Query 021124
Match_columns 317
No_of_seqs 142 out of 170
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 07:47:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021124.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021124hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05827 ATP-synt_S1: Vacuolar 100.0 2.9E-40 6.4E-45 310.4 18.9 234 26-304 1-282 (282)
2 KOG3868 Vacuolar H+-ATPase V0 98.7 1.2E-08 2.7E-13 98.5 4.5 40 277-316 362-402 (411)
3 PF14004 DUF4227: Protein of u 79.6 2.7 5.9E-05 31.7 3.6 25 293-317 18-43 (71)
4 TIGR01195 oadG_fam sodium pump 74.3 4.7 0.0001 31.2 3.7 32 281-312 11-42 (82)
5 PRK02919 oxaloacetate decarbox 66.2 6.7 0.00014 30.4 3.0 28 282-309 15-42 (82)
6 PF04277 OAD_gamma: Oxaloaceta 59.2 9.7 0.00021 28.6 2.8 25 281-305 8-32 (79)
7 PF13706 PepSY_TM_3: PepSY-ass 57.7 17 0.00037 23.6 3.4 25 279-303 7-31 (37)
8 PRK03814 oxaloacetate decarbox 54.0 19 0.00041 28.1 3.6 25 281-305 15-39 (85)
9 PF00056 Ldh_1_N: lactate/mala 46.2 8.8 0.00019 32.3 0.7 52 190-241 68-121 (141)
10 COG3630 OadG Na+-transporting 45.5 25 0.00055 27.4 3.1 28 282-309 15-42 (84)
11 PF13179 DUF4006: Family of un 42.2 36 0.00077 25.4 3.3 37 279-315 11-52 (66)
12 COG2194 Predicted membrane-ass 40.3 28 0.00061 36.3 3.5 31 212-242 426-456 (555)
13 PF05624 LSR: Lipolysis stimul 37.8 23 0.0005 24.5 1.6 18 285-302 7-24 (49)
14 COG4064 MtrG Tetrahydromethano 32.4 74 0.0016 24.0 3.6 19 279-297 50-68 (75)
15 PRK05086 malate dehydrogenase; 31.0 43 0.00094 32.1 2.9 51 191-241 69-121 (312)
16 PF04210 MtrG: Tetrahydrometha 30.3 70 0.0015 24.0 3.3 19 279-297 47-65 (70)
17 cd01337 MDH_glyoxysomal_mitoch 26.8 55 0.0012 31.5 2.8 53 190-242 67-121 (310)
18 cd05291 HicDH_like L-2-hydroxy 26.7 53 0.0012 31.1 2.7 52 190-241 67-120 (306)
19 PF10731 Anophelin: Thrombin i 25.4 83 0.0018 23.0 2.8 23 2-24 1-23 (65)
20 TIGR01149 mtrG N5-methyltetrah 25.4 92 0.002 23.4 3.1 21 279-300 47-67 (70)
21 TIGR01763 MalateDH_bact malate 25.3 60 0.0013 30.9 2.8 52 190-241 68-121 (305)
22 TIGR01771 L-LDH-NAD L-lactate 25.3 56 0.0012 31.1 2.6 51 190-240 63-115 (299)
23 PF10717 ODV-E18: Occlusion-de 25.2 80 0.0017 24.6 2.9 18 279-296 24-41 (85)
24 TIGR01772 MDH_euk_gproteo mala 25.1 90 0.0019 30.0 3.9 53 190-242 66-120 (312)
25 PRK01026 tetrahydromethanopter 24.2 1.3E+02 0.0027 23.2 3.7 19 279-297 50-68 (77)
26 PRK10081 entericidin B membran 23.8 82 0.0018 22.0 2.4 25 1-27 1-25 (48)
27 PF11044 TMEMspv1-c74-12: Plec 23.5 1.4E+02 0.003 20.5 3.4 24 279-302 2-26 (49)
28 PLN00135 malate dehydrogenase 23.2 76 0.0017 30.5 3.1 51 190-240 57-110 (309)
29 PRK09598 lipid A phosphoethano 22.9 85 0.0019 32.5 3.5 29 214-242 413-441 (522)
30 PF13172 PepSY_TM_1: PepSY-ass 22.9 1.5E+02 0.0033 18.5 3.5 24 279-302 8-31 (34)
31 PF06024 DUF912: Nucleopolyhed 21.6 82 0.0018 25.1 2.5 21 277-297 60-80 (101)
32 PF01034 Syndecan: Syndecan do 21.2 34 0.00073 25.4 0.1 47 270-316 3-51 (64)
33 PRK10649 hypothetical protein; 21.0 92 0.002 32.6 3.3 30 214-243 436-465 (577)
34 cd01338 MDH_choloroplast_like 20.4 95 0.0021 29.9 3.1 52 190-241 77-131 (322)
35 PF10777 YlaC: Inner membrane 20.3 1.4E+02 0.0029 26.0 3.6 15 279-293 36-50 (155)
36 PF07213 DAP10: DAP10 membrane 20.0 2E+02 0.0044 22.2 4.1 30 270-299 24-53 (79)
No 1
>PF05827 ATP-synt_S1: Vacuolar ATP synthase subunit S1 (ATP6S1); InterPro: IPR024722 This family consists of metazoan vacuolar ATP synthase subunit S1 proteins [] and fungal proteins belonging to the BIG family. In Candida albicans BIG is required for normal beta-1,6-glucan synthesis, hyphal morphogenesis, adhesion and virulence [].
