Query 015258
Match_columns 410
No_of_seqs 180 out of 243
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 04:36:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015258.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015258hhsearch_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 2.4E-34 5.3E-39 234.7 7.5 79 206-284 1-80 (80)
2 smart00338 BRLZ basic region l 98.6 1.4E-07 3E-12 73.6 6.3 42 122-166 2-43 (65)
3 PF00170 bZIP_1: bZIP transcri 98.5 2.7E-07 5.9E-12 71.8 5.6 42 123-167 3-44 (64)
4 PF07716 bZIP_2: Basic region 98.4 1E-06 2.3E-11 66.7 6.1 42 123-168 3-44 (54)
5 KOG3584 cAMP response element 97.5 0.00013 2.7E-09 73.0 4.5 36 124-162 290-325 (348)
6 PF13801 Metal_resist: Heavy-m 96.7 0.05 1.1E-06 44.7 12.5 85 286-384 40-124 (125)
7 COG3678 CpxP P pilus assembly/ 96.3 0.047 1E-06 50.6 10.8 107 267-392 39-145 (160)
8 PRK12750 cpxP periplasmic repr 96.0 0.3 6.5E-06 45.5 14.5 95 283-393 49-152 (170)
9 PF03131 bZIP_Maf: bZIP Maf tr 95.8 0.0093 2E-07 49.8 3.5 33 124-156 29-61 (92)
10 KOG4343 bZIP transcription fac 93.8 0.11 2.3E-06 56.3 5.7 42 122-166 275-319 (655)
11 KOG0709 CREB/ATF family transc 93.4 0.08 1.7E-06 56.2 4.0 42 125-166 251-292 (472)
12 KOG0837 Transcriptional activa 91.5 0.38 8.2E-06 48.0 5.7 29 125-153 206-234 (279)
13 PRK12751 cpxP periplasmic stre 90.5 6.7 0.00014 36.6 12.6 102 284-403 54-155 (162)
14 PRK10363 cpxP periplasmic repr 90.4 5.3 0.00011 37.6 11.9 99 284-403 48-149 (166)
15 PRK10455 periplasmic protein; 90.2 3.4 7.3E-05 38.3 10.4 102 264-388 35-140 (161)
16 PF07813 LTXXQ: LTXXQ motif fa 86.9 3.7 8E-05 33.1 7.5 86 283-386 11-96 (100)
17 KOG4005 Transcription factor X 72.2 9 0.00019 38.3 5.9 32 122-153 66-97 (292)
18 KOG3119 Basic region leucine z 68.4 11 0.00024 37.5 5.8 48 123-170 192-250 (269)
19 KOG3725 SH3 domain protein SH3 64.3 46 0.001 33.9 9.1 23 223-245 236-258 (375)
20 KOG4571 Activating transcripti 63.1 27 0.00059 35.6 7.4 50 121-170 222-283 (294)
21 PF13628 DUF4142: Domain of un 49.8 1.7E+02 0.0036 25.6 9.4 96 141-239 30-133 (139)
22 PF14620 YPEB: YpeB sporulatio 35.8 3.4E+02 0.0073 28.3 10.4 115 195-323 25-143 (361)
23 PF11459 DUF2893: Protein of u 35.0 88 0.0019 25.6 4.8 41 354-394 21-61 (69)
24 PF09789 DUF2353: Uncharacteri 34.2 52 0.0011 34.0 4.2 46 122-167 100-151 (319)
25 PF02181 FH2: Formin Homology 32.3 4.8E+02 0.01 26.4 10.7 187 190-396 163-368 (370)
26 PRK11702 hypothetical protein; 31.9 21 0.00046 31.5 0.9 13 138-150 5-17 (108)
27 PF06013 WXG100: Proteins of 1 29.7 2.5E+02 0.0053 21.2 8.9 52 146-213 18-69 (86)
28 cd00223 TOPRIM_TopoIIB_SPO TOP 28.0 63 0.0014 29.2 3.2 39 265-304 89-127 (160)
29 PF11471 Sugarporin_N: Maltopo 26.2 57 0.0012 25.8 2.3 13 157-169 40-52 (60)
30 COG3130 Rmf Ribosome modulatio 25.7 18 0.00038 28.2 -0.6 14 262-275 34-47 (55)
31 KOG2391 Vacuolar sorting prote 25.6 4.5E+02 0.0098 27.8 9.1 26 296-321 244-269 (365)
32 PTZ00446 vacuolar sorting prot 24.7 1.4E+02 0.0031 28.7 5.1 39 128-166 59-98 (191)
33 KOG2202 U2 snRNP splicing fact 24.6 1.3E+02 0.0028 30.5 4.9 61 190-260 75-136 (260)
34 PLN02796 D-glycerate 3-kinase 23.3 1.1E+02 0.0024 31.9 4.4 47 192-242 274-320 (347)
35 PF09577 Spore_YpjB: Sporulati 22.3 5.6E+02 0.012 25.4 8.8 89 223-324 80-186 (232)
36 PRK14563 ribosome modulation f 22.0 34 0.00075 26.9 0.3 15 260-275 33-47 (55)
37 PF13586 DDE_Tnp_1_2: Transpos 21.9 38 0.00082 27.5 0.6 19 256-274 44-62 (88)
38 PF07889 DUF1664: Protein of u 21.6 1.9E+02 0.0042 26.1 5.1 21 265-285 21-41 (126)
39 PF09036 Bcr-Abl_Oligo: Bcr-Ab 21.5 1E+02 0.0023 25.8 3.0 36 141-176 24-60 (79)
40 KOG1241 Karyopherin (importin) 21.2 1.3E+03 0.029 27.1 12.4 122 223-350 589-713 (859)
41 PF00589 Phage_integrase: Phag 20.9 39 0.00085 28.7 0.5 21 265-285 28-48 (173)
42 KOG4677 Golgi integral membran 20.9 3.9E+02 0.0085 29.4 7.9 31 50-80 82-112 (554)
43 KOG1656 Protein involved in gl 20.5 1.7E+02 0.0037 28.8 4.8 35 132-166 58-92 (221)
44 KOG3759 Uncharacterized RUN do 20.5 2.7E+02 0.0058 30.8 6.5 82 139-245 142-228 (621)
45 TIGR02889 spore_YpeB germinati 20.4 8.4E+02 0.018 26.3 10.3 116 194-322 34-152 (435)
46 KOG2351 RNA polymerase II, fou 20.0 6.9E+02 0.015 23.0 10.1 66 220-287 46-113 (134)
No 1
>PF14144 DOG1: Seed dormancy control
Probab=100.00 E-value=2.4e-34 Score=234.71 Aligned_cols=79 Identities=63% Similarity=1.088 Sum_probs=76.7
Q ss_pred HhHHHHHHHhhcCC-CCchHHHHHHHHHHhHHHHHHHHhhhhccchhhhhcCCCcchHhhhhhhhcCCCchHHHHHHHhh
Q 015258 206 RHIVELRAAVNSHA-GDTELRTIVDNVTSHFDEIFRLKGIASKADVFHILSGMWKTPAERCFMWIGGFRSSELLKLLVNQ 284 (410)
Q Consensus 206 r~l~ELR~AL~s~~-~D~eLr~LVd~~lsHY~eyfr~Ks~AAk~DVf~llSg~W~Tp~ER~FLWiGGfRPSellkLL~~q 284 (410)
|++.|||+|+++|. +|.+|+.||++||+||++||++|+.||++|||++|+|+|+||+|||||||||||||++||||+++
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 57999999999998 89999999999999999999999999999999999999999999999999999999999999875
No 2
>smart00338 BRLZ basic region leucin zipper.
Probab=98.57 E-value=1.4e-07 Score=73.60 Aligned_cols=42 Identities=55% Similarity=0.679 Sum_probs=35.0
Q ss_pred CCHHHHHHHHhhHHHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHH
Q 015258 122 GDQKTLRRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQ 166 (410)
Q Consensus 122 ~~~k~~rrLaqNREaARkSRlRKKaYvqqLE~sr~kL~qleqel~ 166 (410)
.|+|-.||+.+||+||++||.|||+|++.||. ++.+|+.+-.
