQSLIETI 404 (508)
Q Consensus 346 LWIGGfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALSqgMe~LQqsLAD~l 404 (508)
-|+.+ -|..+.+ ..|.--+-...|........+.++++...+++++..+++.+
T Consensus 488 ~l~~~-~~~~~~~-----s~DP~i~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 540 (698)
T PF10459_consen 488 ALLEG-GPDAFEA-----SKDPMIQLARALAPARAAREQAEKELEGKLARLRRLYMKAL 540 (698)
T ss_pred HHHhc-Chhhhhh-----ccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99976 3332222 12222222344455555666667777777777777766654
No 33
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=30.80 E-value=5e+02 Score=30.77 Aligned_cols=92 Identities=17% Similarity=0.249 Sum_probs=55.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh--hhc-cccchhccCCCcchHHHHHhHhcCCCchHHHHHHHhhCC---------CCcH
Q 036039 302 DLRIIVDAYISHYDEIFRLKGV--AAK-SDVFHLITGMWTTSAERCFLWMGGFRPSELIKMLISQLD---------PLTE 369 (508)
Q Consensus 302 ELr~LVd~vlsHY~eyfr~Ks~--AAk-~DVF~llSg~W~TPlER~FLWIGGfRPSellkLL~~qLe---------pLTe 369 (508)
.|+.+++..+.|-.++|..+.. +.+ .+=.|++.| +-.+|+=|- ++++++...-+ .||+
T Consensus 338 ~l~~il~~~~~~R~~~~~rR~~~~l~k~~~rl~il~G-----l~ia~~~iD-----evI~iIR~s~~~k~~L~~~f~ls~ 407 (735)
T TIGR01062 338 NLLEILQEWLVFRRNTVIRRLTYRLNKVLQRLHILEG-----LRIAFLNID-----EVIEIIREEDEPKTILMERFKLSA 407 (735)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHhHH-----HHHHHHHcChhhHHHHHHhcCCCH
Confidence 3788888888887777775543 111 223333222 112333332 56666644322 4999
Q ss_pred HHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036039 370 QQVMGIYS--LQQSTQQAEEALSQGLEQLQQSLIET 403 (508)
Q Consensus 370 qQL~~I~~--LqqstqqaEdALSqgMe~LQqsLAD~ 403 (508)
.|...|=+ |++=++-++.+|.+++++|+...++.
T Consensus 408 ~QaeaIL~mrL~~L~~le~~~i~~E~~~l~~e~~~l 443 (735)
T TIGR01062 408 IQAEAILNLRLRHLAKLEEHAIIDEQSELEKERAIL 443 (735)
T ss_pred HHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 99888844 55666778888888888887665543
No 34
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=28.76 E-value=1.6e+02 Score=27.87 Aligned_cols=44 Identities=25% Similarity=0.403 Sum_probs=33.0
Q ss_pred cHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 204 DAKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 204 d~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
--|-.||--.||==|-.+|.+.----..||. +-++|.|||++.+
T Consensus 51 rlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~---~k~~L~qqv~~L~ 94 (135)
T KOG4196|consen 51 RLKQRRRTLKNRGYAQSCRVKRVQQKHELEK---EKAELQQQVEKLK 94 (135)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
Confidence 4577789999999999999987666666777 4456666666655
No 35
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=26.72 E-value=4.1e+02 Score=22.84 Aligned_cols=68 Identities=15% Similarity=0.109 Sum_probs=46.6
Q ss_pred HhhHHHHHHHHh--hcccccCCCCCCCCCChhhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHH
Q 036039 239 LNQLEQELQRAR--SQVNFDPQLNLMNLSVPRAAIFDMEYARWLEDDQRHISELRSGLNQHYSDGDLRIIVDAYISHYDE 316 (508)
Q Consensus 239 L~qLeqel~rar--~qg~~~~~~~~~~~~~sga~~F~~~Y~rWleEq~r~l~ELRaAL~s~~sD~ELr~LVd~vlsHY~e 316 (508)
+.+|+..+..+- ..|.++ +|-..|...|..+...-...+.+|+..+. ++.+....|+.+..-+..
