Query 012105
Match_columns 471
No_of_seqs 51 out of 53
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:41:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012105.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012105hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05708 DUF830: Orthopoxvirus 99.0 2.1E-09 4.5E-14 94.2 9.5 99 212-326 2-100 (158)
2 PRK11479 hypothetical protein; 98.5 1.2E-06 2.7E-11 87.2 12.5 97 205-326 58-157 (274)
3 PRK10030 hypothetical protein; 98.2 4.6E-06 9.9E-11 78.8 9.1 118 210-353 19-136 (197)
4 PRK11470 hypothetical protein; 98.1 2.1E-05 4.6E-10 75.4 11.4 102 209-325 6-107 (200)
5 PF05382 Amidase_5: Bacterioph 76.2 6.6 0.00014 36.6 5.8 65 210-298 74-138 (145)
6 PF05257 CHAP: CHAP domain; I 68.8 14 0.0003 31.7 5.7 43 208-264 59-102 (124)
7 PF01436 NHL: NHL repeat; Int 61.2 13 0.00028 25.1 3.3 19 246-265 6-24 (28)
8 TIGR02219 phage_NlpC_fam putat 60.0 11 0.00024 33.6 3.7 54 206-282 71-124 (134)
9 COG3863 Uncharacterized distan 47.9 40 0.00087 33.7 5.5 68 239-326 106-173 (231)
10 PF07646 Kelch_2: Kelch motif; 40.5 27 0.00058 25.5 2.4 18 240-260 1-18 (49)
11 PF05382 Amidase_5: Bacterioph 38.0 26 0.00056 32.7 2.5 22 413-434 24-46 (145)
12 PRK15231 fimbrial adhesin prot 36.0 37 0.0008 32.3 3.2 91 146-265 10-105 (150)
13 PF07313 DUF1460: Protein of u 30.0 1.1E+02 0.0025 30.2 5.6 58 209-282 151-208 (216)
14 PF13418 Kelch_4: Galactose ox 29.2 52 0.0011 23.6 2.4 18 240-259 1-18 (49)
15 KOG4456 Inner centromere prote 28.1 1E+02 0.0022 29.0 4.5 70 320-396 41-119 (134)
16 cd02983 P5_C P5 family, C-term 27.2 86 0.0019 28.0 3.9 85 292-382 24-125 (130)
17 COG5008 PilU Tfp pilus assembl 26.9 34 0.00073 36.2 1.4 108 135-250 111-232 (375)
18 cd04880 ACT_AAAH-PDT-like ACT 26.2 45 0.00098 26.1 1.7 30 383-412 13-43 (75)
19 smart00739 KOW KOW (Kyprides, 25.8 1.2E+02 0.0026 19.4 3.5 23 212-250 2-24 (28)
20 PF12075 KN_motif: KN motif; 25.7 27 0.00058 26.7 0.3 6 321-326 6-11 (39)
21 PF04583 Baculo_p74: Baculovir 25.2 78 0.0017 32.3 3.6 19 321-350 125-143 (249)
22 PF01344 Kelch_1: Kelch motif; 24.2 76 0.0017 22.3 2.5 30 240-272 1-30 (47)
23 TIGR01293 Kv_beta voltage-depe 23.7 1.2E+02 0.0025 30.3 4.5 26 361-387 95-120 (317)
24 PF00877 NLPC_P60: NlpC/P60 fa 23.2 52 0.0011 27.3 1.6 21 416-436 13-33 (105)
25 PF07494 Reg_prop: Two compone 22.9 74 0.0016 20.9 2.0 13 248-260 10-22 (24)
26 PF13964 Kelch_6: Kelch motif 22.8 83 0.0018 22.8 2.5 21 241-264 2-22 (50)
27 PF02362 B3: B3 DNA binding do 22.0 1.6E+02 0.0035 23.8 4.3 48 206-262 4-51 (100)
28 PRK09781 hypothetical protein; 21.9 59 0.0013 31.2 1.9 44 362-408 34-78 (181)
29 TIGR01436 glu_cys_lig_pln glut 20.7 59 0.0013 35.2 1.9 48 300-347 180-239 (446)
30 cd03474 Rieske_T4moC Toluene-4 20.2 1.7E+02 0.0036 24.6 4.2 36 208-262 6-41 (108)
No 1
>PF05708 DUF830: Orthopoxvirus protein of unknown function (DUF830); PDB: 2IF6_B 3KW0_C.
Probab=99.00 E-value=2.1e-09 Score=94.17 Aligned_cols=99 Identities=21% Similarity=0.357 Sum_probs=71.9
Q ss_pred CCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHHhHhccCCCC
Q 012105 212 VHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWELALKDDSNP 291 (471)
Q Consensus 212 IhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~~~~kd~a~~ 291 (471)
.|+||.|...- . +.+...+.=+|++..||.+|.+++.+++.+|+|+-.. ++++..++++|.. + +-
T Consensus 2 l~~GDIil~~~---~-~~~s~~i~~~t~~~~~HvgI~~~~~~~~~~viea~~~-----~Gv~~~~l~~~~~----~--~~ 66 (158)
T PF05708_consen 2 LQTGDIILTRG---K-SSLSKAIRPVTSSPYSHVGIVIGDEGQEPYVIEATPG-----DGVRLEPLSDFLK----R--NE 66 (158)
T ss_dssp --TT-EEEEEE-----SCCHHHHHHHHTSS--EEEEEEEETTE-EEEEEEETT-----TCEEEEECHHHHH----C--CC
T ss_pred CCCeeEEEEEC---C-chHHHHHHHHhCCCCCEEEEEEecCCCceEEEEeccC-----CCeEEeeHHHHhc----C--Cc
Confidence 58999998863 3 7789999999999999999999987788999999221 2699999999964 3 45
Q ss_pred ceEeecCChhHHhhcchhHHHHHHHhhcCCcceee
Q 012105 292 QIALLPLHPDVRAKFNSTAAWEYARSMSGKPYGYH 326 (471)
Q Consensus 292 ~ValLPL~pe~RakFN~TAAwef~~~~eG~PYGYh 326 (471)
+++++.+++. +..=...+|.+++++..|+||++-
T Consensus 67 ~~~V~r~~~~-~~~~~~~~~~~~a~~~~g~~Y~~~ 100 (158)
T PF05708_consen 67 KIAVYRLKDP-LSEEQRQKAAEFAKSYIGKPYDFN 100 (158)
T ss_dssp EEEEEEECCG-TTCHHHHHHHHHHHCCTTS-B-CC
T ss_pred eEEEEEECCC-CCHHHHHHHHHHHHHHcCCCcccc
Confidence 6888888877 333344568889999999999965
No 2
>PRK11479 hypothetical protein; Provisional
Probab=98.50 E-value=1.2e-06 Score=87.17 Aligned_cols=97 Identities=21% Similarity=0.284 Sum_probs=74.2
Q ss_pred ccCCCCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHHhH
Q 012105 205 ATINPEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWELA 284 (471)
Q Consensus 205 ~~i~~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~~~ 284 (471)
..|+.+++|+||.|....- +.+.-.|++.|++...|.+|.+- || .++|+-. .+|+..|.++|..
