Query 029115
Match_columns 199
No_of_seqs 48 out of 50
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 07:44:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029115.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029115hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03423 CBM_25: Carbohydrate 97.8 3.7E-05 8E-10 56.2 4.1 75 22-101 1-76 (87)
2 PLN02316 synthase/transferase 96.6 0.0055 1.2E-07 62.3 7.3 93 15-111 321-418 (1036)
3 PLN02316 synthase/transferase 96.3 0.009 2E-07 60.8 6.5 122 17-144 485-632 (1036)
4 PF14125 DUF4292: Domain of un 61.4 11 0.00024 30.4 3.6 38 76-114 169-208 (210)
5 PF06200 tify: tify domain; I 57.1 8.8 0.00019 25.2 1.9 15 18-32 1-15 (36)
6 PF06830 Root_cap: Root cap; 48.1 8.7 0.00019 28.0 0.8 22 42-64 23-44 (57)
7 cd00418 GlxRS_core catalytic c 45.9 23 0.0005 30.7 3.2 28 96-133 64-92 (230)
8 PF14524 Wzt_C: Wzt C-terminal 45.2 33 0.00072 24.5 3.5 78 8-88 17-97 (142)
9 smart00809 Alpha_adaptinC2 Ada 44.8 59 0.0013 22.9 4.7 37 79-115 12-49 (104)
10 PF05773 RWD: RWD domain; Int 42.9 65 0.0014 22.4 4.6 64 67-131 23-94 (113)
11 PF02883 Alpha_adaptinC2: Adap 42.3 70 0.0015 23.1 4.8 33 83-115 22-55 (115)
12 cd01514 Elongation_Factor_C El 39.1 9.5 0.00021 26.2 -0.1 39 73-111 1-48 (79)
13 PF05393 Hum_adeno_E3A: Human 37.1 21 0.00045 28.3 1.5 30 65-94 55-93 (94)
14 PRK11385 putativi pili assembl 35.9 35 0.00076 29.4 2.8 35 6-40 111-155 (236)
15 PRK10150 beta-D-glucuronidase; 33.1 33 0.00072 32.1 2.4 66 78-144 43-120 (604)
16 PRK15195 fimbrial chaperone pr 29.4 51 0.0011 28.1 2.7 35 6-40 103-151 (229)
17 TIGR01943 rnfA electron transp 28.7 30 0.00066 29.5 1.2 19 108-126 161-179 (190)
18 PF11619 P53_C: Transcription 28.0 40 0.00087 25.6 1.6 13 100-112 14-26 (71)
19 PHA02739 hypothetical protein; 27.3 55 0.0012 26.5 2.4 26 104-129 2-27 (116)
20 PF10102 DUF2341: Domain of un 25.6 1E+02 0.0022 23.0 3.4 30 7-37 29-59 (89)
21 PF01630 Glyco_hydro_56: Hyalu 25.6 41 0.0009 31.1 1.6 31 21-52 45-76 (337)
22 cd03713 EFG_mtEFG_C EFG_mtEFG_ 25.0 26 0.00056 24.0 0.2 36 73-111 1-47 (78)
23 PRK15188 fimbrial chaperone pr 24.8 71 0.0015 27.5 2.8 36 6-41 105-153 (228)
24 smart00216 VWD von Willebrand 24.1 96 0.0021 23.4 3.1 20 97-116 122-141 (162)
25 PF14508 GH97_N: Glycosyl-hydr 22.9 59 0.0013 27.8 1.9 76 34-127 28-107 (259)
26 PRK15285 putative fimbrial cha 22.7 80 0.0017 27.6 2.7 35 6-40 106-150 (250)
27 PF12158 DUF3592: Protein of u 22.2 59 0.0013 23.8 1.6 13 21-33 94-106 (148)
28 PF11763 DIPSY: Cell-wall adhe 21.3 1.3E+02 0.0028 24.9 3.5 29 73-107 47-76 (123)
29 PF14545 DBB: Dof, BCAP, and B 21.1 92 0.002 25.8 2.6 27 86-112 28-60 (142)
30 smart00838 EFG_C Elongation fa 21.1 36 0.00077 23.9 0.2 37 72-111 2-49 (85)
31 PRK15192 fimbrial chaperone Bc 20.8 88 0.0019 27.1 2.6 35 6-40 106-150 (234)
32 PF08366 LLGL: LLGL2; InterPr 20.5 1E+02 0.0022 24.3 2.6 30 55-92 33-62 (105)
33 PF06572 DUF1131: Protein of u 20.3 44 0.00095 28.6 0.7 26 78-105 127-152 (171)
34 PRK09926 putative chaperone pr 20.2 1E+02 0.0023 26.3 2.9 34 5-38 107-155 (246)
No 1
>PF03423 CBM_25: Carbohydrate binding domain (family 25); InterPro: IPR005085 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM25 from CAZY which has a starch-binding function as has been demonstrated in one case.; PDB: 2LAB_A 2C3X_B 2C3V_A 2C3W_C 2LAA_A.
