Query psy11627
Match_columns 291
No_of_seqs 165 out of 302
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 23:29:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11627.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11627hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3701|consensus 100.0 1.6E-85 3.4E-90 634.4 24.9 271 17-289 1-376 (411)
2 cd00050 MH2 MH2 domain; C term 100.0 6E-67 1.3E-71 458.8 16.7 158 131-289 1-158 (176)
3 smart00524 DWB Domain B in dwa 100.0 2.9E-65 6.3E-70 446.3 16.2 153 136-289 1-153 (171)
4 PF03166 MH2: MH2 domain; Int 100.0 6.2E-60 1.3E-64 416.0 12.6 157 132-289 1-161 (181)
5 cd00049 MH1 MH1 is a small DNA 99.8 4.2E-21 9.1E-26 159.9 6.3 80 26-107 1-89 (121)
6 smart00523 DWA Domain A in dwa 99.7 5.3E-17 1.2E-21 133.2 5.3 66 39-106 1-74 (109)
7 PF03165 MH1: MH1 domain; Int 99.6 1E-15 2.2E-20 124.5 4.6 62 44-105 1-70 (103)
8 PF10401 IRF-3: Interferon-reg 98.0 0.0002 4.3E-09 63.0 14.5 137 137-286 3-152 (180)
9 KOG2884|consensus 81.3 3.5 7.6E-05 38.4 5.6 60 25-84 91-176 (259)
10 PF07624 PSD2: Protein of unkn 69.8 6.6 0.00014 30.0 3.6 50 22-71 22-71 (76)
11 PF00498 FHA: FHA domain; Int 52.8 42 0.00092 23.9 5.2 43 200-248 23-67 (68)
12 COG4001 Predicted metal-bindin 41.4 31 0.00068 27.9 3.1 45 25-69 33-83 (102)
13 cd01452 VWA_26S_proteasome_sub 39.4 34 0.00074 30.7 3.4 39 45-84 122-175 (187)
14 COG5400 Uncharacterized protei 36.9 47 0.001 30.0 3.8 47 201-254 98-144 (205)
15 TIGR03031 cas_csx12 CRISPR-ass 32.4 52 0.0011 35.1 3.9 53 23-86 277-331 (802)
16 PF15509 DUF4650: Domain of un 32.1 47 0.001 34.4 3.4 33 37-69 306-338 (520)
17 PF01731 Arylesterase: Arylest 31.8 1.2E+02 0.0026 23.9 5.0 48 135-221 33-80 (86)
18 KOG2924|consensus 31.1 66 0.0014 31.3 4.1 105 138-252 218-343 (366)
19 PF09177 Syntaxin-6_N: Syntaxi 25.6 1E+02 0.0023 24.2 3.8 30 39-71 35-64 (97)
20 KOG3583|consensus 25.6 63 0.0014 30.3 2.8 30 39-69 4-33 (279)
21 PF06577 DUF1134: Protein of u 23.2 1.1E+02 0.0023 27.2 3.6 33 199-231 51-83 (160)
22 PF11142 DUF2917: Protein of u 23.2 2.3E+02 0.005 20.8 5.0 44 193-246 11-54 (63)
23 PF01272 GreA_GreB: Transcript 20.9 48 0.001 25.0 0.9 21 19-39 38-58 (77)
24 PF08024 Antimicrobial_4: Ant 20.4 1.2E+02 0.0027 18.7 2.4 18 41-58 5-22 (24)
No 1
>KOG3701|consensus
Probab=100.00 E-value=1.6e-85 Score=634.36 Aligned_cols=271 Identities=54% Similarity=0.841 Sum_probs=233.3
Q ss_pred ccccCCCChHHHHHHhcccC-CChhhhHHHHHHHHHHHHhhhccCcHHHHHHHHhcCC-CCCcceEecccCCCCCCc---
Q psy11627 17 LNSLFSFTSPAVKKLLGWKQ-GDEEEKWAEKAVDSLVKKLKKSKGDIEELERALSCPG-QPSKCVTIPRSLDGRLQQ--- 91 (291)
Q Consensus 17 ~~~~~~~~~~~v~~Ll~~kq-g~eee~~~~kai~sLvKKLKkk~~~le~L~~Av~~~g-~~s~CVtiprsLDGRlqv--- 91 (291)
++++++|++|+|+.||+||| |++||+|++||++|||||||||+++||+|++||+++| .+++||||||+|||||||
T Consensus 1 ~~~~~~~~~p~v~~~~~~r~~~~~~e~~~~ka~~slvkklk~~~~~le~l~~av~s~g~~~~~CvtiprslD~Rlq~~~r 80 (411)
T KOG3701|consen 1 TSSLLPFTGPAVKDLLGPRQLGGEDEKFAEKAVESLVKKLKDKKGELENLIKAVESPGTKPTGCVTIPRSLDGRLQVAHR 80 (411)
T ss_pred CCcccCCCCcchhhccCccccCchhHHHHHHHHHHHHHHhhcccchHHHHHHHhcCCCCCCCceEECCCCCCccccccCC
Confidence 46789999999999999999 9999999999999999999999899999999999998 569999999999999999
Q ss_pred ----------------------------------------------------ccCCCCCCCCCC---CCCCC--------
Q psy11627 92 ----------------------------------------------------IETPPPAYSPPQ---DEKHG-------- 108 (291)
Q Consensus 92 ----------------------------------------------------~~sppp~y~~~~---~~~~~-------- 108 (291)
++.++|++.... .....