Probab=100.00 E-value=2.9e-40 Score=310.41 Aligned_cols=234 Identities=24% Similarity=0.237 Sum_probs=179.9
Q ss_pred CCceeEeecCCCCCC---CCccccccccChhhHHHHHHhhcccccccccCCCCCCCCcEEEEEEcCCCCccccCCCCC-C
Q 021124 26 TVPAFLWSTHHQKIS---SNNALNYQTLSPKDLAKAVLTQGGWADLLCSGRQSPQSVDVALVFVGRELQSSHISGNKH-A 101 (317)
Q Consensus 26 tsP~~lwS~~~~~~~---~~~~~~yq~~s~~~l~~svl~~~~~~~l~~~~~~~~c~sd~yvlf~Qp~L~ssD~s~~k~-~ 101 (317)
++|+|||||+.. +. .....+.+++++ .++++. .++.| ++||+|+||+++|||||++||++.+. .
T Consensus 1 t~P~~l~St~~~-~~l~~~~~~~~~~~~s~----~~~~~~-~~~~l------~~cpsd~yl~v~Qpgl~~~Df~~~~~~~ 68 (282)
T PF05827_consen 1 TVPFFLFSTKLS-PGLPPSIPPSSGQIQSS----SSFLSY-LKSLL------SSCPSDAYLFVNQPGLSASDFTDYGSSA 68 (282)
T ss_pred CCCEEEEECCCc-ccccccCCCCcCcCccH----HHHHHH-HHHHH------hcCCCceEEEEecccccHhhccccccCc
Confidence 699999999951 21 222255667888 777765 66677 99999999999999999999999774 6
Q ss_pred ChHHHHHHHhhhccccceeEeceee-eccchhhHHHHHHHHHHhcccccccceeeccCCccccccchhhhhchhhhhHHH
Q 021124 102 DLALVDTLKVSFTKSNFSMAFPYIV-SAGEETMESSLFSEFTEACVDDFKVANVAFSESCTVEGENFLKLADLHSVHDHL 180 (317)
Q Consensus 102 ~p~L~~~L~~~~~~s~ssl~vP~V~-~~~~~~~~~~L~~~l~~~C~~~~~~~~v~~~~~~~~~~~~~~~l~~~~~v~~~i 180 (317)
+|+|++++.. +++++.+|+|. +..+ .+.|.+|++++|+++.+. |+..+... .+ ++
T Consensus 69 ~p~L~~~~~~----s~s~~~~~~v~~~~~~---~~~L~~~l~~~c~~~~~~--v~~~~~~~---~~---------~~--- 124 (282)
T PF05827_consen 69 FPNLRRYLYS----SSSSLVLPAVESGWLD---LSQLAEYLKEKCGASVVI--VDVSDLSE---DS---------FE--- 124 (282)
T ss_pred chHHHHHHhc----CCcceeeeeEecCccC---HHHHHHHHHHHhCcCceE--EecCcccc---cc---------cc---
Confidence 8999999976 78899999997 6666 789999999999997776 76654311 11 11
Q ss_pred HHHHhhhcCCCceEEEEe-cCCCCC-CCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCC-----------------
Q 021124 181 RLRAEKSLKGQADLIVVC-YGDTQS-MKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPV----------------- 241 (317)
Q Consensus 181 ~~~~~~~~~~~~~vi~v~-~~~~~~-~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~----------------- 241 (317)
..+++|++|+ ++.+.. .+|.++|.+||++|+++++.+++.+ +|||||||+|.