Probab=97.75 E-value=3.7e-05 Score=56.17 Aligned_cols=75 Identities=25% Similarity=0.539 Sum_probs=39.0
Q ss_pred CCceEEEEcccccCCCCCCceeeeecCCCCCccccCCchhhhhhhhhCCCCCCceEEEeeeccceeeEEEEeecC-CCCC
Q 029115 22 GEKLKIFYNPYAKKLLPNEDFGIGFNGGFNQPFMCGGEPRAMLRKNRGQNDSPFYTIQICVPKHAINLIFSFTNG-VEWD 100 (199)
Q Consensus 22 Ge~L~lfyNp~a~~l~pn~~fGiaFNGgFNQPiMCGGePR~M~~k~RG~ad~piyti~I~vPkHa~~L~FSFTnG-~~WD 100 (199)
|+.++|||||..+.|.-.. -|=.-+|||. -. ....-.|.+... .....-++..|.||+.|..|.|.|+|| -.||
T Consensus 1 G~~vtVyYn~~~~~l~g~~--~v~~~~G~n~-W~-~~~~~~m~~~~~-~~~~~~~~~tv~vP~~a~~~dfvF~dg~~~wD 75 (87)
T PF03423_consen 1 GETVTVYYNPSLTALSGAP--NVHLHGGFNR-WT-HVPGFGMTKMCV-PDEGGWWKATVDVPEDAYVMDFVFNDGAGNWD 75 (87)
T ss_dssp -SEEEEEE---E-SSS-S---EEEEEETTS--B--SSS-EE-EEESS----TTEEEEEEE--TTTSEEEEEEE-SSS-EE
T ss_pred CCEEEEEEEeCCCCCCCCC--cEEEEecCCC-CC-cCCCCCcceeee-eecCCEEEEEEEEcCCceEEEEEEcCCCCcEe
Confidence 7899999999877775222 2444445542 11 111233433221 112678999999999999999999998 4788
Q ss_pred C
Q 029115 101 G 101 (199)
Q Consensus 101 G 101 (199)
-
T Consensus 76 N 76 (87)
T PF03423_consen 76 N 76 (87)
T ss_dssp S
T ss_pred C
Confidence 5
No 2
>PLN02316 synthase/transferase
Probab=96.61 E-value=0.0055 Score=62.33 Aligned_cols=93 Identities=20% Similarity=0.352 Sum_probs=68.4
Q ss_pred CCCCCCCCCceEEEEcccccCCCCCCceeeeecCCCCCccccCCchhhhhhhhhCCCCCCceEEEeeeccceeeEEEEee
Q 029115 15 NGLPPMSGEKLKIFYNPYAKKLLPNEDFGIGFNGGFNQPFMCGGEPRAMLRKNRGQNDSPFYTIQICVPKHAINLIFSFT 94 (199)
Q Consensus 15 nGlpP~sGe~L~lfyNp~a~~l~pn~~fGiaFNGgFNQPiMCGGePR~M~~k~RG~ad~piyti~I~vPkHa~~L~FSFT 94 (199)
....|-+|+.++|||||+.+.|.=.. -|=+-||||.=..-.+.+-.|.+-+++.-+ .+.-.|.||+-|..|-|-|+
T Consensus 321 ~P~~~~aG~~v~lyYN~~~~~L~~~~--~v~i~gg~N~W~~~~~~~~~~~~~~~~~g~--ww~a~v~vP~~A~~mDfVFs 396 (1036)
T PLN02316 321 EPSEFKAGDTVKLYYNRSSGPLAHST--EIWIHGGYNNWIDGLSIVEKLVKSEEKDGD--WWYAEVVVPERALVLDWVFA 396 (1036)
T ss_pred cCCCcCCCCEEEEEECCCCCCCCCCC--cEEEEEeEcCCCCCCcccceeecccCCCCC--EEEEEEecCCCceEEEEEEe
Confidence 35678999999999999999997443 467788888644333222224443433333 88999999999999999999
Q ss_pred cC-----CCCCCceeEEEecCc
Q 029115 95 NG-----VEWDGPYRIKFLVPR 111 (199)
Q Consensus 95 nG-----~~WDGpY~l~f~vp~ 111 (199)
|| ..||--.+..|.+|=
T Consensus 397 dg~~~~~~~yDNn~~~Dyh~~v 418 (1036)
T PLN02316 397 DGPPGNARNYDNNGRQDFHAIV 418 (1036)
T ss_pred cCCcccccccccCCCcceeeec
Confidence 99 699987777766654
No 3
>PLN02316 synthase/transferase
Probab=96.28 E-value=0.009 Score=60.83 Aligned_cols=122 Identities=21% Similarity=0.337 Sum_probs=87.0
Q ss_pred CCCCCCCceEEEEcccccCCCCCCceeeeecCCCCCccccCC--chhhhhhhhhCCCCCCceEEEeeeccceeeEEEEee
Q 029115 17 LPPMSGEKLKIFYNPYAKKLLPNEDFGIGFNGGFNQPFMCGG--EPRAMLRKNRGQNDSPFYTIQICVPKHAINLIFSFT 94 (199)
Q Consensus 17 lpP~sGe~L~lfyNp~a~~l~pn~~fGiaFNGgFNQPiMCGG--ePR~M~~k~RG~ad~piyti~I~vPkHa~~L~FSFT 94 (199)
+-|.+|+.++|||||+-+-|.-..+ |=|-||||.=.---| .|-.|.+.+-| .-+.-.|.||.-|..+-|-|.
T Consensus 485 ~~~~aG~~v~v~Yn~~~t~l~~~~e--v~~~g~~NrWth~~~~~~~~~m~~~~~g----~~~~a~v~vP~da~~mdfvFs 558 (1036)
T PLN02316 485 LEVQAGTTVTVLYNPANTVLNGKPE--VWFRGSFNRWTHRLGPLPPQKMVPADNG----SHLKATVKVPLDAYMMDFVFS 558 (1036)
T ss_pred CCCCCCCEEEEEECCCCCcCCCCce--EEEEccccCcCCCCCCCCceeeeecCCC----ceEEEEEEccccceEEEEEEe
Confidence 4589999999999999888775544 779999997555445 58888887666 577899999999999999996
Q ss_pred cCC---CCCCceeEEEecCcc---------------cccCCh------hhhhhhHHHhhhhcCcccccccCCcc
Q 029115 95 NGV---EWDGPYRIKFLVPRA---------------WRNKPM------DFFNKGLADQLSKDGACEKAIFPDTD 144 (199)
Q Consensus 95 nG~---~WDGpY~l~f~vp~~---------------~~nkP~------~fFnegLa~eLs~eGACd~AIfPda~ 144 (199)
+|- .||--....+-+|-. +---|. .=.--+|+++|++.|.-..-|-|.-.
T Consensus 559 ~~~~g~~yDn~~~~dyh~~v~g~~~~~~pM~Il~VSsE~~P~aKvGGLgDVV~sLp~ALa~~Gh~V~VitP~Y~ 632 (1036)
T PLN02316 559 EKEEGGIFDNRNGLDYHIPVFGGIAKEPPMHIVHIAVEMAPIAKVGGLGDVVTSLSRAVQDLNHNVDIILPKYD 632 (1036)
T ss_pred cCCCCCCcCCCCCcCCcccccCCCCCCCCcEEEEEEcccCCCCCcCcHHHHHHHHHHHHHHcCCEEEEEecCCc
Confidence 653 466544444433321 111121 22346789999999987777777543
No 4
>PF14125 DUF4292: Domain of unknown function (DUF4292)
Probab=61.44 E-value=11 Score=30.43 Aligned_cols=38 Identities=24% Similarity=0.610 Sum_probs=30.0
Q ss_pred eEEEeeecc--ceeeEEEEeecCCCCCCceeEEEecCcccc
Q 029115 76 YTIQICVPK--HAINLIFSFTNGVEWDGPYRIKFLVPRAWR 114 (199)
Q Consensus 76 yti~I~vPk--Ha~~L~FSFTnG~~WDGpY~l~f~vp~~~~ 114 (199)
..|+|.++. ..+.|...|.+ ++++.|..+.|.||++++
T Consensus 169 ~~i~i~~~~~~~~~~l~l~y~~-v~~n~~~~f~f~iP~~yk 208 (210)
T PF14125_consen 169 KEIEISAPDGKKKTKLNLEYSK-VEFNEPLSFPFSIPSGYK 208 (210)
T ss_pred cEEEEEEecCCceEEEEEEEee-eEcCCCcceeccCCCCcE
Confidence 467777776 66666666666 888999999999999876
No 5
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=57.12 E-value=8.8 Score=25.23 Aligned_cols=15 Identities=33% Similarity=0.583 Sum_probs=11.6
Q ss_pred CCCCCCceEEEEccc
Q 029115 18 PPMSGEKLKIFYNPY 32 (199)
Q Consensus 18 pP~sGe~L~lfyNp~ 32 (199)
|+.+..+||||||=.