T Consensus 58 ~~Vs~~~LqpGDLVFfst~----t~~S~~Ik~~T~s~~SHVgIylG--dg--~vIEA~g------~GVri~pL~~~~~-- 121 (274)
T PRK11479 58 KEITAPDLKPGDLLFSSSL----GVTSFGIRVFSTSSVSHVAIYLG--EN--NVAEATG------AGVQIVSLKKAIK-- 121 (274)
T ss_pred cccChhhCCCCCEEEEecC----CccccceecccCCCCcEEEEEec--CC--eEEEcCC------CCEEEEechhhhc--
Confidence 3678899999999998631 44677899999999999999985 44 3799832 3699999999964
Q ss_pred hccCCCCceEee---cCChhHHhhcchhHHHHHHHhhcCCcceee
Q 012105 285 LKDDSNPQIALL---PLHPDVRAKFNSTAAWEYARSMSGKPYGYH 326 (471)
Q Consensus 285 ~kd~a~~~ValL---PL~pe~RakFN~TAAwef~~~~eG~PYGYh 326 (471)
++ -.|+.+ .+.+|.+++ +.+|+++..|.||=|-
T Consensus 122 --~~--~~I~a~Rv~~lt~e~~~k-----l~~fa~~~lGy~YN~~ 157 (274)
T PRK11479 122 --HS--DKLFALRVPDLTPQQATK-----ITAFANKIKDSGYNYR 157 (274)
T ss_pred --cc--ceEEEEeCCCCCHHHHHH-----HHHHHHHhcCCCCCHH
Confidence 22 246666 566666655 8899999999999753
No 3
>PRK10030 hypothetical protein; Provisional
Probab=98.25 E-value=4.6e-06 Score=78.81 Aligned_cols=118 Identities=20% Similarity=0.277 Sum_probs=86.3
Q ss_pred CCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHHhHhccCC
Q 012105 210 EDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWELALKDDS 289 (471)
Q Consensus 210 ~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~~~~kd~a 289 (471)
.++|+||.|-.+- + +.....|+.+|+|.-.|.+|..+. +|+.+|+|+- ..|+.+|+++|.+ +..
T Consensus 19 ~~l~~GDlif~~g---~-~~~s~aI~~~T~s~~SHVGIi~~~-~~~~~ViEAv-------~~V~~~pL~~Fl~----~~~ 82 (197)
T PRK10030 19 WQPQTGDIIFQIS---R-SSQSKAIQLATHSDYSHTGMIVKR-NKKPYVFEAV-------GPVKYTPLKQWIA----HGE 82 (197)
T ss_pred cCCCCCCEEEEeC---C-CcHhHHHhHhhCCCCceEEEEEEE-CCcEEEEEec-------CceEEEEHHHHhh----cCc
Confidence 4889999998873 2 456889999999999999999985 7999999994 2499999999964 444
Q ss_pred CCceEeecCChhHHhhcchhHHHHHHHhhcCCcceeeeeeEEEeecCCCCCCCCcChhHHHHHH
Q 012105 290 NPQIALLPLHPDVRAKFNSTAAWEYARSMSGKPYGYHNMIFSWIDTMADNYPPPLDAHLVVSVM 353 (471)
Q Consensus 290 ~~~ValLPL~pe~RakFN~TAAwef~~~~eG~PYGYhN~iFsWIDT~~dNyPppLda~~v~~v~ 353 (471)
+-++++..++..+.... -.++.+++++..|+||-+. |.| | ++ .-.=++||.-++
T Consensus 83 ~~~~~V~Rl~~~lt~~~-~~~li~~A~~~lGkpYD~~---f~~-~--d~---~~YCSELV~~ay 136 (197)
T PRK10030 83 KGKYVVRRLENGLSVEQ-QQKLAQTAKRYLGKPYDFY---FSW-S--DD---RIYCSELVWKVY 136 (197)
T ss_pred cCcEEEEEeCCCCCHHH-HHHHHHHHHHHcCCCCCcc---ccc-C--CC---cEEeHHHHHHHH
Confidence 56788887765332221 3447889999999999863 554 1 11 233347776555
No 4
>PRK11470 hypothetical protein; Provisional
Probab=98.15 E-value=2.1e-05 Score=75.37 Aligned_cols=102 Identities=16% Similarity=0.179 Sum_probs=78.3
Q ss_pred CCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHHhHhccC
Q 012105 209 PEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWELALKDD 288 (471)
Q Consensus 209 ~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~~~~kd~ 288 (471)
+.++|+||.|-++--. ..+ -.|+-+|||...|..|..+-..++-+|+||-- ..++.+|.++|+. ..
T Consensus 6 ~~~l~~GDLvF~~~~~---~~~-~aI~~aT~s~~sHvGII~~~~~~~~~VlEA~~------~~vr~TpLs~fi~----r~ 71 (200)
T PRK11470 6 PAEYEIGDIVFTCIGA---ALF-GQISAASNCWSNHVGIIIGHNGEDFLVAESRV------PLSTVTTLSRFIK----RS 71 (200)
T ss_pred cCCCCCCCEEEEeCCc---chh-HHHHhccCCccceEEEEEEEcCCceEEEEecC------CceEEeEHHHHHh----cC
Confidence 4689999999998422 223 34888999999999998854356899999942 2289999999975 55
Q ss_pred CCCceEeecCChhHHhhcchhHHHHHHHhhcCCccee
Q 012105 289 SNPQIALLPLHPDVRAKFNSTAAWEYARSMSGKPYGY 325 (471)
Q Consensus 289 a~~~ValLPL~pe~RakFN~TAAwef~~~~eG~PYGY 325 (471)
.+-++++-.|+..+++.= ..+|.++++++-|+||.+
T Consensus 72 ~~g~i~v~Rl~~~l~~~~-~~~~~~~A~~~lGkpYD~ 107 (200)
T PRK11470 72 ANQRYAIKRLDAGLTEQQ-KQRIVEQVPSRLRKLYHT 107 (200)
T ss_pred cCceEEEEEecCCCCHHH-HHHHHHHHHHHcCCCCCC
Confidence 577899998876554411 345889999999999985
No 5
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=76.20 E-value=6.6 Score=36.56 Aligned_cols=65 Identities=20% Similarity=0.428 Sum_probs=42.6
Q ss_pred CCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHHhHhccCC
Q 012105 210 EDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWELALKDDS 289 (471)
Q Consensus 210 ~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~~~~kd~a 289 (471)
.++|.||.+..++- |. ++...|||.|++. . +. +|.- + ++.++|.+++++..|. .+.
