Query 032425
Match_columns 141
No_of_seqs 28 out of 30
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 13:55:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032425.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032425hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00046 photosystem I reactio 100.0 5.3E-61 1.2E-65 370.7 6.1 120 2-124 1-120 (141)
2 TIGR03059 psaOeuk photosystem 100.0 3.9E-38 8.5E-43 226.6 5.1 60 65-124 1-62 (82)
3 PF07629 DUF1590: Protein of u 57.6 3.8 8.2E-05 25.7 0.2 13 102-114 16-28 (32)
4 PF03244 PSI_PsaH: Photosystem 53.7 4.3 9.4E-05 32.4 0.0 18 6-23 5-22 (140)
5 PLN00170 photosystem II light- 38.4 11 0.00023 32.0 0.1 24 2-26 1-24 (255)
6 PF15017 AF1Q: Drug resistance 34.7 12 0.00027 27.4 -0.1 12 73-84 73-84 (87)
7 smart00682 G2F G2 nidogen doma 28.4 20 0.00044 30.0 0.1 43 65-109 58-101 (227)
8 KOG1321 Protoheme ferro-lyase 27.5 36 0.00078 31.0 1.5 23 85-107 201-223 (395)
9 PF02028 BCCT: BCCT family tra 21.4 52 0.0011 29.7 1.4 36 87-122 267-316 (485)
10 PF07474 G2F: G2F domain; Int 18.4 12 0.00026 30.4 -3.0 31 65-95 58-89 (192)
No 1
>PLN00046 photosystem I reaction center subunit O; Provisional
Probab=100.00 E-value=5.3e-61 Score=370.71 Aligned_cols=120 Identities=64% Similarity=1.007 Sum_probs=115.0
Q ss_pred ccccccCCcceeccccCCCCCCCccccccCcccCcccccchhhhhccCCCceeeecccccccccceeeeeeeeccccCCC
Q 032425 2 AAAAFASSSPVVGLGSSSLSSPKRTALGSSFVKSPVAARNPLRVAGACGGKVTCFERDWLRTDLNVIGFGLIGWLAPSSI 81 (141)
Q Consensus 2 ~aat~a~~stV~Glg~ssls~~~~~~l~s~f~k~~V~aRnpl~~a~a~~gr~t~F~rdWlr~D~~V~~~gliGW~aPSsi 81 (141)
|||+|++++||+|||++++++ +.+++|||+|++|.+|||++++.++++++| |||||||+|++||+||||||++||+|
T Consensus 1 maa~~~a~stV~gL~~~sl~~--~~~~ss~f~~~~~~~~~~~~~~~a~~~~~t-F~rDWLr~d~~V~~~gl~GW~~PS~i 77 (141)
T PLN00046 1 MAATAATASTVSGLGSSSLSA--PRRLSSGFVKGPVTVRRRAVLARASGSKKT-FDRDWLRKDLNVIGFGLIGWLAPSSI 77 (141)
T ss_pred ChHHHHhHHHhhhccccCccc--ccccccccccCcccccchhhhhhhcccccc-cchhhhhcccceeeeeeeeeeccccc
Confidence 567788888999999999987 678999999999999999999999999998 99999999999999999999999999
Q ss_pred cccCCCchhhhhHhhhhhhhcCCCCCCCCCchhHHHHHhhhhe
Q 032425 82 PAINGKSLTGLFFESIGTELAHFPTPPPLTSQFWSVVVGYMAL 124 (141)
Q Consensus 82 pa~~g~SL~glF~~SIG~eLAhFPtgPal~d~FWL~lvtWH~~ 124 (141)
|+||||||+|+|+||||+|||||||||+|||||||||||||+-
T Consensus 78 pa~~g~sL~glF~~sIg~~LahfPt~Pal~~~fWL~litWHlG 120 (141)
T PLN00046 78 PAIGGNSLTGLFFDSIGTELAHFPTGPALDSKFWLWLITWHLG 120 (141)
T ss_pred cccCCchhHHHHHHHHHHHHhcCCCCCCCCcchHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999973
No 2
>TIGR03059 psaOeuk photosystem I protein PsaO. Members of this family are the PsaO protein of photosystem I. This protein is found in chloroplasts but not in Cyanobacteria.
