Query psy5271
Match_columns 113
No_of_seqs 134 out of 1035
Neff 5.8
Searched_HMMs 46136
Date Fri Aug 16 22:06:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5271.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5271hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0377 NuoB NADH:ubiquinone o 100.0 4.7E-37 1E-41 230.0 8.5 109 3-111 54-170 (194)
2 KOG1687|consensus 100.0 8E-37 1.7E-41 221.0 6.2 110 4-113 51-168 (168)
3 PRK14818 NADH dehydrogenase su 100.0 5E-36 1.1E-40 222.8 9.9 102 4-105 50-159 (173)
4 PRK14816 NADH dehydrogenase su 100.0 2.4E-35 5.2E-40 220.9 9.5 102 4-105 60-170 (182)
5 TIGR01957 nuoB_fam NADH-quinon 100.0 2.9E-35 6.2E-40 214.1 8.9 101 4-104 36-145 (145)
6 PRK06411 NADH dehydrogenase su 100.0 7.7E-35 1.7E-39 218.6 9.4 104 4-107 54-165 (183)
7 COG3260 Ni,Fe-hydrogenase III 100.0 7.7E-35 1.7E-39 209.9 7.8 101 3-103 28-136 (148)
8 PRK14817 NADH dehydrogenase su 100.0 2.5E-34 5.3E-39 215.3 10.2 103 4-107 54-165 (181)
9 CHL00023 ndhK NADH dehydrogena 100.0 2.3E-34 5E-39 221.0 10.0 104 4-107 51-163 (225)
10 PRK14813 NADH dehydrogenase su 100.0 2.3E-34 5.1E-39 216.5 9.7 106 4-109 47-161 (189)
11 PRK14815 NADH dehydrogenase su 100.0 5.3E-34 1.2E-38 213.7 9.6 104 4-108 52-164 (183)
12 PRK14820 NADH dehydrogenase su 100.0 2.2E-33 4.7E-38 210.2 9.6 103 3-106 51-162 (180)
13 PRK14814 NADH dehydrogenase su 100.0 1.9E-33 4.2E-38 211.3 8.9 103 4-107 52-163 (186)
14 PRK14819 NADH dehydrogenase su 100.0 4.8E-33 1E-37 217.2 8.6 109 4-112 50-168 (264)
15 PRK13292 trifunctional NADH de 100.0 1.1E-29 2.3E-34 222.6 9.7 103 4-107 41-152 (788)
16 PF01058 Oxidored_q6: NADH ubi 99.9 9.8E-27 2.1E-31 165.5 2.6 75 23-97 50-131 (131)
17 TIGR03294 FrhG coenzyme F420 h 99.9 8.2E-26 1.8E-30 174.0 6.3 80 23-102 55-145 (228)
18 COG1941 FrhG Coenzyme F420-red 99.9 8.2E-24 1.8E-28 164.2 5.0 81 23-103 56-156 (247)
19 PRK10468 hydrogenase 2 small s 99.9 4.7E-22 1E-26 162.4 7.3 90 23-112 116-225 (371)
20 TIGR00391 hydA hydrogenase (Ni 99.9 1.1E-21 2.4E-26 160.1 7.4 90 23-112 118-227 (365)
21 COG1740 HyaA Ni,Fe-hydrogenase 99.8 9.5E-20 2.1E-24 147.0 7.7 90 23-112 116-225 (355)
22 cd00886 MogA_MoaB MogA_MoaB fa 59.2 23 0.0005 25.2 4.6 25 78-102 125-149 (152)
23 KOG1111|consensus 55.2 14 0.0003 31.4 3.2 37 66-103 302-338 (426)
24 cd00069 GHB Glycoprotein hormo 54.0 5 0.00011 27.8 0.3 13 76-88 57-69 (102)
25 PRK09271 flavodoxin; Provision 52.9 25 0.00054 25.1 3.9 91 20-112 59-157 (160)
26 smart00068 GHB Glycoprotein ho 47.5 10 0.00022 26.5 1.0 13 76-88 61-73 (107)
27 PF05655 AvrD: Pseudomonas avi 45.0 11 0.00024 30.8 1.1 26 88-113 227-252 (311)
28 COG0549 ArcC Carbamate kinase 44.4 27 0.00058 28.7 3.2 40 34-77 174-214 (312)
29 PF05025 RbsD_FucU: RbsD / Fuc 43.1 22 0.00048 25.5 2.3 26 34-59 109-134 (142)
30 cd03026 AhpF_NTD_C TRX-GRX-lik 37.7 57 0.0012 21.1 3.5 20 70-89 10-30 (89)
31 PRK15420 fucU L-fucose mutarot 37.4 26 0.00056 25.3 1.9 27 33-59 106-132 (140)
32 PF11029 DAZAP2: DAZ associate 37.3 24 0.00053 25.6 1.8 13 80-92 98-110 (137)
33 PRK11797 D-ribose pyranase; Pr 33.3 32 0.00069 24.8 1.8 27 33-59 105-131 (139)
34 TIGR00177 molyb_syn molybdenum 32.9 1.1E+02 0.0023 21.4 4.5 29 24-52 45-75 (144)
35 PF02495 7kD_coat: 7kD viral c 31.8 37 0.00081 20.7 1.7 13 78-90 36-48 (59)
36 PF12403 Pax2_C: Paired-box pr 30.4 23 0.0005 25.1 0.7 10 78-87 35-44 (115)
37 PF10941 DUF2620: Protein of u 27.5 27 0.00059 24.8 0.6 42 49-95 48-92 (117)
38 PF04718 ATP-synt_G: Mitochond 25.6 59 0.0013 22.1 2.0 20 83-102 31-50 (103)
39 smart00459 Sorb Sorbin homolog 24.3 14 0.00031 22.5 -1.1 10 104-113 25-34 (50)
40 PRK08366 vorA 2-ketoisovalerat 24.0 1.3E+02 0.0028 25.1 4.1 77 35-111 302-386 (390)
41 COG0813 DeoD Purine-nucleoside 22.8 96 0.0021 24.6 2.9 34 71-105 11-44 (236)
42 PF07723 LRR_2: Leucine Rich R 21.1 38 0.00082 17.4 0.3 7 78-84 20-26 (26)
No 1
>COG0377 NuoB NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]
Probab=100.00 E-value=4.7e-37 Score=230.03 Aligned_cols=109 Identities=48% Similarity=0.793 Sum_probs=99.7
Q ss_pred eecCcccchhhcCCcc-CCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 3 FIYRPFTASLQLTNFL-TPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 3 ~~~~p~~d~~r~~~~~-~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
-++.+.||.+|+|... +||| ||+|++++| .++ +++|+||++||+|||+|+||.+||+|..+|+++.++|.+|
T Consensus 54 ~~~~~r~D~~RfG~~~r~SPRQaDvmIvaGt~t~Kmap~lr~~YdQMPePK~VIsMGsCa~~GG~f~~sYsvV~g~D~~v 133 (194)
T COG0377 54 ATFASRYDLERFGEVPRASPRQADLMIVAGTLTNKMAPALRRVYDQMPEPKWVISMGSCANSGGMYWNSYSVVQGVDRVV 133 (194)
T ss_pred hhccccccHHHhCcCCCCCcccccEEEEeccchHHHHHHHHHHHHhCCCCcEEEEecccccCCCcccccceeeeccceeE
Confidence 3578899999999655 6899 999999999 787 9999999999999999999999999999999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcccccccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKILQSWY 111 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~~~~~ 111 (113)
|||+|||||||+||+++++|++|++||+++.....|+
T Consensus 134 PVDvyIPGCPPrPEAl~~gi~~Lq~KI~~~~~~~~~~ 170 (194)
T COG0377 134 PVDVYIPGCPPRPEALLYGILLLQEKIRREGRPLRDK 170 (194)
T ss_pred eeeeecCCCCCCHHHHHHHHHHHHHHHHhccCccccc
Confidence 9999999999999999999999999999855444333
No 2
>KOG1687|consensus
Probab=100.00 E-value=8e-37 Score=220.97 Aligned_cols=110 Identities=67% Similarity=1.145 Sum_probs=105.9
Q ss_pred ecCcccchhhcCCcc-CCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCcccc
Q psy5271 4 IYRPFTASLQLTNFL-TPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIP 75 (113)
Q Consensus 4 ~~~p~~d~~r~~~~~-~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v~ 75 (113)
+..|.||..|||.++ +||| ||.|++|++ .|+ +++|+||++||+||++|+||..||.+..+|++++++|.+||
T Consensus 51 ~~a~RyD~DRyGvvfRaSPRQaD~iivAGTlTnKMAPalrkvYdQMPEpr~VisMGsCangGGyyhysYSvvRGcDriiP 130 (168)
T KOG1687|consen 51 LAAPRYDMDRYGVVFRASPRQADLIIVAGTLTNKMAPALRKVYDQMPEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIP 130 (168)
