Query 037899
Match_columns 113
No_of_seqs 141 out of 219
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 05:25:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037899.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037899hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03222 rapid alkalinization 100.0 2.1E-37 4.6E-42 223.7 4.2 96 13-110 13-119 (119)
2 PLN03221 rapid alkalinization 100.0 5E-36 1.1E-40 220.6 6.1 102 7-110 11-137 (137)
3 PF05498 RALF: Rapid ALkaliniz 99.9 6.6E-29 1.4E-33 164.0 3.2 65 45-110 2-66 (66)
4 PF07172 GRP: Glycine rich pro 93.8 0.075 1.6E-06 37.2 3.2 15 1-15 1-15 (95)
5 PF15240 Pro-rich: Proline-ric 70.0 2.7 5.8E-05 32.8 1.5 12 6-17 1-12 (179)
6 PF12273 RCR: Chitin synthesis 66.0 3.8 8.3E-05 29.2 1.5 6 7-12 2-7 (130)
7 PF07172 GRP: Glycine rich pro 53.4 14 0.00031 25.7 2.6 19 8-26 4-22 (95)
8 PHA02291 hypothetical protein 52.8 15 0.00033 27.1 2.7 17 1-18 1-17 (132)
9 PF10913 DUF2706: Protein of u 42.2 56 0.0012 21.2 3.8 29 26-57 23-51 (60)
10 PF14654 Epiglycanin_C: Mucin, 40.3 26 0.00057 25.3 2.3 10 3-13 15-24 (106)
11 PF11669 WBP-1: WW domain-bind 36.9 38 0.00082 23.7 2.7 8 7-14 22-29 (102)
12 COG4068 Uncharacterized protei 34.4 48 0.001 22.0 2.6 17 6-22 44-60 (64)
13 PF15145 DUF4577: Domain of un 33.5 37 0.00079 25.2 2.2 15 51-66 92-106 (128)
14 PF09125 COX2-transmemb: Cytoc 32.7 72 0.0016 19.2 3.0 11 7-17 16-26 (38)
15 PF06873 SerH: Cell surface im 29.9 31 0.00067 30.0 1.5 20 1-21 1-20 (403)
16 PF15330 SIT: SHP2-interacting 29.7 45 0.00098 23.7 2.1 9 64-72 92-100 (107)
17 PF14147 Spore_YhaL: Sporulati 29.6 61 0.0013 20.7 2.5 19 5-23 2-20 (52)
18 PF15240 Pro-rich: Proline-ric 29.1 31 0.00067 27.0 1.3 12 16-27 5-16 (179)
19 PF15284 PAGK: Phage-encoded v 28.0 86 0.0019 20.7 3.0 14 7-20 5-18 (61)
20 PRK06287 cobalt transport prot 27.8 94 0.002 22.0 3.4 17 1-17 2-18 (107)
21 PF02419 PsbL: PsbL protein; 27.0 1E+02 0.0022 18.5 2.9 17 7-23 16-32 (37)
22 TIGR03142 cytochro_ccmI cytoch 26.7 81 0.0017 22.1 3.0 13 50-62 64-76 (117)
23 COG1930 CbiN ABC-type cobalt t 24.4 1.2E+02 0.0027 21.6 3.5 31 1-31 1-31 (97)
24 PF06357 Omega-toxin: Omega-at 24.0 43 0.00093 20.0 0.9 14 88-102 4-17 (37)
25 PF10669 Phage_Gp23: Protein g 23.0 1.2E+02 0.0025 22.2 3.2 20 4-23 15-34 (121)
26 PF15281 Consortin_C: Consorti 22.7 64 0.0014 23.6 1.8 31 7-37 54-87 (113)
27 PF13721 SecD-TM1: SecD export 22.4 1.2E+02 0.0026 21.0 3.1 26 1-26 1-26 (101)
28 PF12955 DUF3844: Domain of un 21.5 1.1E+02 0.0024 21.9 2.8 9 5-13 67-75 (103)
29 PF03579 SHP: Small hydrophobi 21.5 75 0.0016 21.0 1.8 23 7-29 19-41 (64)
30 PF05399 EVI2A: Ectropic viral 20.4 93 0.002 25.3 2.5 14 9-22 140-153 (227)
No 1
>PLN03222 rapid alkalinization factor 23-like protein; Provisional
Probab=100.00 E-value=2.1e-37 Score=223.68 Aligned_cols=96 Identities=47% Similarity=0.796 Sum_probs=79.5