T Consensus 15 ~~~l~~~l~~~e~~~RgYll----------tgd~~~l~~y~~~~~~~~~~l~~L~~l~~---~~p~q~~~l~~l~~~~~~ 81 (138)
T PF05227_consen 15 IEQLESALLDQESALRGYLL----------TGDPEFLEPYQEARARLEKALAQLRQLVQ---DNPEQQERLDQLEELIDQ 81 (138)
T ss_dssp HHHHHHHHHHHHHHHHHHHH----------H--HHHHHHHHHHHHHHHHHHHHHHHHTT---T-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhHHHH----------cCCHhhhchHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHH
Confidence 445555554443 246666 45677999999999999999999998774 334667777777777776
Q ss_pred HHH
Q 036039 317 IFR 319 (508)
Q Consensus 317 yfr 319 (508)
++.
T Consensus 82 ~~~ 84 (138)
T PF05227_consen 82 WRE 84 (138)
T ss_dssp HHH
T ss_pred HHH
Confidence 664
No 36
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=25.52 E-value=6.2e+02 Score=24.42 Aligned_cols=84 Identities=15% Similarity=0.342 Sum_probs=54.1
Q ss_pred HHHHHHHHHhHHHHHHHHHH----HHHHHHHHHHhHHHHhhHHHH-HHHHhhcccccCCCCCCCCCChhhhhhHHHHHHH
Q 036039 205 AKTLRRLAQNREAARKSRLR----KKAYVQQLETSRIKLNQLEQE-LQRARSQVNFDPQLNLMNLSVPRAAIFDMEYARW 279 (508)
Q Consensus 205 ~k~~RRLAQNREaARkSRlR----KKaYvqqLE~sr~kL~qLeqe-l~rar~qg~~~~~~~~~~~~~sga~~F~~~Y~rW 279 (508)
++...+++.+-++|.+.+.. ++.|=++|...|.+..++-+| .+++.+.-
T Consensus 40 e~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a~~-------------------------- 93 (155)
T PRK06569 40 NNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLESEF-------------------------- 93 (155)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------------
Confidence 44556677777777766554 667889999999888888888 55554211
Q ss_pred HHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHH
Q 036039 280 LEDDQRHISELRSGLNQHYSDGDLRIIVDAYISHYDE 316 (508)
Q Consensus 280 leEq~r~l~ELRaAL~s~~sD~ELr~LVd~vlsHY~e 316 (508)
..+....-.+|+..|+... .++...++.+-..|.+
T Consensus 94 ~~~~~~~ea~L~~~~~~~~--~~~~~~~~~~~~~~~~ 128 (155)
T PRK06569 94 LIKKKNLEQDLKNSINQNI--EDINLAAKQFRTNKSE 128 (155)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhHHH
Confidence 2244455577777776653 4556666666555544
No 37
>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart
Probab=24.61 E-value=84 Score=29.20 Aligned_cols=39 Identities=31% Similarity=0.568 Sum_probs=30.7
Q ss_pred HHhHhcCCCchHHHHHHHhhCCCCcHHHHHHHHHHHHHHH
Q 036039 344 CFLWMGGFRPSELIKMLISQLDPLTEQQVMGIYSLQQSTQ 383 (508)
Q Consensus 344 ~FLWIGGfRPSellkLL~~qLepLTeqQL~~I~~Lqqstq 383 (508)
.+.|+| .+|+++.++-.....|||+..+..+.+|..+..
T Consensus 89 ~l~~~G-~~~~d~~~~~~~~~~~Ls~~d~~~l~~ll~~~~ 127 (160)
T cd00223 89 DLRWLG-LRPSDIIRLPDLPLLPLSERDLKRAKSLLRRPR 127 (160)
T ss_pred CcEEcc-CCHHHHhhccccccCCCCHHHHHHHHHHHhccc
Confidence 467775 889999874445677999999999999888644
No 38
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=24.55 E-value=1.6e+02 Score=29.21 Aligned_cols=40 Identities=28% Similarity=0.292 Sum_probs=30.1
Q ss_pred HHHHHhHH-HHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHH
Q 036039 209 RRLAQNRE-AARKSRLRKKAYVQQLETSRIKLNQLEQELQR 248 (508)
Q Consensus 209 RRLAQNRE-aARkSRlRKKaYvqqLE~sr~kL~qLeqel~r 248 (508)
..+.+|+- +|-..=.|||.|-++|+..--.+..||+-+..