T Consensus 125 --------~~~~~vi~V~l~~l~~~~~~R~~~L~~nD~~l~~vl~~l~s~~-~ytvIyts~~ps~v~~~~~~~~~~~~~~ 195 (282)
T PF05827_consen 125 --------EYKPRVIRVDLPPLPSSSESRKEALSDNDEFLRKVLSKLPSPD-PYTVIYTSTPPSRVHPREDSSSEFEIFE 195 (282)
T ss_pred --------ccCCcEEEEECCCCCCccccchhhhhhhhHHHHHHHHhcCCCC-cEEEEEEccCcccccccccCCCCcccch
Confidence 1379999999 545544 8899999999999999999999544 59999999981
Q ss_pred ---CCCCCCCchhhh-----------------hhhhhhcc--CCCCCC-CCCCCccccch-hhHHHHHHHHHHHHHHHHH
Q 021124 242 ---RSVQYPSHQELE-----------------RFLAESVA--GNKSAN-NTGCDEVCQFK-SSLFEGILVGIVLLLILVS 297 (317)
Q Consensus 242 ---~~~~~~~~~~lk-----------------R~l~~~~~--~~~~~~-~~~lf~~yQ~~-~~i~~gl~v~~~ll~il~~ 297 (317)
..++.+.|++++ |.+..+.. .|.+.+ .+.+|++|||| ||||||++++++|+.||++
T Consensus 196 ~~~~~~~~~~~~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lf~~yQFftpgi~mglii~~~ll~IL~~ 275 (282)
T PF05827_consen 196 DIFNDFSRPVEMDLKNAGSRCSSENDPNVNPYRSFNSHDPKPSNSPDNEWDILFFDYQFFTPGIWMGLIISLVLLSILYV 275 (282)
T ss_pred hhhcccchhhhhhhhhhhhhhhhcccccccccccccccccccCCCCcccccceehhheeeeccHHHHHHHHHHHHHHHHH
Confidence 113345788888 22222111 122211 13599999999 9999999999999999999
Q ss_pred HHHHHhC
Q 021124 298 GLCCMMG 304 (317)
Q Consensus 298 g~~~l~~ 304 (317)
||.||+|
T Consensus 276 gl~~l~S 282 (282)
T PF05827_consen 276 GLSMLMS 282 (282)
T ss_pred HHHHhhC
Confidence 9999986
No 2
>KOG3868 consensus Vacuolar H+-ATPase V0 sector, accessory subunit S1 (Ac45) [Energy production and conversion]
Probab=98.70 E-value=1.2e-08 Score=98.54 Aligned_cols=40 Identities=35% Similarity=0.634 Sum_probs=39.0
Q ss_pred ch-hhHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCC
Q 021124 277 FK-SSLFEGILVGIVLLLILVSGLCCMMGIDTPTRFEAPQE 316 (317)
Q Consensus 277 ~~-~~i~~gl~v~~~ll~il~~g~~~l~~l~~p~rfe~p~~ 316 (317)
|| |||||||+++++|+.||..|++||.+|++++|||+||+
T Consensus 362 ffSpgilmGLfvvliLl~IL~~Gl~mllsi~tmdrfdd~k~ 402 (411)
T KOG3868|consen 362 FFSPGILMGLFVVLILLAILWYGLHMLLSIGTMDRFDDPKG 402 (411)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhccCcCC
Confidence 67 99999999999999999999999999999999999997
No 3
>PF14004 DUF4227: Protein of unknown function (DUF4227)
Probab=79.63 E-value=2.7 Score=31.75 Aligned_cols=25 Identities=20% Similarity=0.404 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhCCCCCC-CCCCCCCC
Q 021124 293 LILVSGLCCMMGIDTPT-RFEAPQES 317 (317)
Q Consensus 293 ~il~~g~~~l~~l~~p~-rfe~p~~~ 317 (317)
.++|.|+.+++.==.|+ ||+.|+|+
T Consensus 18 ~lfYy~~~w~~~~~~~~hrY~eP~G~ 43 (71)
T PF14004_consen 18 LLFYYAILWVSDEYEPYHRYDEPEGS 43 (71)
T ss_pred HHHHHHHHHHHHHhccCCCCCCCCCc
Confidence 37788999999777777 99999984
No 4
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=74.29 E-value=4.7 Score=31.18 Aligned_cols=32 Identities=13% Similarity=0.144 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCC
Q 021124 281 LFEGILVGIVLLLILVSGLCCMMGIDTPTRFE 312 (317)
Q Consensus 281 i~~gl~v~~~ll~il~~g~~~l~~l~~p~rfe 312 (317)
.+.|+.++|++|++|+..+..|+.+...+.++
T Consensus 11 ~v~GM~~VF~fL~lLi~~i~~~~~~~~~~~~~ 42 (82)
T TIGR01195 11 TVLGMGIVFLFLSLLIYAVRGMGKVVGRKKVP 42 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 36788999999999999999999887766554
No 5
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=66.22 E-value=6.7 Score=30.44 Aligned_cols=28 Identities=18% Similarity=0.271 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 021124 282 FEGILVGIVLLLILVSGLCCMMGIDTPT 309 (317)
Q Consensus 282 ~~gl~v~~~ll~il~~g~~~l~~l~~p~ 309 (317)
+.|+.++|+||++|+.++..|..+--++
T Consensus 15 vlGMg~VfvFL~lLI~~i~~ms~l~~~~ 42 (82)
T PRK02919 15 FLGMGFVLAFLFLLIFAIRGMSALINRF 42 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 6788889999999999999999876555
No 6
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=59.19 E-value=9.7 Score=28.62 Aligned_cols=25 Identities=16% Similarity=0.368 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCC
Q 021124 281 LFEGILVGIVLLLILVSGLCCMMGI 305 (317)
Q Consensus 281 i~~gl~v~~~ll~il~~g~~~l~~l 305 (317)
-+.|+.++|+.|++|+..+..|+.+
T Consensus 8 ~i~Gm~iVF~~L~lL~~~i~l~~~~ 32 (79)
T PF04277_consen 8 MIIGMGIVFLVLILLILVISLMSKL 32 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999999998887
No 7
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=57.74 E-value=17 Score=23.62 Aligned_cols=25 Identities=20% Similarity=0.618 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHh
Q 021124 279 SSLFEGILVGIVLLLILVSGLCCMM 303 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~g~~~l~ 303 (317)
..-+.|++++++++.+.+.|.-++-
T Consensus 7 ~H~W~Gl~~g~~l~~~~~tG~~~~f 31 (37)
T PF13706_consen 7 LHRWLGLILGLLLFVIFLTGAVMVF 31 (37)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 5678999999999999999987654
No 8
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=53.98 E-value=19 Score=28.12 Aligned_cols=25 Identities=24% Similarity=0.331 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCC
Q 021124 281 LFEGILVGIVLLLILVSGLCCMMGI 305 (317)
Q Consensus 281 i~~gl~v~~~ll~il~~g~~~l~~l 305 (317)
.+.|+.++|++|+||+.++..|+-+
T Consensus 15 m~~GM~~VF~fL~lLi~~~~l~~~~ 39 (85)
T PRK03814 15 MLTGMGVVFIFLTLLVYLVQLMSKL 39 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678889999999999999988866
No 9
>PF00056 Ldh_1_N: lactate/malate dehydrogenase, NAD binding domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR001236 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the N-terminal, and is thought to be a Rossmann NAD-binding fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IB6_B 3HHP_C 1IE3_A 2PWZ_A 1EMD_A 2CMD_A 1EZ4_D 9LDT_B 9LDB_B 2D4A_C ....
Probab=46.19 E-value=8.8 Score=32.30 Aligned_cols=52 Identities=19% Similarity=0.371 Sum_probs=42.3
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPV 241 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~ 241 (317)
...+|+++.. +......|.+.+..|-++++++...+.+.+++=.++.+|.|.
T Consensus 68 ~~aDivvitag~~~~~g~sR~~ll~~N~~i~~~~~~~i~~~~p~~~vivvtNPv 121 (141)
T PF00056_consen 68 KDADIVVITAGVPRKPGMSRLDLLEANAKIVKEIAKKIAKYAPDAIVIVVTNPV 121 (141)
T ss_dssp TTESEEEETTSTSSSTTSSHHHHHHHHHHHHHHHHHHHHHHSTTSEEEE-SSSH
T ss_pred ccccEEEEeccccccccccHHHHHHHhHhHHHHHHHHHHHhCCccEEEEeCCcH
Confidence 4689999993 223456798999999999999999999889988899999884
No 10
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=45.52 E-value=25 Score=27.36 Aligned_cols=28 Identities=18% Similarity=0.145 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 021124 282 FEGILVGIVLLLILVSGLCCMMGIDTPT 309 (317)
Q Consensus 282 ~~gl~v~~~ll~il~~g~~~l~~l~~p~ 309 (317)
++|+-++|++|+||..-+.+|+-+...+
T Consensus 15 vlGmg~VflfL~iLi~~~~~m~~~v~r~ 42 (84)
T COG3630 15 VLGMGFVFLFLSILIYAMRGMGAVVRRF 42 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5677788888999999888888655444
No 11
>PF13179 DUF4006: Family of unknown function (DUF4006)
Probab=42.22 E-value=36 Score=25.37 Aligned_cols=37 Identities=14% Similarity=0.241 Sum_probs=21.6
Q ss_pred hhHHHHHHHHHHHHHHHHH-HHHHHh----CCCCCCCCCCCC
Q 021124 279 SSLFEGILVGIVLLLILVS-GLCCMM----GIDTPTRFEAPQ 315 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~-g~~~l~----~l~~p~rfe~p~ 315 (317)
-||.==|+++.+||.|+.+ |+.++. .-+.||+.++++
T Consensus 11 nGi~G~LIAvvLLLsIl~~lt~~ai~~Qq~~At~~Y~~~d~~ 52 (66)
T PF13179_consen 11 NGITGMLIAVVLLLSILAFLTYWAIKVQQEQATNPYKLKDAN 52 (66)
T ss_pred cchHhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccChH
Confidence 4554334444455555544 555554 567788887765
No 12
>COG2194 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]
Probab=40.33 E-value=28 Score=36.30 Aligned_cols=31 Identities=23% Similarity=0.320 Sum_probs=26.8
Q ss_pred CcchHHHHHHHHHhhhcCCceEEEEEecCCC
Q 021124 212 RPESEVISELIDSVEKSGAKYTVLYVSDPVR 242 (317)
Q Consensus 212 ~~nD~~L~~vl~~l~~~~~~YTViYtS~p~~ 242 (317)
.-+|.+|+++++.|++..++..+||+||=.-
T Consensus 426 lYtD~~L~~vi~~Lk~~~~~~~liY~SDHGE 456 (555)
T COG2194 426 LYTDYFLSKLIDQLKDKKDNTSLIYFSDHGE 456 (555)
T ss_pred hhhHHHHHHHHHHHHhCCCCeEEEEEcCccH
Confidence 3459999999999998777999999999854
No 13
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=37.80 E-value=23 Score=24.48 Aligned_cols=18 Identities=33% Similarity=0.698 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 021124 285 ILVGIVLLLILVSGLCCM 302 (317)
Q Consensus 285 l~v~~~ll~il~~g~~~l 302 (317)
+++...++.++.+||+|-
T Consensus 7 ~iilg~~ll~~LigiCwC 24 (49)
T PF05624_consen 7 LIILGALLLLLLIGICWC 24 (49)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444456667778888763
No 14
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=32.35 E-value=74 Score=23.97 Aligned_cols=19 Identities=21% Similarity=0.663 Sum_probs=14.8
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLLILVS 297 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~ 297 (317)
-||+-|++++++|+.|...