Q ss_pred HHHHHHHHHHhhh----c-ccCCCC--CCCCCCcc-cccc---ccccccCCCccccccccCCCccccccccCCCCCCCCC
Q 037899 13 TAVVVVAMAAESR----A-FDGSNW--GRINNVGR-INEY---DENEMLMPTEESRRQLWGGGFISYGALRANSVPCNRR 81 (113)
Q Consensus 13 ~~~~~~~~~~~~~----~-~~~~~~--~~~C~~G~-~~~~---~eeE~~m~se~~RR~L~~~~yIsYgaL~~~~~pC~~~ 81 (113)
++||.|+++.+.+ + +++|+- .+.|+ |+ +||. +|+||+||||++||+|++++||||+||++|++||+++
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~-Gsi~EC~~~~~e~e~~mdSe~sRR~L~~~rYISYgALrrd~vPCsrr 91 (119)
T PLN03222 13 IAILTVHFLFAAVTSQSTGFSGDFMPIDSKCN-GTIAECSLSTAEEEFEMDSEINRRILATTKYISYGALRRNTVPCSRR 91 (119)
T ss_pred ehhhHHHHHHHHhhcccccccccccCCCCcCC-CCHHHhhcccccchhccccHHHHHHHhhcCeecHHHhcCCCCCCCCC
Confidence 4444444443333 2 455542 34699 99 7773 4779999999999999999999999999999999999
Q ss_pred CCCCcCCCCCCCCCCCCCCCCcccccccC
Q 037899 82 GTSYYNCNHGGGPVNPYRRGCSAITNCER 110 (113)
Q Consensus 82 g~sy~nC~~~~~~aNpYtRGCs~i~rCrr 110 (113)
|++||||++ ++|+|||+|||++||||||
T Consensus 92 G~SYynC~~-~~~ANPY~RGCs~ITrCrR 119 (119)
T PLN03222 92 GASYYNCRR-GAQANPYSRGCSAITRCRR 119 (119)
T ss_pred CCCccccCC-CCCCCCCCCCchhhccccC
Confidence 999999999 9999999999999999997
No 2
>PLN03221 rapid alkalinization factor 23; Provisional
Probab=100.00 E-value=5e-36 Score=220.61 Aligned_cols=102 Identities=40% Similarity=0.708 Sum_probs=82.7
Q ss_pred HHHHHHHHHHHHHHHHhhhc-cc----CCC--CCCCCCCcc-ccc--------------cccc---cccCCCcccccccc
Q 037899 7 SLLFLTTAVVVVAMAAESRA-FD----GSN--WGRINNVGR-INE--------------YDEN---EMLMPTEESRRQLW 61 (113)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~-~~----~~~--~~~~C~~G~-~~~--------------~~ee---E~~m~se~~RR~L~ 61 (113)
-.+|.||.||+|++....++ .+ +++ ....|+ || +|| |++| |++||||++||+|+
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~-GsiaEC~~~~~~~~d~e~~~g~~~~~~e~~MdSE~sRR~L~ 89 (137)
T PLN03221 11 AAIFAILLILAVHFWSVAVSSQSIEFAGDFPPFETECR-GTIAECSVSAALGDDGDLFYGGGEMGAEFEMDSEINRRILA 89 (137)
T ss_pred HHHHHHHHHHHHHHHhheeecccccccccccCCCCccc-CCHHHHhhhhccccccccccccchhhhhhhcccHHHHHHHh
Confidence 35677777777777654443 11 122 244699 99 766 2233 78999999999999
Q ss_pred CCCccccccccCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCcccccccC
Q 037899 62 GGGFISYGALRANSVPCNRRGTSYYNCNHGGGPVNPYRRGCSAITNCER 110 (113)
Q Consensus 62 ~~~yIsYgaL~~~~~pC~~~g~sy~nC~~~~~~aNpYtRGCs~i~rCrr 110 (113)
+++||||+||++|++||+++|++||||++ ++|+|||+|||++||||||
T Consensus 90 ~~rYISYgALrrd~vPCsrrG~SYynC~~-~~pANPY~RGCs~ITRCrR 137 (137)
T PLN03221 90 TRRYISYGALRRNTIPCSRRGASYYNCRR-GAQANPYSRGCSAITRCRR 137 (137)
T ss_pred cCCccCHHHhccCCCCCCCCCCCccccCC-CCCCCCCCCCcccccccCC
Confidence 99999999999999999999999999999 9999999999999999997
No 3
>PF05498 RALF: Rapid ALkalinization Factor (RALF) ; InterPro: IPR008801 RALF, a 5 kDa ubiquitous polypeptide in plants, arrests root growth and development.