T Consensus 74 ~~~q~GDI~I~g~~-g~-----------S~G~~GHtgif~~-~-~~--iIhc---~-y~~~g~~~~~~~~~~~----~~~ 129 (145)
T PF05382_consen 74 WNLQRGDIFIWGRR-GN-----------SAGAGGHTGIFMD-N-DT--IIHC---N-YGANGIAINNYDWYWY----YNG 129 (145)
T ss_pred ccccCCCEEEEcCC-CC-----------CCCCCCeEEEEeC-C-Cc--EEEe---c-CCCCCeEecCCCeeee----cCC
Confidence 47999999987642 22 4556899999984 2 22 3332 2 2788999999888764 444
Q ss_pred CCceEeecC
Q 012105 290 NPQIALLPL 298 (471)
Q Consensus 290 ~~~ValLPL 298 (471)
.|-+-+-+|
T Consensus 130 ~~~~~~yr~ 138 (145)
T PF05382_consen 130 RPPVYVYRL 138 (145)
T ss_pred CCcEEEEEe
Confidence 554444433
No 6
>PF05257 CHAP: CHAP domain; InterPro: IPR007921 The CHAP (cysteine, histidine-dependent amidohydrolases/peptidases) domain is a region between 110 and 140 amino acids that is found in proteins from bacteria, bacteriophages, archaea and eukaryotes of the Trypanosomidae family. Many of these proteins are uncharacterised, but it has been proposed that they may function mainly in peptidoglycan hydrolysis. The CHAP domain is found in a wide range of protein architectures; it is commonly associated with bacterial type SH3 domains and with several families of amidase domains. It has been suggested that CHAP domain containing proteins utilise a catalytic cysteine residue in a nucleophilic-attack mechanism [, ]. The CHAP domain contains two invariant residues, a cysteine and a histidine. These residues form part of the putative active site of CHAP domain containing proteins. Secondary structure predictions show that the CHAP domain belongs to the alpha + beta structural class, with the N-terminal half largely containing predicted alpha helices and the C-terminal half principally composed of predicted beta strands [, ]. Some proteins known to contain a CHAP domain are listed below: Bacterial and trypanosomal glutathionylspermidine amidases. A variety of bacterial autolysins. A Nocardia aerocolonigenes putative esterase. Streptococcus pneumoniae choline-binding protein D. Methanosarcina mazei protein MM2478, a putative chloride channel. Several phage-encoded peptidoglycan hydrolases. Cysteine peptidases belonging to MEROPS peptidase family C51 (D-alanyl-glycyl endopeptidase, clan CA). ; PDB: 2LRJ_A 2VPM_B 2VOB_B 2VPS_A 2K3A_A 2IO9_A 2IO8_A 2IOB_A 2IOA_B 2IO7_B ....
Probab=68.82 E-value=14 Score=31.73 Aligned_cols=43 Identities=21% Similarity=0.201 Sum_probs=32.0
Q ss_pred CCCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeec-CCCcEEEEecCCC
Q 012105 208 NPEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKD-KEGNLWVGESGHE 264 (471)
Q Consensus 208 ~~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd-~dGeL~v~ES~~~ 264 (471)
.....++||.+... ..++...||+++.... .+|.+.++|....
T Consensus 59 ~~~~P~~Gdivv~~--------------~~~~~~~GHVaIV~~v~~~~~i~v~e~N~~ 102 (124)
T PF05257_consen 59 TGSTPQPGDIVVWD--------------SGSGGGYGHVAIVESVNDGGTITVIEQNWG 102 (124)
T ss_dssp ECS---TTEEEEEE--------------ECTTTTT-EEEEEEEE-TTSEEEEEECSST
T ss_pred cCcccccceEEEec--------------cCCCCCCCeEEEEEEECCCCEEEEEECCcC
Confidence 45677899988875 3467889999999988 7799999999864
No 7
>PF01436 NHL: NHL repeat; InterPro: IPR001258 The NHL repeat, named after NCL-1, HT2A and Lin-41, is found largely in a large number of eukaryotic and prokaryotic proteins. For example, the repeat is found in a variety of enzymes of the copper type II, ascorbate-dependent monooxygenase family which catalyse the C terminus alpha-amidation of biological peptides []. In many it occurs in tandem arrays, for example in the ringfinger beta-box, coiled-coil (RBCC) eukaryotic growth regulators []. The 'Brain Tumor' protein (Brat) is one such growth regulator that contains a 6-bladed NHL-repeat beta-propeller [, ]. The NHL repeats are also found in serine/threonine protein kinase (STPK) in diverse range of pathogenic bacteria. These STPK are transmembrane receptors with a intracellular N-terminal kinase domain and extracellular C-terminal sensor domain. In the STPK, PknD, from Mycobacterium tuberculosis, the sensor domain forms a rigid, six-bladed b-propeller composed of NHL repeats with a flexible tether to the transmembrane domain.; GO: 0005515 protein binding; PDB: 3FVZ_A 3FW0_A 1RWL_A 1RWI_A 1Q7F_A.