T Consensus 81 kg~Phviy~rlwRwpdl~~~~elk~l~~C~~a~~~~~~~vC~NPyHy~rv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (411)
T KOG3701|consen 81 KGFPHVIYCRLWRWPDLQKNHELKRLECCEHAFESKSDNVCINPYHYSRVESPPILPPPLSPNSPPNDALKTLLDDGGVD 160 (411)
T ss_pred CCCCceEEEEeecccccccchhheecccCCccccCCCCCeeeCCcccceeecCCCCCcccCCCCCccccccchhhccccc
Confidence 112233332110 00000
Q ss_pred ---C--CCCC----------------CCC--C------C-CCC-C------CCCCCCCCCCCCCceEEEEEEeecccccc
Q psy11627 109 ---S--QSPH----------------SEN--A------M-DTG-I------SSDVTPVPYQEQPFWASIAYYELNSRVGE 151 (291)
Q Consensus 109 ---~--~~~~----------------~~~--p------~-~~~-~------~~~~~~v~~~e~~~WCsIaYyEl~~RVGe 151 (291)
. +.+. ++. | . +++ . .++..++.|+++++||+|+|||+++||||
T Consensus 161 ~~~~~~P~n~~~~~~~~~~~~~tp~~~~~~~P~~~~~p~s~~~~~~~~P~~~P~~~~~~~~~~~~WcsIaYyEl~~rVGE 240 (411)
T KOG3701|consen 161 IVNRSMPQNNHSSDLIGPHAPHTPDSSQIPAPLGDGGPSSDSSALPGLPTDSPDVGPVHYEEPKSWCSIAYYELNTRVGE 240 (411)
T ss_pred ccccCCCcccccccccccCCCCCCCcccCCCCCCCCCCCCcccccCCCCCCCCccCcccccCCcceeEEEEeeccccccc
Confidence 0 0000 001 1 0 001 0 02344578999999999999999999999
Q ss_pred eeeeecCeEEEcCccCCCCCCCceeeccccCCCCChhhHHhhhccCCceEEEEECCEEEEEeCCCceeeecCCCCCCCCC
Q psy11627 152 VFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHG 231 (291)
Q Consensus 152 ~F~a~~~sv~VDGf~dps~~~~RfcLg~lsnv~R~~~ve~tR~~IG~GV~L~~~~g~V~~~nlS~~~VFVqSp~ln~~~g 231 (291)
+|+|+.++++||||+||+++ +|||||+|+|+||+++++++|+|||+||+|++++|+|||||+|+++|||||++||+.+|
T Consensus 241 ~f~v~~~~~~vDG~~dps~~-~rfcLgqlsn~~Rn~~~e~~R~~IG~GV~L~~~~gdVw~~n~sd~pIFVqS~~ln~~~g 319 (411)
T KOG3701|consen 241 TFHVPGPSITVDGFTDPSNG-SRFCLGQLSNVNRNEKVEKTRAHIGKGVQLSYENGDVWLYNLSDYPIFVQSPNLNYPNG 319 (411)
T ss_pred eEEecCCceEEeeeecCCCC-CceeeccccCCCccchhHHHHhhccCceeeeEecCcEEEEecCCCceeeeCCCCcCCCC
Confidence 99999999999999999754 89999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcceeEcCCCceEEeeehHHHHHHHHHhhhcCCccccccCCCceeEEEeeeccccc
Q psy11627 232 FHQSTVCKIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISVRPFRRLVLA 289 (291)
Q Consensus 232 ~~~~tV~KI~pg~slKIFd~~~fa~~L~~~~~~g~~~v~~L~~~CtiRISFvKG~g~~ 289 (291)
+++++||||+||++|||||+ +|+++|.+++.+|++++|+|++||+||||||||||+.
T Consensus 320 ~~~~~v~ki~Pg~~iKvFd~-~~~~~l~~s~~~g~~~~~~l~~~ctIriSFvKGWG~~ 376 (411)
T KOG3701|consen 320 RTLDTVHKVPPGYSIKVFDF-EFAQQLPTSADPGFESVDQLRKMCTIRISFVKGWGEC 376 (411)
T ss_pred CcccceEeeCCCceeEeech-HHHhhhhhcccCCCccccccccceeEEEEEecccccc
Confidence 99999999999999999999 8999999999999999999999999999999999985
No 2
>cd00050 MH2 MH2 domain; C terminal domain of SMAD family proteins, responsible for receptor interaction, transactivation, and homo- and heterooligomerisation; also known as Domain B in dwarfin family proteins
Probab=100.00 E-value=6e-67 Score=458.80 Aligned_cols=158 Identities=53% Similarity=0.829 Sum_probs=153.9
Q ss_pred CCCCCceEEEEEEeecccccceeeeecCeEEEcCccCCCCCCCceeeccccCCCCChhhHHhhhccCCceEEEEECCEEE
Q psy11627 131 YQEQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRRHIGKGVHLYYVGGEVY 210 (291)
Q Consensus 131 ~~e~~~WCsIaYyEl~~RVGe~F~a~~~sv~VDGf~dps~~~~RfcLg~lsnv~R~~~ve~tR~~IG~GV~L~~~~g~V~ 210 (291)
++++++||+|+|||||+||||+|++++|+++||||+||+ +++|||||+|+|+||++++++||+|||+||+|++++|+||
T Consensus 1 ~~~~~~WCsIaY~El~~RVGe~f~~~~~~~~VDGf~d~~-~~~rfcLg~lsn~~R~~~ve~~R~~IG~Gv~L~~~~g~Vw 79 (176)
T cd00050 1 PSEPEHWCSIAYYELNTRVGETFKVSGPNITVDGFTDPS-NGSRFCLGQLSNVNRNETVEKTRRHIGKGVQLSYENGEVW 79 (176)
T ss_pred CCCCCceEEEEEEEccceecccEeccCCcEEEEecccCC-CCCEEEecccCCCCCcHHHHHHHHhccCCEEEEEeCCeEE
Confidence 478999999999999999999999999999999999996 6789999999999999999999999999999999999999
Q ss_pred EEeCCCceeeecCCCCCCCCCCCCcceeEcCCCceEEeeehHHHHHHHHHhhhcCCccccccCCCceeEEEeeeccccc
Q psy11627 211 AECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISVRPFRRLVLA 289 (291)
Q Consensus 211 ~~nlS~~~VFVqSp~ln~~~g~~~~tV~KI~pg~slKIFd~~~fa~~L~~~~~~g~~~v~~L~~~CtiRISFvKG~g~~ 289 (291)
++|+|++|||||||+||+.+++++++|||||||++|||||+++|+++|+++.+++++++|+|++||+||||||||||+.
T Consensus 80 ~~~~S~~~VFVqS~~l~~~~~~~~~~V~Kv~pg~~lKvFd~~~f~~~l~~~~~~~~~~~~~l~~~c~iriSFvKGWG~~ 158 (176)
T cd00050 80 AYNLSDHPIFVQSPTLDYPLGRPLLTVHKVPPGYSLKVFDFEQFEQLLRQAAGSTFDGVYDLRRMCTIRISFVKGWGED 158 (176)
T ss_pred EEEcCCCCEEEcCCCCCcccCCCCcceEEeCCCCEEEEeCHHHHHHHHHhhhcccCccHHHHHhhceEEEEEecccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999974
No 3
>smart00524 DWB Domain B in dwarfin family proteins.