Probab=100.00 E-value=3.9e-38 Score=226.56 Aligned_cols=60 Identities=45% Similarity=0.946 Sum_probs=58.2
Q ss_pred cceeeeeeeeccccC--CCcccCCCchhhhhHhhhhhhhcCCCCCCCCCchhHHHHHhhhhe
Q 032425 65 LNVIGFGLIGWLAPS--SIPAINGKSLTGLFFESIGTELAHFPTPPPLTSQFWSVVVGYMAL 124 (141)
Q Consensus 65 ~~V~~~gliGW~aPS--sipa~~g~SL~glF~~SIG~eLAhFPtgPal~d~FWL~lvtWH~~ 124 (141)
++||++|||||++|| +||+|||+||||+|+||||||||||||||||||||||||||||+-
T Consensus 1 ~~V~~~gliGW~~Ps~~~ip~~~g~SLtglF~~sIg~~LAhFPt~Pal~~~fWL~litWH~G 62 (82)
T TIGR03059 1 APVAAIGFVGWVLPTVLNVPLYGGKSLTGLFASSIGENLAHFPAPPALDDPFWLLLFTWHSG 62 (82)
T ss_pred CCceeEeeEEeeccccccccccCCchHHHHHHHHHHHHHhcCCCCCccCCchHHHHHHHHHH
Confidence 489999999999999 999999999999999999999999999999999999999999973
No 3
>PF07629 DUF1590: Protein of unknown function (DUF1590); InterPro: IPR011481 These hypothetical proteins in Rhodopirellula baltica have a conserved C-terminal region.
Probab=57.58 E-value=3.8 Score=25.73 Aligned_cols=13 Identities=54% Similarity=1.058 Sum_probs=10.6
Q ss_pred cCCCCCCCCCchh
Q 032425 102 AHFPTPPPLTSQF 114 (141)
Q Consensus 102 AhFPtgPal~d~F 114 (141)
|.|||+||....|
T Consensus 16 a~fptppaa~a~f 28 (32)
T PF07629_consen 16 ARFPTPPAARAGF 28 (32)
T ss_pred cccCCChhhhhcc
Confidence 6899999987655
No 4
>PF03244 PSI_PsaH: Photosystem I reaction centre subunit VI; InterPro: IPR004928 Photosystem I, a membrane complex found in the chloroplasts of plants and cyanobacteria uses light energy to transfer electrons from plastocyanin to ferredoxin []. The electron transfer components of the photosystem include the primary electron donor chlorophyll P-700 and 5 electron acceptors: chlorophyll (A0), phylloquinone (A1) and three 4Fe-4S iron-sulphur centres, designated Fx, Fa and Fb. The role of this protein, subunit VI or PsaH, may be in docking of the light harvesting complex I antenna to the core complex.; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009538 photosystem I reaction center; PDB: 2WSF_H 2WSE_H 2WSC_H 2O01_H.
Probab=53.67 E-value=4.3 Score=32.37 Aligned_cols=18 Identities=39% Similarity=0.510 Sum_probs=0.0
Q ss_pred ccCCcceeccccCCCCCC
Q 032425 6 FASSSPVVGLGSSSLSSP 23 (141)
Q Consensus 6 ~a~~stV~Glg~ssls~~ 23 (141)
..+.++|-||++||++-.