T Consensus 1 ~~~~~~qLTIfY~G~ 15 (36)
T PF06200_consen 1 PSPETAQLTIFYGGQ 15 (36)
T ss_pred CCCCCCcEEEEECCE
Confidence 556778999999843
No 6
>PF06830 Root_cap: Root cap; InterPro: IPR009646 The cells at the periphery of the root cap are continuously sloughed off from the root into the mucilage, and are thought to be programmed to die [].This family represents a conserved region approximately 60 residues in length within plant root cap proteins, which may be involved in the process.
Probab=48.15 E-value=8.7 Score=27.96 Aligned_cols=22 Identities=27% Similarity=0.395 Sum_probs=16.8
Q ss_pred eeeeecCCCCCccccCCchhhhh
Q 029115 42 FGIGFNGGFNQPFMCGGEPRAML 64 (199)
Q Consensus 42 fGiaFNGgFNQPiMCGGePR~M~ 64 (199)
|=--.+.|-+.||| |||++..+
T Consensus 23 yvn~vk~g~~MPvm-GG~~~y~t 44 (57)
T PF06830_consen 23 YVNPVKVGVAMPVM-GGEDKYRT 44 (57)
T ss_pred cccccccCCCCccc-cCCcccee
Confidence 33346788899999 99998654
No 7
>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase. Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon bind
Probab=45.89 E-value=23 Score=30.66 Aligned_cols=28 Identities=39% Similarity=0.998 Sum_probs=19.3
Q ss_pred CCCCCC-ceeEEEecCcccccCChhhhhhhHHHhhhhcC
Q 029115 96 GVEWDG-PYRIKFLVPRAWRNKPMDFFNKGLADQLSKDG 133 (199)
Q Consensus 96 G~~WDG-pY~l~f~vp~~~~nkP~~fFnegLa~eLs~eG 133 (199)
|.+||+ ||. |..-.+.+-+ .|++|.++|
T Consensus 64 Gl~wd~~~~~---------QS~r~~~y~~-~~~~L~~~g 92 (230)
T cd00418 64 GLDWDEGPYR---------QSDRFDLYRA-YAEELIKKG 92 (230)
T ss_pred CCCCCCCeee---------hhcCHHHHHH-HHHHHHHcC
Confidence 778998 653 5555566654 567888888
No 8
>PF14524 Wzt_C: Wzt C-terminal domain; PDB: 2R5O_B.
Probab=45.19 E-value=33 Score=24.47 Aligned_cols=78 Identities=18% Similarity=0.212 Sum_probs=48.9
Q ss_pred ceEeEecCCCCCC---CCCceEEEEcccccCCCCCCceeeeecCCCCCccccCCchhhhhhhhhCCCCCCceEEEeeecc
Q 029115 8 PVYWKTMNGLPPM---SGEKLKIFYNPYAKKLLPNEDFGIGFNGGFNQPFMCGGEPRAMLRKNRGQNDSPFYTIQICVPK 84 (199)
Q Consensus 8 pVyWkt~nGlpP~---sGe~L~lfyNp~a~~l~pn~~fGiaFNGgFNQPiMCGGePR~M~~k~RG~ad~piyti~I~vPk 84 (199)
-|....++|.+-. +||.++|-+.=.+.+-.++-.+|+++-.--.|+|+.-- -..+..+ =.....=.|++++.+|+
T Consensus 17 ~v~i~~~~g~~~~~~~~ge~~~i~i~~~~~~~i~~~~~~~~i~~~~g~~v~~~~-t~~~~~~-~~~~~~g~~~~~~~i~~ 94 (142)
T PF14524_consen 17 SVRILDSDGEPTSSFESGEPIRIRIDYEVNEDIDDPVFGFAIRDSDGQRVFGTN-TYDSGFP-IPLSEGGTYEVTFTIPK 94 (142)
T ss_dssp EEEEEETTEES-SSEETTSEEEEEEEEEESS-EEEEEEEEEEEETT--EEEEEE-HHHHT---EEE-TT-EEEEEEEEE-
T ss_pred EEEEEeCCCCEeeEEeCCCEEEEEEEEEECCCCCccEEEEEEEcCCCCEEEEEC-ccccCcc-ccccCCCEEEEEEEEcC
Confidence 3566777777764 89999999998898889999999999988888887522 2222211 11111557888888888
Q ss_pred ceee
Q 029115 85 HAIN 88 (199)
Q Consensus 85 Ha~~ 88 (199)
+ |+
T Consensus 95 ~-L~ 97 (142)
T PF14524_consen 95 P-LN 97 (142)
T ss_dssp --B-
T ss_pred c-cC
Confidence 8 54
No 9
>smart00809 Alpha_adaptinC2 Adaptin C-terminal domain. Adaptins are components of the adaptor complexes which link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. Gamma-adaptin is a subunit of the golgi adaptor. Alpha adaptin is a heterotetramer that regulates clathrin-bud formation. The carboxyl-terminal appendage of the alpha subunit regulates translocation of endocytic accessory proteins to the bud site. This Ig-fold domain is found in alpha, beta and gamma adaptins and consists of a beta-sandwich containing 7 strands in 2 beta-sheets in a greek-key topology PUBMED:10430869, PUBMED:12176391. The adaptor appendage contains an additional N-terminal strand.
Probab=44.79 E-value=59 Score=22.94 Aligned_cols=37 Identities=16% Similarity=0.212 Sum_probs=28.3
Q ss_pred EeeeccceeeEEEEeecCCCCCCc-eeEEEecCccccc
Q 029115 79 QICVPKHAINLIFSFTNGVEWDGP-YRIKFLVPRAWRN 115 (199)
Q Consensus 79 ~I~vPkHa~~L~FSFTnG~~WDGp-Y~l~f~vp~~~~n 115 (199)
+|.-..+.+.+...|+|-.+|+=- +.+++.||+.|+-
T Consensus 12 ~~~~~~~~~~i~~~~~N~s~~~it~f~~~~avpk~~~l 49 (104)
T smart00809 12 KFERRPGLIRITLTFTNKSPSPITNFSFQAAVPKSLKL 49 (104)
T ss_pred EEEcCCCeEEEEEEEEeCCCCeeeeEEEEEEcccceEE
Confidence 333345778899999998888643 8899999997763
No 10
>PF05773 RWD: RWD domain; InterPro: IPR006575 The RWD eukaryotic domain is found in RING finger (IPR001841 from INTERPRO) and WD repeat (IPR001680 from INTERPRO) containing proteins and DEXDc-like helicase (IPR001410 from INTERPRO) subfamily related to the ubiquitin-conjugating enzymes domain (IPR000608 from INTERPRO). ; GO: 0005515 protein binding; PDB: 2EBM_A 2EBK_A 2DAX_A 2DAW_A 2DAY_A 2DMF_A 1UKX_A 2YZ0_A.