T ss_pred hccccccccccceeecCCCccccEEEEeccchhhhcHHHHHHHhhCCCCeeEEEecccccCCceEEEEehhhccccceee
Confidence 568999999999876 6899 999999999 888 99999999999999999999999999999999999999999
Q ss_pred cceEecCCCCCHHHHHHHHHHHHHHHHhcccccccccC
Q psy5271 76 VDIYVPGCPPTAEALMYGILQLQKKVKRMKILQSWYRR 113 (113)
Q Consensus 76 vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~~~~~~~ 113 (113)
||+|||||||++|+++++|++|++||++....|.|||+
T Consensus 131 VDiYvPGCPPtaEAllygilqLqkKi~R~r~~q~wyr~ 168 (168)
T KOG1687|consen 131 VDIYVPGCPPTAEALLYGILQLQKKIKRIRPLQFWYRK 168 (168)
T ss_pred eeeecCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhcC
Confidence 99999999999999999999999999999999999996
No 3
>PRK14818 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=5e-36 Score=222.79 Aligned_cols=102 Identities=44% Similarity=0.780 Sum_probs=96.2
Q ss_pred ecCcccchhhcCCc-cCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCcccc
Q psy5271 4 IYRPFTASLQLTNF-LTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIP 75 (113)
Q Consensus 4 ~~~p~~d~~r~~~~-~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v~ 75 (113)
+.+|.||.+|+|.. ++||| +|||++|.+ .+. +++|++|++||+|||+|+||++||+|+++|+...++++++|
T Consensus 50 ~~~p~yD~eRfGi~~~aSPRhADvLlVtG~vT~km~~~l~~~yeqmPePK~VIA~G~CA~sGGif~~sY~~~~gvd~vIp 129 (173)
T PRK14818 50 TGGPRADVMRFGAIPRASPRQADFMIVAGTLTYKMAERARLLYDQMPEPKYVISMGSCSNCGGLFQLGYSVCKGVDKVIP 129 (173)
T ss_pred hcCCccCHHHcCCeecCCcccccEEEEeCcCccccHHHHHHHHHhCCCCCEEEEeccccccCCcccCCcccccCCCCccC
Confidence 57899999999975 56999 999999999 665 99999999999999999999999999999999999999999
Q ss_pred cceEecCCCCCHHHHHHHHHHHHHHHHhcc
Q psy5271 76 VDIYVPGCPPTAEALMYGILQLQKKVKRMK 105 (113)
Q Consensus 76 vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~ 105 (113)
||++||||||+||+|+++|++|++++++++
T Consensus 130 VDvyIPGCPP~PeaIl~gil~L~~~i~~~~ 159 (173)
T PRK14818 130 VDVYVPGCPPRPEALTEGLLRLQEIVRSEP 159 (173)
T ss_pred CcEEccCCCCCHHHHHHHHHHHHHHHhccc
Confidence 999999999999999999999999998764
No 4
>PRK14816 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=2.4e-35 Score=220.88 Aligned_cols=102 Identities=40% Similarity=0.734 Sum_probs=95.9
Q ss_pred ecCcccchhhcCC-cc-CCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTN-FL-TPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~-~~-~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|. ++ +||| +|||++|++ .+. ++++++|++||+|||+|+||++||+|+++|+.+.++++++
T Consensus 60 ~~~p~yD~eRfGi~~~~~sPRhADvllVtG~VT~~m~~~l~~~~e~~p~pK~VIAvGsCA~~GGif~~sy~~~~gvd~vI 139 (182)
T PRK14816 60 LGAARYDMARFGFEVARASPRQADMIMVCGTITNKMAPVLKRLYDQMADPKYVIAVGGCAVSGGPFKKSYHVLNGVDKIL 139 (182)
T ss_pred hcCccccHHHhCccccCCCCCcceEEEEecCCcchhHHHHHHHHHhcCCCCEEEEeccccccCCccccCCccCCCccccc
Confidence 5789999999996 55 7999 999999999 555 9999999999999999999999999999999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMK 105 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~ 105 (113)
|||++||||||+||+|+++|++|++++++++
T Consensus 140 pVDv~IPGCPP~Pe~Il~~l~~L~~ki~~~~ 170 (182)
T PRK14816 140 PVDVYIPGCPPRPEAFYYGMMQLQRKVKIEK 170 (182)
T ss_pred cccEEeeCcCCCHHHHHHHHHHHHHHhcccc
Confidence 9999999999999999999999999998764
No 5
>TIGR01957 nuoB_fam NADH-quinone oxidoreductase, B subunit. This model describes the B chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. The quinone is plastoquinone in Synechocystis (where the chain is designated K) and in chloroplast, where NADH may be replaced by NADPH. In the methanogenic archaeal genus Methanosarcina, NADH is replaced by F420H2.
Probab=100.00 E-value=2.9e-35 Score=214.10 Aligned_cols=101 Identities=52% Similarity=0.919 Sum_probs=94.2
Q ss_pred ecCcccchhhcC-C-ccCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLT-N-FLTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~-~-~~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+| . +++||| +|||++|++ .+. +++|++|++||+|||+|+||++||+|+++|+.+.++++++
T Consensus 36 ~~~~~~D~erfG~i~~~~sPr~aDvllVtG~vt~~~~~~l~~~~e~~p~pk~VIA~GsCA~~GGi~~~~y~~~~~v~~~i 115 (145)
T TIGR01957 36 TGASRYDLDRFGSEVFRASPRQADVMIVAGTVTKKMAPALRRLYDQMPEPKWVISMGACANSGGMFHTSYSVVQGVDRIV 115 (145)
T ss_pred ccCccccHHHhCCceecCCCCcceEEEEecCCcHHHHHHHHHHHHhccCCceEEEecceeecCCCccCCCccccCccccc
Confidence 568999999999 4 457999 999999999 554 9999999999999999999999999999999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRM 104 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~ 104 (113)
|||++||||||+||+|+++|++|+++++++
T Consensus 116 pVDi~IPGCPp~Pe~i~~~l~~l~~~~~~~ 145 (145)
T TIGR01957 116 PVDVYIPGCPPRPEALIYGLIKLQKKIKRE 145 (145)
T ss_pred ccceEeCCCCCCHHHHHHHHHHHHHHhhcC
Confidence 999999999999999999999999999864
No 6
>PRK06411 NADH dehydrogenase subunit B; Validated
Probab=100.00 E-value=7.7e-35 Score=218.57 Aligned_cols=104 Identities=54% Similarity=0.890 Sum_probs=97.0
Q ss_pred ecCcccchhhcCCc-cCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCcccc
Q psy5271 4 IYRPFTASLQLTNF-LTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIP 75 (113)
Q Consensus 4 ~~~p~~d~~r~~~~-~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v~ 75 (113)
..+|.||.+|+|.. .+||| +|||++|++ .+. ++++++|++||+|||+|+||++||+|+++|+.+.++++++|
T Consensus 54 ~~~~~yDieRfGi~~~~sPr~aDvllV~G~vt~~~~~~l~~~~e~mp~pk~VIA~GaCA~~GGif~~sy~~~~gv~~~ip 133 (183)
T PRK06411 54 AGTSRYDLDRFGMVFRASPRQADLMIVAGTLTNKMAPALRRLYDQMPEPKWVISMGSCANSGGMYHYSYSVVQGVDRIVP 133 (183)
T ss_pred ccCccccHHHhCccccCCCCceeEEEEEeCCCccchHHHHHHHHHcCcCCeEEEEecccccCCcccCCCccccCcccccc
Confidence 56899999999975 46899 999999999 555 99999999999999999999999999999999999999999
Q ss_pred cceEecCCCCCHHHHHHHHHHHHHHHHhcccc
Q psy5271 76 VDIYVPGCPPTAEALMYGILQLQKKVKRMKIL 107 (113)
Q Consensus 76 vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~ 107 (113)
||++||||||+||+|+++|++|+++|+++...