T Consensus 5 ~~~~~~~~gla~ss~~g~ 22 (140)
T PF03244_consen 5 VQPTAAVKGLAGSSLSGT 22 (140)
T ss_dssp ------------------
T ss_pred eecccccccccccccccc
Confidence 344457999999999953
No 5
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional
Probab=38.44 E-value=11 Score=32.03 Aligned_cols=24 Identities=50% Similarity=0.558 Sum_probs=16.1
Q ss_pred ccccccCCcceeccccCCCCCCCcc
Q 032425 2 AAAAFASSSPVVGLGSSSLSSPKRT 26 (141)
Q Consensus 2 ~aat~a~~stV~Glg~ssls~~~~~ 26 (141)
||.++ +++..+||+++.++-.||.
T Consensus 1 ma~s~-s~a~~~~~~ssf~~g~~~~ 24 (255)
T PLN00170 1 SAAAT-SGAVLNGLGSSFLTGGKRS 24 (255)
T ss_pred Cchhh-hHHHHhhccCcccccchhh
Confidence 34444 3456899999999865544
No 6
>PF15017 AF1Q: Drug resistance and apoptosis regulator
Probab=34.70 E-value=12 Score=27.35 Aligned_cols=12 Identities=50% Similarity=1.043 Sum_probs=9.8
Q ss_pred eeccccCCCccc
Q 032425 73 IGWLAPSSIPAI 84 (141)
Q Consensus 73 iGW~aPSsipa~ 84 (141)
=||+-||||.-|
T Consensus 73 gGWITPsNIkqi 84 (87)
T PF15017_consen 73 GGWITPSNIKQI 84 (87)
T ss_pred Cccccchhhhhh
Confidence 499999999744
No 7
>smart00682 G2F G2 nidogen domain and fibulin.
Probab=28.43 E-value=20 Score=29.99 Aligned_cols=43 Identities=33% Similarity=0.315 Sum_probs=31.5
Q ss_pred cceeeeeeeeccccCCCc-ccCCCchhhhhHhhhhhhhcCCCCCCC
Q 032425 65 LNVIGFGLIGWLAPSSIP-AINGKSLTGLFFESIGTELAHFPTPPP 109 (141)
Q Consensus 65 ~~V~~~gliGW~aPSsip-a~~g~SL~glF~~SIG~eLAhFPtgPa 109 (141)
+.+..+|.|||+-=-.++ +.||-+|||-=|....+ -+||++--
T Consensus 58 ~l~~ig~~igWlFA~e~~~a~NGf~lTGG~F~~~s~--v~F~~ge~ 101 (227)
T smart00682 58 PLVPIGGTIGWLFAKEQGGAVNGFQLTGGVFTRETE--VTFAGGEI 101 (227)
T ss_pred hhhhhccceeeeEEeccCCccccEEecCeEEEEEEE--EEECCCCE
Confidence 356678899999777774 78999999987766543 35666643
No 8
>KOG1321 consensus Protoheme ferro-lyase (ferrochelatase) [Coenzyme transport and metabolism]
Probab=27.48 E-value=36 Score=31.05 Aligned_cols=23 Identities=39% Similarity=0.637 Sum_probs=20.4
Q ss_pred CCCchhhhhHhhhhhhhcCCCCC
Q 032425 85 NGKSLTGLFFESIGTELAHFPTP 107 (141)
Q Consensus 85 ~g~SL~glF~~SIG~eLAhFPtg 107 (141)
-...|-..|++.|-+||++||.+
T Consensus 201 t~~glIkafA~~I~keL~~F~~~ 223 (395)
T KOG1321|consen 201 TREGLIKAFAENIEKELQTFPEP 223 (395)
T ss_pred ccchHHHHHHHHHHHHHHhcCCc
Confidence 45668899999999999999987
No 9
>PF02028 BCCT: BCCT family transporter; InterPro: IPR000060 These prokaryotic transport proteins belong to a family known as BCCT (for Betaine / Carnitine / Choline Transporters) and are specific for compounds containing a quaternary nitrogen atom. The BCCT proteins contain 12 transmembrane regions and are energized by proton symport. They contain a conserved region with four tryptophans in their central region [].; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2WSX_B 3HFX_A 2WSW_A 4DOJ_B 2WIT_C 4AIN_A 3P03_B.