Probab=42.86 E-value=65 Score=22.38 Aligned_cols=64 Identities=19% Similarity=0.366 Sum_probs=43.6
Q ss_pred hhCCCCCCceEEEe--------eeccceeeEEEEeecCCCCCCceeEEEecCcccccCChhhhhhhHHHhhhh
Q 029115 67 NRGQNDSPFYTIQI--------CVPKHAINLIFSFTNGVEWDGPYRIKFLVPRAWRNKPMDFFNKGLADQLSK 131 (199)
Q Consensus 67 ~RG~ad~piyti~I--------~vPkHa~~L~FSFTnG~~WDGpY~l~f~vp~~~~nkP~~fFnegLa~eLs~ 131 (199)
...+..++.|+|+| .-..+.+.|.|+|+.+-- +-|=++.++.++.+++.=..--++-|.+.+.+
T Consensus 23 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~p~~YP-~~~P~i~l~~~~~~~~~~~~~l~~~l~~~~~~ 94 (113)
T PF05773_consen 23 EIESKSPPSLEVKLDESSSSFESSSFPSVTLHFTLPPGYP-ESPPKISLESPKNSRNEQIEKLNKELEQIAEE 94 (113)
T ss_dssp SSTSSSSEEEEEEE--CEECCTTTTSEEEEEEEEE-SSTT-SS--EEEEEEESSSHCHHHHHHHHHHHHHHHH
T ss_pred ccccCCCCceeeeecccccccccccceeEEEEEeCCCcCC-CcCCEEEEEcCCCCCHHHHHHHHHHHHHHHHH
Confidence 34566778889988 356778999999999988 88878888888888744444445555444443
No 11
>PF02883 Alpha_adaptinC2: Adaptin C-terminal domain; InterPro: IPR008152 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. GGAs (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) are a family of monomeric clathrin adaptor proteins that are conserved from yeasts to humans. GGAs regulate clathrin-mediated the transport of proteins (such as mannose 6-phosphate receptors) from the TGN to endosomes and lysosomes through interactions with TGN-sorting receptors, sometimes in conjunction with AP-1 [, ]. GGAs bind cargo, membranes, clathrin and accessory factors. GGA1, GGA2 and GGA3 all contain a domain homologous to the ear domain of gamma-adaptin. GGAs are composed of a single polypeptide with four domains: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The VHS domain is responsible for endocytosis and signal transduction, recognising transmembrane cargo through the ACLL sequence in the cytoplasmic domains of sorting receptors []. The GAT domain (also found in Tom1 proteins) interacts with ARF (ADP-ribosylation factor) to regulate membrane trafficking [], and with ubiquitin for receptor sorting []. The hinge region contains a clathrin box for recognition and binding to clathrin, similar to that found in AP adaptins. The GAE domain is similar to the AP gamma-adaptin ear domain, and is responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. This entry represents a beta-sandwich structural motif found in the appendage (ear) domain of alpha-, beta- and gamma-adaptin from AP clathrin adaptor complexes, and the GAE (gamma-adaptin ear) domain of GGA adaptor proteins. These domains have an immunoglobulin-like beta-sandwich fold containing 7 or 8 strands in 2 beta-sheets in a Greek key topology [, ]. Although these domains share a similar fold, there is little sequence identity between the alpha/beta-adaptins and gamma-adaptin/GAE. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 3MNM_B 3ZY7_B 1GYU_A 1GYW_B 2A7B_A 1GYV_A 2E9G_A 1E42_B 2G30_A 2IV9_B ....
Probab=42.33 E-value=70 Score=23.12 Aligned_cols=33 Identities=12% Similarity=0.219 Sum_probs=24.6
Q ss_pred ccceeeEEEEeecCCCCCCc-eeEEEecCccccc
Q 029115 83 PKHAINLIFSFTNGVEWDGP-YRIKFLVPRAWRN 115 (199)
Q Consensus 83 PkHa~~L~FSFTnG~~WDGp-Y~l~f~vp~~~~n 115 (199)
-.|.+.+.+.|+|-..+.=- +.+++.|||.|+=
T Consensus 22 ~~~~~~i~~~f~N~s~~~it~f~~q~avpk~~~l 55 (115)
T PF02883_consen 22 NPNQGRIKLTFGNKSSQPITNFSFQAAVPKSFKL 55 (115)
T ss_dssp ETTEEEEEEEEEE-SSS-BEEEEEEEEEBTTSEE
T ss_pred CCCEEEEEEEEEECCCCCcceEEEEEEeccccEE
Confidence 45778899999998777644 8899999987753
No 12
>cd01514 Elongation_Factor_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the ribosomal protection proteins Tet(M) and Tet(O), BipA, LepA and, spliceosomal proteins: human 116kD U5 small nuclear ribonucleoprotein (snRNP) protein (U5-116 kD) and yeast counterpart Snu114p. This domain adopts a ferredoxin-like fold consisting of an alpha-beta sandwich with anti-parallel beta-sheets, resembling the topology of domain III found in the elongation factors EF-G and eukaryotic EF-2, with which it forms the C-terminal block. The two domains however are not superimposable and domain III lacks some of the characteristics of this domain. EF-2/EF-G in complex with GTP, promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site, the
Probab=39.12 E-value=9.5 Score=26.15 Aligned_cols=39 Identities=21% Similarity=0.330 Sum_probs=24.6
Q ss_pred CCceEEEeeeccceeeEEEE--------eecCCCCC-CceeEEEecCc
Q 029115 73 SPFYTIQICVPKHAINLIFS--------FTNGVEWD-GPYRIKFLVPR 111 (199)
Q Consensus 73 ~piyti~I~vPkHa~~L~FS--------FTnG~~WD-GpY~l~f~vp~ 111 (199)
+|+|.+.|.+|..++.-+++ +.+-..++ +=++|+..||-
T Consensus 1 EPi~~~~I~~p~~~~g~v~~~l~~rrg~v~~~~~~~~~~~~i~~~iP~ 48 (79)
T cd01514 1 EPIMKVEITVPEEYLGAVIGDLSKRRGEILGMEPRGTGRVVIKAELPL 48 (79)
T ss_pred CCEEEEEEEcCHHHHHHHHHHHHhcCCeeEeeEecCCCeEEEEEECCH
Confidence 58999999999665433222 12222333 55889999984
No 13
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=37.10 E-value=21 Score=28.31 Aligned_cols=30 Identities=37% Similarity=0.602 Sum_probs=21.4