T Consensus 50 IGILYGlVIGlil~~i~~~ 68 (75)
T COG4064 50 IGILYGLVIGLILCMIYIL 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5899999999887765443
No 15
>PRK05086 malate dehydrogenase; Provisional
Probab=30.97 E-value=43 Score=32.06 Aligned_cols=51 Identities=18% Similarity=0.365 Sum_probs=42.6
Q ss_pred CceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCC
Q 021124 191 QADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPV 241 (317)
Q Consensus 191 ~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~ 241 (317)
..++++++. +......|.+.+..|-.++++++..+.+.+++..|+-+|.|.
T Consensus 69 ~~DiVIitaG~~~~~~~~R~dll~~N~~i~~~ii~~i~~~~~~~ivivvsNP~ 121 (312)
T PRK05086 69 GADVVLISAGVARKPGMDRSDLFNVNAGIVKNLVEKVAKTCPKACIGIITNPV 121 (312)
T ss_pred CCCEEEEcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCeEEEEccCch
Confidence 489999994 222345688889999999999999999889999999999995
No 16
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=30.33 E-value=70 Score=24.05 Aligned_cols=19 Identities=16% Similarity=0.723 Sum_probs=15.1
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLLILVS 297 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~ 297 (317)
-||+-|++++++++.++.+
T Consensus 47 iGIlYG~v~Glii~~~~~~ 65 (70)
T PF04210_consen 47 IGILYGLVIGLIIFIIYIV 65 (70)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 6899999999887776544
No 17
>cd01337 MDH_glyoxysomal_mitochondrial Glyoxysomal and mitochondrial malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are localized to the glycosome and mitochondria. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=26.79 E-value=55 Score=31.46 Aligned_cols=53 Identities=23% Similarity=0.332 Sum_probs=44.3
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCCC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPVR 242 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~~ 242 (317)
...|+++++. +....+.|.+.+..|-++++++...+.+.+++=.+|-+|.|.+
T Consensus 67 ~daDivvitaG~~~k~g~tR~dll~~N~~i~~~i~~~i~~~~p~a~vivvtNPvD 121 (310)
T cd01337 67 KGADVVVIPAGVPRKPGMTRDDLFNINAGIVRDLATAVAKACPKALILIISNPVN 121 (310)
T ss_pred CCCCEEEEeCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCeEEEEccCchh
Confidence 4589999993 2224567999999999999999999988899989999999963
No 18
>cd05291 HicDH_like L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases. L-2-hydroxyisocapronate dehydrogenase (HicDH) catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. This subfamily is composed of HicDHs and some bacterial L-lactate dehydrogenases (LDH). LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Bacterial LDHs can be non-allosteric or may be activated by an allosteric effector such as fructose-1,6-bisphosphate. Members of this subfamily with known structures such as the HicDH of Lactobacillus confusus, the non-allosteric LDH of Lactobacillus pentosus, and the allosteric LDH of Bacillus stearothermophilus, show that they exist as homotetramers. The HicDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine
Probab=26.70 E-value=53 Score=31.11 Aligned_cols=52 Identities=17% Similarity=0.316 Sum_probs=43.4
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPV 241 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~ 241 (317)
...++++++. +....+.|.+.+..|-++++++...+.+..++=.+|.+|.|.