Probab=21.44 E-value=52 Score=29.67 Aligned_cols=36 Identities=33% Similarity=0.493 Sum_probs=27.5
Q ss_pred CchhhhhHhhhhhhhcCCC-----CCCCCCch---------hHHHHHhhh
Q 032425 87 KSLTGLFFESIGTELAHFP-----TPPPLTSQ---------FWSVVVGYM 122 (141)
Q Consensus 87 ~SL~glF~~SIG~eLAhFP-----tgPal~d~---------FWL~lvtWH 122 (141)
.-+...|.+|+|+-+.||| +.|--++. ||.|-+.|-
T Consensus 267 ~fil~~~~~s~G~yl~~f~~~s~~t~~~~~~~~w~~~WTvFYwaWWiawa 316 (485)
T PF02028_consen 267 VFILNLFTESIGDYLQNFFRMSLWTDPFGNSGQWPQDWTVFYWAWWIAWA 316 (485)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT--TTTTTTTHHHHHTHHHHHHHHHHTH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccccCcccccCCCHHHHHHHHHHHH
Confidence 4467789999999999987 67766666 677777773
No 10
>PF07474 G2F: G2F domain; InterPro: IPR006605 Basement membranes are sheet-like extracellular matrices found at the basal surfaces of epithelia and condensed mesenchyma. By preventing cell mixing and providing a cell-adhesive substrate, they play crucial roles in tissue development and function. Basement menbranes are composed of an evolutionarily ancient set of large glycoproteins, which includes members of the laminin family, collagen IV, perlecan and nidogen/entactin. Nidogen/entactin is an important basement membrane component, which promotes cell attachment, neutrophil chemotaxis, trophoblast outgrowth, and angiogenesis. It consists of three globular regions, G1-G3. G1 and G2 are connected by a thread-like structure, whereas that between G2 and G3 is rod-like [, ]. The nidogen G2 region binds to collagen IV and perlecan. The nidogen G2 structure is composed of two domains, an N-terminal EGF-like domain and a much larger beta-barrel domain of ~230 residues. The nidogen G2 beta-barrel consists of an 11-stranded beta-barrel of complex topology, the interior of which is traversed by the hydrophobic, predominantly alpha helical segment connecting strands C and D. The N-terminal half of the barrel comprises two beta-meanders (strands A-C and D-F) linked by the buried alpha-helical segment. The polypeptide chain then crosses the bottom of the barrel and forms a five-stranded Greek key motif in the C- terminal half of the domain. Helix alpha3 caps the top of the barrel and forms the interface to the EGF-like domain. The nidogen G2 beta-barrel domain has unexpected structural similarity to green fluorescent protein, suggesting that they derive from a common ancestor. A large surface patch on the barrel surface is strikingly conserved in all metazoan nidogens. Site-directed mutagenesis demonstrates that the conserved residues in the conserved patch are involved in the binding of perlecan, and possibly also of collagen IV [].; PDB: 1GL4_A 1H4U_A.
Probab=18.41 E-value=12 Score=30.35 Aligned_cols=31 Identities=45% Similarity=0.390 Sum_probs=19.2
Q ss_pred cceeeeeeeeccccCCCc-ccCCCchhhhhHh
Q 032425 65 LNVIGFGLIGWLAPSSIP-AINGKSLTGLFFE 95 (141)
Q Consensus 65 ~~V~~~gliGW~aPSsip-a~~g~SL~glF~~ 95 (141)
+.+...+.|||+-=-.+| +.||-||||-=|.
T Consensus 58 ~L~~ig~~igWlfA~e~~~a~NGfslTGG~F~ 89 (192)
T PF07474_consen 58 PLVPIGGPIGWLFAKEQGGAQNGFSLTGGEFN 89 (192)
T ss_dssp T-THHHHHHHHHT-EE-TT---HHHHHTTEEE
T ss_pred HHHHhhhheeeeEEeccCCccCceeeeccEEE
Confidence 345678999999666665 8899999986443
Done!