T Consensus 134 VDv~IPGCPP~Pe~il~~l~~l~~~i~~~~~~ 165 (183)
T PRK06411 134 VDVYVPGCPPRPEALLYGILKLQKKIRQSERE 165 (183)
T ss_pred cceEeCCCCCCHHHHHHHHHHHHHHHhccccc
Confidence 99999999999999999999999999976655
No 7
>COG3260 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]
Probab=100.00 E-value=7.7e-35 Score=209.87 Aligned_cols=101 Identities=33% Similarity=0.598 Sum_probs=95.0
Q ss_pred eecCcccchhhcCCcc-CCCe-----EEeecCCCC--chHHHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 3 FIYRPFTASLQLTNFL-TPPR-----IEPGSTTCK--ASAVTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 3 ~~~~p~~d~~r~~~~~-~sP~-----iVeG~v~~~--~~~~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
-+.+|.||.|||+.++ .||| +|||.+|.+ ++++++||++|+||+|||+|+||++||||.++|....|+|+++
T Consensus 28 a~~sP~YDaErfgI~~v~sPRhADiLlVTG~vT~~~~e~lkk~Yea~PePKiViA~GaCa~~GGIf~~~~~v~gpvd~vi 107 (148)
T COG3260 28 AALSPRYDAERFGIKVVNSPRHADILLVTGAVTRQMREPLKKAYEAMPEPKIVIAVGACALSGGIFKDSYSVWGPVDKVI 107 (148)
T ss_pred eccCcccchHHheeEEeCCCccccEEEEeccccHHHHHHHHHHHHhCCCCcEEEEEcccccCCceeccccccccccccee
Confidence 4689999999999876 5899 999999999 5559999999999999999999999999999999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHh
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKR 103 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~ 103 (113)
|||++||||||+|++|+++|.+++.+..+
T Consensus 108 PVDv~IPGCPP~P~~il~g~~~al~~~~k 136 (148)
T COG3260 108 PVDVEIPGCPPRPEAILAGLVAALGKLEK 136 (148)
T ss_pred EeeeEcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999888765
No 8
>PRK14817 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=2.5e-34 Score=215.29 Aligned_cols=103 Identities=40% Similarity=0.791 Sum_probs=95.2
Q ss_pred ecCcccchhhcCC-cc-CCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTN-FL-TPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~-~~-~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|. ++ .||| +|||++|++ .+. +++|++|++||+|||+|+||++||++ ++|+...++++++
T Consensus 54 ~~~~~yDleRfGi~~~~~sPR~ADillVeG~VT~~m~~~l~~~~e~~p~pK~VIAvGaCA~~GGi~-~~y~~~~gv~~vv 132 (181)
T PRK14817 54 MASARYDSDRFGAAMPRFSPRQADLLMVVGTVNCKQAPILQRVYEQMADPKWVMAFGVCASSGGFY-DNYATVQGIDRII 132 (181)
T ss_pred hcCccccHHHhceeeccCCCcceeEEEEEecCCccchHHHHHHHHHcccCCEEEEeccccccCCcC-CCcccccCccccc
Confidence 5789999999997 44 6999 999999999 555 99999999999999999999999988 7899999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKIL 107 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~ 107 (113)
|||++||||||+||+|+++|++|++++++++..
T Consensus 133 pVDv~IPGCPP~Pe~il~~l~~l~~ki~~~~~~ 165 (181)
T PRK14817 133 PVDVYVPGCPPRPEQVLDGIMLLQKKIQNQSHK 165 (181)
T ss_pred eeeEEecCCCCCHHHHHHHHHHHHHHhhcCCcc
Confidence 999999999999999999999999999876543
No 9
>CHL00023 ndhK NADH dehydrogenase subunit K
Probab=100.00 E-value=2.3e-34 Score=221.02 Aligned_cols=104 Identities=39% Similarity=0.689 Sum_probs=96.3
Q ss_pred ecCcccchhhcCCc-cCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCC-CCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTNF-LTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYH-YSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~~-~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~-~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|.+ ++||| ||||++|.+ .+. +++|++|++||+|||+|+||++||+|+ ++|+.+.|++++|
T Consensus 51 ~~~p~yDleRfGi~~~aSPRhADvliVtG~VT~km~~~L~rlyeqmPePK~VIA~GaCA~sGGif~~dsy~~v~gvd~vI 130 (225)
T CHL00023 51 LIGSRFDFDRYGLVPRSSPRQADLILTAGTVTMKMAPSLVRLYEQMPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLI 130 (225)
T ss_pred hCCCccCHHHcCCeecCCcccceEEEEecCCccccHHHHHHHHHhcCCCCeEEEEccccccCCcccCCCcccccCccccc
Confidence 57899999999975 46999 999999999 555 999999999999999999999999997 8999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKIL 107 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~ 107 (113)
|||++||||||+||+|+++|++|+++++++...
T Consensus 131 PVDv~IPGCPP~PeaIi~~l~~L~~ki~~~~~~ 163 (225)
T CHL00023 131 PVDVYLPGCPPKPEAVIDAITKLRKKISREIYE 163 (225)
T ss_pred eeeEEecCCCCCHHHHHHHHHHHHHHHhccccc
Confidence 999999999999999999999999999876443
No 10
>PRK14813 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=2.3e-34 Score=216.53 Aligned_cols=106 Identities=44% Similarity=0.736 Sum_probs=96.5
Q ss_pred ecCcccchhhcCCc-cCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCC-CCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTNF-LTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYH-YSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~~-~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~-~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|.. ++||| +|+|++|++ .+. +++|++|++||+|||+|+||++||++. ++|+.+.+++++|
T Consensus 47 ~~~p~yD~eRfGi~~~asPR~ADvllVtG~Vt~km~~~l~~~y~qmPePK~VIA~GaCA~sGG~~~~~sY~~~~gvd~vI 126 (189)
T PRK14813 47 TNASNYDLERFGIFPRSSPRQSDLMIVAGTVTMKMAERVVRLYEQMPEPRYVLSMGSCSNCGGPYWEHGYHVLKGVDRII 126 (189)
T ss_pred hcccCCCHHHcCCeecCCcccceEEEEeccCchhhHHHHHHHHHhCCCCCEEEEecccccCCCCcccCCcccccCCCCcc
Confidence 57899999999975 47999 999999999 555 999999999999999999999988886 5999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcccccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKILQS 109 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~~~ 109 (113)
|||++||||||+||+|+++|++|+++|++++....