T Consensus 2 ~~~k~~rR~~rNR~aA~~~R~rKk~~~~~Le~---~~~~L~~en~ 43 (65)
T smart00338 2 EDEKRRRRRERNREAARRSRERKKAEIEELER---KVEQLEAENE 43 (65)
T ss_pred ccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence 37899999999999999999999999999999 4444444433
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=98.47 E-value=2.7e-07 Score=71.84 Aligned_cols=42 Identities=50% Similarity=0.732 Sum_probs=34.7
Q ss_pred CHHHHHHHHhhHHHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHHH
Q 015258 123 DQKTLRRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQR 167 (410)
Q Consensus 123 ~~k~~rrLaqNREaARkSRlRKKaYvqqLE~sr~kL~qleqel~~ 167 (410)
..|-.+|+.+||+|||+||.|||+|+++||. ++..|+.+...
T Consensus 3 ~~k~~~rr~rNR~AAr~~R~RKk~~~~~Le~---~~~~L~~en~~ 44 (64)
T PF00170_consen 3 EDKRERRRERNREAARRSRQRKKQYIEELEE---KVEELESENEE 44 (64)
T ss_dssp --CHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhHHHHHH---HHHHHHHHHHH
Confidence 3567899999999999999999999999999 66666666543
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=98.35 E-value=1e-06 Score=66.74 Aligned_cols=42 Identities=45% Similarity=0.614 Sum_probs=35.7
Q ss_pred CHHHHHHHHhhHHHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHHHH
Q 015258 123 DQKTLRRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQRA 168 (410)
Q Consensus 123 ~~k~~rrLaqNREaARkSRlRKKaYvqqLE~sr~kL~qleqel~~a 168 (410)
|++..||. .||+||++||-|||.|++.||. ++.+|+.+.+.-
T Consensus 3 ~~~~~rR~-rNr~AA~r~R~rkk~~~~~le~---~~~~L~~en~~L 44 (54)
T PF07716_consen 3 EEKRERRE-RNREAARRSRQRKKQREEELEQ---EVQELEEENEQL 44 (54)
T ss_dssp HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence 67889999 9999999999999999999999 666666655543
No 5
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=97.45 E-value=0.00013 Score=72.96 Aligned_cols=36 Identities=50% Similarity=0.683 Sum_probs=31.6
Q ss_pred HHHHHHHHhhHHHHHHhhhhHHHHHHHHhhhhhHHhhHH
Q 015258 124 QKTLRRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLE 162 (410)
Q Consensus 124 ~k~~rrLaqNREaARkSRlRKKaYvqqLE~sr~kL~qle 162 (410)
-|-.=||-.||||||.+|-.||-||..||+ |++=||
T Consensus 290 rKRevRLmKNREAARECRRKKKEYVKCLEN---RVAVLE 325 (348)
T KOG3584|consen 290 RKREVRLMKNREAARECRRKKKEYVKCLEN---RVAVLE 325 (348)
T ss_pred hHHHHHHHhhHHHHHHHHHhHhHHHHHHHh---HHHHHh
Confidence 455668999999999999999999999999 776666
No 6
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=96.71 E-value=0.05 Score=44.72 Aligned_cols=85 Identities=25% Similarity=0.252 Sum_probs=65.6
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHHHHHHHHHHHHHHHHHHHhH
Q 015258 286 EPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLAETLANGSPSPSGTSGNVANYMGQMAMAMGKLGTLEGFLRQADN 365 (410)
Q Consensus 286 epLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm~~Am~KL~~Le~fv~qAD~ 365 (410)
-+||++|...|..+.......-..+-+.+......+...+....+. ...+. ..++.+...-.+...
T Consensus 40 l~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~~r~~l~~ll~~~~~D-----------~~~i~---a~~~~~~~~~~~l~~ 105 (125)
T PF13801_consen 40 LNLTPEQQAKLRALMDEFRQEMRALRQELRAARQELRALLAAPPPD-----------EAAIE---ALLEEIREAQAELRQ 105 (125)
T ss_dssp S-TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSSS------------HHHHH---HHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC-----------HHHHH---HHHHHHHHHHHHHHH
Confidence 4799999999999999999999999999999999998888643221 22233 333455566667778
Q ss_pred HHHHHHHHHHHhcChHHHH
Q 015258 366 LRQQTLQQMHRILTTRQSA 384 (410)
Q Consensus 366 LR~qTL~qm~~ILTprQAA 384 (410)
.|.+++.++..+|||.|=+
T Consensus 106 ~~~~~~~~~~~~LtpeQR~ 124 (125)
T PF13801_consen 106 ERLEHLLEIRAVLTPEQRA 124 (125)
T ss_dssp HHHHHHHHHHHTT-GGGHH
T ss_pred HHHHHHHHHHHcCCHHHhC
Confidence 9999999999999999865
No 7
>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=96.28 E-value=0.047 Score=50.58 Aligned_cols=107 Identities=22% Similarity=0.202 Sum_probs=69.9
Q ss_pred hhhcCCCchHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHH
Q 015258 267 MWIGGFRSSELLKLLVNQLEPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLAETLANGSPSPSGTSGNVANYMGQM 346 (410)
Q Consensus 267 LWiGGfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm 346 (410)
+|.|+|-|=..= ...+.| +||++|..+|..+.+.-+ .++.+-+..-...+-+.+.++...+
T Consensus 39 ~~~g~~~~~~~~-~~~~~l-~lT~~Qrqqi~~i~~~~~---~a~~~~~~~~r~~l~~li~a~~~D~-------------- 99 (160)
T COG3678 39 HHGGQFGPRHQG-GMFKGL-DLTRAQRQQIRDLMQAQR---RAQREQLRSKRRALHELIAADQFDE-------------- 99 (160)
T ss_pred ccCCCCCccccc-cccccc-cccHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCcCH--------------
Confidence 577777665320 011223 799999999988877766 4444444444455555554322211
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcChHHHHHHHHHHHH
Q 015258 347 AMAMGKLGTLEGFLRQADNLRQQTLQQMHRILTTRQSARALLAIND 392 (410)
Q Consensus 347 ~~Am~KL~~Le~fv~qAD~LR~qTL~qm~~ILTprQAArfLlAl~e 392 (410)
+.|=...+.++....+.+.+|.++-.+|..||||.|.+.+=--.++
T Consensus 100 aka~a~~~~m~~~~~~~~~~r~k~~~~m~~vLTPEQr~~l~~~~~~ 145 (160)
T COG3678 100 AKARAQAEKMENQRQALRELRVKSDNQMYQVLTPEQRAKLQELLAQ 145 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 1222555678888899999999999999999999999776544433
No 8
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=95.97 E-value=0.3 Score=45.50 Aligned_cols=95 Identities=18% Similarity=0.118 Sum_probs=58.6
Q ss_pred hhcCCChHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHHHHHHHHH-
Q 015258 283 NQLEPLTEQQLVGIYNLQQSSQQAEDA--------LSQGMDALQQSLAETLANGSPSPSGTSGNVANYMGQMAMAMGKL- 353 (410)
Q Consensus 283 ~qLepLTeqQL~~I~~LqqstqqaEdA--------Lsqgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm~~Am~KL- 353 (410)
..| +||++|...|..++...+.+=.+ ....|....+.+.+.+.++++.+ .|+..+
T Consensus 49 ~~L-~LTdeQk~qik~i~~~~r~~~k~~~~~~r~~~~~~m~a~~~~~~~Ll~a~~FDe---------------aavral~ 112 (170)
T PRK12750 49 RQL-DLTDAQKEQLKEMREANRAEMKAKYSGNREQSHAEMKAHHAKVQALVLADDFDE---------------AAANDLA 112 (170)
T ss_pred hhC-CCCHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHhcCCCCH---------------HHHHHHH
Confidence 456 79999999999988777664333 45556666666666665433221 111111
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcChHHHHHHHHHHHHH
Q 015258 354 GTLEGFLRQADNLRQQTLQQMHRILTTRQSARALLAINDY 393 (410)
Q Consensus 354 ~~Le~fv~qAD~LR~qTL~qm~~ILTprQAArfLlAl~ey 393 (410)
+.+..--.+.---|.++.++++.||||-|=+.|---..+.