Probab=61.24 E-value=13 Score=25.05 Aligned_cols=19 Identities=37% Similarity=0.847 Sum_probs=14.4
Q ss_pred eEEeecCCCcEEEEecCCCC
Q 012105 246 AVCLKDKEGNLWVGESGHEN 265 (471)
Q Consensus 246 av~Lrd~dGeL~v~ES~~~~ 265 (471)
-||+ +++|++||.||+..-
T Consensus 6 gvav-~~~g~i~VaD~~n~r 24 (28)
T PF01436_consen 6 GVAV-DSDGNIYVADSGNHR 24 (28)
T ss_dssp EEEE-ETTSEEEEEECCCTE
T ss_pred EEEE-eCCCCEEEEECCCCE
Confidence 3566 479999999987654
No 8
>TIGR02219 phage_NlpC_fam putative phage cell wall peptidase, NlpC/P60 family. Members of this family show sequence similarity to members of the NlpC/P60 family described by Pfam model pfam00877 and by Anantharaman and Aravind (PubMed:12620121). The NlpC/P60 family includes a number of characterized bacterial cell wall hydrolases. Members of this related family are all found in prophage regions of bacterial genomes.
Probab=59.98 E-value=11 Score=33.55 Aligned_cols=54 Identities=20% Similarity=0.342 Sum_probs=33.4
Q ss_pred cCCCCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHH
Q 012105 206 TINPEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWE 282 (471)
Q Consensus 206 ~i~~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~ 282 (471)
.++.+++|+||+|... . ..|..++|..+.+ . +|++ +-+-.. . .+.+.....||.
T Consensus 71 ~v~~~~~qpGDlvff~-~-------------~~~~~~~HvGIy~-G-~g~~--iHa~~~----~-~v~~~~~~~yw~ 124 (134)
T TIGR02219 71 PVPCDAAQPGDVLVFR-W-------------RPGAAAKHAAIAA-S-PTRF--IHAYDG----A-AVVESALVPWWR 124 (134)
T ss_pred ccchhcCCCCCEEEEe-e-------------CCCCCCcEEEEEe-C-CCcE--EEECCC----C-CEEEeCCcHHHH
Confidence 4566889999999664 2 2355688999887 3 6664 333221 1 234455567775
No 9
>COG3863 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]
Probab=47.88 E-value=40 Score=33.73 Aligned_cols=68 Identities=21% Similarity=0.271 Sum_probs=45.2
Q ss_pred CcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHHhHhccCCCCceEeecCChhHHhhcchhHHHHHHHhh
Q 012105 239 GAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWELALKDDSNPQIALLPLHPDVRAKFNSTAAWEYARSM 318 (471)
Q Consensus 239 Ga~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~~~~kd~a~~~ValLPL~pe~RakFN~TAAwef~~~~ 318 (471)
+.|-||..|-. + -|+ .+||..+. +++.++.-|. .+|++- |-..--+.|. .++|-.|+.+-
T Consensus 106 ~~H~gHagmy~-~-a~~--~VEs~psG------Vr~v~~n~~~---~~dn~i--V~~vsts~~q-----k~~AadWa~~k 165 (231)
T COG3863 106 VGHWGHAGMYI-G-AGQ--MVESWPSG------VRVVSVNMAR---NADNVI--VYRVSTSNDQ-----KSKAADWALTK 165 (231)
T ss_pred cccccceEEEE-c-CCc--EEeeccCc------eEEecchhhh---cccceE--EEEEecchhh-----hHHHHHHHHhc
Confidence 55778888654 3 344 57887664 7777777774 345542 3333444443 26889999999
Q ss_pred cCCcceee
Q 012105 319 SGKPYGYH 326 (471)
Q Consensus 319 eG~PYGYh 326 (471)
.|+||-|.
T Consensus 166 VG~PY~~n 173 (231)
T COG3863 166 VGLPYDYN 173 (231)
T ss_pred cCCcccce
Confidence 99999973
No 10
>PF07646 Kelch_2: Kelch motif; InterPro: IPR011498 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding
Probab=40.49 E-value=27 Score=25.53 Aligned_cols=18 Identities=39% Similarity=0.615 Sum_probs=14.4
Q ss_pred cCccceeEEeecCCCcEEEEe
Q 012105 240 AFAGHTAVCLKDKEGNLWVGE 260 (471)
Q Consensus 240 a~aGHtav~Lrd~dGeL~v~E 260 (471)
.+.||+++++ +++|||+=
T Consensus 1 ~r~~hs~~~~---~~kiyv~G 18 (49)
T PF07646_consen 1 PRYGHSAVVL---DGKIYVFG 18 (49)
T ss_pred CccceEEEEE---CCEEEEEC
Confidence 3679999866 79999973
No 11
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=37.99 E-value=26 Score=32.71 Aligned_cols=22 Identities=23% Similarity=0.508 Sum_probs=18.4
Q ss_pred CCCc-chHHHHHHHHHHhcCCCC
Q 012105 413 DGKS-TTCVAFILEMYKEAGVFG 434 (471)
Q Consensus 413 DG~S-~vCsafV~~myKAAGlFg 434 (471)
.|++ +-||+||...+|+||+--
T Consensus 24 ~G~~s~DCSs~V~~ALr~aG~~~ 46 (145)
T PF05382_consen 24 NGPDSYDCSSFVYQALRAAGFKI 46 (145)
T ss_pred CCCCcCchHHHHHHHHHHcCCCC
Confidence 4444 899999999999999953
No 12
>PRK15231 fimbrial adhesin protein SefD; Provisional
Probab=36.04 E-value=37 Score=32.32 Aligned_cols=91 Identities=14% Similarity=0.232 Sum_probs=65.8
Q ss_pred HHhcceEEEEecccchhhhhhhhhccccccCcchhhhccHHHHHhhcCCceeeccCCccccCCCCCCCCCCEEEEEeecc
Q 012105 146 VKQHGVSVFLMPSGMMGTLLSLIDILPLFSNSHWGQNANLAFLEKHMGATFEKRPQPWHATINPEDVHSGDFLAVSKIRG 225 (471)
Q Consensus 146 ik~~Gv~vFlm~~gm~gtl~sl~~~~plF~nt~wg~~~Nl~FL~~~mG~~fe~R~~~~v~~i~~~dIhsGDfL~iskirg 225 (471)
|-+.=++||++-.|...++...-++ .|.+ . +.|| .=-+.+++|..|+-.||--
T Consensus 10 ~~~~~~~~~~~~~~~~Ss~sqA~el-~L~~------~-------~~~~-------------~~~~~l~dg~~laTGri~c 62 (150)
T PRK15231 10 IPKFIVSVFLIVTGFFSSTIKAQEL-KLMI------K-------INEA-------------VFYDRITSNKIIGTGHLFN 62 (150)
T ss_pred cccceeeEeeEeehhhhhhhhceee-EEEe------e-------cccc-------------chhhhccCCcEEeeeeEEe
Confidence 4455689999999887766554433 2210 0 1111 0126789999999999977
Q ss_pred cCCchhhHHHhhc----CcCccceeEE-eecCCCcEEEEecCCCC
Q 012105 226 RWGGFETLEKWVT----GAFAGHTAVC-LKDKEGNLWVGESGHEN 265 (471)
Q Consensus 226 r~dG~d~li~W~t----Ga~aGHtav~-Lrd~dGeL~v~ES~~~~ 265 (471)
| +||- +.||.. |..+||-.|- .+|+.-||+|-=.|.+|
T Consensus 63 r-egfh-iwmns~~~q~gg~P~~YIvqGk~dsqh~LrVRlgGeGW 105 (150)
T PRK15231 63 R-EGKK-ILISSSLEKIKNTPGAYIIRGQNNSAHKLRIRIGGEDW 105 (150)
T ss_pred c-CCeE-EEEecchhhcCCCccEEEEECCCCCcceEEEEecCCCc
Confidence 7 6998 889988 8899999887 77888899997777766
No 13
>PF07313 DUF1460: Protein of unknown function (DUF1460); InterPro: IPR010846 This family consists of several hypothetical bacterial proteins of around 260 residues in length. The function of this family is unknown.; PDB: 2P1G_B 2IM9_A.