T Consensus 127 pVDv~IPGCPP~PeaIl~gl~~l~~~i~~~~~~~~ 161 (189)
T PRK14813 127 PVDVYVPGCPPRPEALIGGLMKVQELIRMEQIGIS 161 (189)
T ss_pred CCcEEccCCCCCHHHHHHHHHHHHHHHHhcccccc
Confidence 99999999999999999999999999998765433
No 11
>PRK14815 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=5.3e-34 Score=213.69 Aligned_cols=104 Identities=41% Similarity=0.776 Sum_probs=95.3
Q ss_pred ecCcccchhhcCC-cc-CCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTN-FL-TPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~-~~-~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|. ++ +||| +|||++|++ .+. +++|++|++||+|||+|+||++||+|+ +|+...++++++
T Consensus 52 ~~~~~yDieRfGi~~~~~SPR~ADillVtG~VT~~m~~~l~r~ye~~p~pK~VIAvGsCA~~GGi~~-sy~~~~gv~~~i 130 (183)
T PRK14815 52 VACSRFDISRFGAEVMRFSPRQADVMIVAGTVTYKMALAVRRIYDQMPEPKWVIAMGACASSGGMYR-SYSVLQGVDRIL 130 (183)
T ss_pred hcCccccHHHhCcccCCCCCccccEEEEeCcCchhhHHHHHHHHHhCCCCCEEEEeccccccCCCcc-ccccccCccccc
Confidence 5789999999995 54 6999 999999999 444 999999999999999999999999995 899999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhccccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKILQ 108 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~~ 108 (113)
|||++||||||+||+|+++|++|++++++++..+
T Consensus 131 pVDv~IPGCPP~Pe~il~~l~~l~~~i~~~~~~~ 164 (183)
T PRK14815 131 PVDVYISGCPPRPEAILDALIKLQKKIDTERAAR 164 (183)
T ss_pred cccEEecCCCCCHHHHHHHHHHHHHHHhhccccc
Confidence 9999999999999999999999999999865443
No 12
>PRK14820 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=2.2e-33 Score=210.19 Aligned_cols=103 Identities=38% Similarity=0.724 Sum_probs=94.8
Q ss_pred eecCcccchhhcCC--ccCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCcc
Q psy5271 3 FIYRPFTASLQLTN--FLTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRI 73 (113)
Q Consensus 3 ~~~~p~~d~~r~~~--~~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~ 73 (113)
-+.+|.||.+|+|. +++||| +|||++|++ .+. +++|+++++||+|||+|+||++||+| ++|+.+.+++++
T Consensus 51 a~~~~~yDi~RfGi~~~~~sPR~aDillVeG~VT~~m~~~l~~~~e~~p~pk~VIAvGaCA~~GGi~-~~y~~~~~v~~~ 129 (180)
T PRK14820 51 ATMASHYDLARFGSERPSFSPRQADMLMVMGTIAKKMAPVLKQVYLQMAEPRWVVAVGACASSGGIF-DTYSVLQGIDRI 129 (180)
T ss_pred HhcCccccHHHhCccccCCCCccceEEEEEecCCcccHHHHHHHHHhcCCCCeEEEEecccccCCcc-cccccccccccc
Confidence 35789999999997 357999 999999999 666 99999999999999999999999999 589999999999
Q ss_pred cccceEecCCCCCHHHHHHHHHHHHHHHHhccc
Q psy5271 74 IPVDIYVPGCPPTAEALMYGILQLQKKVKRMKI 106 (113)
Q Consensus 74 v~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~ 106 (113)
+|||++||||||+||+|+++|++|++++++++-
T Consensus 130 ipVDv~IPGCPP~Pe~il~~l~~l~~~i~~~~~ 162 (180)
T PRK14820 130 IPVDVYVPGCPPRPEQIIDGVMRVQELVKNESL 162 (180)
T ss_pred ccccEEecCCCCCHHHHHHHHHHHHHHHhhccc
Confidence 999999999999999999999999999987643
No 13
>PRK14814 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=1.9e-33 Score=211.29 Aligned_cols=103 Identities=39% Similarity=0.702 Sum_probs=94.6
Q ss_pred ecCcccchhhcCC--ccCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTN--FLTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~--~~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|. +++||| ||||+||++ .+. +++|++|++||+|||+|+||++||+|+ +|+...++++++
T Consensus 52 ~~~~~yD~eRfGi~~~~~sPR~ADvllVtG~VT~~m~~~l~~~yeqmp~pk~VIAvGsCA~~GGi~~-~y~~~~gv~~vv 130 (186)
T PRK14814 52 TACSDYDIARFGAERPSFSPRQADMILVLGTITYKMAPVLRQIYDQMAEPKFVISVGACASSGGMFH-TYGVLQGVDRIL 130 (186)
T ss_pred hcCccccHHHhCccccCCCcccceEEEEeccCchhhHHHHHHHHHhcCCCCeEEEeccccccCCccC-cCCCCcCccccc
Confidence 5679999999997 367999 999999999 555 999999999999999999999999996 688899999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKIL 107 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~ 107 (113)
|||++||||||+||+|+++|++|+++++++...
T Consensus 131 pVDv~IPGCPP~Pe~il~~l~~L~~~i~~~~~~ 163 (186)
T PRK14814 131 PVDVYVPGCPPRPEAILDALVKLQTKLKTQGLE 163 (186)
T ss_pred cccEEecCCCCCHHHHHHHHHHHHHHHhccccc
Confidence 999999999999999999999999999876543
No 14
>PRK14819 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=4.8e-33 Score=217.22 Aligned_cols=109 Identities=41% Similarity=0.728 Sum_probs=98.2
Q ss_pred ecCcccchhhcCC--ccCCCe-----EEeecCCCC-c-hHHHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTN--FLTPPR-----IEPGSTTCK-A-SAVTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~--~~~sP~-----iVeG~v~~~-~-~~~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|. +++||| ||||+||++ . .++++|++|++||+|||+|+||++||+|+++|+.+.+++++|
T Consensus 50 ~l~p~yDieRFGi~~~~~sPRhADIlLVtG~VT~km~~~L~rlyeqmP~PK~VIAvGaCA~~GGIf~~sY~v~~gId~vI 129 (264)
T PRK14819 50 TGLSRYDLARFGAELFRASPRQADLMIVAGTVTKKMAPQVVRLYNQMPEPRYVISMGACATSGGPFRDGYNVLRGIDLLI 129 (264)
T ss_pred hccccccHHHhCcccccCCCCcceEEEEecCCchhhHHHHHHHHHhccCCCeEEEEccccccCCccccCCCccCCccccc
Confidence 5689999999997 457999 999999999 4 449999999999999999999999999999999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcc-ccccccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMK-ILQSWYR 112 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~-~~~~~~~ 112 (113)
+||++||||||+|++|+++|++|+++++..+ ..-.||+
T Consensus 130 PVDv~IPGCPP~Pe~Il~gLl~L~~ki~~d~~~Rp~~~~ 168 (264)
T PRK14819 130 PVDVYIPGCPPRPEALLHALMTLQKQIDAQSLGRVRWYG 168 (264)
T ss_pred cccEEecCCCCCHHHHHHHHHHHHhhcccccccCccccc
Confidence 9999999999999999999999999886433 2346775
No 15
>PRK13292 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional
Probab=99.96 E-value=1.1e-29 Score=222.61 Aligned_cols=103 Identities=42% Similarity=0.793 Sum_probs=96.3
Q ss_pred ecCcccchhhcCC--ccCCCe-----EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCccccCCCccc
Q psy5271 4 IYRPFTASLQLTN--FLTPPR-----IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSVVRGCDRII 74 (113)
Q Consensus 4 ~~~p~~d~~r~~~--~~~sP~-----iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~~~~v~~~v 74 (113)
+.+|.||.+|+|. +++||| +|||++|.+ .+. +++|++|++||+|||+|+||++||+| ++|+.+.+++++|
T Consensus 41 ~~~~~~D~~r~G~~~~~~sPr~aD~llv~G~vt~~~~~~l~~~~~~~p~pk~via~G~Ca~~GG~~-~~y~~~~g~~~~i 119 (788)
T PRK13292 41 SFTSRYDISRFGAEVLRGTPREADLMVIAGTVFKKMAPSILRLYEQMAEPKWVISMGSCANSGGMY-DVYSVVQGVNQIL 119 (788)
T ss_pred hcCCcCCHHHcCCCccCCCcccceEEEEecCCcHhhHHHHHHHHHhCCCCCEEEEecccccCCCCc-CccccccCcCCcc
Confidence 5789999999997 358999 999999999 665 99999999999999999999999999 7999999999999
Q ss_pred ccceEecCCCCCHHHHHHHHHHHHHHHHhcccc
Q psy5271 75 PVDIYVPGCPPTAEALMYGILQLQKKVKRMKIL 107 (113)
Q Consensus 75 ~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~~ 107 (113)
|||+|||||||+|++|+++|++|+++++++++.