Q ss_pred hhhhCCCCCCceEEEeee-cc--------ceeeEEEEee
Q 029115 65 RKNRGQNDSPFYTIQICV-PK--------HAINLIFSFT 94 (199)
Q Consensus 65 ~k~RG~ad~piyti~I~v-Pk--------Ha~~L~FSFT 94 (199)
-|.|-|+.+|||.=-|-+ |+ -.-++.|||+
T Consensus 55 C~kRkrsRrPIYrPvI~~~P~~~~~~~~~GL~~~~fs~~ 93 (94)
T PF05393_consen 55 CKKRKRSRRPIYRPVIGLEPQNLQIHRDDGLRNLLFSFQ 93 (94)
T ss_pred HHHhhhccCCccccccccCCCcccccccCCcceeEEEee
Confidence 378999999999976663 22 2336788886
No 14
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=35.85 E-value=35 Score=29.40 Aligned_cols=35 Identities=20% Similarity=0.328 Sum_probs=27.5
Q ss_pred CcceEeEecCCCCCCCCC----------ceEEEEcccccCCCCCC
Q 029115 6 KAPVYWKTMNGLPPMSGE----------KLKIFYNPYAKKLLPNE 40 (199)
Q Consensus 6 ~apVyWkt~nGlpP~sGe----------~L~lfyNp~a~~l~pn~ 40 (199)
|-.+||=.-.++||...+ ++||||.|++-+..+++
T Consensus 111 RESlf~lnv~~IPp~~~~~n~L~iair~riKLFyRP~~L~~~~~~ 155 (236)
T PRK11385 111 RETLFELSIASVPSGKVENQSVKVAMRSVFKLFWRPEGLPGDPLE 155 (236)
T ss_pred ceEEEEEEEEecCCCcCCCceEEEEEEeeEEEEEcccccCCChhh
Confidence 347999999999997532 38999999987666654
No 15
>PRK10150 beta-D-glucuronidase; Provisional
Probab=33.08 E-value=33 Score=32.13 Aligned_cols=66 Identities=15% Similarity=0.245 Sum_probs=38.4
Q ss_pred EEeeeccceeeEEEEeecCCCCCCc--eeEEEecCcccccCChhhhhhhHHH----------hhhhcCcccccccCCcc
Q 029115 78 IQICVPKHAINLIFSFTNGVEWDGP--YRIKFLVPRAWRNKPMDFFNKGLAD----------QLSKDGACEKAIFPDTD 144 (199)
Q Consensus 78 i~I~vPkHa~~L~FSFTnG~~WDGp--Y~l~f~vp~~~~nkP~~fFnegLa~----------eLs~eGACd~AIfPda~ 144 (199)
+.|.||-+- +....-..-.++.|. ||-+|.||+.|++|-+.--=||+.- -..++|...+..|.-+.
T Consensus 43 ~~i~vP~~~-~~~~~~~~~~~~~G~~WYrr~f~lp~~~~gk~v~L~Fegv~~~a~V~lNG~~vg~~~~~~~~f~~DIT~ 120 (604)
T PRK10150 43 RAMAVPGSF-NDQFADADIRNYVGDVWYQREVFIPKGWAGQRIVLRFGSVTHYAKVWVNGQEVMEHKGGYTPFEADITP 120 (604)
T ss_pred cEecCCCch-hhccccccccCCcccEEEEEEEECCcccCCCEEEEEECcccceEEEEECCEEeeeEcCCccceEEeCch
Confidence 678888663 222221122234555 9999999999999876544455421 12456666665555443
No 16
>PRK15195 fimbrial chaperone protein FimC; Provisional
Probab=29.36 E-value=51 Score=28.13 Aligned_cols=35 Identities=23% Similarity=0.723 Sum_probs=25.9
Q ss_pred CcceEeEecCCCCCCCCC--------------ceEEEEcccccCCCCCC
Q 029115 6 KAPVYWKTMNGLPPMSGE--------------KLKIFYNPYAKKLLPNE 40 (199)
Q Consensus 6 ~apVyWkt~nGlpP~sGe--------------~L~lfyNp~a~~l~pn~ 40 (199)
|-.+||=.-..+||...+ ++||||.|..-+-.|++
T Consensus 103 rESlf~Lnv~eIP~~~~~~~~~~n~l~iair~~iKlFyRP~~l~~~~~~ 151 (229)
T PRK15195 103 RESLFWMNVKAIPSVDKNALEGRNVLQLAILSRIKLFVRPINLQELPEE 151 (229)
T ss_pred eeEEEEEEeeecCCCCcccccccceEEEEEEeEEEEEEcccccCCChhh
Confidence 447899999999995321 38999999976554443
No 17
>TIGR01943 rnfA electron transport complex, RnfABCDGE type, A subunit. The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the A subunit.
Probab=28.66 E-value=30 Score=29.47 Aligned_cols=19 Identities=37% Similarity=0.767 Sum_probs=16.8
Q ss_pred ecCcccccCChhhhhhhHH
Q 029115 108 LVPRAWRNKPMDFFNKGLA 126 (199)
Q Consensus 108 ~vp~~~~nkP~~fFnegLa 126 (199)
+||+.||+.|+.+.--|+-
T Consensus 161 ~vP~~~~G~pI~li~aglm 179 (190)
T TIGR01943 161 DVPKAFRGSPIALITAGLM 179 (190)
T ss_pred CCCccccCcCHHHHHHHHH
Confidence 6999999999999888763
No 18
>PF11619 P53_C: Transcription factor P53 - C terminal domain; InterPro: IPR024631 The p53 tumour suppressor [, , , , ] is a protein found in increased amounts in a wide variety of transformed cells. It is also detectable in many proliferating non-transformed cells, but it is undetectable or present at low levels in resting cells. It is frequently mutated or inactivated in many types of cancer. p53 seems to act as a tumour suppressor in some, but probably not all, tumour types. p53 has been implicated in cell cycle regulation, particularly in the monitoring of genomic DNA integrity prior to replication; for this reason it has been dubbed `guardian of the genome'. p53 is a sequence-specific DNA-binding protein and transcription factor. The structure of p53 comprises 4 domains: an N-terminal transactivation domain; a central DNA-binding domain; an oligomerisation domain; and a C-terminal, basic, regulatory domain [, ]. The structure of the oligomerisation domain consists of a dimer of dimers, each dimer consisting of 2 anti-parallel alpha-helices and an anti-parallel beta-sheet. The sheets lie on opposite sides of the tetramer and the helices form an unusual 4-helix bundle [, ]. While the majority of p53 mutations found in human cancers are located in the DNA-binding domain, some are also found in the oligomerisation domain. This entry represents the C-terminal domain of Drosophila transcription factor p53. While the rest of the protein is quite conserved between the different transcription factors such as p53 and p73, the C-terminal domain is highly divergent. The Drosophila p53 structure is characterised by an additional N-terminal beta-strand and a C-terminal helix [].; PDB: 2RP4_B.