T Consensus 113 ~~~~~~~~e~~v~~~~~~~~~~~vLTpEQRak~~e~~~~r 152 (170)
T PRK12750 113 KQMVEKQVERRVKMLEKRHQMLSILTPEQKAKFQELQQER 152 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 1111111122223677899999999999999988765554
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=95.81 E-value=0.0093 Score=49.85 Aligned_cols=33 Identities=33% Similarity=0.334 Sum_probs=29.7
Q ss_pred HHHHHHHHhhHHHHHHhhhhHHHHHHHHhhhhh
Q 015258 124 QKTLRRLAQNREAARKSRLRKKAYVQQLESSRL 156 (410)
Q Consensus 124 ~k~~rrLaqNREaARkSRlRKKaYvqqLE~sr~ 156 (410)
=|-.||...||.||++||.||+.++..||....
T Consensus 29 lK~~RRr~KNR~~A~~cR~rk~~~~~~Le~e~~ 61 (92)
T PF03131_consen 29 LKQRRRRLKNRGYAQNCRKRKLDQIEELEEEIE 61 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 377899999999999999999999999998543
No 10
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=93.78 E-value=0.11 Score=56.27 Aligned_cols=42 Identities=43% Similarity=0.593 Sum_probs=36.8
Q ss_pred CCHHHH---HHHHhhHHHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHH
Q 015258 122 GDQKTL---RRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQ 166 (410)
Q Consensus 122 ~~~k~~---rrLaqNREaARkSRlRKKaYvqqLE~sr~kL~qleqel~ 166 (410)
.|+|++ -|...|||-|--||.|||-|++-||. +|..|++|=+
T Consensus 275 ~d~kv~krqQRmIKNResA~~SRkKKKEy~~~Le~---rLq~ll~Ene 319 (655)
T KOG4343|consen 275 SDIKVLKRQQRMIKNRESACQSRKKKKEYMLGLEA---RLQALLSENE 319 (655)
T ss_pred cCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence 478775 47899999999999999999999999 8888888766
No 11
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=93.36 E-value=0.08 Score=56.20 Aligned_cols=42 Identities=43% Similarity=0.564 Sum_probs=32.2
Q ss_pred HHHHHHHhhHHHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHH
Q 015258 125 KTLRRLAQNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQ 166 (410)
Q Consensus 125 k~~rrLaqNREaARkSRlRKKaYvqqLE~sr~kL~qleqel~ 166 (410)
|-.||...|-+-|--||-|||-||.+||+--..-+.=+|||+
T Consensus 251 KrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~ 292 (472)
T KOG0709|consen 251 KRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQ 292 (472)
T ss_pred HHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHH
Confidence 556999999999999999999999999993333333333443
No 12
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=91.46 E-value=0.38 Score=48.04 Aligned_cols=29 Identities=45% Similarity=0.504 Sum_probs=24.3
Q ss_pred HHHHHHHhhHHHHHHhhhhHHHHHHHHhh
Q 015258 125 KTLRRLAQNREAARKSRLRKKAYVQQLES 153 (410)
Q Consensus 125 k~~rrLaqNREaARkSRlRKKaYvqqLE~ 153 (410)
|..|.=+.|||||+|||.||---|.+||.
T Consensus 206 kleRkrlrnreaa~Kcr~rkLdrisrLEd 234 (279)
T KOG0837|consen 206 KLERKRLRNREAASKCRKRKLDRISRLED 234 (279)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHh
Confidence 44566688999999999999888888876
No 13
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=90.51 E-value=6.7 Score=36.58 Aligned_cols=102 Identities=16% Similarity=0.158 Sum_probs=62.2
Q ss_pred hcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHHHHHHHHHHHHHHHHHHH
Q 015258 284 QLEPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLAETLANGSPSPSGTSGNVANYMGQMAMAMGKLGTLEGFLRQA 363 (410)
Q Consensus 284 qLepLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm~~Am~KL~~Le~fv~qA 363 (410)
.| +||++|...|-.+....+....... .+ .-+.+-+.+.++++.+ ..+...+++.. ..-..-
T Consensus 54 ~l-~LTd~QR~qmr~im~~~r~~~~~~~--~~-~~~~m~~Li~Ad~FDe-----------aAvra~~~kma---~~~~e~ 115 (162)
T PRK12751 54 GI-NLTEQQRQQMRDLMRQSHQSQPRLD--LE-DREAMHKLITADKFDE-----------AAVRAQAEKMS---QNQIER 115 (162)
T ss_pred cC-CCCHHHHHHHHHHHHHhhhcccchh--HH-HHHHHHHHHhcCCCCH-----------HHHHHHHHHHH---HHHHHH
Confidence 44 7999999999888877776532111 11 1223334444333221 11222223222 222222
Q ss_pred hHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHhccc
Q 015258 364 DNLRQQTLQQMHRILTTRQSARALLAINDYFSRLRALSSL 403 (410)
Q Consensus 364 D~LR~qTL~qm~~ILTprQAArfLlAl~ey~~rLRaLssl 403 (410)
--.+.++.++|+.+|||-|-+.|=--.-+....+|.+..+
T Consensus 116 ~v~~~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~~~~~~ 155 (162)
T PRK12751 116 HVEMAKVRNQMYNLLTPEQKEALNKKHQERIEKLQQKPAA 155 (162)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhcccc
Confidence 2357788899999999999999998888888888887643
No 14
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=90.38 E-value=5.3 Score=37.60 Aligned_cols=99 Identities=17% Similarity=0.220 Sum_probs=59.2
Q ss_pred hcCCChHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHHHHHHHHHH--HHHHHH
Q 015258 284 QLEPLTEQQLVGIYNLQQSSQQAEDALS-QGMDALQQSLAETLANGSPSPSGTSGNVANYMGQMAMAMGKLG--TLEGFL 360 (410)
Q Consensus 284 qLepLTeqQL~~I~~LqqstqqaEdALs-qgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm~~Am~KL~--~Le~fv 360 (410)
.| +||++|...|..|.+.-+.+...++ .++++++ +.+.++.+ + ...+....+|+. ..+.-|
T Consensus 48 gL-dLTdaQRqQmRdLm~~~r~~~~~~~~~er~amh----~LI~ad~F-------D----Eaavra~a~kma~~~~e~~V 111 (166)
T PRK10363 48 GI-SLTEHQRQQMRDLMQQARHEQPPVNVSEMETMH----RLVTAENF-------D----ENAVRAQAEKMAQEQVARQV 111 (166)
T ss_pred CC-CCCHHHHHHHHHHHHHHHhcccccCHHHHHHHH----HHHhcCCC-------C----HHHHHHHHHHHHHHHHHHHH
Confidence 44 7999999999999988876644443 2344443 22322221 1 111222223332 122222
Q ss_pred HHHhHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHhccc
Q 015258 361 RQADNLRQQTLQQMHRILTTRQSARALLAINDYFSRLRALSSL 403 (410)
Q Consensus 361 ~qAD~LR~qTL~qm~~ILTprQAArfLlAl~ey~~rLRaLssl 403 (410)
-|.++-++|..||||-|-+.|=--.-+....+|.++.+
T Consensus 112 -----em~k~~nqmy~lLTPEQKaq~~~~~~~rm~~~~~~~~~ 149 (166)
T PRK10363 112 -----EMAKVRNQMYRLLTPEQQAVLNEKHQQRMEQLRDVTQW 149 (166)
T ss_pred -----HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 36678889999999999999966555566666766543
No 15
>PRK10455 periplasmic protein; Reviewed
Probab=90.21 E-value=3.4 Score=38.32 Aligned_cols=102 Identities=14% Similarity=0.150 Sum_probs=57.1
Q ss_pred hhhhhhcC---CCchHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhcCCCCCCCCCCcc
Q 015258 264 RCFMWIGG---FRSSELLKLLVNQLEPLTEQQLVGIYNLQQSSQQAEDALS-QGMDALQQSLAETLANGSPSPSGTSGNV 339 (410)
Q Consensus 264 R~FLWiGG---fRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALs-qgma~LQqsLAd~la~~~~~~~G~~~~v 339 (410)
.+.+|-|| ..+..+| ..| +||++|...|..+.+..+..-...+ +..+.++ +.+.++...