Probab=100.00 E-value=2.9e-65 Score=446.34 Aligned_cols=153 Identities=53% Similarity=0.848 Sum_probs=149.3
Q ss_pred ceEEEEEEeecccccceeeeecCeEEEcCccCCCCCCCceeeccccCCCCChhhHHhhhccCCceEEEEECCEEEEEeCC
Q psy11627 136 FWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLS 215 (291)
Q Consensus 136 ~WCsIaYyEl~~RVGe~F~a~~~sv~VDGf~dps~~~~RfcLg~lsnv~R~~~ve~tR~~IG~GV~L~~~~g~V~~~nlS 215 (291)
+||+|+|||+|+||||+|++++|+|+||||+||+ +++|||||+|+|+||++++++||+|||+||+|++++|+||++|+|
T Consensus 1 ~WcsIaYyEl~~rVGe~f~~~~p~v~Vdgf~d~~-~~~rfcLg~lsn~nR~~~~~~~R~~IG~Gv~L~~~~g~Vw~~~~s 79 (171)
T smart00524 1 SWCSIAYYELNTRVGETFKVSSPSVTVDGFTDPS-DGNRFCLGQLSNVNRNEATELIRKHIGKGVQLSYENGDVWLYNRS 79 (171)
T ss_pred CCcEEEEEEecccccceEEccCCeEEEEecccCC-CCCeeEeccCCCCCccHHHHHHHHhccCceEEEEeCCeEEEEEcC
Confidence 6999999999999999999999999999999996 568999999999999999999999999999999999999999999
Q ss_pred CceeeecCCCCCCCCCCCCcceeEcCCCceEEeeehHHHHHHHHHhhhcCCccccccCCCceeEEEeeeccccc
Q psy11627 216 DSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISVRPFRRLVLA 289 (291)
Q Consensus 216 ~~~VFVqSp~ln~~~g~~~~tV~KI~pg~slKIFd~~~fa~~L~~~~~~g~~~v~~L~~~CtiRISFvKG~g~~ 289 (291)
++|||||||+||+++++++++|||||||++|||||+++|+++|+++.+++++++|+|++||+||||||||||+.
T Consensus 80 ~~~VFVqS~~~~~~~~~~~~~V~Kv~pg~~lKvFd~~~f~~~l~~~~~~~~~~~~~l~~~c~iriSFvKGWG~~ 153 (171)
T smart00524 80 DSPIFVQSPYLDEPGGRTLDTVHKLPPGYSIKVFDMEKFAQLLARELAKGFEGVYDLARMCTIRISFVKGWGPD 153 (171)
T ss_pred CCCeEEcCCCcccccCCCCcceEEECCCCeEEEeChHHHHHHHHhhhcccCccccchhhheeEEEEEecccCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999974
No 4
>PF03166 MH2: MH2 domain; InterPro: IPR001132 Mammalian dwarfins are phosphorylated in response to transforming growth factor beta and are implicated in control of cell growth []. The dwarfin family also includes the Drosophila protein MAD that is required for the function of decapentaplegic (DPP) and may play a role in DPP signalling. Drosophila Mad binds to DNA and directly mediates activation of vestigial by Dpp []. This domain is also found in nuclear factor I (NF-I) or CCAAT box-binding transcription factor (CTF). This entry represents the SMAD (Mothers against decapentaplegic (MAD) homologue) (also called MH2 for MAD homology 2) domain found at the carboxy terminus of MAD related proteins such as Smads. This domain is separated from the MH1 domain by a non-conserved linker region. The MH2 domain mediates interaction with a wide variety of proteins and provides specificity and selectivity to Smad function and also is critical for mediating interactions in Smad oligomers. Unlike MH1, MH2 does not bind DNA. The well-studied MH2 domain of Smad4 is composed of five alpha helices and three loops enclosing a beta sandwich. Smads are involved in the propagation of TGF-beta signals by direct association with the TGF-beta receptor kinase which phosphorylates the last two Ser of a conserved 'SSXS' motif located at the C terminus of MH2 [, , ].; GO: 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1MK2_A 1U7F_A 1MJS_A 1KHU_A 1DD1_C 1G88_A 1U7V_B 1MR1_B 1YGS_A 3DIT_B ....
Probab=100.00 E-value=6.2e-60 Score=416.03 Aligned_cols=157 Identities=57% Similarity=0.934 Sum_probs=138.8
Q ss_pred CCCCceEEEEEEeecccccceeeeecCeEEEcCccCCCCCCCceeeccccCCCCChhhHHhhhccCCceEEEEE-CCEEE
Q psy11627 132 QEQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRRHIGKGVHLYYV-GGEVY 210 (291)
Q Consensus 132 ~e~~~WCsIaYyEl~~RVGe~F~a~~~sv~VDGf~dps~~~~RfcLg~lsnv~R~~~ve~tR~~IG~GV~L~~~-~g~V~ 210 (291)
+++++||+|+|||+++||||+|++++++|+||||+||+ +++|||||.|+|++|++++++||+|||+||+|+++ +|+||
T Consensus 1 ~~~~~Wc~I~Y~E~~~rVG~~f~~~~~~v~idG~~d~~-~~~r~~Lg~~~n~~R~~~~~~~R~~IG~Gi~l~~~~~G~V~ 79 (181)
T PF03166_consen 1 EEPEIWCSIAYYELNTRVGEAFKARSPSVIIDGFTDPS-DGDRFCLGQLSNVNRDSKTEKIRRHIGKGIKLSYEEDGNVW 79 (181)
T ss_dssp -S-SSSEEEEEEETTEEESEEEEEESSEEEEESSSSSS-SSSEEECTT---TT--HHHHHHHTTCTT-EEEEEETTTEEE
T ss_pred CCCCeeEEEEEEecCCeEcceeEccCCeEEEeeccCCC-CCCcEecCccCCCCCChHHhhHHheecCcEEEEEecCCeEE
Confidence 47899999999999999999999999999999999997 78999999999999999999999999999999999 78999
Q ss_pred EEeCCCceeeecCCCCCCCCCCCCcceeEcCCCceEEeeehHHHHHHHHHhhhcCCcc---ccccCCCceeEEEeeeccc
Q psy11627 211 AECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEFAELLSQSVNHGFEA---VYELTKMCTISVRPFRRLV 287 (291)
Q Consensus 211 ~~nlS~~~VFVqSp~ln~~~g~~~~tV~KI~pg~slKIFd~~~fa~~L~~~~~~g~~~---v~~L~~~CtiRISFvKG~g 287 (291)
++|+|++|||||||++|..+++++++|+||+||+++||||+++|+++|+++.+++|++ +++|.++|+||||||||||
T Consensus 80 l~n~s~~pVFVqS~~~n~~~~~~~~~V~Kv~pg~~~kvFd~~~f~~~l~~~~~~~~~~~~~~~~l~~~c~iriSFvKGWG 159 (181)
T PF03166_consen 80 LYNRSDSPVFVQSPTLNYQHGFHPGTVCKVPPGYSLKVFDMEKFAQLLRQAVRRGYEAEEDVDELRKMCTIRISFVKGWG 159 (181)
T ss_dssp EEE-SSS-EEEE-HHHHHHTTSTTTSEEEE-TT-EEEEEEHHHHHHHHHHHHTTHHHHTTTHHGGGGGGEEEEEESSB-S
T ss_pred EEECCCCCEEEccCCCCcccCcCCCCcEEeCCCceeeccCHHHHHHHHHhhhccccccccchhhhhhcceEEEEEEcccC
Confidence 9999999999999999999999999999999999999999999999999999999976 9999999999999999999
Q ss_pred cc
Q psy11627 288 LA 289 (291)
Q Consensus 288 ~~ 289 (291)
..