Probab=27.99 E-value=40 Score=25.59 Aligned_cols=13 Identities=38% Similarity=0.866 Sum_probs=12.2
Q ss_pred CCceeEEEecCcc
Q 029115 100 DGPYRIKFLVPRA 112 (199)
Q Consensus 100 DGpY~l~f~vp~~ 112 (199)
||.|||.+.+|++
T Consensus 14 dGdYrL~itcp~K 26 (71)
T PF11619_consen 14 DGDYRLVITCPKK 26 (71)
T ss_dssp TTCEEEEEEESSH
T ss_pred CCceEEEEecCcH
Confidence 8999999999986
No 19
>PHA02739 hypothetical protein; Provisional
Probab=27.34 E-value=55 Score=26.53 Aligned_cols=26 Identities=23% Similarity=0.547 Sum_probs=22.5
Q ss_pred eEEEecCcccccCChhhhhhhHHHhh
Q 029115 104 RIKFLVPRAWRNKPMDFFNKGLADQL 129 (199)
Q Consensus 104 ~l~f~vp~~~~nkP~~fFnegLa~eL 129 (199)
-|+.-||+.|+..|..+--.=|.+++
T Consensus 2 ~lkiiVP~EW~~~p~~tL~~~L~~~i 27 (116)
T PHA02739 2 SLKLIVPNEWKVLPPATLQTELLRII 27 (116)
T ss_pred cEEEEechhhhhCCHHHHHHHHHHHH
Confidence 37889999999999999888777776
No 20
>PF10102 DUF2341: Domain of unknown function (DUF2341); InterPro: IPR018765 This domain of unknown function is found in various bacterial proteins, including MotA/TolQ/ExbB proton channels and other transport proteins.
Probab=25.64 E-value=1e+02 Score=23.01 Aligned_cols=30 Identities=20% Similarity=0.574 Sum_probs=23.2
Q ss_pred cceEeEecCCCCCCCCCceEEEE-cccccCCC
Q 029115 7 APVYWKTMNGLPPMSGEKLKIFY-NPYAKKLL 37 (199)
Q Consensus 7 apVyWkt~nGlpP~sGe~L~lfy-Np~a~~l~ 37 (199)
-.+.|--.+-+|+ +...+.|+| ||+|....
T Consensus 29 ~A~iWVkvp~i~~-~~~~i~lyyGn~~a~~~s 59 (89)
T PF10102_consen 29 QALIWVKVPSIPA-GSTTIYLYYGNPSATSAS 59 (89)
T ss_pred eEEEEEECCCCCC-CCcEEEEEECCCCCccCC
Confidence 4577877777888 888999999 78776643
No 21
>PF01630 Glyco_hydro_56: Hyaluronidase; InterPro: IPR018155 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 56 GH56 from CAZY comprises enzymes with only one known activity; hyaluronidase 3.2.1.35 from EC. The venom of Apis mellifera (Honeybee) contains several biologically-active peptides and two enzymes, one of which is a hyaluronidase []. The amino acid sequence of bee venom hyaluronidase contains 349 amino acids, and includes four cysteines and a number of potential glycosylation sites []. The sequence shows a high degree of similarity to PH-20, a membrane protein of mammalian sperm involved in sperm-egg adhesion, supporting the view that hyaluronidases play a role in fertilisation []. PH-20 is required for sperm adhesion to the egg zona pellucida; it is located on both the sperm plasma membrane and acrosomal membrane []. The amino acid sequence of the mature protein contains 468 amino acids, and includes six potential N-linked glycosylation sites and twelve cysteines, eight of which are tightly clustered near the C terminus [].; GO: 0004415 hyalurononglucosaminidase activity, 0005975 carbohydrate metabolic process; PDB: 1FCQ_A 1FCV_A 1FCU_A 2J88_A 2PE4_A 2ATM_A.
Probab=25.62 E-value=41 Score=31.06 Aligned_cols=31 Identities=35% Similarity=0.707 Sum_probs=19.6
Q ss_pred CCCceEEEEcccccCCCC-CCceeeeecCCCCC
Q 029115 21 SGEKLKIFYNPYAKKLLP-NEDFGIGFNGGFNQ 52 (199)
Q Consensus 21 sGe~L~lfyNp~a~~l~p-n~~fGiaFNGgFNQ 52 (199)
.||.++|||.+.--. -| =++-|..+|||.=|
T Consensus 45 ~G~~itIfY~~~lG~-yP~~~~~~~~~NGGlPQ 76 (337)
T PF01630_consen 45 RGQNITIFYEPRLGL-YPYYDEQGKPVNGGLPQ 76 (337)
T ss_dssp SSSSEEEEESTSSST---EEEETSEEETTSSGG
T ss_pred cCCeEEEEeCCCCCC-cceECCCCCeecCCCCC
Confidence 699999999983221 11 12234888888766
No 22
>cd03713 EFG_mtEFG_C EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide
Probab=25.03 E-value=26 Score=24.03 Aligned_cols=36 Identities=25% Similarity=0.369 Sum_probs=23.2
Q ss_pred CCceEEEeeeccceee-----------EEEEeecCCCCCCceeEEEecCc
Q 029115 73 SPFYTIQICVPKHAIN-----------LIFSFTNGVEWDGPYRIKFLVPR 111 (199)
Q Consensus 73 ~piyti~I~vPkHa~~-----------L~FSFTnG~~WDGpY~l~f~vp~ 111 (199)
+|+|.+.|.+|...+. -+.+... +++-..++..+|-
T Consensus 1 EPi~~~~I~~p~~~~g~v~~~l~~rrg~i~~~~~---~~~~~~i~~~iP~ 47 (78)
T cd03713 1 EPIMKVEVTVPEEYMGDVIGDLSSRRGQILGTES---RGGWKVIKAEVPL 47 (78)
T ss_pred CCEEEEEEEcCHHHHHHHHHHHHHcCCceEceec---cCCcEEEEEEcCH
Confidence 5899999999964432 1223332 3455789999984
No 23
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=24.85 E-value=71 Score=27.54 Aligned_cols=36 Identities=17% Similarity=0.432 Sum_probs=27.7
Q ss_pred CcceEeEecCCCCCCCCC-------------ceEEEEcccccCCCCCCc
Q 029115 6 KAPVYWKTMNGLPPMSGE-------------KLKIFYNPYAKKLLPNED 41 (199)
Q Consensus 6 ~apVyWkt~nGlpP~sGe-------------~L~lfyNp~a~~l~pn~~ 41 (199)
|-.+||=....+||..-. ++||||-|++-+..+.+.
T Consensus 105 RESlf~lnv~~IP~~~~~~~~~n~l~ia~r~~IKLFyRP~~l~~~~~~a 153 (228)
T PRK15188 105 RESVFYLNSKAIPSVDKNKLTGNSLQIATQSVIKLFIRPKNLAEAPAHA 153 (228)
T ss_pred ceEEEEEEEEecCCCCccccccceEEEEEeeeEEEEECCccCCCChhhh
Confidence 447999999999996421 389999999877666653
No 24
>smart00216 VWD von Willebrand factor (vWF) type D domain. Von Willebrand factor contains several type D domains: D1 and D2 are present within the N-terminal propeptide whereas the remaining D domains are required for multimerisation.