T Consensus 35 ~~~~~~~~~~g~~~~~m~----~~L-~LT~~Qrqqir~im~~~r~~~~~~~~~~r~~l~----~li~ad~FD-------- 97 (161)
T PRK10455 35 KPMMHHKGKFGPHHDMMF----KGL-NLTDAQKQQIRDIMKAQRDQMKRPPLEERRAMH----DIIASDTFD-------- 97 (161)
T ss_pred CccccCCCCCCchhhhhh----hhC-CCCHHHHHHHHHHHHHHHHhhccccHHHHHHHH----HHHccCccC--------
Confidence 34577653 4344444 445 7999999999988777665533222 2333333 223221111
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcChHHHHHHHH
Q 015258 340 ANYMGQMAMAMGKLGTLEGFLRQADNLRQQTLQQMHRILTTRQSARALL 388 (410)
Q Consensus 340 ~~~~~qm~~Am~KL~~Le~fv~qAD~LR~qTL~qm~~ILTprQAArfLl 388 (410)
...+...++++. ..-.+.--.|.++-.+|..||||-|=+.|=-
T Consensus 98 ---eaavra~~~k~~---~~~~~~~~~~~~~~~qiy~vLTPEQr~q~~~ 140 (161)
T PRK10455 98 ---KAKAEAQITKME---AQRKARMLAHMETQNKIYNVLTPEQKKQFNA 140 (161)
T ss_pred ---HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 111222223332 2223333368889999999999999998753
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=86.86 E-value=3.7 Score=33.13 Aligned_cols=86 Identities=15% Similarity=0.140 Sum_probs=44.4
Q ss_pred hhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHHHHHHHHHHHHHHHHHH
Q 015258 283 NQLEPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLAETLANGSPSPSGTSGNVANYMGQMAMAMGKLGTLEGFLRQ 362 (410)
Q Consensus 283 ~qLepLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm~~Am~KL~~Le~fv~q 362 (410)
..| +||++|...|..+....+..-..+....+.+...-. . . .+. +... ++.+...+...-.+
T Consensus 11 ~~L-~LT~eQ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~---~--~-------~~~-~~~~----~~~~~~~~~~~~~~ 72 (100)
T PF07813_consen 11 EEL-NLTDEQKAKWRAIRQAMKAKMKPLKAMREQLRALRD---P--S-------FDE-AAPE----ALAAMAEMMELRAE 72 (100)
T ss_dssp TTS---THHHHHHHHHHHHHHCTTS------HHHHHHHHH---S--S---------H-HHHH----HHH--HHCHHHHHH
T ss_pred hhC-CCCHHHHHHHHHHHHHHHHHHHhhcccHHHHHHhcc---c--c-------CCh-hHHH----HHHHHHHHHHHHHH
Confidence 344 599999999999998887776666211222211111 0 0 000 0011 11222334444445
Q ss_pred HhHHHHHHHHHHHHhcChHHHHHH
Q 015258 363 ADNLRQQTLQQMHRILTTRQSARA 386 (410)
Q Consensus 363 AD~LR~qTL~qm~~ILTprQAArf 386 (410)
.-..|..+...+..||||-|=+.|
T Consensus 73 ~~~~~~~~~~~~~~vLt~eQk~~~ 96 (100)
T PF07813_consen 73 MMEERAKAQHALYAVLTPEQKEKF 96 (100)
T ss_dssp HHHHHHHHHHHHHTTS-HHHHHHH
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHH
Confidence 555678889999999999998776
No 17
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=72.16 E-value=9 Score=38.29 Aligned_cols=32 Identities=41% Similarity=0.476 Sum_probs=29.5
Q ss_pred CCHHHHHHHHhhHHHHHHhhhhHHHHHHHHhh
Q 015258 122 GDQKTLRRLAQNREAARKSRLRKKAYVQQLES 153 (410)
Q Consensus 122 ~~~k~~rrLaqNREaARkSRlRKKaYvqqLE~ 153 (410)
...|++||=-.||=||..+|=||||-...+|-
T Consensus 66 ~EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~ 97 (292)
T KOG4005|consen 66 WEEKVQRRKLKNRVAAQTARDRKKARMEEMEY 97 (292)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 36799999999999999999999999888886
No 18
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=68.36 E-value=11 Score=37.48 Aligned_cols=48 Identities=35% Similarity=0.427 Sum_probs=32.8
Q ss_pred CHHHHHHHHhhHHHHHHhhhhHHHHHHH-----------HhhhhhHHhhHHHHHHHHhh
Q 015258 123 DQKTLRRLAQNREAARKSRLRKKAYVQQ-----------LESSRLKLTQLEQELQRARQ 170 (410)
Q Consensus 123 ~~k~~rrLaqNREaARkSRlRKKaYvqq-----------LE~sr~kL~qleqel~~ar~ 170 (410)
|++-..|...|=+|+||||...|.=-++ .|.-|.++.||++||...|+
T Consensus 192 ~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~ 250 (269)
T KOG3119|consen 192 DPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKELATLRR 250 (269)
T ss_pred CHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777889999999999999876543222 23344556666666666665
No 19
>KOG3725 consensus SH3 domain protein SH3GLB [Signal transduction mechanisms]
Probab=64.34 E-value=46 Score=33.94 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHhHHHHHHHHhhh
Q 015258 223 ELRTIVDNVTSHFDEIFRLKGIA 245 (410)
Q Consensus 223 eLr~LVd~~lsHY~eyfr~Ks~A 245 (410)
=|+..|+.-|.-|.+-|+.-..+
T Consensus 236 CL~dFVeaQmtyYAQcyq~MlDL 258 (375)
T KOG3725|consen 236 CLRDFVEAQMTYYAQCYQLMLDL 258 (375)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 37889999999999998875433
No 20
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=63.08 E-value=27 Score=35.65 Aligned_cols=50 Identities=30% Similarity=0.394 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHhhHHH-HHHhhhhHHHHHHHHhhh-----------hhHHhhHHHHHHHHhh
Q 015258 121 SGDQKTLRRLAQNREA-ARKSRLRKKAYVQQLESS-----------RLKLTQLEQELQRARQ 170 (410)
Q Consensus 121 ~~~~k~~rrLaqNREa-ARkSRlRKKaYvqqLE~s-----------r~kL~qleqel~~ar~ 170 (410)
..+.|++||=+|+|.+ |-.=|-||||=-+.||.. |.++..||.|++.-||
T Consensus 222 ~~~~~~~~rkr~qnk~AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKq 283 (294)
T KOG4571|consen 222 KTPEKKLRRKRQQNKAAATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELEREIRYLKQ 283 (294)
T ss_pred CCchHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478888888877765 888899999998888753 3456778888887776
No 21
>PF13628 DUF4142: Domain of unknown function (DUF4142)
Probab=49.81 E-value=1.7e+02 Score=25.58 Aligned_cols=96 Identities=18% Similarity=0.263 Sum_probs=59.1
Q ss_pred hhhHHHHHHHHhhhhhHHhhHHHHHH-HHhhcceeec-cCCCCCC-----CCCCchhhhHHHHHHHHHHHHhHh-HHHHH
Q 015258 141 RLRKKAYVQQLESSRLKLTQLEQELQ-RARQQGIFIS-SSGDQSH-----SMSGNGAAAFDVEYSRWLEEHNRH-IVELR 212 (410)
Q Consensus 141 RlRKKaYvqqLE~sr~kL~qleqel~-~ar~qg~~~~-~~~~~~~-----~~~~~ga~~F~~eY~rWleEq~r~-l~ELR 212 (410)
.-.=|+|-+.+.+ --.++.++|. -|.+.|+-+. ..-...+ .+.......||..|-..+..-++. +..+.
T Consensus 30 ~~~Vk~~A~~~~~---dh~~~~~~l~~la~~~~v~lp~~~~~~~~~~~l~~L~~~~g~~FD~~yl~~~i~~h~~~l~~~~ 106 (139)
T PF13628_consen 30 SPEVKAFAQQMVE---DHTQANQQLAALAAKKGVTLPPTALSAEQQAELDRLQKLSGSAFDRAYLDAQIKAHEKALALFE 106 (139)
T ss_pred CHHHHHHHHHHHH---HHHHHHHHHHHHHHhcCCCcccccccHhhHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455789999988 4455566664 4667888776 2211111 011112489999888877665555 55555
Q ss_pred HHhhcCCCCchHHHHHHHHHHhHHHHH
Q 015258 213 AAVNSHAGDTELRTIVDNVTSHFDEIF 239 (410)
Q Consensus 213 ~AL~s~~~D~eLr~LVd~~lsHY~eyf 239 (410)
...-....|.+|+.++...+.-...+.