T Consensus 160 ~~ 161 (181)
T PF03166_consen 160 PE 161 (181)
T ss_dssp TT
T ss_pred Cc
Confidence 75
No 5
>cd00049 MH1 MH1 is a small DNA binding domain, binding in an unusal way involving a beta hairpin structure binding to the major groove. MH1 is present in Smad proteins, an important family of proteins involved in TGF-beta signalling and frequent targets of tumorigenic mutations. Also known as Domain A in dwarfin family proteins.
Probab=99.83 E-value=4.2e-21 Score=159.92 Aligned_cols=80 Identities=51% Similarity=0.795 Sum_probs=68.3
Q ss_pred HHHHHHhcccC-CChhhhHHHHHHHHHHHHhhhccCcHHHHHHHHhcCC-CCCcceEecccCCCCCCc--ccCCC-----
Q psy11627 26 PAVKKLLGWKQ-GDEEEKWAEKAVDSLVKKLKKSKGDIEELERALSCPG-QPSKCVTIPRSLDGRLQQ--IETPP----- 96 (291)
Q Consensus 26 ~~v~~Ll~~kq-g~eee~~~~kai~sLvKKLKkk~~~le~L~~Av~~~g-~~s~CVtiprsLDGRlqv--~~spp----- 96 (291)
++||+||+|+| |+|||+|++||++||||||||++ +||+|++||+++| .+|+||+|||+ |||||+ ....|
T Consensus 1 ~~~~~ll~~~~~~~~~e~~~~k~~~sLlKkLKk~~-~le~L~~AV~s~g~~~t~CV~i~r~-D~rl~~~~r~~~phv~~c 78 (121)
T cd00049 1 ALVKRLLGEKKIGGEEEKWKKKAAESLLKKLKKKI-QLEELEDAVESRGGPPTRCVLIPRS-DGRLQVSHRKGLPHVIYC 78 (121)
T ss_pred ChhHHhhcccccCcchHHHHHHHHHHHHHHHhccc-CHHHHHHHHHcCCCCCCCeEEeccc-cccccccccCCCcceEEE
Confidence 47999999999 89999999999999999999964 9999999999986 57999999999 999998 33333
Q ss_pred CCCCCCCCCCC
Q psy11627 97 PAYSPPQDEKH 107 (291)
Q Consensus 97 p~y~~~~~~~~ 107 (291)
-.|.+||..+.
T Consensus 79 rlwRWpDL~~~ 89 (121)
T cd00049 79 RVWRWPDLRSN 89 (121)
T ss_pred eeeeccccCch
Confidence 24568876544
No 6
>smart00523 DWA Domain A in dwarfin family proteins.
Probab=99.67 E-value=5.3e-17 Score=133.16 Aligned_cols=66 Identities=52% Similarity=0.810 Sum_probs=55.7
Q ss_pred hhhhHHHHHHHHHHHHhhhccCcHHHHHHHHhcCC-CCCcceEecccCCCCCCccc---CCCC----CCCCCCCCC
Q psy11627 39 EEEKWAEKAVDSLVKKLKKSKGDIEELERALSCPG-QPSKCVTIPRSLDGRLQQIE---TPPP----AYSPPQDEK 106 (291)
Q Consensus 39 eee~~~~kai~sLvKKLKkk~~~le~L~~Av~~~g-~~s~CVtiprsLDGRlqv~~---sppp----~y~~~~~~~ 106 (291)
+||||++||++|||||||++ +||+|++||+++| .+|+||+|||++||||||+. .|+- -|.+|+.++
T Consensus 1 ~~ek~~~k~~~sL~KklK~k--~le~L~~AV~s~g~~~t~CV~i~~~~dgrl~~~~~~~~phvi~crLfRWpdL~s 74 (109)
T smart00523 1 VEEKWAKKATESLLKKLKKK--QLEELLQAVESKGGPPTRCVLIPRSLDGRLQVAHRKGLPHVLYCRLFRWPDLQS 74 (109)
T ss_pred CcHHHHHHHHHHHHHHHHHH--HHHHHHHHHHcCCCCCCCeEEeCcccCcccccccCCCCCcEEEEEEeeCCCCCC
Confidence 47899999999999999995 9999999999997 78999999999999999854 2332 235777654
No 7
>PF03165 MH1: MH1 domain; InterPro: IPR003619 Mammalian dwarfins are phosphorylated in response to transforming growth factor beta and are implicated in control of cell growth []. The dwarfin family also includes the Drosophila protein MAD that is required for the function of decapentaplegic (DPP) and may play a role in DPP signalling. Drosophila Mad binds to DNA and directly mediates activation of vestigial by Dpp []. This domain is also found in nuclear factor I (NF-I) or CCAAT box-binding transcription factor (CTF). This entry represents the MH1 (MAD homology 1) domain is found at the amino terminus of MAD related proteins such as Smads. This domain is separated from the MH2 domain by a non-conserved linker region. The crystal structure of the MH1 domain shows that a highly conserved 11 residue beta hairpin is used to bind the DNA consensus sequence GNCN in the major groove, shown to be vital for the transcriptional activation of target genes. Not all examples of MH1 can bind to DNA however. Smad2 cannot bind DNA and has a large insertion within the hairpin that presumably abolishes DNA binding. A basic helix (H2) in MH1 with the nuclear localisation signal KKLKK has been shown to be essential for Smad3 nuclear import. Smads also use the MH1 domain to interact with transcription factors such as Jun, TFE3, Sp1, and Runx [, , ].; GO: 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3QSV_A 1MHD_A 1OZJ_A 3KMP_B.
Probab=99.59 E-value=1e-15 Score=124.49 Aligned_cols=62 Identities=52% Similarity=0.740 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHhhhccCcHHHHHHHHhcCC-CCCcceEecccCCCCCCcccCCCCC-------CCCCCCC
Q psy11627 44 AEKAVDSLVKKLKKSKGDIEELERALSCPG-QPSKCVTIPRSLDGRLQQIETPPPA-------YSPPQDE 105 (291)
Q Consensus 44 ~~kai~sLvKKLKkk~~~le~L~~Av~~~g-~~s~CVtiprsLDGRlqv~~sppp~-------y~~~~~~ 105 (291)
.+|||+||||||||+.++||+|++||+++| .+|+||+|||++||||||+....+| |.+|+..