T Consensus 120 pVDv~iPGCPP~Pe~i~~~i~~l~~~~~~~~~~ 152 (788)
T PRK13292 120 PVDVYIPGCPPRPEAFLQGLMLLQEKIRREERP 152 (788)
T ss_pred cccEEccCCCCCHHHHHHHHHHHHHHhhcCccc
Confidence 999999999999999999999999999977654
No 16
>PF01058 Oxidored_q6: NADH ubiquinone oxidoreductase, 20 Kd subunit; InterPro: IPR006137 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 20 kDa (in mammals) [], which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 4Fe-4S iron-sulphur cluster. The 20 kDa subunit has been found to be nuclear encoded, as a precursor form with a transit peptide in mammals, and in Neurospora crassa. It is and chloroplast encoded in various higher plants (gene ndhK or psbG).; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0048038 quinone binding, 0051539 4 iron, 4 sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 3MYR_E 3RGW_S 2FUG_F 3IAS_6 3I9V_F 3IAM_F 2YBB_6 3M9S_F 2FRV_G 1YQ9_B ....
Probab=99.93 E-value=9.8e-27 Score=165.51 Aligned_cols=75 Identities=33% Similarity=0.510 Sum_probs=61.8
Q ss_pred EEeecCCCC-chH-HHHHHHhcCCCeEEEeeccCCcCCCCCC--CCcc---ccCCCcccccceEecCCCCCHHHHHHHHH
Q psy5271 23 IEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSCANGGGYYHY--SYSV---VRGCDRIIPVDIYVPGCPPTAEALMYGIL 95 (113)
Q Consensus 23 iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~--~~~~---~~~v~~~v~vdi~IpGCPP~Pe~i~~~l~ 95 (113)
+|||+|+++ ++. +.+++++++||+|||+|+||++||+++. .++. +.+++++++||++||||||+||+|+++|.
T Consensus 50 iVeG~v~~~~~~~~e~~~~~~~~a~~vIAvGtCA~~GGi~~~~~~~~~~~~~~~~~~~~~VDi~IpGCPp~pd~i~~~l~ 129 (131)
T PF01058_consen 50 IVEGSVPRNMEEALEWLKELRPKAKAVIAVGTCASFGGIPAARNNPSVGDSVGPLLEVVPVDINIPGCPPHPDWILETLL 129 (131)
T ss_dssp EEESBEETGGEEHHHHHHHHHGCSSEEEEEHHHHHH-TGGGSTTSTTEEE-HHHHHGCS-ECEEE-SSS--HHHHHHHHH
T ss_pred EEEeeccCCchHHHHHHHHHccCCceeEcCCCccccCCcccccccccccccccCcCCCccEEEEeeCCCCCHHHHHHHHh
Confidence 999999888 555 9999999999999999999999999954 3443 45788889999999999999999999999
Q ss_pred HH
Q psy5271 96 QL 97 (113)
Q Consensus 96 ~l 97 (113)
+|
T Consensus 130 ~L 131 (131)
T PF01058_consen 130 AL 131 (131)
T ss_dssp HH
T ss_pred hC
Confidence 86
No 17
>TIGR03294 FrhG coenzyme F420 hydrogenase, subunit gamma. This model represents that clade of F420-dependent hydrogenases (FRH) beta subunits found exclusively and universally in methanogenic archaea. This protein contains two 4Fe-4S cluster binding domains (pfam00037) and scores above the trusted cutoff to model pfam01058 for the "NADH ubiquinone oxidoreductase, 20 Kd subunit" family.
Probab=99.92 E-value=8.2e-26 Score=173.96 Aligned_cols=80 Identities=26% Similarity=0.457 Sum_probs=70.8
Q ss_pred EEeecCCCC-c-hHHHHHHHhcCCCeEEEeeccCCcCCCCCCCCc---------cccCCCcccccceEecCCCCCHHHHH
Q psy5271 23 IEPGSTTCK-A-SAVTTTSWMLEPRWVISMGSCANGGGYYHYSYS---------VVRGCDRIIPVDIYVPGCPPTAEALM 91 (113)
Q Consensus 23 iVeG~v~~~-~-~~~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~---------~~~~v~~~v~vdi~IpGCPP~Pe~i~ 91 (113)
+|||+|+++ . .++.+++++++||+|||+||||++||+++.+++ .+.+++++|+||+|||||||+|++|+
T Consensus 55 ~VeG~i~~~~~~~~~~~~~~~~~ak~vVA~GtCA~~GGi~~~~~~~~~~~~~~~~~~~~~~~V~vdi~IpGCPp~p~~i~ 134 (228)
T TIGR03294 55 LVEGSVCLQDEHSLEEIKELREKAKVVVALGACAATGNFTRYSRGGQQAQPQHESFVPITDVIDVDLAIPGCPPSPEAIR 134 (228)
T ss_pred EEeCCCCCCccHHHHHHHHHhccCCEEEEeecccccCCcccccCCcccCCCCCCCCcCHHHcccCCEEeeCCCCCHHHHH
Confidence 999999987 3 349999999999999999999999999876543 46788999999999999999999999
Q ss_pred HHHHHHHHHHH
Q psy5271 92 YGILQLQKKVK 102 (113)
Q Consensus 92 ~~l~~l~~~i~ 102 (113)
++|.+|+.+-.
T Consensus 135 ~~l~~ll~g~~ 145 (228)
T TIGR03294 135 NVCVALLNGDM 145 (228)
T ss_pred HHHHHHHcCCC
Confidence 99999986543
No 18
>COG1941 FrhG Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]
Probab=99.89 E-value=8.2e-24 Score=164.18 Aligned_cols=81 Identities=26% Similarity=0.444 Sum_probs=72.8
Q ss_pred EEeecCCCCchHHHHHHHhcCCCeEEEeeccCCcCCCCCC-----------CC---------ccccCCCcccccceEecC
Q psy5271 23 IEPGSTTCKASAVTTTSWMLEPRWVISMGSCANGGGYYHY-----------SY---------SVVRGCDRIIPVDIYVPG 82 (113)
Q Consensus 23 iVeG~v~~~~~~~~~~~~~~~~k~vIA~GtCA~~GGi~~~-----------~~---------~~~~~v~~~v~vdi~IpG 82 (113)
+|||+|+++++++.+.|+|+++|+|||+||||++||+++- .| ..+.|++++|+||++|||
T Consensus 56 lVEGsV~~ee~lE~v~ElRekakivVA~GsCA~~Ggv~~~~~~s~~e~l~~~y~~~~~~~~~~~v~Pl~evI~VD~~IpG 135 (247)
T COG1941 56 LVEGSVCDEEELELVKELREKAKIVVALGSCAVTGGVQGLRNKSGEELLRPVYGDAKSTFNEESVVPLGEVIDVDYAIPG 135 (247)
T ss_pred EEecccCcHHHHHHHHHHHHhCcEEEEEecchhcCCchhhhhccccccchhhhhcccCCCCccceEEchheeeeeeecCC
Confidence 9999999778889999999999999999999999999842 13 347899999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHHh
Q psy5271 83 CPPTAEALMYGILQLQKKVKR 103 (113)
Q Consensus 83 CPP~Pe~i~~~l~~l~~~i~~ 103 (113)
|||+||.|.++|.+|+++-+.
T Consensus 136 CPP~~e~I~~al~all~ge~p 156 (247)
T COG1941 136 CPPSPEEIARALTALLEGEEP 156 (247)
T ss_pred CCcCHHHHHHHHHHHHcCCCc
Confidence 999999999999999876544
No 19
>PRK10468 hydrogenase 2 small subunit; Provisional
Probab=99.86 E-value=4.7e-22 Score=162.43 Aligned_cols=90 Identities=20% Similarity=0.314 Sum_probs=77.6
Q ss_pred EEeecCCCC----------chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCcc--ccCCCccccc--ceEecCCCCCH
Q psy5271 23 IEPGSTTCK----------ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSV--VRGCDRIIPV--DIYVPGCPPTA 87 (113)
Q Consensus 23 iVeG~v~~~----------~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~--~~~v~~~v~v--di~IpGCPP~P 87 (113)
+|||+|+.+ ++. +.+++++++||+|||+||||++|||++..++. +.+++++++. .||||||||||
T Consensus 116 vVEGaIp~~~~G~y~~~gg~~~~e~l~~~a~~A~aVVAvGtCAs~GGI~aa~pnptga~gv~~~l~~~PVINIPGCPp~P 195 (371)
T PRK10468 116 VVDGSIPLKDNGIYCMVAGEPIVDHIRKAAEGAAAIIAIGSCSAWGGVAAAGVNPTGAVSLQEVLPGKTVINIPGCPPNP 195 (371)
T ss_pred EEeCCCCCCCCcceeeECCchHHHHHHHHhccCCEEEEEecccccCCcccCCCCCCCCccHHHhcCCCCeEEcCCCCCCH
Confidence 899999987 234 88999999999999999999999999987776 5578887743 39999999999
Q ss_pred HHHHHHHHHHH-H----HHHhccccccccc
Q psy5271 88 EALMYGILQLQ-K----KVKRMKILQSWYR 112 (113)
Q Consensus 88 e~i~~~l~~l~-~----~i~~~~~~~~~~~ 112 (113)
|+|+++|++++ . .+.+.++++.||-
T Consensus 196 ~~i~~tL~~l~~~g~lp~LD~~gRPk~fyg 225 (371)
T PRK10468 196 HNFLATVAHIITYGKPPKLDDKNRPTFAYG 225 (371)
T ss_pred HHHHHHHHHHHhcCCCccccccCCcHHHhc
Confidence 99999999998 2 3777888888885
No 20
>TIGR00391 hydA hydrogenase (NiFe) small subunit (hydA). Called (hupA/hydA/hupS/hoxK/vhtG) Involved in hydrogenase reactions performing different specific functions in different species eg (EC 1.12.2.1) in Desulfovibrio gigas,(EC 1.12.99.3) in Wolinella succinogenes and (EC 1.18.99.1) in E.coli and a number of other species and (EC 1.12.99.-) in the archea.