Probab=99.95 E-value=6.6e-29 Score=163.96 Aligned_cols=65 Identities=57% Similarity=1.056 Sum_probs=62.2
Q ss_pred ccccccCCCccccccccCCCccccccccCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCcccccccC
Q 037899 45 DENEMLMPTEESRRQLWGGGFISYGALRANSVPCNRRGTSYYNCNHGGGPVNPYRRGCSAITNCER 110 (113)
Q Consensus 45 ~eeE~~m~se~~RR~L~~~~yIsYgaL~~~~~pC~~~g~sy~nC~~~~~~aNpYtRGCs~i~rCrr 110 (113)
+|+|+.|++|++||+|++++||+|+||++|.+||.++|.+|++|.+ ++|+|||+|||++||||||
T Consensus 2 ee~~~~~~s~~~~R~~a~~~yIsYgaL~~~~~pc~~~g~~~~~c~~-~~paNpY~RGC~~~~rCrr 66 (66)
T PF05498_consen 2 EEEEVVMESEASRRILAARRYISYGALRRDRVPCSPRGCSYYNCCP-RQPANPYSRGCSKITRCRR 66 (66)
T ss_pred hhHHhhhhhHHHHHHHhcCCeecchhccCCCCCCCcccCCCcccCC-CCCCCCCCCCCCccccCCC
Confidence 5788999999999999999999999999999999999999999988 8999999999999999997
No 4
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=93.80 E-value=0.075 Score=37.20 Aligned_cols=15 Identities=47% Similarity=0.339 Sum_probs=9.4
Q ss_pred CCchhHHHHHHHHHH
Q 037899 1 MGSKLMSLLFLTTAV 15 (113)
Q Consensus 1 m~~k~~~~~~~~~~~ 15 (113)
|.+|.|+++.|+||+
T Consensus 1 MaSK~~llL~l~LA~ 15 (95)
T PF07172_consen 1 MASKAFLLLGLLLAA 15 (95)
T ss_pred CchhHHHHHHHHHHH
Confidence 889995555555443
No 5
>PF15240 Pro-rich: Proline-rich
Probab=69.98 E-value=2.7 Score=32.84 Aligned_cols=12 Identities=33% Similarity=0.600 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHH
Q 037899 6 MSLLFLTTAVVV 17 (113)
Q Consensus 6 ~~~~~~~~~~~~ 17 (113)
|++|+|++|+|+
T Consensus 1 MLlVLLSvALLA 12 (179)
T PF15240_consen 1 MLLVLLSVALLA 12 (179)
T ss_pred ChhHHHHHHHHH
Confidence 355555554444
No 6
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=66.01 E-value=3.8 Score=29.21 Aligned_cols=6 Identities=33% Similarity=0.428 Sum_probs=2.3
Q ss_pred HHHHHH
Q 037899 7 SLLFLT 12 (113)
Q Consensus 7 ~~~~~~ 12 (113)
|++|++
T Consensus 2 W~l~~i 7 (130)
T PF12273_consen 2 WVLFAI 7 (130)
T ss_pred eeeHHH
Confidence 334433
No 7
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=53.35 E-value=14 Score=25.69 Aligned_cols=19 Identities=21% Similarity=0.233 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 037899 8 LLFLTTAVVVVAMAAESRA 26 (113)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~ 26 (113)
-.||+|++|+.++++.+|.