T Consensus 1 ~~k~~~sLlkkLK~~~~~le~L~~Av~s~g~~~t~CV~i~r~~dgrl~v~~~k~~phvl~crlwRwpdL~ 70 (103)
T PF03165_consen 1 CEKAIKSLLKKLKKKIGQLEELLKAVESRGDPPTKCVTIPRSLDGRLQVSGRKGLPHVLYCRLWRWPDLR 70 (103)
T ss_dssp HHHHHHHHHHHHTTTCTHHHHHHHHHHCTTTSTS---EEE--TTS-EEETTEEE-HHHHHHHHHT-TT--
T ss_pred ChHHHHHHHHHHccccchHHHHHHHHhcCCCCCCCcEEecCccCccccccccccCceEEEEEEechhhcC
Confidence 479999999999997789999999999875 8999999999999999997654333 4677754
No 8
>PF10401 IRF-3: Interferon-regulatory factor 3; InterPro: IPR019471 This is the interferon-regulatory factor 3 chain of the hetero-dimeric structure which also contains the shorter chain CREB-binding protein. These two subunits make up the DRAF1 (double-stranded RNA-activated factor 1). Viral dsRNA produced during viral transcription or replication leads to the activation of DRAF1. The DNA-binding specificity of DRAF1 correlates with transcriptional induction of ISG (interferon-alpha, beta-stimulated gene). IRF-3 pre-exists in the cytoplasm of uninfected cells and translocates to the nucleus following viral infection. Translocation of IRF-3 is accompanied by an increase in serine and threonine phosphorylation, and association with the CREB coactivator occurs only after infection. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1J2F_A 1QWT_A 3A77_B 1ZOQ_A 3DSH_A.
Probab=98.03 E-value=0.0002 Score=63.02 Aligned_cols=137 Identities=15% Similarity=0.154 Sum_probs=85.7
Q ss_pred eEEEEEEeecccccceeeeecCe-EEEcCccCCCCCC---------CceeeccccCC-CC--ChhhHHhhhccCCceEEE
Q psy11627 137 WASIAYYELNSRVGEVFHCQSHS-VIVDGFTNPSNNL---------NRFCLGQLSNV-NR--NSTIENTRRHIGKGVHLY 203 (291)
Q Consensus 137 WCsIaYyEl~~RVGe~F~a~~~s-v~VDGf~dps~~~---------~RfcLg~lsnv-~R--~~~ve~tR~~IG~GV~L~ 203 (291)
+-.|..|=....|++.- ++.+. +-| +..++... .+..|=.-... +. ...++++-.+.++||.|.
T Consensus 3 ~l~V~v~Y~G~~V~~~~-v~~~~GcRl--~~~~~~~~~~~~~~~~~~~v~lP~p~~~~~~~q~~~~~~lL~~l~rGl~L~ 79 (180)
T PF10401_consen 3 SLEVTVYYRGRLVLETT-VSNPEGCRL--SYGPPPSQGHLCGPSSPEQVWLPSPPPIPDQKQREYTERLLNHLERGLLLW 79 (180)
T ss_dssp EEEEEEEETTCEEEEEE-EEETT-EEE--ESSSTCCCCCHH--TTSEEEE---GCC---HHHHHHHHHHHCCTTT-EEEE
T ss_pred EEEEEEEECCEEEEEEE-EeCCCcEEE--EecCCCccccccCCCCCCeeECCCCCccCChhHHHHHHHHHHhhcCcEEEE
Confidence 45566666778888764 55554 555 33222111 22222111221 11 357888899999999999
Q ss_pred EECCEEEEEeCCCceeeecCCCCCCCCCCCCcceeEcCCCceEEeeehHHHHHHHHHhhhcCCccccccCCCceeEEEee
Q psy11627 204 YVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISVRPF 283 (291)
Q Consensus 204 ~~~g~V~~~nlS~~~VFVqSp~ln~~~g~~~~tV~KI~pg~slKIFd~~~fa~~L~~~~~~g~~~v~~L~~~CtiRISFv 283 (291)
..+++||+.+++...||...+...... .-.|+..+...||||++.|-..|.+..+.+-... .+.|-++|.
T Consensus 80 ~~~~gI~akRlc~~~Vfw~g~~~~~~~-----~P~kL~r~~~~~lFd~~~F~~~L~~~~~~~~~~P-----~~~i~LcfG 149 (180)
T PF10401_consen 80 SNPQGIYAKRLCQCRVFWSGPEAPPSD-----EPNKLEREEPVKLFDTQQFLRELQRFPQGGGPSP-----DYQIYLCFG 149 (180)
T ss_dssp EETTEEEEEE-SSS-EEEECCTSS-S------S-SE--CTS-EEEEEHHHHHHHHHHHHTTSSS---------EEEEEES
T ss_pred EeCCEEEEEecCCceEEEEcCCccCCC-----CCcccCcCCceeeccHHHHHHHHHHHhcCCCCCC-----CcEEEEEEc
Confidence 999999999999999999998865432 3348889999999999999999988776543322 468888887
Q ss_pred ecc
Q psy11627 284 RRL 286 (291)
Q Consensus 284 KG~ 286 (291)
.=|
T Consensus 150 e~~ 152 (180)
T PF10401_consen 150 EEW 152 (180)
T ss_dssp SSS
T ss_pred ccC
Confidence 655
No 9
>KOG2884|consensus
Probab=81.31 E-value=3.5 Score=38.44 Aligned_cols=60 Identities=28% Similarity=0.320 Sum_probs=42.3
Q ss_pred hHHHHHHhcccCCC-----------hhhhHHHHHHHHHHHHhhhcc---------------CcHHHHHHHHhcCCCCCcc
Q psy11627 25 SPAVKKLLGWKQGD-----------EEEKWAEKAVDSLVKKLKKSK---------------GDIEELERALSCPGQPSKC 78 (291)
Q Consensus 25 ~~~v~~Ll~~kqg~-----------eee~~~~kai~sLvKKLKkk~---------------~~le~L~~Av~~~g~~s~C 78 (291)
-.+.+-.|.+||+. ..-+-.||..-.|-|+|||.+ ..|.+++.|+-.+|..|.|
T Consensus 91 i~iA~lalkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~~~~gshl 170 (259)
T KOG2884|consen 91 IQIAQLALKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNGKGDGSHL 170 (259)
T ss_pred HHHHHHHHHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcCCCCCceE
Confidence 36778888888862 222225567778889999843 1246667777766788999
Q ss_pred eEeccc
Q psy11627 79 VTIPRS 84 (291)
Q Consensus 79 Vtiprs 84 (291)
|+||+.
T Consensus 171 v~Vppg 176 (259)
T KOG2884|consen 171 VSVPPG 176 (259)
T ss_pred EEeCCC
Confidence 999986
No 10
>PF07624 PSD2: Protein of unknown function (DUF1585); InterPro: IPR011478 This entry represents a conserved region at the C terminus of a family of cytochrome-like proteins found in bacteria such as Rhodopirellula baltica and Solibacter usitatus. These proteins also contain IPR013036 from INTERPRO, IPR013039 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.