T Consensus 59 ~~~~~~kk~~Al~~LkrKK~~E~ql~q~~~ql~nLEq~~~~ 99 (191)
T PTZ00446 59 QKVEQNQMSNAKILLKRKKLYEQEIENILNNRLTLEDNMIN 99 (191)
T ss_pred HHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455553 77778889999999999988888888887544
No 39
>KOG1656 consensus Protein involved in glucose derepression and pre-vacuolar endosome protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.08 E-value=1.4e+02 Score=30.22 Aligned_cols=36 Identities=28% Similarity=0.313 Sum_probs=23.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHH
Q 036039 213 QNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQR 248 (508)
Q Consensus 213 QNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~r 248 (508)
+|.-+|-..=.|||.|-+||+-----|+.||+++..
T Consensus 58 kNKR~AlqaLkrKK~~E~qL~qidG~l~tie~Qr~a 93 (221)
T KOG1656|consen 58 KNKRMALQALKRKKRYEKQLAQIDGTLSTIEFQREA 93 (221)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 455555555679999999987655556666665443
No 40
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=22.94 E-value=2.1e+02 Score=26.34 Aligned_cols=39 Identities=18% Similarity=0.383 Sum_probs=30.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHhh
Q 036039 213 QNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRARS 251 (508)
Q Consensus 213 QNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar~ 251 (508)
...-++||++.|....-+.||+=+.++..|++++++-.+
T Consensus 95 E~~Rs~~ke~~Ke~~~~~~l~~L~~~i~~L~~~~~~~~~ 133 (134)
T PF07047_consen 95 EYWRSARKEAKKEEELQERLEELEERIEELEEQVEKQQE 133 (134)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 566677788877777777777777789999998887654
No 41
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=22.35 E-value=1.7e+03 Score=28.55 Aligned_cols=46 Identities=22% Similarity=0.284 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHhcCHHHHHHHHHHHHH--------HHHHHHhhh
Q 036039 425 NLEGFVRQADNLRQQTLH-QLRRILTVRQAARCFLVIGE--------YYGRLRALS 471 (508)
Q Consensus 425 ~Le~fl~qAD~LR~qTL~-ql~~ILTprQAArfLLA~~e--------y~~RLRaLS 471 (508)
.++ .+...-.+--++|. .|.+.+.+++-|+-|.-=++ ...+|.+|.
T Consensus 1662 ~~~-~lq~~~~~~~~l~~~r~~g~~~ar~rAe~L~~eA~~Ll~~a~~kl~~l~dLe 1716 (1758)
T KOG0994|consen 1662 GLE-ILQKYYELVDRLLEKRMEGSQAARERAEQLRTEAEKLLGQANEKLDRLKDLE 1716 (1758)
T ss_pred HHH-HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444 44444445555555 37788888888888854333 335566655
No 42
>COG3130 Rmf Ribosome modulation factor [Translation, ribosomal structure and biogenesis]
Probab=21.57 E-value=24 Score=28.40 Aligned_cols=14 Identities=29% Similarity=0.802 Sum_probs=9.4
Q ss_pred HHHHHhHhcCCCch
Q 036039 341 AERCFLWMGGFRPS 354 (508)
Q Consensus 341 lER~FLWIGGfRPS 354 (508)
++---.||||||--
T Consensus 34 ~~~Rs~WLgGWRea 47 (55)
T COG3130 34 LNQRSQWLGGWREA 47 (55)
T ss_pred chHHHHHHHHHHHH
Confidence 44455688888854
No 43
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.45 E-value=2.4e+02 Score=25.53 Aligned_cols=40 Identities=33% Similarity=0.415 Sum_probs=22.3
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 210 RLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 210 RLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
=++|||-++| .|+|-+.=+|-=+.+......|-.+|+.-+
T Consensus 54 lmsQNRq~~~-dr~ra~~D~~inl~ae~ei~~l~~~l~~l~ 93 (108)
T PF06210_consen 54 LMSQNRQAAR-DRLRAELDYQINLKAEQEIERLHRKLDALR 93 (108)
T ss_pred HHHhhHhHHH-HHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 4679998887 466655433333333444555555555433
No 44
>PRK06669 fliH flagellar assembly protein H; Validated
Probab=21.05 E-value=6.1e+02 Score=25.72 Aligned_cols=79 Identities=11% Similarity=0.053 Sum_probs=38.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHhhcccccCCCCCCCCCChhhhhhHHHHHHHHHHHH
Q 036039 205 AKTLRRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRARSQVNFDPQLNLMNLSVPRAAIFDMEYARWLEDDQ 284 (508)
Q Consensus 205 ~k~~RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar~qg~~~~~~~~~~~~~sga~~F~~~Y~rWleEq~ 284 (508)
+.....|++-|+-|...=-.=.+-+++++.. --.++|+..+.|+++|.--|- - .|-..+...|..|+.+..