T Consensus 4 K~~llL~l~LA~lLlisSe 22 (95)
T PF07172_consen 4 KAFLLLGLLLAALLLISSE 22 (95)
T ss_pred hHHHHHHHHHHHHHHHHhh
Confidence 4577776655454444443
No 8
>PHA02291 hypothetical protein
Probab=52.79 E-value=15 Score=27.14 Aligned_cols=17 Identities=24% Similarity=0.561 Sum_probs=11.1
Q ss_pred CCchhHHHHHHHHHHHHH
Q 037899 1 MGSKLMSLLFLTTAVVVV 18 (113)
Q Consensus 1 m~~k~~~~~~~~~~~~~~ 18 (113)
|+.|. |++..++.++++
T Consensus 1 MS~K~-~iFYiL~~~VL~ 17 (132)
T PHA02291 1 MSRKA-SIFYILVVIVLA 17 (132)
T ss_pred CCcch-hhHHHHHHHHHH
Confidence 88898 777666544433
No 9
>PF10913 DUF2706: Protein of unknown function (DUF2706); InterPro: IPR024444 This family of proteins with unknown function appears to be restricted to Rickettsia spp.
Probab=42.21 E-value=56 Score=21.24 Aligned_cols=29 Identities=7% Similarity=-0.147 Sum_probs=16.5
Q ss_pred cccCCCCCCCCCCccccccccccccCCCcccc
Q 037899 26 AFDGSNWGRINNVGRINEYDENEMLMPTEESR 57 (113)
Q Consensus 26 ~~~~~~~~~~C~~G~~~~~~eeE~~m~se~~R 57 (113)
+|..+- .++|- . .+++|+.++.|..=+.|
T Consensus 23 sapyei-kspcv-s-~didd~s~ls~npcirr 51 (60)
T PF10913_consen 23 SAPYEI-KSPCV-S-ADIDDNSSLSVNPCIRR 51 (60)
T ss_pred CCCccc-cCCcc-c-cccCCCccccccccccc
Confidence 344433 57786 2 35667777777654444
No 10
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=40.25 E-value=26 Score=25.30 Aligned_cols=10 Identities=40% Similarity=0.281 Sum_probs=7.8
Q ss_pred chhHHHHHHHH
Q 037899 3 SKLMSLLFLTT 13 (113)
Q Consensus 3 ~k~~~~~~~~~ 13 (113)
+|+ |-+|||.
T Consensus 15 L~P-WeIfLIt 24 (106)
T PF14654_consen 15 LKP-WEIFLIT 24 (106)
T ss_pred ccc-hHHHHHH
Confidence 578 8888884
No 11
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=36.91 E-value=38 Score=23.71 Aligned_cols=8 Identities=13% Similarity=0.123 Sum_probs=3.7
Q ss_pred HHHHHHHH
Q 037899 7 SLLFLTTA 14 (113)
Q Consensus 7 ~~~~~~~~ 14 (113)
|.+||+.+
T Consensus 22 w~FWlv~~ 29 (102)
T PF11669_consen 22 WYFWLVWV 29 (102)
T ss_pred HHHHHHHH
Confidence 44455433
No 12
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=34.37 E-value=48 Score=21.98 Aligned_cols=17 Identities=35% Similarity=0.602 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 037899 6 MSLLFLTTAVVVVAMAA 22 (113)
Q Consensus 6 ~~~~~~~~~~~~~~~~~ 22 (113)
+.++||++++++|-|+.