Probab=30.03 E-value=1.1e+02 Score=30.20 Aligned_cols=58 Identities=17% Similarity=0.401 Sum_probs=39.7
Q ss_pred CCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecCCCCcccccceeecchhHHHH
Q 012105 209 PEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESGHENEKGEEIIVVIPWDEWWE 282 (471)
Q Consensus 209 ~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~Iq~~pweeW~~ 282 (471)
.+.||+||.++|..=. +||| ..|+-++.|..|| |+....-... ++..|.-.|..||..
T Consensus 151 ~~~i~~GDiI~i~t~~---~GLD----------vsH~Giav~~~~~-l~l~hASs~~--~~~~vvd~pl~~Yl~ 208 (216)
T PF07313_consen 151 LSQIKNGDIIAIVTNI---KGLD----------VSHVGIAVWKNDG-LHLRHASSLH--KKVVVVDEPLSEYLK 208 (216)
T ss_dssp HTTS-TT-EEEEEEEC---TTEC----------EEEEEEEEEETTE-EEEEEEETTT--TEEEEECCEHHHHHH
T ss_pred HhcCCCCCEEEEEeCC---CCCc----------eeeEEEEEEECCe-EEEEeCCCCC--CCcEEeccCHHHHHh
Confidence 4889999999998632 4555 6799999998555 8887533222 224677889999964
No 14
>PF13418 Kelch_4: Galactose oxidase, central domain; PDB: 2UVK_B.
Probab=29.17 E-value=52 Score=23.62 Aligned_cols=18 Identities=28% Similarity=0.477 Sum_probs=11.5
Q ss_pred cCccceeEEeecCCCcEEEE
Q 012105 240 AFAGHTAVCLKDKEGNLWVG 259 (471)
Q Consensus 240 a~aGHtav~Lrd~dGeL~v~ 259 (471)
++.||+++.+. +++|||.
T Consensus 1 pR~~h~~~~~~--~~~i~v~ 18 (49)
T PF13418_consen 1 PRYGHSAVSIG--DNSIYVF 18 (49)
T ss_dssp --BS-EEEEE---TTEEEEE
T ss_pred CcceEEEEEEe--CCeEEEE
Confidence 47899997763 5889885
No 15
>KOG4456 consensus Inner centromere protein (INCENP), C-terminal domain [Cell cycle control, cell division, chromosome partitioning]
Probab=28.07 E-value=1e+02 Score=29.01 Aligned_cols=70 Identities=23% Similarity=0.355 Sum_probs=43.5
Q ss_pred CCcceeeeeeEEEeecCCCCCCC-CcCh----hHHHHHHHHhhhcChhHHHHHHHHHHhhhcCCCCCChhhhHHHH----
Q 012105 320 GKPYGYHNMIFSWIDTMADNYPP-PLDA----HLVVSVMSMWTRVQPAYAANMWNEALNKRLGTEDLDLHGILDEI---- 390 (471)
Q Consensus 320 G~PYGYhN~iFsWIDT~~dNyPp-pLda----~~v~~v~s~~~~~~P~~a~~mwneALNKRLGT~gL~l~ei~~ea---- 390 (471)
-++|||.++|=|=--|-+.--|. |.+. +.+.-.+-.-..=-|...+.++.- +++ +||.||+.++
T Consensus 41 ~n~~~~~~dlnsDdstDdE~hpRkp~PtWar~~v~~eai~~qa~~pp~~v~~Ff~~-----~pk--pdLkeIF~~~~p~~ 113 (134)
T KOG4456|consen 41 ANDYGVESDLNSDDSTDDEKHPRKPFPTWARDMVIVEAIEEQAKNPPFNVNTFFGS-----MPK--PDLKEIFGEMVPSK 113 (134)
T ss_pred CCccchhhhcccccccccccCCCCCCchhhhhchHHHHHHHHhhCCchHHHHHhcc-----cCC--cCHHHHHHhhhhhh
Confidence 47899999998765565555443 3332 333333333333445566666643 333 9999999887
Q ss_pred HHcCCC
Q 012105 391 EKRGIS 396 (471)
Q Consensus 391 ~krgis 396 (471)
.|||.|
T Consensus 114 ~KR~SS 119 (134)
T KOG4456|consen 114 KKRGSS 119 (134)
T ss_pred hhcccc
Confidence 679988
No 16
>cd02983 P5_C P5 family, C-terminal redox inactive TRX-like domain; P5 is a protein disulfide isomerase (PDI)-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. The C-terminal domain is likely involved in substrate binding, similar to the b and b' domains of PDI.
Probab=27.18 E-value=86 Score=27.97 Aligned_cols=85 Identities=19% Similarity=0.222 Sum_probs=45.7
Q ss_pred ceEeecC----ChhHHhhcchhHHHHHHHhhcCCcceeeeeeEEEeecCCC------------CCCCCcChhHHHHHHH-
Q 012105 292 QIALLPL----HPDVRAKFNSTAAWEYARSMSGKPYGYHNMIFSWIDTMAD------------NYPPPLDAHLVVSVMS- 354 (471)
Q Consensus 292 ~ValLPL----~pe~RakFN~TAAwef~~~~eG~PYGYhN~iFsWIDT~~d------------NyPppLda~~v~~v~s- 354 (471)
=|++||= ++|-|++.-+ .=.+-|+++-|+| +.|.|+|.-.. +||...=-+.-..-..