Probab=69.84 E-value=6.6 Score=29.95 Aligned_cols=50 Identities=22% Similarity=0.246 Sum_probs=43.0
Q ss_pred CCChHHHHHHhcccCCChhhhHHHHHHHHHHHHhhhccCcHHHHHHHHhc
Q psy11627 22 SFTSPAVKKLLGWKQGDEEEKWAEKAVDSLVKKLKKSKGDIEELERALSC 71 (291)
Q Consensus 22 ~~~~~~v~~Ll~~kqg~eee~~~~kai~sLvKKLKkk~~~le~L~~Av~~ 71 (291)
.|.-..+++||.+--|.+.+---+.+|+.++.++++....+.+|+.+|-+
T Consensus 22 ~~~~~~~~kl~~YAlGR~~~~~D~~~i~~i~~~~~~~~y~~~~Li~~iv~ 71 (76)
T PF07624_consen 22 QFARCFAEKLLTYALGRPLEFSDRCEIDRIVEAFKANGYRLRDLILAIVT 71 (76)
T ss_pred HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 36677899999999998777778889999999999987789999998853
No 11
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=52.81 E-value=42 Score=23.86 Aligned_cols=43 Identities=16% Similarity=0.298 Sum_probs=28.2
Q ss_pred eEEEEECC-EEEEEeC-CCceeeecCCCCCCCCCCCCcceeEcCCCceEEe
Q psy11627 200 VHLYYVGG-EVYAECL-SDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKI 248 (291)
Q Consensus 200 V~L~~~~g-~V~~~nl-S~~~VFVqSp~ln~~~g~~~~tV~KI~pg~slKI 248 (291)
..|.+.++ .+|++.+ |.+.+||+.-.+ .+..-+++.+|..+++
T Consensus 23 a~i~~~~~~~~~i~d~~s~ngt~vng~~l------~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 23 ARISFDDDGQFYIEDLGSTNGTFVNGQRL------GPGEPVPLKDGDIIRF 67 (68)
T ss_dssp EEEEEETTEEEEEEESSSSS-EEETTEEE------SSTSEEEE-TTEEEEE
T ss_pred eEEEEeceeeEEEEeCCCCCcEEECCEEc------CCCCEEECCCCCEEEc
Confidence 36788887 9999997 799999955322 2234566667766553
No 12
>COG4001 Predicted metal-binding protein [General function prediction only]
Probab=41.37 E-value=31 Score=27.95 Aligned_cols=45 Identities=27% Similarity=0.530 Sum_probs=32.2
Q ss_pred hHHHHHHhcccCCC-hhhhHHHHHHHHHHHHhhhccC-----cHHHHHHHH
Q psy11627 25 SPAVKKLLGWKQGD-EEEKWAEKAVDSLVKKLKKSKG-----DIEELERAL 69 (291)
Q Consensus 25 ~~~v~~Ll~~kqg~-eee~~~~kai~sLvKKLKkk~~-----~le~L~~Av 69 (291)
-|-+|..|-+--|+ +|-=|.=||.-++|||+-|+.. ..|+.-+++
T Consensus 33 d~Rik~Ald~alggR~daCwkCra~a~ivkkive~garAfgVdee~iRE~~ 83 (102)
T COG4001 33 DPRIKSALDHALGGRDDACWKCRALASIVKKIVERGARAFGVDEEDIREQM 83 (102)
T ss_pred cHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHhcchhcCCCHHHHHHHH
Confidence 35666666666655 8899999999999999999621 245555554
No 13
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=39.39 E-value=34 Score=30.66 Aligned_cols=39 Identities=28% Similarity=0.394 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhhhc---------------cCcHHHHHHHHhcCCCCCcceEeccc
Q psy11627 45 EKAVDSLVKKLKKS---------------KGDIEELERALSCPGQPSKCVTIPRS 84 (291)
Q Consensus 45 ~kai~sLvKKLKkk---------------~~~le~L~~Av~~~g~~s~CVtiprs 84 (291)
++.++.+.|+|||. ..-||.|.+||.. +..|.+|+||-.
T Consensus 122 ~~~i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~~~-~~~s~~~~~~~~ 175 (187)
T cd01452 122 EKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAVNG-KDGSHLVSVPPG 175 (187)
T ss_pred HHHHHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHhcC-CCCceEEEeCCC
Confidence 44577778888872 1236777777743 334999999874
No 14
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.94 E-value=47 Score=29.97 Aligned_cols=47 Identities=23% Similarity=0.367 Sum_probs=33.7
Q ss_pred EEEEECCEEEEEeCCCceeeecCCCCCCCCCCCCcceeEcCCCceEEeeehHHH
Q psy11627 201 HLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEF 254 (291)
Q Consensus 201 ~L~~~~g~V~~~nlS~~~VFVqSp~ln~~~g~~~~tV~KI~pg~slKIFd~~~f 254 (291)
-|.|-+|..|..|..+|+||-|-|++--.-|-....|. +-++|.+.-
T Consensus 98 GltYGeG~LytKn~g~h~vFWQGPslGwD~GGqgsRvm-------mLvYnL~~v 144 (205)
T COG5400 98 GLTYGEGTLYTKNAGDHKVFWQGPSLGWDWGGQGSRVM-------MLVYNLDDV 144 (205)
T ss_pred eeeeccceEEecCCCCcceEeeCCccccccCCCceEEE-------EEEecCCCH
Confidence 46788899999999999999999998654443343433 445666543
No 15
>TIGR03031 cas_csx12 CRISPR-associated protein, Csx12 family. Members of this family of CRISPR-associated (cas) protein are found, so far, in CRISPR/cas loci in Wolinella succinogenes DSM 1740, Legionella pneumophila str. Paris, and Francisella tularensis, where the last probably is an example of a degenerate CRISPR locus, having neither repeats nor a functional Cas1. The characteristic repeat length is 37 base pairs and period is about 72. One region of this large protein shows sequence similarity to PFAM model pfam01844, HNH endonuclease.