T Consensus 67 ~~aDIVIitag~~~~~g~~R~dll~~N~~i~~~~~~~i~~~~~~~~vivvsNP~ 120 (306)
T cd05291 67 KDADIVVITAGAPQKPGETRLDLLEKNAKIMKSIVPKIKASGFDGIFLVASNPV 120 (306)
T ss_pred CCCCEEEEccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCeEEEEecChH
Confidence 4689999993 223456899999999999999999999888888889999983
No 19
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=25.38 E-value=83 Score=23.05 Aligned_cols=23 Identities=35% Similarity=0.434 Sum_probs=12.9
Q ss_pred cchHHHHHHHHHHHHHHhhhhcC
Q 021124 2 MNSYVVIRLLLLEVLSAIAFASP 24 (317)
Q Consensus 2 ~~~~~~~~~~l~~~l~~~a~Af~ 24 (317)
|-++.+.+.+||.+|.+++.+++
T Consensus 1 MA~Kl~vialLC~aLva~vQ~AP 23 (65)
T PF10731_consen 1 MASKLIVIALLCVALVAIVQSAP 23 (65)
T ss_pred CcchhhHHHHHHHHHHHHHhcCc
Confidence 33445555666666666666543
No 20
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=25.36 E-value=92 Score=23.42 Aligned_cols=21 Identities=19% Similarity=0.570 Sum_probs=14.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLLILVSGLC 300 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~g~~ 300 (317)
-||+-|+++++++ .+.|..+.
T Consensus 47 iGIlYG~viGlli-~~~~~~l~ 67 (70)
T TIGR01149 47 IGILYGLVIGLIL-FLIYILLS 67 (70)
T ss_pred HHHHHHHHHHHHH-HHHHHHHH
Confidence 6899999998865 44444443
No 21
>TIGR01763 MalateDH_bact malate dehydrogenase, NAD-dependent. The annotation of Botryococcus braunii as lactate dehydrogenase appears top be in error. This was initially annotated as MDH by Swiss-Prot and then changed. The rationale for either of these annotations is not traceable.
Probab=25.34 E-value=60 Score=30.95 Aligned_cols=52 Identities=13% Similarity=0.305 Sum_probs=41.9
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPV 241 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~ 241 (317)
...++++|+. |......|.+.+..|-+++.++...+.+..++..+|.+|.|.
T Consensus 68 ~~aDiVIitag~p~~~~~sR~~l~~~N~~iv~~i~~~I~~~~p~~~iIv~tNP~ 121 (305)
T TIGR01763 68 ANSDIVVITAGLPRKPGMSREDLLSMNAGIVREVTGRIMEHSPNPIIVVVSNPL 121 (305)
T ss_pred CCCCEEEEcCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHCCCeEEEEecCcH
Confidence 4589999993 222345677788889999999999998778899999999993
No 22
>TIGR01771 L-LDH-NAD L-lactate dehydrogenase. This model represents the NAD-dependent L-lactate dehydrogenases from bacteria and eukaryotes. This enzyme function as as the final step in anaerobic glycolysis. Although lactate dehydrogenases have in some cases been mistaken for malate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of malate dehydrogenases.
Probab=25.32 E-value=56 Score=31.12 Aligned_cols=51 Identities=20% Similarity=0.287 Sum_probs=43.0
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDP 240 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p 240 (317)
...|++++.. +....+.|.+.+..|-++++++...+.+.+++=.+|-+|.|
T Consensus 63 ~daDivVitag~~rk~g~~R~dll~~N~~i~~~~~~~i~~~~p~~~vivvsNP 115 (299)
T TIGR01771 63 KDADLVVITAGAPQKPGETRLELVGRNVRIMKSIVPEVVKSGFDGIFLVATNP 115 (299)
T ss_pred CCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCCH
Confidence 4589999993 22245679999999999999999999888999899999999
No 23
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=25.24 E-value=80 Score=24.61 Aligned_cols=18 Identities=22% Similarity=0.578 Sum_probs=13.6
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLLILV 296 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~ 296 (317)
|..||-+|+++++++.|+
T Consensus 24 pn~lMtILivLVIIiLlI 41 (85)
T PF10717_consen 24 PNTLMTILIVLVIIILLI 41 (85)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 999999998876655433
No 24
>TIGR01772 MDH_euk_gproteo malate dehydrogenase, NAD-dependent. Although malate dehydrogenases have in some cases been mistaken for lactate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of lactate dehydrogenases.
Probab=25.11 E-value=90 Score=30.02 Aligned_cols=53 Identities=21% Similarity=0.354 Sum_probs=44.2
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcCCceEEEEEecCCC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSGAKYTVLYVSDPVR 242 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~~~YTViYtS~p~~ 242 (317)
...|+++++. +......|.+.+..|-++++++...+.+.+++=-+|-+|.|.+
T Consensus 66 ~daDivvitaG~~~~~g~~R~dll~~N~~I~~~i~~~i~~~~p~~iiivvsNPvD 120 (312)
T TIGR01772 66 KGADVVVIPAGVPRKPGMTRDDLFNVNAGIVKDLVAAVAESCPKAMILVITNPVN 120 (312)
T ss_pred CCCCEEEEeCCCCCCCCccHHHHHHHhHHHHHHHHHHHHHhCCCeEEEEecCchh
Confidence 4588999983 2224578999999999999999999988899988999999964
No 25
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=24.25 E-value=1.3e+02 Score=23.16 Aligned_cols=19 Identities=16% Similarity=0.688 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLLILVS 297 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~ 297 (317)
.||+-|++++++++.++..