T Consensus 107 ~~~~~~~~~~~lk~~a~~~lp~l~~hl 133 (139)
T PF13628_consen 107 KQLAASGKDPELKAFAQETLPVLEAHL 133 (139)
T ss_pred HHhhccCCCHHHHHHHHHHhHHHHHHH
Confidence 535555678899998888776555544
No 22
>PF14620 YPEB: YpeB sporulation
Probab=35.76 E-value=3.4e+02 Score=28.35 Aligned_cols=115 Identities=22% Similarity=0.347 Sum_probs=78.1
Q ss_pred HHHHHHHHHHhHhHHHHHHHhhcC-C-C-CchHHHHHHHHHHhHHHHHHHHhhhhccchhhh-hcCCCcchHhhhhhhhc
Q 015258 195 VEYSRWLEEHNRHIVELRAAVNSH-A-G-DTELRTIVDNVTSHFDEIFRLKGIASKADVFHI-LSGMWKTPAERCFMWIG 270 (410)
Q Consensus 195 ~eY~rWleEq~r~l~ELR~AL~s~-~-~-D~eLr~LVd~~lsHY~eyfr~Ks~AAk~DVf~l-lSg~W~Tp~ER~FLWiG 270 (410)
-.|.|=+.+..-++..|+..|... + + ...+- ..+.+.+| .+..|.+|+-.| ++.+=.+-.|.++-=||
T Consensus 25 n~YqRaf~dL~~~v~~l~~~l~k~l~~~s~~q~~-------~~l~~vwr-~a~~A~~~l~qLPl~~~~~~~t~~FLsqvG 96 (361)
T PF14620_consen 25 NQYQRAFHDLSYHVDNLEDELGKTLAANSPEQLS-------PLLAEVWR-QASEAQNDLGQLPLSQMPFNKTEKFLSQVG 96 (361)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHH-------HHHHHHHH-HHHHHHHHHHhCCCCCcchhHHHHHHHHHH
Confidence 456666666677777776665322 1 1 12222 22334444 356788899998 78887888889999999
Q ss_pred CCCchHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 015258 271 GFRSSELLKLLVNQLEPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLAE 323 (410)
Q Consensus 271 GfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLAd 323 (410)
.|==+...+.+.. +|||+++...|..|+..+.. |++.|..+|..+..
T Consensus 97 dfsy~la~~~~~g--~~Lt~~e~~tL~~L~~~s~~----l~~~L~~~~~~v~~ 143 (361)
T PF14620_consen 97 DFSYSLAVRDLDG--EPLTDEEYKTLKELYEQSGE----LNKELQDVQNKVLS 143 (361)
T ss_pred HHHHHHHHhhcCC--CCCCHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHh
Confidence 9977766665422 48999999999999998876 56666677766643
No 23
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=35.05 E-value=88 Score=25.59 Aligned_cols=41 Identities=20% Similarity=0.268 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcChHHHHHHHHHHHHHH
Q 015258 354 GTLEGFLRQADNLRQQTLQQMHRILTTRQSARALLAINDYF 394 (410)
Q Consensus 354 ~~Le~fv~qAD~LR~qTL~qm~~ILTprQAArfLlAl~ey~ 394 (410)
+....++...-+||-+.|+++.+--|-.++.|-++.+|+.+
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 34557777888899999999999999999999999999874
No 24
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=34.24 E-value=52 Score=33.99 Aligned_cols=46 Identities=39% Similarity=0.517 Sum_probs=34.5
Q ss_pred CCHHHHHH-HHhhHHHHHHh-----hhhHHHHHHHHhhhhhHHhhHHHHHHH
Q 015258 122 GDQKTLRR-LAQNREAARKS-----RLRKKAYVQQLESSRLKLTQLEQELQR 167 (410)
Q Consensus 122 ~~~k~~rr-LaqNREaARkS-----RlRKKaYvqqLE~sr~kL~qleqel~~ 167 (410)
+|-|.+|- +|+.|=..... ==.|..||.|||..+-|..|||.+++.
T Consensus 100 GD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs 151 (319)
T PF09789_consen 100 GDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQS 151 (319)
T ss_pred chHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888886 77655433222 235679999999999999999999884
No 25
>PF02181 FH2: Formin Homology 2 Domain; InterPro: IPR015425 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain is required for the self-association of formin proteins through the ability of FH2 domains to directly bind each other [], and may also act to inhibit actin polymerisation []. The FH3 domain (IPR010472 from INTERPRO) is less well conserved and may be important for determining intracellular localisation of formin family proteins. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH2 domain, which was shown by X-ray crystallography to have an elongated, crescent shape containing three helical subdomains [].; PDB: 1Y64_B 1UX4_A 1UX5_A 3O4X_H 3OBV_E 1V9D_D 2Z6E_B 2J1D_G.
Probab=32.30 E-value=4.8e+02 Score=26.38 Aligned_cols=187 Identities=17% Similarity=0.254 Sum_probs=92.3
Q ss_pred hhhHHHHHHHHHHHHhHhHHHHHHHhhcCCCCchHHHHHHHHHHhHHHHHHHHhhhhccchhhhhcCCCcchHhhhhhhh
Q 015258 190 AAAFDVEYSRWLEEHNRHIVELRAAVNSHAGDTELRTIVDNVTSHFDEIFRLKGIASKADVFHILSGMWKTPAERCFMWI 269 (410)
Q Consensus 190 a~~F~~eY~rWleEq~r~l~ELR~AL~s~~~D~eLr~LVd~~lsHY~eyfr~Ks~AAk~DVf~llSg~W~Tp~ER~FLWi 269 (410)
+..|...|..=+++....+..|..|.+.-.....|+.+..-++ .|.+|...-..-..++-|.+ +.+-+ |
T Consensus 163 ~~~~~~~f~~~~~~l~~~l~~l~~a~~~l~~S~~l~~lL~~iL-~~GN~lN~g~~~g~A~GF~L------~sL~k----L 231 (370)
T PF02181_consen 163 ALLFKSEFEEQLEELKEKLEKLEAACEELRESKSLRRLLEIIL-AIGNFLNGGTPRGNAKGFKL------SSLSK----L 231 (370)
T ss_dssp HHHHHHTHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH-HHHHHHSTCSTTCS-SEE-G------GGGGG----C
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHH-HHHHHhccCCCccccceecH------HhHHH----H
Confidence 5556666666666667777777777654333456777777666 34454443222122222222 00000 0
Q ss_pred cCCC---c-hHHHHHHHh--------------hcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCC
Q 015258 270 GGFR---S-SELLKLLVN--------------QLEPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLAETLANGSPS 331 (410)
Q Consensus 270 GGfR---P-SellkLL~~--------------qLepLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLAd~la~~~~~ 331 (410)
...| + ..|++.|.. .|.++.......+.++... =..|..++..++..+..... .
T Consensus 232 ~~~Ks~d~~~tLL~~l~~~~~~~~~~~~~~~~eL~~v~~a~~~~~~~l~~~----i~~l~~~~~~~~~~l~~~~~----~ 303 (370)
T PF02181_consen 232 KDTKSNDNKTTLLHYLVKIVEEKFPDLLDLEDELSSVEKASKVSLDELEQD----IKELEKGLEKIKKELEAIEK----D 303 (370)
T ss_dssp CCSB-STTTSBHHHHHHHHHHTTSGGGGGHHHHTTTHHHCCTS-HHHHHHH----HHHHHHHHHHHHHHHHHCCT----T
T ss_pred HhcccccCCchHHHHHHHHHHhcChHHhccHHHHhhHHhhhhhhHHHHHHH----HHHHHHHHHHHHHHHHhccc----c
Confidence 0000 0 123443322 2222222111233333333 33455556666555544332 1
Q ss_pred CCCCCCcccc-hhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHH
Q 015258 332 PSGTSGNVAN-YMGQMAMAMGKLGTLEGFLRQADNLRQQTLQQMHRILTTRQSARALLAINDYFSR 396 (410)
Q Consensus 332 ~~G~~~~v~~-~~~qm~~Am~KL~~Le~fv~qAD~LR~qTL~qm~~ILTprQAArfLlAl~ey~~r 396 (410)
.. ..+.... +..-++.+-.++..|...+.+++..-.+++.-.-.-=+....-+|+--+.+|...