Probab=24.13 E-value=96 Score=23.35 Aligned_cols=20 Identities=30% Similarity=0.571 Sum_probs=16.7
Q ss_pred CCCCCceeEEEecCcccccC
Q 029115 97 VEWDGPYRIKFLVPRAWRNK 116 (199)
Q Consensus 97 ~~WDGpY~l~f~vp~~~~nk 116 (199)
+.|||--.++++||..++|+
T Consensus 122 v~~dg~~~~~V~~~~~~~g~ 141 (162)
T smart00216 122 VTFDGLTLLSVQLPSRYRGK 141 (162)
T ss_pred EEECCCcEEEEEECHHHCCC
Confidence 45898777999999988887
No 25
>PF14508 GH97_N: Glycosyl-hydrolase 97 N-terminal; PDB: 3A24_A 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A.
Probab=22.92 E-value=59 Score=27.82 Aligned_cols=76 Identities=22% Similarity=0.383 Sum_probs=43.4
Q ss_pred cCCCCCCceeeeecCCCCCccccCCchhhhhhhhhCCC-CC---CceEEEeeeccceeeEEEEeecCCCCCCceeEEEec
Q 029115 34 KKLLPNEDFGIGFNGGFNQPFMCGGEPRAMLRKNRGQN-DS---PFYTIQICVPKHAINLIFSFTNGVEWDGPYRIKFLV 109 (199)
Q Consensus 34 ~~l~pn~~fGiaFNGgFNQPiMCGGePR~M~~k~RG~a-d~---piyti~I~vPkHa~~L~FSFTnG~~WDGpY~l~f~v 109 (199)
..+......|+-+++|- .-|...+. .+..|.+. +. |.+--+-.+.-|+--|.++|.+... --++|.|||
T Consensus 28 ~~vl~~S~LGl~~~~~~----~~~~~~~~-~~~~~~~~V~e~y~~~~Gk~~~~~~~yne~~l~~~~~~~--~~l~l~fRa 100 (259)
T PF14508_consen 28 KTVLEPSPLGLVLDDGD----VFGDGLKV-VSVSRRSHVDETYTPVWGKRSEVRNHYNELTLSFKNKYG--RRLNLEFRA 100 (259)
T ss_dssp EEEEEEEEEEEEETTS-----EETTT-EE-EEEEEEEEEEEEEE-TTTTSSEEEEEEEEEEEEECCCCC--EEEEEEEEE
T ss_pred EEEEecCCCcEEECCCC----cccCCCEE-EEeEeeeeccccccccccceeEEeeeEEEEEEEEecCCC--ceeEEEEEE
Confidence 34455666777777763 11222222 22222221 21 2223345677899999999999654 677788887
Q ss_pred CcccccCChhhhhhhHHH
Q 029115 110 PRAWRNKPMDFFNKGLAD 127 (199)
Q Consensus 110 p~~~~nkP~~fFnegLa~ 127 (199)
||+|+|=
T Consensus 101 -----------yddGvAf 107 (259)
T PF14508_consen 101 -----------YDDGVAF 107 (259)
T ss_dssp -----------ETTEEEE
T ss_pred -----------EcCCEEE
Confidence 7877774
No 26
>PRK15285 putative fimbrial chaperone protein StfD; Provisional
Probab=22.71 E-value=80 Score=27.58 Aligned_cols=35 Identities=23% Similarity=0.634 Sum_probs=26.7
Q ss_pred CcceEeEecCCCCCCCCC----------ceEEEEcccccCCCCCC
Q 029115 6 KAPVYWKTMNGLPPMSGE----------KLKIFYNPYAKKLLPNE 40 (199)
Q Consensus 6 ~apVyWkt~nGlpP~sGe----------~L~lfyNp~a~~l~pn~ 40 (199)
|-.|||=..-++||.... ++||||-|++-+..+++
T Consensus 106 RESlfwlnv~~IPp~~~~~n~L~iairtrIKLfYRP~~L~~~~~~ 150 (250)
T PRK15285 106 RETLFYYNVREIPPQSDKPNTLQIALQTRIKVFYRPQALSKIDMQ 150 (250)
T ss_pred ceEEEEEEEEEcCCCCCCCcEEEEEeeeeeeEEECcccccCChhh
Confidence 346999999999997532 48999999986555543
No 27
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=22.19 E-value=59 Score=23.80 Aligned_cols=13 Identities=31% Similarity=0.902 Sum_probs=12.0
Q ss_pred CCCceEEEEcccc
Q 029115 21 SGEKLKIFYNPYA 33 (199)
Q Consensus 21 sGe~L~lfyNp~a 33 (199)
.|+.++++|||..
T Consensus 94 ~G~~V~V~Y~P~~ 106 (148)
T PF12158_consen 94 IGDTVTVYYNPNN 106 (148)
T ss_pred CcCEEEEEECCcC
Confidence 8999999999974
No 28
>PF11763 DIPSY: Cell-wall adhesin ligand-binding C-terminal; InterPro: IPR021746 The DIPSY domain is characterised by the distinctive D*I*PSY motif at the very C terminus of yeast cell-wall glycoproteins. It appears not to be conserved in any other species, however. In fungi, cell adhesion is required for flocculation, mating and virulence, and is mediated by covalently bound cell wall proteins termed adhesins. Map4, an adhesin required for mating in Schizosaccharomyces pombe, is N-glycosylated and O-glycosylated, and is an endogenous substrate for the mannosyl transferase Oma4p. Map4 has a modular structure with an N-terminal signal peptide, a serine and threonine (S/T)-rich domain that includes nine repeats of 36 amino acids (rich in serine and threonine residues, but lacking glutamines), and a C-terminal DIPSY domain with no glycosyl-phosphatidyl inositol (GPI)-anchor signal. The N-terminal S/T-rich regions, are required for cell wall attachment, but the C-terminal DIPSY domain is required for agglutination and mating in liquid and solid media [].