Probab=99.85 E-value=1.1e-21 Score=160.07 Aligned_cols=90 Identities=19% Similarity=0.264 Sum_probs=76.7
Q ss_pred EEeecCCCCc----------hH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCCcc--ccCCCccc--ccceEecCCCCCH
Q psy5271 23 IEPGSTTCKA----------SA-VTTTSWMLEPRWVISMGSCANGGGYYHYSYSV--VRGCDRII--PVDIYVPGCPPTA 87 (113)
Q Consensus 23 iVeG~v~~~~----------~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~~~--~~~v~~~v--~vdi~IpGCPP~P 87 (113)
+|||+|++++ +. +.+++++++|++|||+||||++|||++..++. ..++++++ +.+++||||||+|
T Consensus 118 vVEGaIp~~~~G~y~~~~g~~~~e~l~~~a~~A~aVIAvGtCAs~GGI~aa~pnptga~~v~~vi~~~pvinIPGCPp~P 197 (365)
T TIGR00391 118 VVEGSIPLGDNGIYCMVAGEPIVEHIRKAAEGAAAIIAIGTCSSWGGVQAAGPNPTGAVPLQKVIPDKPVINVPGCPPNP 197 (365)
T ss_pred EEeCCCCCCCCceeeeeCCcHHHHHHHHHhhcCCEEEEEeccccccCccCCCCCCCCCcchhHhcCCCCeEEeCCCCCCH
Confidence 8999999973 24 89999999999999999999999999987665 56889888 3459999999999
Q ss_pred HHHHHHHHHHH-H----HHHhccccccccc
Q psy5271 88 EALMYGILQLQ-K----KVKRMKILQSWYR 112 (113)
Q Consensus 88 e~i~~~l~~l~-~----~i~~~~~~~~~~~ 112 (113)
++|+++|++++ . .+.+.++++.||.
T Consensus 198 e~i~~tl~~~ll~G~lP~LD~~~RP~~fyg 227 (365)
T TIGR00391 198 HNFLATVAYIITFGKLPKLDDKNRPTFAYG 227 (365)
T ss_pred HHHHHHHHHHHHcCCCCCCCCCCCchhhhc
Confidence 99999999975 3 3467788887775
No 21
>COG1740 HyaA Ni,Fe-hydrogenase I small subunit [Energy production and conversion]
Probab=99.80 E-value=9.5e-20 Score=147.01 Aligned_cols=90 Identities=18% Similarity=0.309 Sum_probs=77.1
Q ss_pred EEeecCCCC----------chH-HHHHHHhcCCCeEEEeeccCCcCCCCCCCC--ccccCCCccc--ccceEecCCCCCH
Q psy5271 23 IEPGSTTCK----------ASA-VTTTSWMLEPRWVISMGSCANGGGYYHYSY--SVVRGCDRII--PVDIYVPGCPPTA 87 (113)
Q Consensus 23 iVeG~v~~~----------~~~-~~~~~~~~~~k~vIA~GtCA~~GGi~~~~~--~~~~~v~~~v--~vdi~IpGCPP~P 87 (113)
+|||++++. ++. +.+.++.++|++|||+|+||++|||++..+ +...++++++ +..||||||||+|
T Consensus 116 vVEG~v~~~~~G~y~~vgg~~~~e~l~~aA~~A~aIiAvGtCAs~GgI~AA~pnps~a~~i~ev~~~kpVINiPGCPp~p 195 (355)
T COG1740 116 VVEGAVPLGENGMYCIVGGEPFKEILRKAAEGASAIIAVGTCASWGGIQAAKPNPTGAGPLSEVIKDKPVINIPGCPPNP 195 (355)
T ss_pred EEeCCccCCCCceEEEEcChhHHHHHHHHhhcCceEEEEecccccCCeeccCCCCCCcccceecccCCceeeCCCCCCCc
Confidence 899999997 244 777888999999999999999999998864 4568889887 3349999999999
Q ss_pred HHHHHHHHHHHHH-----HHhccccccccc
Q psy5271 88 EALMYGILQLQKK-----VKRMKILQSWYR 112 (113)
Q Consensus 88 e~i~~~l~~l~~~-----i~~~~~~~~~~~ 112 (113)
|+|+.+|.+++-. +.+.+|++.+|-
T Consensus 196 d~iv~tl~~~~~~gk~P~LD~~~RPk~fyg 225 (355)
T COG1740 196 DWIVATLLHIVTFGKLPDLDELGRPKMFYG 225 (355)
T ss_pred hhHHHHHHHHHHcCCCcchhhcCCchhhhc
Confidence 9999999987664 788999988884
No 22
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=59.18 E-value=23 Score=25.15 Aligned_cols=25 Identities=20% Similarity=0.301 Sum_probs=18.5
Q ss_pred eEecCCCCCHHHHHHHHHHHHHHHH
Q psy5271 78 IYVPGCPPTAEALMYGILQLQKKVK 102 (113)
Q Consensus 78 i~IpGCPP~Pe~i~~~l~~l~~~i~ 102 (113)
+.+||||......++.++-+++++-
T Consensus 125 ~~LPG~P~aa~~~~~~v~P~l~~~~ 149 (152)
T cd00886 125 FNLPGSPKAVREALEVILPELPHLL 149 (152)
T ss_pred EECCCCHHHHHHHHHHHHHHHHHHH
Confidence 8999999977777766666665543
No 23
>KOG1111|consensus
Probab=55.21 E-value=14 Score=31.42 Aligned_cols=37 Identities=19% Similarity=0.322 Sum_probs=31.9
Q ss_pred cccCCCcccccceEecCCCCCHHHHHHHHHHHHHHHHh
Q psy5271 66 VVRGCDRIIPVDIYVPGCPPTAEALMYGILQLQKKVKR 103 (113)
Q Consensus 66 ~~~~v~~~v~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~ 103 (113)
.++|+.|++|-| .+-=|+|.|+.+.+++...+.+++.
T Consensus 302 rVGGIpeVLP~d-~i~~~~~~~~dl~~~v~~ai~~~~~ 338 (426)
T KOG1111|consen 302 RVGGIPEVLPED-MITLGEPGPDDLVGAVEKAITKLRT 338 (426)
T ss_pred ecCCccccCCcc-ceeccCCChHHHHHHHHHHHHHhcc
Confidence 467889999999 7778999999999999999887754
No 24
>cd00069 GHB Glycoprotein hormone beta chain homologues. Gonadotropins; reproductive hormones consisting of two glycosylated chains (alpha and beta) of similar topology with Cysteine-knot motifs.