T Consensus 304 ~~-~~~~f~~~~~~f~~~~~~~~~~l~~~~~~~~~~~~~~~~yfge~~~~~~~~~ff~~l~~F~~~ 368 (370)
T PF02181_consen 304 EE-DDDKFKEKMKEFLEEAETKLDELQELYEELEEAFKQLLQYFGEDPKKMSPEEFFKILSQFIDM 368 (370)
T ss_dssp SS-TT-THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--TTCCHHHHHHHHHHHHHHH
T ss_pred cc-chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHH
Confidence 10 0111112 2234556668899999999999998888887775544456677777777776543
No 26
>PRK11702 hypothetical protein; Provisional
Probab=31.93 E-value=21 Score=31.50 Aligned_cols=13 Identities=46% Similarity=0.698 Sum_probs=11.0
Q ss_pred HHhhhhHHHHHHH
Q 015258 138 RKSRLRKKAYVQQ 150 (410)
Q Consensus 138 RkSRlRKKaYvqq 150 (410)
|+.|||||=||-.
T Consensus 5 RsRRlRKKL~v~E 17 (108)
T PRK11702 5 RSRRLRKKMHIDE 17 (108)
T ss_pred hhHHHHhhhhhHh
Confidence 7889999999854
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=29.68 E-value=2.5e+02 Score=21.17 Aligned_cols=52 Identities=27% Similarity=0.448 Sum_probs=33.6
Q ss_pred HHHHHHhhhhhHHhhHHHHHHHHhhcceeeccCCCCCCCCCCchhhhHHHHHHHHHHHHhHhHHHHHH
Q 015258 146 AYVQQLESSRLKLTQLEQELQRARQQGIFISSSGDQSHSMSGNGAAAFDVEYSRWLEEHNRHIVELRA 213 (410)
Q Consensus 146 aYvqqLE~sr~kL~qleqel~~ar~qg~~~~~~~~~~~~~~~~ga~~F~~eY~rWleEq~r~l~ELR~ 213 (410)
.+...|++ .+.+|+..++.. ++-+- |.++..|...|..|-....+....|..
T Consensus 18 ~~~~~l~~---~~~~l~~~~~~l--~~~W~-----------G~a~~af~~~~~~~~~~~~~~~~~L~~ 69 (86)
T PF06013_consen 18 AQADELQS---QLQQLESSIDSL--QASWQ-----------GEAADAFQDKFEEWNQAFRQLNEALEE 69 (86)
T ss_dssp HHHHHHHH---HHHHHHHHHHHH--GGGBT-----------SSTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH---HHHHHHHHHHHH--hhhCC-----------chHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555 666666666654 22222 245799999999999888777666643
No 28
>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=27.97 E-value=63 Score=29.19 Aligned_cols=39 Identities=28% Similarity=0.529 Sum_probs=30.7
Q ss_pred hhhhhcCCCchHHHHHHHhhcCCChHHHHHHHHHHHHHHH
Q 015258 265 CFMWIGGFRSSELLKLLVNQLEPLTEQQLVGIYNLQQSSQ 304 (410)
Q Consensus 265 ~FLWiGGfRPSellkLL~~qLepLTeqQL~~I~~Lqqstq 304 (410)
.+.|+ |.+|+++.++-.....|||+..+..+.+|..+..
T Consensus 89 ~l~~~-G~~~~d~~~~~~~~~~~Ls~~d~~~l~~ll~~~~ 127 (160)
T cd00223 89 DLRWL-GLRPSDIIRLPDLPLLPLSERDLKRAKSLLRRPR 127 (160)
T ss_pred CcEEc-cCCHHHHhhccccccCCCCHHHHHHHHHHHhccc
Confidence 46676 5889998874455677999999999999888754
No 29
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=26.22 E-value=57 Score=25.79 Aligned_cols=13 Identities=38% Similarity=0.404 Sum_probs=6.6
Q ss_pred HHhhHHHHHHHHh
Q 015258 157 KLTQLEQELQRAR 169 (410)
Q Consensus 157 kL~qleqel~~ar 169 (410)
+|.+.||+++.+.
T Consensus 40 rL~~ae~ra~~ae 52 (60)
T PF11471_consen 40 RLQAAEQRAQAAE 52 (60)
T ss_pred HHHHHHHHHHHHH
Confidence 5555555555443
No 30
>COG3130 Rmf Ribosome modulation factor [Translation, ribosomal structure and biogenesis]
Probab=25.69 E-value=18 Score=28.22 Aligned_cols=14 Identities=29% Similarity=0.833 Sum_probs=8.7
Q ss_pred HhhhhhhhcCCCch
Q 015258 262 AERCFMWIGGFRSS 275 (410)
Q Consensus 262 ~ER~FLWiGGfRPS 275 (410)
++---.|+||||--
T Consensus 34 ~~~Rs~WLgGWRea 47 (55)
T COG3130 34 LNQRSQWLGGWREA 47 (55)
T ss_pred chHHHHHHHHHHHH
Confidence 34444688888754
No 31
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.58 E-value=4.5e+02 Score=27.85 Aligned_cols=26 Identities=19% Similarity=0.272 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 015258 296 IYNLQQSSQQAEDALSQGMDALQQSL 321 (410)
Q Consensus 296 I~~LqqstqqaEdALsqgma~LQqsL 321 (410)
|..-+++...+++.|.++|..||..+
T Consensus 244 L~~G~~kL~~~~etLEqq~~~L~~ni 269 (365)
T KOG2391|consen 244 LNIGKQKLVAMKETLEQQLQSLQKNI 269 (365)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHhhh
Confidence 34446777888888888888888653
No 32
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=24.75 E-value=1.4e+02 Score=28.65 Aligned_cols=39 Identities=28% Similarity=0.331 Sum_probs=30.0
Q ss_pred HHHHhhH-HHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHH
Q 015258 128 RRLAQNR-EAARKSRLRKKAYVQQLESSRLKLTQLEQELQ 166 (410)
Q Consensus 128 rrLaqNR-EaARkSRlRKKaYvqqLE~sr~kL~qleqel~ 166 (410)
..+.+|+ .+|-..=.|||-|-+||+..-..+..|||-+-
T Consensus 59 ~~~~~~kk~~Al~~LkrKK~~E~ql~q~~~ql~nLEq~~~ 98 (191)
T PTZ00446 59 QKVEQNQMSNAKILLKRKKLYEQEIENILNNRLTLEDNMI 98 (191)
T ss_pred HHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555 36777777899999999999999999997654
No 33
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=24.57 E-value=1.3e+02 Score=30.48 Aligned_cols=61 Identities=20% Similarity=0.147 Sum_probs=38.6
Q ss_pred hhhHHHHHHHHHHHHhHhHHHHHHH-hhcCCCCchHHHHHHHHHHhHHHHHHHHhhhhccchhhhhcCCCcc
Q 015258 190 AAAFDVEYSRWLEEHNRHIVELRAA-VNSHAGDTELRTIVDNVTSHFDEIFRLKGIASKADVFHILSGMWKT 260 (410)
Q Consensus 190 a~~F~~eY~rWleEq~r~l~ELR~A-L~s~~~D~eLr~LVd~~lsHY~eyfr~Ks~AAk~DVf~llSg~W~T 260 (410)
-..|+.||++|+.|+.....|++.- +.... =-.||-.|.-+|..--.+ .+ ....|.+.|..