Probab=21.26 E-value=1.3e+02 Score=24.88 Aligned_cols=29 Identities=34% Similarity=0.653 Sum_probs=21.8
Q ss_pred CCceEEEeeec-cceeeEEEEeecCCCCCCceeEEE
Q 029115 73 SPFYTIQICVP-KHAINLIFSFTNGVEWDGPYRIKF 107 (199)
Q Consensus 73 ~piyti~I~vP-kHa~~L~FSFTnG~~WDGpY~l~f 107 (199)
.|+|++++-=| +|+.+++ ++=||-|+.+|
T Consensus 47 rP~Y~v~~~D~~~~sf~I~------kn~dG~~~Ft~ 76 (123)
T PF11763_consen 47 RPIYRVYHDDPNKSSFNII------KNNDGTYQFTF 76 (123)
T ss_pred ccEEEEeecCCCcceEEEE------ecCCCcEEEEE
Confidence 69999999999 8888876 45577654443
No 29
>PF14545 DBB: Dof, BCAP, and BANK (DBB) motif,
Probab=21.13 E-value=92 Score=25.77 Aligned_cols=27 Identities=26% Similarity=0.710 Sum_probs=22.0
Q ss_pred eeeEEEEeecCC------CCCCceeEEEecCcc
Q 029115 86 AINLIFSFTNGV------EWDGPYRIKFLVPRA 112 (199)
Q Consensus 86 a~~L~FSFTnG~------~WDGpY~l~f~vp~~ 112 (199)
.+-++|+..|.. .|.-||+++|.+|+.
T Consensus 28 ~~eVef~~~n~~~~~~~~~~~N~yt~~~~aPd~ 60 (142)
T PF14545_consen 28 TVEVEFESNNKPIRRVPAKWENPYTLQFKAPDF 60 (142)
T ss_pred eEEEEEEeCCCeeEeccceEECCEEEEEECchh
Confidence 466677777765 599999999999987
No 30
>smart00838 EFG_C Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold.
Probab=21.08 E-value=36 Score=23.86 Aligned_cols=37 Identities=24% Similarity=0.355 Sum_probs=23.8
Q ss_pred CCCceEEEeeeccceee-----------EEEEeecCCCCCCceeEEEecCc
Q 029115 72 DSPFYTIQICVPKHAIN-----------LIFSFTNGVEWDGPYRIKFLVPR 111 (199)
Q Consensus 72 d~piyti~I~vPkHa~~-----------L~FSFTnG~~WDGpY~l~f~vp~ 111 (199)
-+|+|.+.|.+|...+. -+.+.++ .+.-.+++..||-
T Consensus 2 lEPi~~~~I~~p~~~~g~v~~~l~~rrG~i~~~~~---~~~~~~i~~~iP~ 49 (85)
T smart00838 2 LEPIMKVEVTVPEEYMGDVIGDLNSRRGKIEGMEQ---RGGAQVIKAKVPL 49 (85)
T ss_pred cCCEEEEEEEeCHHHHHHHHHHHHHcCCEEECeec---cCCcEEEEEECCH
Confidence 47999999999964322 1233333 2345789999984
No 31
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=20.78 E-value=88 Score=27.07 Aligned_cols=35 Identities=17% Similarity=0.378 Sum_probs=26.6
Q ss_pred CcceEeEecCCCCCCCC-C---------ceEEEEcccccCCCCCC
Q 029115 6 KAPVYWKTMNGLPPMSG-E---------KLKIFYNPYAKKLLPNE 40 (199)
Q Consensus 6 ~apVyWkt~nGlpP~sG-e---------~L~lfyNp~a~~l~pn~ 40 (199)
|-.+||=....+||... + ++||||-|++-+..+++
T Consensus 106 RESlf~lnv~~IPp~~~~~n~l~iair~riKlFYRP~~L~~~~~~ 150 (234)
T PRK15192 106 RESLFTLSIAAIPSGKPEANRVQMAFRSALKLLYRPEGLAGNPQQ 150 (234)
T ss_pred ceEEEEEEEEecCCCCCCCcEEEEEEEeeeeEEEccccccCChhh
Confidence 44799999999999543 2 38999999987655543
No 32
>PF08366 LLGL: LLGL2; InterPro: IPR013577 This domain is found in lethal giant larvae homologue 2 (LLGL2) proteins and syntaxin-binding proteins like tomosyn []. It has been identified in eukaryotes and tends to be found together with WD repeats (IPR001680 from INTERPRO).
Probab=20.47 E-value=1e+02 Score=24.27 Aligned_cols=30 Identities=27% Similarity=0.365 Sum_probs=21.3
Q ss_pred ccCCchhhhhhhhhCCCCCCceEEEeeeccceeeEEEE
Q 029115 55 MCGGEPRAMLRKNRGQNDSPFYTIQICVPKHAINLIFS 92 (199)
Q Consensus 55 MCGGePR~M~~k~RG~ad~piyti~I~vPkHa~~L~FS 92 (199)
.+||-||+ + ..-.++|.|---++.+.|.|+
T Consensus 33 FsGGmp~~-------~-ygdr~~vTV~~g~~~~~ldf~ 62 (105)
T PF08366_consen 33 FSGGMPRA-------S-YGDRHCVTVMQGKTHVVLDFT 62 (105)
T ss_pred EeCCcccc-------c-cCCCceEEEEeCCEEEEEEcC
Confidence 47888883 1 233477888889999988775
No 33
>PF06572 DUF1131: Protein of unknown function (DUF1131); InterPro: IPR010938 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2QZB_B.
Probab=20.34 E-value=44 Score=28.58 Aligned_cols=26 Identities=27% Similarity=0.781 Sum_probs=13.1
Q ss_pred EEeeeccceeeEEEEeecCCCCCCceeE
Q 029115 78 IQICVPKHAINLIFSFTNGVEWDGPYRI 105 (199)
Q Consensus 78 i~I~vPkHa~~L~FSFTnG~~WDGpY~l 105 (199)
--||+-.-+-.+.+-|+ | +|+||.-|
T Consensus 127 ~V~C~ap~s~~VsYvF~-g-~W~GPegl 152 (171)
T PF06572_consen 127 MVECVAPQSQHVSYVFS-G-GWSGPEGL 152 (171)
T ss_dssp -EEEE-TT-SSEEEEEE------S-TTS
T ss_pred ceEEecCCCCcEEEEec-C-CccCCCCC
Confidence 34787766667777777 5 99999854
No 34
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=20.15 E-value=1e+02 Score=26.31 Aligned_cols=34 Identities=29% Similarity=0.705 Sum_probs=25.6
Q ss_pred CCcceEeEecCCCCCCCC------C---------ceEEEEcccccCCCC
Q 029115 5 GKAPVYWKTMNGLPPMSG------E---------KLKIFYNPYAKKLLP 38 (199)
Q Consensus 5 G~apVyWkt~nGlpP~sG------e---------~L~lfyNp~a~~l~p 38 (199)
.|-.+||=.-..+||..- + ++||||.|+.-+..+
T Consensus 107 DrESlf~lnv~eIP~~~~~~~~~~~n~l~iair~~IKLFyRP~~l~~~~ 155 (246)
T PRK09926 107 DRESVFWFNVLEVPPKPDAEKVANQSLLQLAFRTRIKLFYRPDGLKGNP 155 (246)
T ss_pred CceEEEEEEeeecCCCCccccccccceEEEeeeeeEEEEEcCccCCCCh
Confidence 455799999999999631 1 389999999865444
Done!