T Consensus 24 ~i~~l~~~~d~~~e~~~~~~~-~l~~vAk~~kgk~-----i~Fv~vd~~~~~~~~~~fgl~~~~~P~v~i~~~~~~KY~~ 97 (130)
T cd02983 24 IIAFLPHILDCQASCRNKYLE-ILKSVAEKFKKKP-----WGWLWTEAGAQLDLEEALNIGGFGYPAMVAINFRKMKFAT 97 (130)
T ss_pred EEEEcCccccCCHHHHHHHHH-HHHHHHHHhcCCc-----EEEEEEeCcccHHHHHHcCCCccCCCEEEEEecccCcccc
Confidence 3777774 2333332211 1224667788998 56999998663 4564110000000111
Q ss_pred HhhhcChhHHHHHHHHHHhhhcCCCCCC
Q 012105 355 MWTRVQPAYAANMWNEALNKRLGTEDLD 382 (471)
Q Consensus 355 ~~~~~~P~~a~~mwneALNKRLGT~gL~ 382 (471)
+-..+..+-...+.++.++-++++..++
T Consensus 98 ~~~~~t~e~i~~Fv~~~l~Gkl~~~~~~ 125 (130)
T cd02983 98 LKGSFSEDGINEFLRELSYGRGPTLPVN 125 (130)
T ss_pred ccCccCHHHHHHHHHHHHcCCcccccCC
Confidence 2244555666778888888887665543
No 17
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.93 E-value=34 Score=36.16 Aligned_cols=108 Identities=20% Similarity=0.362 Sum_probs=73.1
Q ss_pred eecCChhhHH--HHHhcceEEEEecccc--hhhhhhhhhccccccC-cchh----hhccHHHHHhhcCCceeeccCC---
Q 012105 135 DSWEEPAELE--YVKQHGVSVFLMPSGM--MGTLLSLIDILPLFSN-SHWG----QNANLAFLEKHMGATFEKRPQP--- 202 (471)
Q Consensus 135 ~~w~~~~e~e--~ik~~Gv~vFlm~~gm--~gtl~sl~~~~plF~n-t~wg----~~~Nl~FL~~~mG~~fe~R~~~--- 202 (471)
.+++=|+-++ .+++.|+-||.=..|- .-|+-+.+.- .| +.-| ...=++|+.+|-+--+..|+.-
T Consensus 111 eeL~LPevlk~la~~kRGLviiVGaTGSGKSTtmAaMi~y----RN~~s~gHIiTIEDPIEfih~h~~CIvTQREvGvDT 186 (375)
T COG5008 111 EELKLPEVLKDLALAKRGLVIIVGATGSGKSTTMAAMIGY----RNKNSTGHIITIEDPIEFIHKHKRCIVTQREVGVDT 186 (375)
T ss_pred HhcCCcHHHHHhhcccCceEEEECCCCCCchhhHHHHhcc----cccCCCCceEEecChHHHHhcccceeEEeeeeccch
Confidence 3444333333 5678999988755442 3333333221 22 1122 3456899999999999999843
Q ss_pred --ccccCCCCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEee
Q 012105 203 --WHATINPEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLK 250 (471)
Q Consensus 203 --~v~~i~~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lr 250 (471)
|.+.+.-+-=|+-|.+.|..+|-| ||++-=.+=|-.||-.||-.
T Consensus 187 esw~~AlkNtlRQapDvI~IGEvRsr----etMeyAi~fAeTGHLcmaTL 232 (375)
T COG5008 187 ESWEVALKNTLRQAPDVILIGEVRSR----ETMEYAIQFAETGHLCMATL 232 (375)
T ss_pred HHHHHHHHHHHhcCCCeEEEeecccH----hHHHHHHHHHhcCceEEEEe
Confidence 333344466789999999999999 99998888899999887765
No 18
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=26.17 E-value=45 Score=26.10 Aligned_cols=30 Identities=27% Similarity=0.581 Sum_probs=28.2
Q ss_pred hhhhHHHHHHcCCChhhhccccccC-cceec
Q 012105 383 LHGILDEIEKRGISFDQLLTIPEQD-EWVYS 412 (471)
Q Consensus 383 l~ei~~ea~krgisf~~LlaiPEqD-~W~Ys 412 (471)
|.+|+...+++|+.+-.+.+.|.++ .|.|.
T Consensus 13 L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~ 43 (75)
T cd04880 13 LAKALKVFAERGINLTKIESRPSRKGLWEYE 43 (75)
T ss_pred HHHHHHHHHHCCCCEEEEEeeecCCCCceEE
Confidence 8899999999999999999999987 89997
No 19
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=25.78 E-value=1.2e+02 Score=19.37 Aligned_cols=23 Identities=30% Similarity=0.533 Sum_probs=16.8
Q ss_pred CCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEee
Q 012105 212 VHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLK 250 (471)
Q Consensus 212 IhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lr 250 (471)
++.||.+.|. .|.++|+.+..+.
T Consensus 2 ~~~G~~V~I~----------------~G~~~g~~g~i~~ 24 (28)
T smart00739 2 FEVGDTVRVI----------------AGPFKGKVGKVLE 24 (28)
T ss_pred CCCCCEEEEe----------------ECCCCCcEEEEEE
Confidence 5788988888 4777777775553
No 20
>PF12075 KN_motif: KN motif; InterPro: IPR021939 This small motif is found at the N terminus of Kank proteins and has been called the KN (for Kank N-terminal) motif. This protein is found in eukaryotes. Proteins in this family are typically between 413 to 1202 amino acids in length. This protein is found associated with PF00023 from PFAM. This protein has two conserved sequence motifs: TPYG and LDLDF. Kank1 was obtained by positional cloning of a tumor suppressor gene in renal cell carcinoma, while the other members were found by homology search. The family is involved in the regulation of actin polymerisation and cell motility through signaling pathways containing PI3K/Akt and/or unidentified modulators/effectors [].