Probab=54.01 E-value=5 Score=27.83 Aligned_cols=13 Identities=38% Similarity=1.122 Sum_probs=10.5
Q ss_pred cceEecCCCCCHH
Q psy5271 76 VDIYVPGCPPTAE 88 (113)
Q Consensus 76 vdi~IpGCPP~Pe 88 (113)
-.+.||||||+-+
T Consensus 57 ~tv~lpgCp~gvd 69 (102)
T cd00069 57 ETVRLPGCPPGVD 69 (102)
T ss_pred EEEECCCCcCCCC
Confidence 4589999999754
No 25
>PRK09271 flavodoxin; Provisional
Probab=52.90 E-value=25 Score=25.05 Aligned_cols=91 Identities=18% Similarity=0.097 Sum_probs=42.8
Q ss_pred CCeEEeecCCCC-chH-HHHHHHhcCCCeEEEeecc-CCcCC-CCCCCCcc-ccCCCcccccceEecCCCC---CHHHHH
Q psy5271 20 PPRIEPGSTTCK-ASA-VTTTSWMLEPRWVISMGSC-ANGGG-YYHYSYSV-VRGCDRIIPVDIYVPGCPP---TAEALM 91 (113)
Q Consensus 20 sP~iVeG~v~~~-~~~-~~~~~~~~~~k~vIA~GtC-A~~GG-i~~~~~~~-~~~v~~~v~vdi~IpGCPP---~Pe~i~ 91 (113)
||..-.|..+.. .+. +.+.+...+.|.+..+|++ ..++| -|...-.. ..-++...+. +.+-.+|- ..+.+.
T Consensus 59 t~T~~~G~~p~~~~~f~~~l~~~~~~~k~~avfgsgd~~~~~~~f~~a~~~~~~~l~~~~~~-l~~~~~p~~~~d~~~~~ 137 (160)
T PRK09271 59 TWTDNAGRTPPEMKRFIAELAETIGKPPNVAVFGTGETQWGEEYYCGAVHRMARFFGSSYPR-LKIEQMPHGERDAAAID 137 (160)
T ss_pred CcccCCCcCCHHHHHHHHHHHHHhccCCeEEEEecCCCCcCccHHHHHHHHHHHHHhccCCc-eeeecCCccchhHHHHH
Confidence 444434444433 333 4444444456778888887 34444 11110000 0001111122 44455554 456777
Q ss_pred HHHHHHHHHHHhccccccccc
Q psy5271 92 YGILQLQKKVKRMKILQSWYR 112 (113)
Q Consensus 92 ~~l~~l~~~i~~~~~~~~~~~ 112 (113)
+.+..++..++ ++---+-||
T Consensus 138 ~~~~~~~~~~~-~~~~~~~~~ 157 (160)
T PRK09271 138 NWTDKVLALCK-NDPDADHYR 157 (160)
T ss_pred HHHHHHHHHhh-cCCCccccc
Confidence 77778887773 444445555
No 26
>smart00068 GHB Glycoprotein hormone beta chain homologues. Also called gonadotropins. Glycoprotein hormones consist of two glycosylated chains (alpha and beta) of similar topology.
Probab=47.50 E-value=10 Score=26.55 Aligned_cols=13 Identities=38% Similarity=1.122 Sum_probs=10.4
Q ss_pred cceEecCCCCCHH
Q psy5271 76 VDIYVPGCPPTAE 88 (113)
Q Consensus 76 vdi~IpGCPP~Pe 88 (113)
..+.||||||+-+
T Consensus 61 ~tv~lpgCp~gvd 73 (107)
T smart00068 61 ETVRLPGCPPGVD 73 (107)
T ss_pred EEEECCCccCCCC
Confidence 4589999999844
No 27
>PF05655 AvrD: Pseudomonas avirulence D protein (AvrD); InterPro: IPR008799 This family consists of several avirulence D (AvrD) proteins primarily found in Pseudomonas syringae [].
Probab=45.03 E-value=11 Score=30.79 Aligned_cols=26 Identities=19% Similarity=0.218 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHhcccccccccC
Q psy5271 88 EALMYGILQLQKKVKRMKILQSWYRR 113 (113)
Q Consensus 88 e~i~~~l~~l~~~i~~~~~~~~~~~~ 113 (113)
.++.++|++-+.+|.|++++-+|-||
T Consensus 227 aQl~Q~L~Y~lD~i~Re~SnTLWMRk 252 (311)
T PF05655_consen 227 AQLGQVLLYRLDGIPREESNTLWMRK 252 (311)
T ss_pred HHHHHHHHHHhcCCCcccCcchhhee
Confidence 68899999999999999999999986
No 28
>COG0549 ArcC Carbamate kinase [Amino acid transport and metabolism]
Probab=44.38 E-value=27 Score=28.68 Aligned_cols=40 Identities=25% Similarity=0.337 Sum_probs=23.5
Q ss_pred HHHHHHHhcCCCeEEEeeccCCcCCCCCC-CCccccCCCcccccc
Q psy5271 34 AVTTTSWMLEPRWVISMGSCANGGGYYHY-SYSVVRGCDRIIPVD 77 (113)
Q Consensus 34 ~~~~~~~~~~~k~vIA~GtCA~~GGi~~~-~~~~~~~v~~~v~vd 77 (113)
.+.+..+.++-.+|||.| .|||+-- .-....+++.+|+.|
T Consensus 174 ~~~Ik~L~~~g~vVI~~G----GGGIPVv~~~~~~~GVeAVIDKD 214 (312)
T COG0549 174 AEAIKALLESGHVVIAAG----GGGIPVVEEGAGLQGVEAVIDKD 214 (312)
T ss_pred HHHHHHHHhCCCEEEEeC----CCCcceEecCCCcceeeEEEccH
Confidence 355666677788888655 7999821 111144565555554
No 29
>PF05025 RbsD_FucU: RbsD / FucU transport protein family; InterPro: IPR007721 RbsD is a component of the ribose operon. It was originally thought to be a high affinity ribose transport protein, but further analysis [] shows that it is a D-ribose pyranase 5.5.1.n1 from EC. It catalyzes the interconversion of beta-pyran and beta-furan forms of D-ribose. It also catalyzes the conversion between beta-allofuranose and beta-allopyranose. FucU is a component of the fucose operon and is a L-fucose mutarotase 5.1.3.n2 from EC, involved in the anomeric conversion of L-fucose. It also exhibits a pyranase activity for D-ribose []. Both have been classified in the RbsD/FucU family of proteins. Members of this family are ubiquitous having been found in organisms from eubacteria to mammals.; GO: 0016853 isomerase activity, 0048029 monosaccharide binding, 0005996 monosaccharide metabolic process; PDB: 2WCV_B 3E7N_N 4A34_I 1OGF_B 1OGE_A 1OGC_A 1OGD_E 3P12_C 3P13_A 3MVK_E ....
Probab=43.12 E-value=22 Score=25.55 Aligned_cols=26 Identities=8% Similarity=-0.028 Sum_probs=19.5
Q ss_pred HHHHHHHhcCCCeEEEeeccCCcCCC
Q psy5271 34 AVTTTSWMLEPRWVISMGSCANGGGY 59 (113)
Q Consensus 34 ~~~~~~~~~~~k~vIA~GtCA~~GGi 59 (113)
.+..|+..++++.+|.-|.|+-+|.+
T Consensus 109 r~~Fy~~~~~a~~vVrTGE~~pYaNi 134 (142)
T PF05025_consen 109 REEFYERAKKAKAVVRTGETTPYANI 134 (142)
T ss_dssp HHHHHHHHHTSSEEEEES--STT--E
T ss_pred HHHHHHHHhccEEEEEeCCCCceeEE
Confidence 36788899999999999999999875
No 30
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=37.72 E-value=57 Score=21.13 Aligned_cols=20 Identities=20% Similarity=0.398 Sum_probs=13.7
Q ss_pred CCcccccceEe-cCCCCCHHH
Q psy5271 70 CDRIIPVDIYV-PGCPPTAEA 89 (113)
Q Consensus 70 v~~~v~vdi~I-pGCPP~Pe~ 89 (113)
+++-+.+.+++ |+||+-|+.