Probab=32.38 E-value=52 Score=35.07 Aligned_cols=53 Identities=34% Similarity=0.575 Sum_probs=35.2
Q ss_pred CChHHHHHHhcccC--CChhhhHHHHHHHHHHHHhhhccCcHHHHHHHHhcCCCCCcceEecccCC
Q psy11627 23 FTSPAVKKLLGWKQ--GDEEEKWAEKAVDSLVKKLKKSKGDIEELERALSCPGQPSKCVTIPRSLD 86 (291)
Q Consensus 23 ~~~~~v~~Ll~~kq--g~eee~~~~kai~sLvKKLKkk~~~le~L~~Av~~~g~~s~CVtiprsLD 86 (291)
|+--.-+-+++|++ ||.| +-++..|+++||.+.+-++.|++ -..|.|||.-.|
T Consensus 277 f~~~~~r~v~~wrh~K~d~~----~~~~knli~~lKqk~~~i~~L~~-------~~p~~TIPPYed 331 (802)
T TIGR03031 277 FGNEFLRMLKNWRHLKGDQE----SLAVRNLIQQLKQKQDYISILEK-------TPPEITIPPYED 331 (802)
T ss_pred HHHHHHHHHHhccCcCCcHh----HHHHHHHHHHHhccchHHHHHHh-------CCCcccCCCccc
Confidence 55555667789986 4433 34788999999996434444433 245999998765
No 16
>PF15509 DUF4650: Domain of unknown function (DUF4650)
Probab=32.14 E-value=47 Score=34.40 Aligned_cols=33 Identities=33% Similarity=0.339 Sum_probs=24.7
Q ss_pred CChhhhHHHHHHHHHHHHhhhccCcHHHHHHHH
Q psy11627 37 GDEEEKWAEKAVDSLVKKLKKSKGDIEELERAL 69 (291)
Q Consensus 37 g~eee~~~~kai~sLvKKLKkk~~~le~L~~Av 69 (291)
||-.|.-..|.-=-|+||||-||+.|..|.+--
T Consensus 306 ~ds~e~q~hKLRLKLLKKLKAKKkKLAsL~s~~ 338 (520)
T PF15509_consen 306 GDSVEDQTHKLRLKLLKKLKAKKKKLASLMSSP 338 (520)
T ss_pred CCcchhhHHHHHHHHHHHHHHhHHHHHHHHhhh
Confidence 345556677777789999998878887777644
No 17
>PF01731 Arylesterase: Arylesterase; InterPro: IPR002640 The serum paraoxonases/arylesterases are enzymes that catalyse the hydrolysis of the toxic metabolites of a variety of organophosphorus insecticides. The enzymes hydrolyse a broad spectrum of organophosphate substrates, including paraoxon and a number of aromatic carboxylic acid esters (e.g., phenyl acetate), and hence confer resistance to organophosphate toxicity []. Mammals have 3 distinct paraoxonase types, termed PON1-3 [, ]. In mice and humans, the PON genes are found on the same chromosome in close proximity. PON activity has been found in variety of tissues, with highest levels in liver and serum - the source of serum PON is thought to be the liver. Unlike mammals, fish and avian species lack paraoxonase activity. Human and rabbit PONs appear to have two distinct Ca2+ binding sites, one required for stability and one required for catalytic activity. The Ca2+ dependency of PONs suggests a mechanism of hydrolysis where Ca2+ acts as the electrophillic catalyst, like that proposed for phospholipase A2. The paraoxonase enzymes, PON1 and PON3, are high density lipoprotein (HDL)- associated proteins capable of preventing oxidative modification of low density lipoproteins (LPL) []. Although PON2 has oxidative properties, the enzyme does not associate with HDL. Within a given species, PON1, PON2 and PON3 share ~60% amino acid sequence identity, whereas between mammalian species particular PONs (1,2 or 3) share 79-90% identity at the amino acid level. Human PON1 and PON3 share numerous conserved phosphorylation and N-glycosylation sites; however, it is not known whether the PON proteins are modified at these sites, or whether modification at these sites is required for activity in vivo []. This family consists of arylesterases (Also known as serum paraoxonase) 3.1.1.2 from EC. These enzymes hydrolyse organophosphorus esters such as paraoxon and are found in the liver and blood. They confer resistance to organophosphate toxicity []. Human arylesterase (PON1) P27169 from SWISSPROT is associated with HDL and may protect against LDL oxidation [].; GO: 0004064 arylesterase activity
Probab=31.85 E-value=1.2e+02 Score=23.90 Aligned_cols=48 Identities=23% Similarity=0.427 Sum_probs=31.7
Q ss_pred CceEEEEEEeecccccceeeeecCeEEEcCccCCCCCCCceeeccccCCCCChhhHHhhhccCCceEEEEECCEEEEEeC
Q psy11627 135 PFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECL 214 (291)
Q Consensus 135 ~~WCsIaYyEl~~RVGe~F~a~~~sv~VDGf~dps~~~~RfcLg~lsnv~R~~~ve~tR~~IG~GV~L~~~~g~V~~~nl 214 (291)
-.|+.|.||.-.+ -.+..+|+.-| + ||.++-.+..||+-..
T Consensus 33 ~~~~~Vvyyd~~~----------~~~va~g~~~a--N---------------------------GI~~s~~~k~lyVa~~ 73 (86)
T PF01731_consen 33 LPWGNVVYYDGKE----------VKVVASGFSFA--N---------------------------GIAISPDKKYLYVASS 73 (86)
T ss_pred CCCceEEEEeCCE----------eEEeeccCCCC--c---------------------------eEEEcCCCCEEEEEec
Confidence 4799999997432 23567777665 2 5555555566777777
Q ss_pred CCceeee
Q psy11627 215 SDSAIFV 221 (291)
Q Consensus 215 S~~~VFV 221 (291)
..+.|+|
T Consensus 74 ~~~~I~v 80 (86)
T PF01731_consen 74 LAHSIHV 80 (86)
T ss_pred cCCeEEE
Confidence 7777766
No 18
>KOG2924|consensus
Probab=31.09 E-value=66 Score=31.28 Aligned_cols=105 Identities=18% Similarity=0.305 Sum_probs=62.7
Q ss_pred EEEEEEeecccccceeeeecCeEEEcCccCCCCCCCceeeccccCCC-CChhhHHhhhccCCceEEE-----EECCEE--
Q psy11627 138 ASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVN-RNSTIENTRRHIGKGVHLY-----YVGGEV-- 209 (291)
Q Consensus 138 CsIaYyEl~~RVGe~F~a~~~sv~VDGf~dps~~~~RfcLg~lsnv~-R~~~ve~tR~~IG~GV~L~-----~~~g~V-- 209 (291)
-||.||-...++ .+-.|.++ ||.- ++=+-...+.+.. +-.-++.+|+-=..-|.-. ..||+|
T Consensus 218 sSvlYWA~Kn~I----Pvf~Palt-DGSl-----GDmlyFHs~k~~~L~~DIv~Dir~iNt~av~a~~tgmIIlGgGvvK 287 (366)
T KOG2924|consen 218 SSVLYWAAKNHI----PVFSPALT-DGSL-----GDMLYFHSFKNSGLVLDIVEDIRRINTEAVFANKTGMIILGGGVVK 287 (366)
T ss_pred cceeehhhhCCC----ceeccccc-CCcc-----cceEEEeeccCCCeEEeHHHHHHhhhhhhhhccccceEEEcCchhh
Confidence 589999998887 45566653 5532 3344444443332 5556666666544333221 124444
Q ss_pred -------EEEeCCCceeeecCCC-CC-CCCCCCCcc---eeEcCCCc-eEEeeehH
Q psy11627 210 -------YAECLSDSAIFVQSRN-CN-HHHGFHQST---VCKIPAGC-SLKIFNNQ 252 (291)
Q Consensus 210 -------~~~nlS~~~VFVqSp~-ln-~~~g~~~~t---V~KI~pg~-slKIFd~~ 252 (291)
..+|--|++||++... .| ...|.+|+. =.||-|+. .+|||-..