Probab=25.65 E-value=27 Score=26.67 Aligned_cols=6 Identities=83% Similarity=1.990 Sum_probs=5.2
Q ss_pred Ccceee
Q 012105 321 KPYGYH 326 (471)
Q Consensus 321 ~PYGYh 326 (471)
.|||||
T Consensus 6 tPYGyh 11 (39)
T PF12075_consen 6 TPYGYH 11 (39)
T ss_pred CCccee
Confidence 499999
No 21
>PF04583 Baculo_p74: Baculoviridae p74 conserved region; InterPro: IPR007663 Baculoviruses are distinct from other virus families in that there are two viral phenotypes: budded virus (BV) and occlusion-derived virus (ODV). BVs disseminate viral infection throughout the tissues of the host and ODVs transmit baculovirus between insect hosts. GFP tagging experiments implicate p74 as an ODV envelope protein [, ].; GO: 0019058 viral infectious cycle
Probab=25.22 E-value=78 Score=32.33 Aligned_cols=19 Identities=37% Similarity=0.795 Sum_probs=13.5
Q ss_pred CcceeeeeeEEEeecCCCCCCCCcChhHHH
Q 012105 321 KPYGYHNMIFSWIDTMADNYPPPLDAHLVV 350 (471)
Q Consensus 321 ~PYGYhN~iFsWIDT~~dNyPppLda~~v~ 350 (471)
-||||.|| |||-...++-.
T Consensus 125 DPfGYnNM-----------FPr~~ldDLs~ 143 (249)
T PF04583_consen 125 DPFGYNNM-----------FPREYLDDLSR 143 (249)
T ss_pred Cccccccc-----------CCCcchHHHHH
Confidence 59999999 57755555543
No 22
>PF01344 Kelch_1: Kelch motif; InterPro: IPR006652 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding; PDB: 2XN4_A 2WOZ_A 3II7_A 4ASC_A 1U6D_X 1ZGK_A 2FLU_X 2VPJ_A 2DYH_A 1X2R_A ....
Probab=24.21 E-value=76 Score=22.33 Aligned_cols=30 Identities=20% Similarity=0.303 Sum_probs=19.7
Q ss_pred cCccceeEEeecCCCcEEEEecCCCCcccccce
Q 012105 240 AFAGHTAVCLKDKEGNLWVGESGHENEKGEEII 272 (471)
Q Consensus 240 a~aGHtav~Lrd~dGeL~v~ES~~~~~~~~~~I 272 (471)
++.+|+++.+ ++++||+=-.++.....+.+
T Consensus 1 pR~~~~~~~~---~~~iyv~GG~~~~~~~~~~v 30 (47)
T PF01344_consen 1 PRSGHAAVVV---GNKIYVIGGYDGNNQPTNSV 30 (47)
T ss_dssp -BBSEEEEEE---TTEEEEEEEBESTSSBEEEE
T ss_pred CCccCEEEEE---CCEEEEEeeecccCceeeeE
Confidence 3678888666 68999987666644444333
No 23
>TIGR01293 Kv_beta voltage-dependent potassium channel beta subunit, animal. Plant beta subunits and their closely related bacterial homologs (in Deinococcus radiudurans, Xylella fastidiosa, etc.) appear more closely related to each other than to animal forms. However, the bacterial species lack convincing counterparts the Kv alpha subunit and the Kv beta homolog may serve as an enzyme. Cutoffs are set for this model such that yeast and plant forms and bacterial close homologs score between trusted and noise cutoffs.
Probab=23.68 E-value=1.2e+02 Score=30.31 Aligned_cols=26 Identities=19% Similarity=0.056 Sum_probs=16.7
Q ss_pred hhHHHHHHHHHHhhhcCCCCCChhhhH
Q 012105 361 PAYAANMWNEALNKRLGTEDLDLHGIL 387 (471)
Q Consensus 361 P~~a~~mwneALNKRLGT~gL~l~ei~ 387 (471)
|+....-+.+.| |||||..+|+..+=
T Consensus 95 ~~~i~~~~~~SL-~rL~td~iDl~~lH 120 (317)
T TIGR01293 95 RKHIIEGLKASL-ERLQLEYVDIVFAN 120 (317)
T ss_pred HHHHHHHHHHHH-HHhCCCcEeEEEec
Confidence 444444445555 78999988886553
No 24
>PF00877 NLPC_P60: NlpC/P60 family; InterPro: IPR000064 The Escherichia coli NLPC/Listeria P60 domain occurs at the C terminus of a number of different bacterial and viral proteins. The viral proteins are either described as tail assembly proteins or Gp19. In bacteria, the proteins are variously described as being putative tail component of prophage, invasin, invasion associated protein, putative lipoprotein, cell wall hydrolase, or putative endopeptidase. The E. coli NLPC/Listeria P60 domain is contained within the boundaries of the cysteine peptidase domain that defines the MEROPS peptidase family C40 (clan C-). A type example being dipeptidyl-peptidase VI from Bacillus sphaericus and gamma-glutamyl-diamino acid-endopeptidase precursor from Lactococcus lactis 3.4.19.11 from EC. This group also contains proteins classified as non-peptidase homologues in that they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases in the C40 family. ; PDB: 3PVQ_B 3GT2_A 3NPF_B 2K1G_A 3I86_A 3S0Q_A 2XIV_A 3PBC_A 3NE0_A 3M1U_B ....
Probab=23.19 E-value=52 Score=27.33 Aligned_cols=21 Identities=24% Similarity=0.499 Sum_probs=15.8
Q ss_pred cchHHHHHHHHHHhcCCCCCC
Q 012105 416 STTCVAFILEMYKEAGVFGPI 436 (471)
Q Consensus 416 S~vCsafV~~myKAAGlFg~l 436 (471)
..=||.||...|+++|+-=+-
T Consensus 13 g~DCsglV~~~~~~~Gi~l~~ 33 (105)
T PF00877_consen 13 GFDCSGLVRWVYRQAGINLPR 33 (105)
T ss_dssp EB-HHHHHHHHHHTTTEE--S
T ss_pred CcCcHHHHHHHHHHhCCCCCc
Confidence 577999999999999975443
No 25
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=22.91 E-value=74 Score=20.89 Aligned_cols=13 Identities=46% Similarity=1.173 Sum_probs=9.2
Q ss_pred EeecCCCcEEEEe
Q 012105 248 CLKDKEGNLWVGE 260 (471)
Q Consensus 248 ~Lrd~dGeL~v~E 260 (471)
.+.|.+|.|||+=
T Consensus 10 i~~D~~G~lWigT 22 (24)
T PF07494_consen 10 IYEDSDGNLWIGT 22 (24)
T ss_dssp EEE-TTSCEEEEE
T ss_pred EEEcCCcCEEEEe
Confidence 3468889999973
No 26
>PF13964 Kelch_6: Kelch motif
Probab=22.76 E-value=83 Score=22.80 Aligned_cols=21 Identities=29% Similarity=0.396 Sum_probs=15.6
Q ss_pred CccceeEEeecCCCcEEEEecCCC
Q 012105 241 FAGHTAVCLKDKEGNLWVGESGHE 264 (471)
Q Consensus 241 ~aGHtav~Lrd~dGeL~v~ES~~~ 264 (471)
+.+|+++++ +|+|||+=-.+.