T Consensus 75 q~~~defyEd~f~E~~~kygEiee~~Vc~Nl----~~hl~GNVYV~f~~Ee~a--e~----a~~~lnnRw~~ 136 (260)
T KOG2202|consen 75 QRHEDEFYEDVFTELEDKYGEIEELNVCDNL----GDHLVGNVYVKFRSEEDA--EA----ALEDLNNRWYN 136 (260)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhccc----chhhhhhhhhhcccHHHH--HH----HHHHHcCcccc
Confidence 4679999999999999888888776 23222 234677776555432221 11 33446777653
No 34
>PLN02796 D-glycerate 3-kinase
Probab=23.27 E-value=1.1e+02 Score=31.91 Aligned_cols=47 Identities=11% Similarity=0.071 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHHHhHhHHHHHHHhhcCCCCchHHHHHHHHHHhHHHHHHHH
Q 015258 192 AFDVEYSRWLEEHNRHIVELRAAVNSHAGDTELRTIVDNVTSHFDEIFRLK 242 (410)
Q Consensus 192 ~F~~eY~rWleEq~r~l~ELR~AL~s~~~D~eLr~LVd~~lsHY~eyfr~K 242 (410)
.|+- .-+|..+|++.|. +.-...++|+++...|+.+|=-|..|+..-
T Consensus 274 ~~~~-v~~WR~qQE~~l~---~~~~~gMsde~v~~FV~~~mP~y~~y~~~l 320 (347)
T PLN02796 274 DPSW-VYEWRLQAEIAMR---AKGKPGMSDEEVADFVSRYMPAYKAYLPGL 320 (347)
T ss_pred CchH-HHHHHHHHHHHHH---HhCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3544 3469999987554 443456889999999999999999888654
No 35
>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=22.30 E-value=5.6e+02 Score=25.43 Aligned_cols=89 Identities=16% Similarity=0.227 Sum_probs=52.0
Q ss_pred hHHHHHHHHHHhHHH----HH--------HHHhhhhccchhhhhcCCCcchHhhhhhhhcCCCchHHHHHHHhhcCCChH
Q 015258 223 ELRTIVDNVTSHFDE----IF--------RLKGIASKADVFHILSGMWKTPAERCFMWIGGFRSSELLKLLVNQLEPLTE 290 (410)
Q Consensus 223 eLr~LVd~~lsHY~e----yf--------r~Ks~AAk~DVf~llSg~W~Tp~ER~FLWiGGfRPSellkLL~~qLepLTe 290 (410)
.+|..||.+.+.|+- || ++|..+.+.|- ..+...++.++-=..=.|||..+. +++
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 588999988877543 33 44667776663 344455565555556667776663 667
Q ss_pred HHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHhhh
Q 015258 291 QQLVGIYNLQQSSQQ------AEDALSQGMDALQQSLAET 324 (410)
Q Consensus 291 qQL~~I~~Lqqstqq------aEdALsqgma~LQqsLAd~ 324 (410)
+++.+|+..-.-+.. ......+.++.+.+++-..
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 776666544333332 2344555556665555444
No 36
>PRK14563 ribosome modulation factor; Provisional
Probab=22.01 E-value=34 Score=26.93 Aligned_cols=15 Identities=40% Similarity=0.966 Sum_probs=9.6
Q ss_pred chHhhhhhhhcCCCch
Q 015258 260 TPAERCFMWIGGFRSS 275 (410)
Q Consensus 260 Tp~ER~FLWiGGfRPS 275 (410)
++.-|. .||||||--
T Consensus 33 ~~~~r~-~Wl~GWReg 47 (55)
T PRK14563 33 TLDARS-QWLGGWREA 47 (55)
T ss_pred CcHHHH-HHHHHHHHH
Confidence 333444 899999843
No 37
>PF13586 DDE_Tnp_1_2: Transposase DDE domain
Probab=21.89 E-value=38 Score=27.47 Aligned_cols=19 Identities=32% Similarity=0.545 Sum_probs=15.0
Q ss_pred CCCcchHhhhhhhhcCCCc
Q 015258 256 GMWKTPAERCFMWIGGFRS 274 (410)
Q Consensus 256 g~W~Tp~ER~FLWiGGfRP 274 (410)
...+.-.||+|-||.+||-
T Consensus 44 ~~~Rw~VEr~f~wlk~~Rr 62 (88)
T PF13586_consen 44 YKRRWVVERTFAWLKRFRR 62 (88)
T ss_pred hccceehhhhhHHHHHcCc
Confidence 3444569999999999974
No 38
>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=21.65 E-value=1.9e+02 Score=26.07 Aligned_cols=21 Identities=24% Similarity=0.574 Sum_probs=14.7
Q ss_pred hhhhhcCCCchHHHHHHHhhc
Q 015258 265 CFMWIGGFRSSELLKLLVNQL 285 (410)
Q Consensus 265 ~FLWiGGfRPSellkLL~~qL 285 (410)
+++|.=||.=|.+.=+-...|
T Consensus 21 ~Y~wwKGws~sD~M~vTrr~m 41 (126)
T PF07889_consen 21 GYMWWKGWSFSDLMFVTRRSM 41 (126)
T ss_pred eeeeecCCchhHHHHHHHHhH
Confidence 789999998887664433333
No 39
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=21.51 E-value=1e+02 Score=25.79 Aligned_cols=36 Identities=31% Similarity=0.530 Sum_probs=24.7
Q ss_pred hhhHHHHH-HHHhhhhhHHhhHHHHHHHHhhcceeec
Q 015258 141 RLRKKAYV-QQLESSRLKLTQLEQELQRARQQGIFIS 176 (410)
Q Consensus 141 RlRKKaYv-qqLE~sr~kL~qleqel~~ar~qg~~~~ 176 (410)
+||---++ |.||-++..+..||||+.+-|=--||+.
T Consensus 24 ~l~svgd~e~eLerCK~sirrLeqevnkERFrmiYLQ 60 (79)
T PF09036_consen 24 ELRSVGDIEQELERCKASIRRLEQEVNKERFRMIYLQ 60 (79)
T ss_dssp --SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444 6799999999999999987664445553
No 40
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.22 E-value=1.3e+03 Score=27.08 Aligned_cols=122 Identities=16% Similarity=0.260 Sum_probs=76.6
Q ss_pred hHHHHHHHHHHhHHHHHHH-HhhhhccchhhhhcCCCcchHhhhhhhhcCCCchHHHHHHHhhcCCChHHHH--HHHHHH
Q 015258 223 ELRTIVDNVTSHFDEIFRL-KGIASKADVFHILSGMWKTPAERCFMWIGGFRSSELLKLLVNQLEPLTEQQL--VGIYNL 299 (410)
Q Consensus 223 eLr~LVd~~lsHY~eyfr~-Ks~AAk~DVf~llSg~W~Tp~ER~FLWiGGfRPSellkLL~~qLepLTeqQL--~~I~~L 299 (410)
+.+..+|.+|.-|-..|+- |+.+.++|+|.-++-.=-+-=.++--.+--|.|.. ...|...+|-|+ ..|.=.
T Consensus 589 ~~~~~~d~iM~lflri~~s~~s~~v~e~a~laV~tl~~~Lg~~F~kym~~f~pyL-----~~gL~n~~e~qVc~~aVglV 663 (859)
T KOG1241|consen 589 DIREVSDQIMGLFLRIFESKRSAVVHEEAFLAVSTLAESLGKGFAKYMPAFKPYL-----LMGLSNFQEYQVCAAAVGLV 663 (859)
T ss_pred cchhHHHHHHHHHHHHHcCCccccchHHHHHHHHHHHHHHhHhHHHHHHHHHHHH-----HHHhhcchHHHHHHHHHHHH
Confidence 7889999999999999988 78889999999887443333334666777777773 345556677775 233334
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCCCCcccchhhHHHHHH
Q 015258 300 QQSSQQAEDALSQGMDALQQSLAETLANGSPSPSGTSGNVANYMGQMAMAM 350 (410)
Q Consensus 300 qqstqqaEdALsqgma~LQqsLAd~la~~~~~~~G~~~~v~~~~~qm~~Am 350 (410)
-.=++--|+.+---+..+=..|+.-+.....-+.-. ..+-..-|.++.|+
T Consensus 664 gdl~raL~~~i~py~d~~mt~Lvq~Lss~~~hR~vK-P~IlS~FgDIAlaI 713 (859)
T KOG1241|consen 664 GDLARALEDDILPYCDELMTVLVQCLSSPNLHRNVK-PAILSVFGDIALAI 713 (859)
T ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHccCcccccccc-chHHHHHHHHHHHH
Confidence 444566677776666666666666655432222101 11223456666666
No 41
>PF00589 Phage_integrase: Phage integrase family; InterPro: IPR002104 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. The catalytic site residues in CRE recombinase (P06956 from SWISSPROT) are Arg-173, His-289, Arg-292 and Tyr-324.; GO: 0003677 DNA binding, 0006310 DNA recombination, 0015074 DNA integration; PDB: 1A0P_A 1Z1G_B 1Z19_A 1AE9_A 1Z1B_A 1P7D_B 2A3V_C 1Q3V_E 1Q3U_A 1OUQ_F ....