T Consensus 50 iGIlYG~viGlli~~i~~~ 68 (77)
T PRK01026 50 IGILYGLVIGLLIVLVYII 68 (77)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 6899999988877665543
No 26
>PRK10081 entericidin B membrane lipoprotein; Provisional
Probab=23.77 E-value=82 Score=22.01 Aligned_cols=25 Identities=12% Similarity=0.151 Sum_probs=13.3
Q ss_pred CcchHHHHHHHHHHHHHHhhhhcCCCC
Q 021124 1 MMNSYVVIRLLLLEVLSAIAFASPSTV 27 (317)
Q Consensus 1 ~~~~~~~~~~~l~~~l~~~a~Af~~ts 27 (317)
|| +.++.+++..+++..+.+..+|+
T Consensus 1 Mm--Kk~i~~i~~~l~~~~~l~~CnTv 25 (48)
T PRK10081 1 MV--KKTIAAIFSVLVLSTVLTACNTT 25 (48)
T ss_pred Ch--HHHHHHHHHHHHHHHHHhhhhhh
Confidence 67 55555545445444445555554
No 27
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=23.46 E-value=1.4e+02 Score=20.55 Aligned_cols=24 Identities=17% Similarity=0.239 Sum_probs=14.0
Q ss_pred hhHHHHHHHHHHHHH-HHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLL-ILVSGLCCM 302 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~-il~~g~~~l 302 (317)
|.++.-++-++++|. .+++|++.-
T Consensus 2 p~wlt~iFsvvIil~If~~iGl~Iy 26 (49)
T PF11044_consen 2 PTWLTTIFSVVIILGIFAWIGLSIY 26 (49)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666665554444 466787653
No 28
>PLN00135 malate dehydrogenase
Probab=23.22 E-value=76 Score=30.49 Aligned_cols=51 Identities=16% Similarity=0.256 Sum_probs=42.9
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhh-cCCceEEEEEecC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEK-SGAKYTVLYVSDP 240 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~-~~~~YTViYtS~p 240 (317)
...||++|.. +....+.|.+.+..|-++++++...+.+ .+++-.+|.+|.|
T Consensus 57 ~daDiVVitAG~~~k~g~sR~dll~~N~~I~~~i~~~i~~~~~p~aivivvsNP 110 (309)
T PLN00135 57 KGVNIAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAPDCKVLVVANP 110 (309)
T ss_pred CCCCEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEeCCc
Confidence 4689999993 2224567999999999999999999998 4899999999999
No 29
>PRK09598 lipid A phosphoethanolamine transferase; Reviewed
Probab=22.89 E-value=85 Score=32.46 Aligned_cols=29 Identities=14% Similarity=0.279 Sum_probs=24.6
Q ss_pred chHHHHHHHHHhhhcCCceEEEEEecCCC
Q 021124 214 ESEVISELIDSVEKSGAKYTVLYVSDPVR 242 (317)
Q Consensus 214 nD~~L~~vl~~l~~~~~~YTViYtS~p~~ 242 (317)
.|..|+++++.+++.+.+..+||+||-..
T Consensus 413 tD~~l~~ii~~Lk~~~~~t~iIy~SDHGe 441 (522)
T PRK09598 413 NDYLLDKIISMLKNLKQPALMIYLSDHGE 441 (522)
T ss_pred HHHHHHHHHHHHHhCCCCeEEEEEccCcc
Confidence 58899999999987666899999998643
No 30
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=22.85 E-value=1.5e+02 Score=18.53 Aligned_cols=24 Identities=25% Similarity=0.426 Sum_probs=19.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLLILVSGLCCM 302 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~il~~g~~~l 302 (317)
-..+.|++.+++++.+...|+-..
T Consensus 8 ~H~~~g~~~~~~ll~~~lTG~~l~ 31 (34)
T PF13172_consen 8 IHRWLGLIAAIFLLLLALTGALLN 31 (34)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567889999999999888887654
No 31
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=21.65 E-value=82 Score=25.13 Aligned_cols=21 Identities=19% Similarity=0.282 Sum_probs=15.7
Q ss_pred chhhHHHHHHHHHHHHHHHHH
Q 021124 277 FKSSLFEGILVGIVLLLILVS 297 (317)
Q Consensus 277 ~~~~i~~gl~v~~~ll~il~~ 297 (317)
...-+|+|++..++++.|+|+
T Consensus 60 ~~~iili~lls~v~IlVily~ 80 (101)
T PF06024_consen 60 NGNIILISLLSFVCILVILYA 80 (101)
T ss_pred cccchHHHHHHHHHHHHHHhh
Confidence 346788888888877777765
No 32
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=21.15 E-value=34 Score=25.35 Aligned_cols=47 Identities=13% Similarity=0.183 Sum_probs=2.1
Q ss_pred CCCccccchhhHHHHHHHHHHHHHH--HHHHHHHHhCCCCCCCCCCCCC
Q 021124 270 GCDEVCQFKSSLFEGILVGIVLLLI--LVSGLCCMMGIDTPTRFEAPQE 316 (317)
Q Consensus 270 ~lf~~yQ~~~~i~~gl~v~~~ll~i--l~~g~~~l~~l~~p~rfe~p~~ 316 (317)
.+|++=..+.++..|.+|++++.++ +++--++...=+-+|.-|.||.