T Consensus 44 ~~~~~li~aLi~v~vvL 60 (64)
T COG4068 44 MILMFLILALILVMVVL 60 (64)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 45677777766665553
No 13
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=33.50 E-value=37 Score=25.24 Aligned_cols=15 Identities=40% Similarity=0.306 Sum_probs=11.4
Q ss_pred CCCccccccccCCCcc
Q 037899 51 MPTEESRRQLWGGGFI 66 (113)
Q Consensus 51 m~se~~RR~L~~~~yI 66 (113)
|| +++||+.+.++-|
T Consensus 92 Md-dvSrRL~aEgKdI 106 (128)
T PF15145_consen 92 MD-DVSRRLTAEGKDI 106 (128)
T ss_pred HH-HHHHHHHhccCCH
Confidence 44 5899998887766
No 14
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=32.71 E-value=72 Score=19.19 Aligned_cols=11 Identities=18% Similarity=0.334 Sum_probs=7.1
Q ss_pred HHHHHHHHHHH
Q 037899 7 SLLFLTTAVVV 17 (113)
Q Consensus 7 ~~~~~~~~~~~ 17 (113)
|++|.+..|++
T Consensus 16 Wi~F~l~mi~v 26 (38)
T PF09125_consen 16 WIAFALAMILV 26 (38)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 78877765443
No 15
>PF06873 SerH: Cell surface immobilisation antigen SerH; InterPro: IPR009670 This entry consists of several cell surface immobilisation antigen SerH proteins which seem to be specific to Tetrahymena thermophila. The SerH locus of T. thermophila is one of several paralogous loci with genes encoding variants of the major cell surface protein known as the immobilisation antigen (i-ag) [].
Probab=29.93 E-value=31 Score=30.04 Aligned_cols=20 Identities=20% Similarity=0.370 Sum_probs=13.0
Q ss_pred CCchhHHHHHHHHHHHHHHHH
Q 037899 1 MGSKLMSLLFLTTAVVVVAMA 21 (113)
Q Consensus 1 m~~k~~~~~~~~~~~~~~~~~ 21 (113)
|-+|. ++++||++.|+|.++
T Consensus 1 M~~k~-lii~Lii~~llv~~i 20 (403)
T PF06873_consen 1 MQNKI-LIICLIISSLLVSQI 20 (403)
T ss_pred Ccchh-hHHHHHHHHHHHhee
Confidence 77888 666666655555544
No 16
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=29.69 E-value=45 Score=23.70 Aligned_cols=9 Identities=22% Similarity=0.457 Sum_probs=4.0
Q ss_pred Ccccccccc
Q 037899 64 GFISYGALR 72 (113)
Q Consensus 64 ~yIsYgaL~ 72 (113)
..|.|.+|.
T Consensus 92 e~~~YASL~ 100 (107)
T PF15330_consen 92 EQMCYASLD 100 (107)
T ss_pred cceeeeeec
Confidence 344444443
No 17
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=29.61 E-value=61 Score=20.74 Aligned_cols=19 Identities=11% Similarity=0.175 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHHHHh
Q 037899 5 LMSLLFLTTAVVVVAMAAE 23 (113)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~ 23 (113)
|.|.+|++++||+.+..+.
T Consensus 2 PwWvY~vi~gI~~S~ym~v 20 (52)
T PF14147_consen 2 PWWVYFVIAGIIFSGYMAV 20 (52)
T ss_pred cchHHHHHHHHHHHHHHHH
Confidence 4588888888777554433
No 18
>PF15240 Pro-rich: Proline-rich
Probab=29.14 E-value=31 Score=27.00 Aligned_cols=12 Identities=0% Similarity=-0.105 Sum_probs=4.7
Q ss_pred HHHHHHHhhhcc
Q 037899 16 VVVAMAAESRAF 27 (113)
Q Consensus 16 ~~~~~~~~~~~~ 27 (113)
||.+++++.|||
T Consensus 5 LLSvALLALSSA 16 (179)
T PF15240_consen 5 LLSVALLALSSA 16 (179)
T ss_pred HHHHHHHHhhhc
Confidence 333333344443
No 19
>PF15284 PAGK: Phage-encoded virulence factor
Probab=28.00 E-value=86 Score=20.67 Aligned_cols=14 Identities=21% Similarity=0.403 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHH
Q 037899 7 SLLFLTTAVVVVAM 20 (113)
Q Consensus 7 ~~~~~~~~~~~~~~ 20 (113)
-.+||.+++++.+.