T Consensus 288 HHI~NAnLmrNGad~~VyINtaqEfDGSDsGArpDEAVSWGKir~~a~~VKvy~da 343 (366)
T KOG2924|consen 288 HHICNANLMRNGADYAVYINTAQEFDGSDSGARPDEAVSWGKIRPDAKPVKVYADA 343 (366)
T ss_pred hhcchhhhhhcCcceEEEecccccccCcccCCCcccccccccccCCCceEEEEeee
Confidence 3456779999999875 23 235667774 24887875 79999764
No 19
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=25.59 E-value=1e+02 Score=24.21 Aligned_cols=30 Identities=30% Similarity=0.604 Sum_probs=24.6
Q ss_pred hhhhHHHHHHHHHHHHhhhccCcHHHHHHHHhc
Q psy11627 39 EEEKWAEKAVDSLVKKLKKSKGDIEELERALSC 71 (291)
Q Consensus 39 eee~~~~kai~sLvKKLKkk~~~le~L~~Av~~ 71 (291)
+|-+|..+-+..-++-|+. +|++|++||.-
T Consensus 35 ~e~~~~~~eL~~~l~~ie~---~L~DL~~aV~i 64 (97)
T PF09177_consen 35 EELKWLKRELRNALQSIEW---DLEDLEEAVRI 64 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 5667888888888888887 89999999964
No 20
>KOG3583|consensus
Probab=25.58 E-value=63 Score=30.32 Aligned_cols=30 Identities=43% Similarity=0.542 Sum_probs=19.3
Q ss_pred hhhhHHHHHHHHHHHHhhhccCcHHHHHHHH
Q psy11627 39 EEEKWAEKAVDSLVKKLKKSKGDIEELERAL 69 (291)
Q Consensus 39 eee~~~~kai~sLvKKLKkk~~~le~L~~Av 69 (291)
|+||++. |.+-++|+|-+-|..+|+|++-|
T Consensus 4 e~~~~~~-~~d~~ikr~~d~k~~i~~llq~l 33 (279)
T KOG3583|consen 4 EPEKIAQ-ATDMMIKRVTDAKKIIEELLQML 33 (279)
T ss_pred cHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455544 77777777776555667666655
No 21
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=23.17 E-value=1.1e+02 Score=27.20 Aligned_cols=33 Identities=21% Similarity=0.355 Sum_probs=28.0
Q ss_pred ceEEEEECCEEEEEeCCCceeeecCCCCCCCCC
Q psy11627 199 GVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHG 231 (291)
Q Consensus 199 GV~L~~~~g~V~~~nlS~~~VFVqSp~ln~~~g 231 (291)
++-|.|-.|.++..|..+++||.|.|.+-..-|
T Consensus 51 ~~GlrYGeG~L~~k~~g~~~vyWqGPSiG~D~G 83 (160)
T PF06577_consen 51 VVGLRYGEGTLYTKNAGQHKVYWQGPSIGFDFG 83 (160)
T ss_pred EEEEEecccEEEEcCCCeeEEEEeCCceeEeec
Confidence 467788889999999999999999999864433
No 22
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=23.17 E-value=2.3e+02 Score=20.84 Aligned_cols=44 Identities=14% Similarity=0.178 Sum_probs=29.0
Q ss_pred hhccCCceEEEEECCEEEEEeCCCceeeecCCCCCCCCCCCCcceeEcCCCceE
Q psy11627 193 RRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSL 246 (291)
Q Consensus 193 R~~IG~GV~L~~~~g~V~~~nlS~~~VFVqSp~ln~~~g~~~~tV~KI~pg~sl 246 (291)
+-++++|..|....|.||++.-.+.. |+ =.++...+.|++|..+
T Consensus 11 ~lr~~~~~~l~v~~G~vWlT~~g~~~--------D~--~L~~G~~l~l~~g~~v 54 (63)
T PF11142_consen 11 SLRAAAGQRLRVESGRVWLTREGDPD--------DY--WLQAGDSLRLRRGGRV 54 (63)
T ss_pred EeEcCCCcEEEEccccEEEECCCCCC--------CE--EECCCCEEEeCCCCEE
Confidence 45578899999999999999865311 11 1245556666666543
No 23
>PF01272 GreA_GreB: Transcription elongation factor, GreA/GreB, C-term; InterPro: IPR001437 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 2P4V_E 2ETN_B 3BMB_B 2PN0_D 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A.
Probab=20.90 E-value=48 Score=24.96 Aligned_cols=21 Identities=52% Similarity=0.609 Sum_probs=17.1
Q ss_pred ccCCCChHHHHHHhcccCCCh
Q psy11627 19 SLFSFTSPAVKKLLGWKQGDE 39 (291)
Q Consensus 19 ~~~~~~~~~v~~Ll~~kqg~e 39 (291)
...|+.||+-+.|||.|.||+
T Consensus 38 ~~IS~~SPLG~ALlG~~~Gd~ 58 (77)
T PF01272_consen 38 GKISIDSPLGKALLGKKVGDE 58 (77)
T ss_dssp TEEETTSHHHHHHTT-BTT-E
T ss_pred eEEEecCHHHHHhcCCCCCCE
Confidence 478899999999999999975
No 24
>PF08024 Antimicrobial_4: Ant antimicrobial peptide; InterPro: IPR012523 This family consists of the ponericin family of antimicrobial peptides isolated from predatory ant Pachycondyla goeldii (Ponerine ant). The ponericin peptides may adopt amphipathic alpha-helical structure in polar environments. In the ant colony, these peptides exhibit a defensive role against microbial pathogens arising from prey introduction and/or ingestion [].; GO: 0019836 hemolysis by symbiont of host erythrocytes, 0005576 extracellular region
Probab=20.43 E-value=1.2e+02 Score=18.67 Aligned_cols=18 Identities=33% Similarity=0.342 Sum_probs=15.2
Q ss_pred hhHHHHHHHHHHHHhhhc
Q psy11627 41 EKWAEKAVDSLVKKLKKS 58 (291)
Q Consensus 41 e~~~~kai~sLvKKLKkk 58 (291)
-||+-|++-++|--+|+|
T Consensus 5 ~K~~~Kl~P~vvgm~kkK 22 (24)
T PF08024_consen 5 AKIGAKLLPSVVGMFKKK 22 (24)
T ss_pred HHHHHHHhHHHHHHHHHc
Confidence 478999999999888665
Done!