T Consensus 3 ~~~~~~~vlaavIaG~Vvgll~ailLIlf~iyR~rkkdEGSY~l~e~K~ 51 (64)
T PF01034_consen 3 SIFERSEVLAAVIAGGVVGLLFAILLILFLIYRMRKKDEGSYDLDEPKP 51 (64)
T ss_dssp ----------------------------------S------SS--S---
T ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccCCCCCc
Confidence 3566666667777777766644443 3333334444455555555543
No 33
>PRK10649 hypothetical protein; Provisional
Probab=20.95 E-value=92 Score=32.62 Aligned_cols=30 Identities=20% Similarity=0.341 Sum_probs=25.3
Q ss_pred chHHHHHHHHHhhhcCCceEEEEEecCCCC
Q 021124 214 ESEVISELIDSVEKSGAKYTVLYVSDPVRS 243 (317)
Q Consensus 214 nD~~L~~vl~~l~~~~~~YTViYtS~p~~~ 243 (317)
.|..|+++++.+++.+.+..+||+||-...
T Consensus 436 ~D~~l~~ii~~Lk~~~~nt~iiy~SDHGe~ 465 (577)
T PRK10649 436 NDHVVASLIKDFKATDPNGFLVYFSDHGEE 465 (577)
T ss_pred HHHHHHHHHHHHhcCCCCeEEEEECCCCcc
Confidence 688999999999987777888999997543
No 34
>cd01338 MDH_choloroplast_like Chloroplast-like malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are bacterial MDHs, and plant MDHs localized to the choloroplasts. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=20.45 E-value=95 Score=29.92 Aligned_cols=52 Identities=13% Similarity=0.221 Sum_probs=42.2
Q ss_pred CCceEEEEec--CCCCCCCCCCCCCcchHHHHHHHHHhhhcC-CceEEEEEecCC
Q 021124 190 GQADLIVVCY--GDTQSMKQPKQPRPESEVISELIDSVEKSG-AKYTVLYVSDPV 241 (317)
Q Consensus 190 ~~~~vi~v~~--~~~~~~~r~~~l~~nD~~L~~vl~~l~~~~-~~YTViYtS~p~ 241 (317)
...||++|+. +....+.|.+.+..|-++++++...+.+.. ++-.+|.+|.|.
T Consensus 77 ~daDivvitaG~~~k~g~tR~dll~~N~~i~~~i~~~i~~~~~~~~iiivvsNPv 131 (322)
T cd01338 77 KDADWALLVGAKPRGPGMERADLLKANGKIFTAQGKALNDVASRDVKVLVVGNPC 131 (322)
T ss_pred CCCCEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEEecCcH
Confidence 4589999993 222456799999999999999999998878 488899999983
No 35
>PF10777 YlaC: Inner membrane protein YlaC; InterPro: IPR019713 The extracytoplasmic function (ECF) sigma factors are small regulatory proteins that are quite divergent in sequence relative to most other sigma factors. YlaC, regulated by YlaA, is important in oxidative stress resistance. It contributes to hydrogen peroxide resistance in Bacillus subtilis [].
Probab=20.32 E-value=1.4e+02 Score=25.97 Aligned_cols=15 Identities=7% Similarity=0.069 Sum_probs=10.1
Q ss_pred hhHHHHHHHHHHHHH
Q 021124 279 SSLFEGILVGIVLLL 293 (317)
Q Consensus 279 ~~i~~gl~v~~~ll~ 293 (317)
|+++-|++++.+.+.
T Consensus 36 P~L~~~M~~~y~~~~ 50 (155)
T PF10777_consen 36 PYLCLAMYAAYLAVA 50 (155)
T ss_pred cHHHHHHHHHHHHHH
Confidence 788877777665444
No 36
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=20.01 E-value=2e+02 Score=22.19 Aligned_cols=30 Identities=20% Similarity=0.444 Sum_probs=23.3
Q ss_pred CCCccccchhhHHHHHHHHHHHHHHHHHHH
Q 021124 270 GCDEVCQFKSSLFEGILVGIVLLLILVSGL 299 (317)
Q Consensus 270 ~lf~~yQ~~~~i~~gl~v~~~ll~il~~g~ 299 (317)
+|-.=|..-+|.+.|++++=+++++|+++.
T Consensus 24 scs~C~~ls~g~LaGiV~~D~vlTLLIv~~ 53 (79)
T PF07213_consen 24 SCSGCYPLSPGLLAGIVAADAVLTLLIVLV 53 (79)
T ss_pred CCCCccccCHHHHHHHHHHHHHHHHHHHHH
Confidence 455556666999999999888888887764
Done!