T Consensus 5 ksifL~l~~~LsA~ 18 (61)
T PF15284_consen 5 KSIFLALVFILSAA 18 (61)
T ss_pred HHHHHHHHHHHHHh
Confidence 44566554333333
No 20
>PRK06287 cobalt transport protein CbiN; Validated
Probab=27.80 E-value=94 Score=21.97 Aligned_cols=17 Identities=24% Similarity=0.292 Sum_probs=10.6
Q ss_pred CCchhHHHHHHHHHHHH
Q 037899 1 MGSKLMSLLFLTTAVVV 17 (113)
Q Consensus 1 m~~k~~~~~~~~~~~~~ 17 (113)
|..|.+++.++++++++
T Consensus 2 ~~~~~~~~~~~~~all~ 18 (107)
T PRK06287 2 MDNKKFLIAGLIVALLI 18 (107)
T ss_pred CcchhhHHHHHHHHHHH
Confidence 55566677777766443
No 21
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=27.04 E-value=1e+02 Score=18.50 Aligned_cols=17 Identities=24% Similarity=0.212 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHh
Q 037899 7 SLLFLTTAVVVVAMAAE 23 (113)
Q Consensus 7 ~~~~~~~~~~~~~~~~~ 23 (113)
+++|.++.|+++++..+
T Consensus 16 SLY~GLllifvl~vLFs 32 (37)
T PF02419_consen 16 SLYWGLLLIFVLAVLFS 32 (37)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhh
Confidence 44555555555555543
No 22
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=26.73 E-value=81 Score=22.07 Aligned_cols=13 Identities=31% Similarity=0.184 Sum_probs=9.7
Q ss_pred cCCCccccccccC
Q 037899 50 LMPTEESRRQLWG 62 (113)
Q Consensus 50 ~m~se~~RR~L~~ 62 (113)
.+..|..||+|+.
T Consensus 64 ~~~~El~rrLL~d 76 (117)
T TIGR03142 64 AARAELQRRLLAD 76 (117)
T ss_pred HHHHHHHHHHHHC
Confidence 4556789999965
No 23
>COG1930 CbiN ABC-type cobalt transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=24.43 E-value=1.2e+02 Score=21.60 Aligned_cols=31 Identities=23% Similarity=0.200 Sum_probs=13.3
Q ss_pred CCchhHHHHHHHHHHHHHHHHHhhhcccCCC
Q 037899 1 MGSKLMSLLFLTTAVVVVAMAAESRAFDGSN 31 (113)
Q Consensus 1 m~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 (113)
|.-|.+..++++..|+++.++..+....+++
T Consensus 1 m~kk~~~~ll~i~~i~~l~li~~~~~~~ge~ 31 (97)
T COG1930 1 MSKKHMLNLLAIGIILALPLIPFSFVTDGEF 31 (97)
T ss_pred CchHHHHHHHHHHHHHHHHHHHheecccccc
Confidence 5566644444444344444443333333443
No 24
>PF06357 Omega-toxin: Omega-atracotoxin; InterPro: IPR009415 This family consists of several Hadronyche versuta (Blue mountains funnel-web spider) specific omega-atracotoxin proteins. Omega-Atracotoxin-Hv1a is an insect-specific neurotoxin whose phylogenetic specificity derives from its ability to antagonise insect, but not vertebrate, voltage-gated calcium channels. Two spatially proximal residues, Asn(27) and Arg(35), form a contiguous molecular surface that is essential for toxin activity. It has been proposed that this surface of the beta-hairpin is a key site for interaction of the toxin with insect calcium channels [].; GO: 0019855 calcium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1AXH_A 1HVW_A.