T Consensus 2 R~~~s~v~~---~~~iyv~GG~~~ 22 (50)
T PF13964_consen 2 RYGHSAVVV---GGKIYVFGGYDN 22 (50)
T ss_pred CccCEEEEE---CCEEEEECCCCC
Confidence 678999665 689999855444
No 27
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=21.97 E-value=1.6e+02 Score=23.78 Aligned_cols=48 Identities=31% Similarity=0.403 Sum_probs=29.5
Q ss_pred cCCCCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecC
Q 012105 206 TINPEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESG 262 (471)
Q Consensus 206 ~i~~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~ 262 (471)
.+.++++.+.+.|.|.+ +-..+. .|....+..|.|+|++|+.|-++--
T Consensus 4 ~l~~s~~~~~~~l~iP~--------~f~~~~-~~~~~~~~~v~l~~~~g~~W~v~~~ 51 (100)
T PF02362_consen 4 VLKPSDVSSSCRLIIPK--------EFAKKH-GGNKRKSREVTLKDPDGRSWPVKLK 51 (100)
T ss_dssp E--TTCCCCTT-EEE-H--------HHHTTT-S--SS--CEEEEEETTTEEEEEEEE
T ss_pred EEEccCcCCCCEEEeCH--------HHHHHh-CCCcCCCeEEEEEeCCCCEEEEEEE
Confidence 45678888889999985 334344 2223345567899999999999983
No 28
>PRK09781 hypothetical protein; Provisional
Probab=21.92 E-value=59 Score=31.25 Aligned_cols=44 Identities=27% Similarity=0.402 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHhhhcCCCCCChhhhHHHHHHcCCC-hhhhccccccCc
Q 012105 362 AYAANMWNEALNKRLGTEDLDLHGILDEIEKRGIS-FDQLLTIPEQDE 408 (471)
Q Consensus 362 ~~a~~mwneALNKRLGT~gL~l~ei~~ea~krgis-f~~LlaiPEqD~ 408 (471)
++.+.+.||+|..- +.+--..++.....|-.| |.+-+||||||+
T Consensus 34 ~IV~~LINQvLdeg---e~f~ga~vltacddrqvsy~~~Y~AIPE~~G 78 (181)
T PRK09781 34 DIVAELINQVLRCG---AALIIIAVLTACDDRQVSYFPDYAAIPEQSG 78 (181)
T ss_pred HHHHHHHHHHHhhh---hhhhhHHHhhhcccceeeeccceeeccccCC
Confidence 45555666666432 234445566666677766 688999999997
No 29
>TIGR01436 glu_cys_lig_pln glutamate--cysteine ligase, plant type. This model represents one of two highly dissimilar forms of glutamate--cysteine ligase (gamma-glutamylcysteine synthetase), an enzyme of glutathione biosynthesis. The other type is modeled by TIGR01434. This type is found in plants (with a probable transit peptide), root nodule and other bacteria, but not E. coli and closely related species.
Probab=20.67 E-value=59 Score=35.20 Aligned_cols=48 Identities=29% Similarity=0.500 Sum_probs=34.7
Q ss_pred hhHHhhcchhHHHH------HHHh--hcCCcceeeee---eEEEeecCCCC-CCCCcChh
Q 012105 300 PDVRAKFNSTAAWE------YARS--MSGKPYGYHNM---IFSWIDTMADN-YPPPLDAH 347 (471)
Q Consensus 300 pe~RakFN~TAAwe------f~~~--~eG~PYGYhN~---iFsWIDT~~dN-yPppLda~ 347 (471)
++..+|||-.-+|. |++| .+|+|.||..+ +|.=.|.+.-. .|+.++..
T Consensus 180 ~d~v~~~~~~~~l~Pvl~ALfANSPf~~G~~tG~~S~R~~iW~~~Dp~rtG~~P~~f~~~ 239 (446)
T TIGR01436 180 ADMVRKFRASLALQPLATALFANSPFLEGKPNGFLSYRSHIWTDTDPDRTGMLPFVFDDS 239 (446)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCccccCCCCCccchHHHHHHhcCCCcCCCCCCCCCCc
Confidence 35667999777764 6677 89999999864 55555657777 66677774
No 30
>cd03474 Rieske_T4moC Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent hydroxylation of toluene to form p-cresol. T4mo consists of an NADH oxidoreductase (T4moF), a diiron hydroxylase (T4moH), a catalytic effector protein (T4moD), and a Rieske ferredoxin (T4moC). T4moC contains a Rieske domain and functions as an obligate electron carrier between T4moF and T4moH. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes.
Probab=20.24 E-value=1.7e+02 Score=24.55 Aligned_cols=36 Identities=17% Similarity=0.291 Sum_probs=26.6
Q ss_pred CCCCCCCCCEEEEEeecccCCchhhHHHhhcCcCccceeEEeecCCCcEEEEecC
Q 012105 208 NPEDVHSGDFLAVSKIRGRWGGFETLEKWVTGAFAGHTAVCLKDKEGNLWVGESG 262 (471)
Q Consensus 208 ~~~dIhsGDfL~iskirgr~dG~d~li~W~tGa~aGHtav~Lrd~dGeL~v~ES~ 262 (471)
..+||..|+...+. +. |...+.+++.+|++++.+..
T Consensus 6 ~~~~l~~g~~~~~~-~~------------------~~~~~~~~~~~g~~~A~~n~ 41 (108)
T cd03474 6 SLDDVWEGEMELVD-VD------------------GEEVLLVAPEGGEFRAFQGI 41 (108)
T ss_pred ehhccCCCceEEEE-EC------------------CeEEEEEEccCCeEEEEcCc
Confidence 46789999988765 32 22567788889999998864
Done!