T Consensus 77 ~~a~~~l~~~~~ea~~~l~~a~~q~e~~~~e--a~~e~e~~~~~a~~eGy~eG~------~-~g~~e~~~e~~~~~~~l~ 147 (281)
T PRK06669 77 EEAKEELLKKTDEASSIIEKLQMQIEREQEE--WEEELERLIEEAKAEGYEEGY------E-KGREEGLEEVRELIEQLN 147 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH------H-HHHHHHHHHHHHHHHHHH
Confidence 4455566666555543322222222222221 112455556677777754221 1 334456666777777666
Q ss_pred HHHHHHHH
Q 036039 285 RHISELRS 292 (508)
Q Consensus 285 r~l~ELRa 292 (508)
..+..|..
T Consensus 148 ~~~~~l~~ 155 (281)
T PRK06669 148 KIIEKLIK 155 (281)
T ss_pred HHHHHHHH
Confidence 65555533
No 45
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.41 E-value=1.1e+03 Score=28.39 Aligned_cols=99 Identities=17% Similarity=0.308 Sum_probs=63.9
Q ss_pred hHHHHHHHHHHHHHHHHHH-HHhhhccccchhccCCCcchHHHHHhHhcCCCchHHHHHHHhhCCCCcHHHHH--HHHHH
Q 036039 302 DLRIIVDAYISHYDEIFRL-KGVAAKSDVFHLITGMWTTSAERCFLWMGGFRPSELIKMLISQLDPLTEQQVM--GIYSL 378 (508)
Q Consensus 302 ELr~LVd~vlsHY~eyfr~-Ks~AAk~DVF~llSg~W~TPlER~FLWIGGfRPSellkLL~~qLepLTeqQL~--~I~~L 378 (508)
+.+..+|.+|.-|-.+|+- |+.++.+|+|.-++-.=-+-=.+|.-.|--|.|..+.. |...+|-|+- .|.-.
T Consensus 589 ~~~~~~d~iM~lflri~~s~~s~~v~e~a~laV~tl~~~Lg~~F~kym~~f~pyL~~g-----L~n~~e~qVc~~aVglV 663 (859)
T KOG1241|consen 589 DIREVSDQIMGLFLRIFESKRSAVVHEEAFLAVSTLAESLGKGFAKYMPAFKPYLLMG-----LSNFQEYQVCAAAVGLV 663 (859)
T ss_pred cchhHHHHHHHHHHHHHcCCccccchHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHH-----hhcchHHHHHHHHHHHH
Confidence 7899999999999999998 88899999998875433332335667777777764443 3556666752 33333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036039 379 QQSTQQAEEALSQGLEQLQQSLIETIA 405 (508)
Q Consensus 379 qqstqqaEdALSqgMe~LQqsLAD~la 405 (508)
-.=++..|+.+---+..+=..|+.-+.
T Consensus 664 gdl~raL~~~i~py~d~~mt~Lvq~Ls 690 (859)
T KOG1241|consen 664 GDLARALEDDILPYCDELMTVLVQCLS 690 (859)
T ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHcc
Confidence 344555566665544444444444443
No 46
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=20.24 E-value=80 Score=36.32 Aligned_cols=42 Identities=36% Similarity=0.453 Sum_probs=31.6
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHh
Q 036039 209 RRLAQNREAARKSRLRKKAYVQQLETSRIKLNQLEQELQRAR 250 (508)
Q Consensus 209 RRLAQNREaARkSRlRKKaYvqqLE~sr~kL~qLeqel~rar 250 (508)
||=-.||=||-++|.||=--|++||.---||..=-..|-+.|
T Consensus 493 RRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er 534 (604)
T KOG3863|consen 493 RRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRER 534 (604)
T ss_pred ccccccchhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677789999999999999999999987666553333344434
Done!