Probab=24.01 E-value=43 Score=19.98 Aligned_cols=14 Identities=43% Similarity=1.170 Sum_probs=6.4
Q ss_pred CCCCCCCCCCCCCCC
Q 037899 88 CNHGGGPVNPYRRGC 102 (113)
Q Consensus 88 C~~~~~~aNpYtRGC 102 (113)
|.|+++|. ||+-.|
T Consensus 4 C~psgQPC-Pyne~C 17 (37)
T PF06357_consen 4 CIPSGQPC-PYNESC 17 (37)
T ss_dssp SB-TTSB--SSCCCB
T ss_pred cccCCCcC-CCCccc
Confidence 55534444 777544
No 25
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=22.97 E-value=1.2e+02 Score=22.22 Aligned_cols=20 Identities=25% Similarity=0.438 Sum_probs=11.5
Q ss_pred hhHHHHHHHHHHHHHHHHHh
Q 037899 4 KLMSLLFLTTAVVVVAMAAE 23 (113)
Q Consensus 4 k~~~~~~~~~~~~~~~~~~~ 23 (113)
|-++..||+++++++.++..
T Consensus 15 K~~~FA~L~i~~FiILLIi~ 34 (121)
T PF10669_consen 15 KIMFFAFLFIVVFIILLIIT 34 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666555543
No 26
>PF15281 Consortin_C: Consortin C-terminus
Probab=22.71 E-value=64 Score=23.63 Aligned_cols=31 Identities=23% Similarity=0.243 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHhhhc---ccCCCCCCCCC
Q 037899 7 SLLFLTTAVVVVAMAAESRA---FDGSNWGRINN 37 (113)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~C~ 37 (113)
|++++++.+++|.|.....+ +-++.+++.|+
T Consensus 54 cl~L~LlclvTv~lS~gGTALYCt~gd~~S~vC~ 87 (113)
T PF15281_consen 54 CLLLLLLCLVTVVLSVGGTALYCTFGDMESSVCT 87 (113)
T ss_pred cHHHHHHHHHHHHHhccceEEEEecCCccchHHH
Confidence 44444444444444433332 34777778887
No 27
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=22.37 E-value=1.2e+02 Score=21.00 Aligned_cols=26 Identities=12% Similarity=0.048 Sum_probs=18.0
Q ss_pred CCchhHHHHHHHHHHHHHHHHHhhhc
Q 037899 1 MGSKLMSLLFLTTAVVVVAMAAESRA 26 (113)
Q Consensus 1 m~~k~~~~~~~~~~~~~~~~~~~~~~ 26 (113)
|+--+.|-.++++++|++.++-+.-+
T Consensus 1 mN~yp~WKyllil~vl~~~~lyALPn 26 (101)
T PF13721_consen 1 MNRYPLWKYLLILVVLLLGALYALPN 26 (101)
T ss_pred CCCcchHHHHHHHHHHHHHHHHHhhh
Confidence 55556788888887777766655444
No 28
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=21.54 E-value=1.1e+02 Score=21.91 Aligned_cols=9 Identities=22% Similarity=-0.160 Sum_probs=4.7
Q ss_pred hHHHHHHHH
Q 037899 5 LMSLLFLTT 13 (113)
Q Consensus 5 ~~~~~~~~~ 13 (113)
+||||+.+.
T Consensus 67 ~F~L~~~~t 75 (103)
T PF12955_consen 67 PFWLFAGFT 75 (103)
T ss_pred hhhHHHHHH
Confidence 446655553
No 29
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=21.50 E-value=75 Score=21.01 Aligned_cols=23 Identities=13% Similarity=0.093 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHhhhcccC
Q 037899 7 SLLFLTTAVVVVAMAAESRAFDG 29 (113)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~ 29 (113)
.++|.+++|.++..+++...|..
T Consensus 19 tLi~M~lti~~~~Iv~si~~AIL 41 (64)
T PF03579_consen 19 TLIFMMLTIGFFFIVTSIMAAIL 41 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666677666666655555543
No 30
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=20.36 E-value=93 Score=25.30 Aligned_cols=14 Identities=21% Similarity=0.494 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHH
Q 037899 9 LFLTTAVVVVAMAA 22 (113)
Q Consensus 9 ~~~~~~~~~~~~~~ 22 (113)
+|||+++|||+-++
T Consensus 140 LfLICT~LfLSTVV 153 (227)
T PF05399_consen 140 LFLICTLLFLSTVV 153 (227)
T ss_pred HHHHHHHHHHHHHH
Confidence 34555555555443
Done!