Probab=20.88 E-value=39 Score=28.70 Aligned_cols=21 Identities=33% Similarity=0.558 Sum_probs=14.0
Q ss_pred hhhhhcCCCchHHHHHHHhhc
Q 015258 265 CFMWIGGFRSSELLKLLVNQL 285 (410)
Q Consensus 265 ~FLWiGGfRPSellkLL~~qL 285 (410)
.+++.+|+||+|++.|=..++
T Consensus 28 ~l~~~tG~R~~El~~l~~~~v 48 (173)
T PF00589_consen 28 LLLLYTGLRPSELLRLRWDDV 48 (173)
T ss_dssp HHHHHHT--HHHHHT-BGGGE
T ss_pred HHHHHHccchhhhhhhhhhhh
Confidence 468889999999998655544
No 42
>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]
Probab=20.85 E-value=3.9e+02 Score=29.39 Aligned_cols=31 Identities=10% Similarity=0.007 Sum_probs=21.3
Q ss_pred CcccccccCCCcccccccCCCcccccccccc
Q 015258 50 SQSMPLQKEPQSNLISVSSGHRENWGESNMA 80 (410)
Q Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~ 80 (410)
.++.-+.+|..++..+....+.+.|+.+|-+
T Consensus 82 ~ptir~e~GS~S~~~p~vt~~~~s~ensf~S 112 (554)
T KOG4677|consen 82 SPTIREEAGSNSGSTPEVTEQLKSRENSFSS 112 (554)
T ss_pred CCccccccCCccCcCCcchhhhhhhhhcccc
Confidence 3447777786555445556778999998866
No 43
>KOG1656 consensus Protein involved in glucose derepression and pre-vacuolar endosome protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.54 E-value=1.7e+02 Score=28.82 Aligned_cols=35 Identities=29% Similarity=0.336 Sum_probs=23.4
Q ss_pred hhHHHHHHhhhhHHHHHHHHhhhhhHHhhHHHHHH
Q 015258 132 QNREAARKSRLRKKAYVQQLESSRLKLTQLEQELQ 166 (410)
Q Consensus 132 qNREaARkSRlRKKaYvqqLE~sr~kL~qleqel~ 166 (410)
.|.-+|--+=.|||.|=|||+-----|+.+|+.+.
T Consensus 58 kNKR~AlqaLkrKK~~E~qL~qidG~l~tie~Qr~ 92 (221)
T KOG1656|consen 58 KNKRMALQALKRKKRYEKQLAQIDGTLSTIEFQRE 92 (221)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 34444555557999999998876666666765443
No 44
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=20.47 E-value=2.7e+02 Score=30.79 Aligned_cols=82 Identities=27% Similarity=0.371 Sum_probs=57.5
Q ss_pred HhhhhHHHHHHHHhhhhhHHhhHHHHHHHHhhcceeeccCCCCCCCCCCchhhhHHHHHHHHHHHHhHhHHHHHHHhhcC
Q 015258 139 KSRLRKKAYVQQLESSRLKLTQLEQELQRARQQGIFISSSGDQSHSMSGNGAAAFDVEYSRWLEEHNRHIVELRAAVNSH 218 (410)
Q Consensus 139 kSRlRKKaYvqqLE~sr~kL~qleqel~~ar~qg~~~~~~~~~~~~~~~~ga~~F~~eY~rWleEq~r~l~ELR~AL~s~ 218 (410)
|-+=|.|-.|+||-+ .|..||+- .|-.|. |...... -++.|.-.+.|||.-++-.
T Consensus 142 kq~e~qkeLi~QLk~---Ql~dLE~~--------AYe~Ge----------g~LPq~v----iLekQk~ilDeLr~Kl~ln 196 (621)
T KOG3759|consen 142 KQNERQKELIKQLKE---QLEDLERT--------AYENGE----------GELPQTV----ILEKQKAILDELREKLELN 196 (621)
T ss_pred hhcchHHHHHHHHHH---HHHHHHHH--------HHhcCC----------CcCchHH----HHHHHHHHHHHHHHHhhcc
Confidence 455578889999987 66666632 232211 2233322 3567888899999998654
Q ss_pred C-----CCchHHHHHHHHHHhHHHHHHHHhhh
Q 015258 219 A-----GDTELRTIVDNVTSHFDEIFRLKGIA 245 (410)
Q Consensus 219 ~-----~D~eLr~LVd~~lsHY~eyfr~Ks~A 245 (410)
. +-.|||.-||.++..+-.-|++|.-+
T Consensus 197 l~i~~lsteelr~qVD~A~~q~VnP~k~KeQL 228 (621)
T KOG3759|consen 197 LDIDKLSTEELRRQVDDALKQLVNPFKEKEQL 228 (621)
T ss_pred CCcccccHHHHHHHHHHHHHHHhChHHHHHHH
Confidence 2 35789999999999999999999844
No 45
>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=20.38 E-value=8.4e+02 Score=26.33 Aligned_cols=116 Identities=16% Similarity=0.262 Sum_probs=80.4
Q ss_pred HHHHHHHHHHHhHhHHHHHHHhhcC-C-CCchHHHHHHHHHHhHHHHHHHHhhhhccchhhh-hcCCCcchHhhhhhhhc
Q 015258 194 DVEYSRWLEEHNRHIVELRAAVNSH-A-GDTELRTIVDNVTSHFDEIFRLKGIASKADVFHI-LSGMWKTPAERCFMWIG 270 (410)
Q Consensus 194 ~~eY~rWleEq~r~l~ELR~AL~s~-~-~D~eLr~LVd~~lsHY~eyfr~Ks~AAk~DVf~l-lSg~W~Tp~ER~FLWiG 270 (410)
+-.|.|=+.+.--++..|+..|... + ++.+ ....++.+.+|. +.+|++|+-.+ ++.+=..-.|.++-=+|
T Consensus 34 en~YqRaf~dL~~~vd~l~~~L~k~l~~~s~~------q~~~~l~~vwr~-as~A~~~l~qLPl~~~~~~~T~kFLsqiG 106 (435)
T TIGR02889 34 QAQYQRAFYELTYHVEQIEAQLGKTLAMGSQR------QNTPVLADVWRH-ASAANESLSQLPLTQESLEKTSKFLSQVG 106 (435)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHhhhCCHH------HHHHHHHHHHHH-HHHHHHHHhcCCCCCcchhhHHHHHHHHH
Confidence 4456666666667777777666322 1 1211 133445556665 45678889888 88888888889999999
Q ss_pred CCCchHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 015258 271 GFRSSELLKLLVNQLEPLTEQQLVGIYNLQQSSQQAEDALSQGMDALQQSLA 322 (410)
Q Consensus 271 GfRPSellkLL~~qLepLTeqQL~~I~~LqqstqqaEdALsqgma~LQqsLA 322 (410)
+|==+...+.+.. +|||+++...|..|+..+.. |.+.|..+|..+.
T Consensus 107 Dfsy~la~~~~~g--~~lt~~e~~tL~~L~~~a~~----l~~~L~~~q~~v~ 152 (435)
T TIGR02889 107 DFTYTLSVKDAEG--KSLSDKEYKTLTTLYNQAVK----LENQLRKVQNIVM 152 (435)
T ss_pred HHHHHHHhhhccC--CCCCHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence 9987777665533 48999999999999887754 6666777776663
No 46
>KOG2351 consensus RNA polymerase II, fourth largest subunit [Transcription]
Probab=20.02 E-value=6.9e+02 Score=23.00 Aligned_cols=66 Identities=24% Similarity=0.266 Sum_probs=50.9
Q ss_pred CCchHHHHHHHHHHhHHHHHHHHhhhhccchhhhhcCCCcchHhhhhhhhcCCCchHH--HHHHHhhcCC
Q 015258 220 GDTELRTIVDNVTSHFDEIFRLKGIASKADVFHILSGMWKTPAERCFMWIGGFRSSEL--LKLLVNQLEP 287 (410)
Q Consensus 220 ~D~eLr~LVd~~lsHY~eyfr~Ks~AAk~DVf~llSg~W~Tp~ER~FLWiGGfRPSel--lkLL~~qLep 287 (410)
.+.+...+..+-|.-....-|.|..-+-.+|-.++++.-..++|.|.+ |..=|-.+ -|-|.|+|+.
T Consensus 46 ~~~~~s~Vf~kTl~Y~~~FsRfKn~etv~avr~iLs~~~lhkFE~A~l--gnLcpetaEEAkaLvPSL~n 113 (134)
T KOG2351|consen 46 DESEMSDVFKKTLQYLDRFSRFKNRETVRAVRTILSGKGLHKFEVAQL--GNLCPETAEEAKALVPSLEN 113 (134)
T ss_pred ccchHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHhhCCcchhhHHHH--hccCcccHHHHHHhcccccc
Confidence 346788888888887777788899888889999999999999999864 77666532 3455677763
Done!