T Consensus 10 l~~pv~i~~F~~~~C~~C~~~ 30 (89)
T cd03026 10 LNGPINFETYVSLSCHNCPDV 30 (89)
T ss_pred cCCCEEEEEEECCCCCCcHHH
Confidence 44545555555 999999964
No 31
>PRK15420 fucU L-fucose mutarotase; Provisional
Probab=37.45 E-value=26 Score=25.34 Aligned_cols=27 Identities=11% Similarity=0.025 Sum_probs=23.7
Q ss_pred hHHHHHHHhcCCCeEEEeeccCCcCCC
Q psy5271 33 SAVTTTSWMLEPRWVISMGSCANGGGY 59 (113)
Q Consensus 33 ~~~~~~~~~~~~k~vIA~GtCA~~GGi 59 (113)
+.+..|+..++++.+|.-|.|+-+|++
T Consensus 106 ~h~~Fy~~~~~a~avIrTGE~~pYaNi 132 (140)
T PRK15420 106 NRFAFYERAQKAFAIVITGERAKYGNI 132 (140)
T ss_pred CHHHHHHHHhcCeEEEEcCCCCceeEE
Confidence 347888999999999999999999875
No 32
>PF11029 DAZAP2: DAZ associated protein 2 (DAZAP2); InterPro: IPR022730 DAZ associated protein 2 has a highly conserved sequence throughout evolution including a conserved polyproline region and several SH2/SH3 binding sites. It occurs as a single copy gene with a four-exon organisation and is located on chromosome 12. It encodes a ubiquitously expressed protein and binds to DAZ and DAZL1 through DAZ repeats [, ].
Probab=37.28 E-value=24 Score=25.63 Aligned_cols=13 Identities=54% Similarity=1.099 Sum_probs=10.8
Q ss_pred ecCCCCCHHHHHH
Q psy5271 80 VPGCPPTAEALMY 92 (113)
Q Consensus 80 IpGCPP~Pe~i~~ 92 (113)
=|||+|++..+..
T Consensus 98 PPGc~PnaAQlAA 110 (137)
T PF11029_consen 98 PPGCPPNAAQLAA 110 (137)
T ss_pred cCCCCCCHHHHHH
Confidence 3799999998864
No 33
>PRK11797 D-ribose pyranase; Provisional
Probab=33.26 E-value=32 Score=24.76 Aligned_cols=27 Identities=22% Similarity=0.235 Sum_probs=23.4
Q ss_pred hHHHHHHHhcCCCeEEEeeccCCcCCC
Q psy5271 33 SAVTTTSWMLEPRWVISMGSCANGGGY 59 (113)
Q Consensus 33 ~~~~~~~~~~~~k~vIA~GtCA~~GGi 59 (113)
+....|+..++++.+|.-|.|+-+|++
T Consensus 105 ~r~~Fy~~a~~a~avVrTGE~~~YaNi 131 (139)
T PRK11797 105 SHEEFKQLTAESKAVIRTGECTPYANI 131 (139)
T ss_pred CHHHHHHHHhcceEEEECCCCCCeeEE
Confidence 336788888899999999999999875
No 34
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=32.86 E-value=1.1e+02 Score=21.44 Aligned_cols=29 Identities=14% Similarity=0.059 Sum_probs=17.6
Q ss_pred EeecCCCC-chH-HHHHHHhcCCCeEEEeec
Q psy5271 24 EPGSTTCK-ASA-VTTTSWMLEPRWVISMGS 52 (113)
Q Consensus 24 VeG~v~~~-~~~-~~~~~~~~~~k~vIA~Gt 52 (113)
..+.+..+ +.+ +.+.++..++.+||.-|.
T Consensus 45 ~~~~v~Dd~~~i~~~l~~~~~~~DliIttGG 75 (144)
T TIGR00177 45 RLGIVPDDPEEIREILRKAVDEADVVLTTGG 75 (144)
T ss_pred EEeecCCCHHHHHHHHHHHHhCCCEEEECCC
Confidence 34455555 344 445555568999998765
No 35
>PF02495 7kD_coat: 7kD viral coat protein; InterPro: IPR003411 This family consists of a 7 kDa coat protein from Carlavirus and Potexvirus [].
Probab=31.84 E-value=37 Score=20.66 Aligned_cols=13 Identities=31% Similarity=0.652 Sum_probs=11.0
Q ss_pred eEecCCCCCHHHH
Q psy5271 78 IYVPGCPPTAEAL 90 (113)
Q Consensus 78 i~IpGCPP~Pe~i 90 (113)
+.|.||+.+||.+
T Consensus 36 v~I~gC~~~~e~i 48 (59)
T PF02495_consen 36 VTISGCEFTPEFI 48 (59)
T ss_pred EEEECCCCCHHHH
Confidence 7899998888766
No 36
>PF12403 Pax2_C: Paired-box protein 2 C terminal; InterPro: IPR022130 This domain family is found in eukaryotes, and is approximately 110 amino acids in length. The family is found in association with PF00292 from PFAM. This family is the C-terminal of the paired-box protein 2 which is a transcription factor involved in embryonic development and organogenesis.
Probab=30.37 E-value=23 Score=25.07 Aligned_cols=10 Identities=40% Similarity=0.933 Sum_probs=8.1
Q ss_pred eEecCCCCCH
Q psy5271 78 IYVPGCPPTA 87 (113)
Q Consensus 78 i~IpGCPP~P 87 (113)
--|||||||-
T Consensus 35 tTLPGYPPHv 44 (115)
T PF12403_consen 35 TTLPGYPPHV 44 (115)
T ss_pred cccCCCCCCC
Confidence 4599999983
No 37
>PF10941 DUF2620: Protein of unknown function DUF2620; InterPro: IPR021238 This is a bacterial family of proteins with unknown function.
Probab=27.46 E-value=27 Score=24.79 Aligned_cols=42 Identities=24% Similarity=0.515 Sum_probs=27.1
Q ss_pred EeeccCCcCCCCCCCCccc---cCCCcccccceEecCCCCCHHHHHHHHH
Q psy5271 49 SMGSCANGGGYYHYSYSVV---RGCDRIIPVDIYVPGCPPTAEALMYGIL 95 (113)
Q Consensus 49 A~GtCA~~GGi~~~~~~~~---~~v~~~v~vdi~IpGCPP~Pe~i~~~l~ 95 (113)
=+|+|.+.||=- .+.+ .+-++ -..+..||=+|+.|+|.+.+.
T Consensus 48 Y~GACnTGgGgA---LamAIallG~~~--C~Tvs~pg~~~~eeeI~~~v~ 92 (117)
T PF10941_consen 48 YLGACNTGGGGA---LAMAIALLGYGK--CATVSMPGKIPSEEEIRKEVA 92 (117)
T ss_pred eEeecCCCccHH---HHHHHHHhCccc--eeEeecCCCCCCHHHHHHHHH
Confidence 479999998731 0000 11111 246899999999999987654
No 38
>PF04718 ATP-synt_G: Mitochondrial ATP synthase g subunit; InterPro: IPR006808 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents the G subunit found in the F0 complex of F-ATPases in mitochondria. The function of subunit G is currently unknown. There is no counterpart in chloroplast or bacterial F-ATPases identified so far []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
Probab=25.59 E-value=59 Score=22.14 Aligned_cols=20 Identities=40% Similarity=0.434 Sum_probs=16.4
Q ss_pred CCCCHHHHHHHHHHHHHHHH
Q psy5271 83 CPPTAEALMYGILQLQKKVK 102 (113)
Q Consensus 83 CPP~Pe~i~~~l~~l~~~i~ 102 (113)
=||+|+++-.....+...++
T Consensus 31 ~PPt~~~~~~~~~~l~~~~~ 50 (103)
T PF04718_consen 31 APPTPAEFQSVYQQLFKTVK 50 (103)
T ss_pred CCcCHHHHHHHHHHHHHHHH
Confidence 38999999888888877776
No 39
>smart00459 Sorb Sorbin homologous domain. First found in the peptide hormone sorbin and later in the ponsin/ArgBP2/vinexin family of proteins.
Probab=24.30 E-value=14 Score=22.49 Aligned_cols=10 Identities=30% Similarity=0.886 Sum_probs=6.2
Q ss_pred cccccccccC
Q psy5271 104 MKILQSWYRR 113 (113)
Q Consensus 104 ~~~~~~~~~~ 113 (113)
-+++.+|||+
T Consensus 25 v~~~~dWYk~ 34 (50)
T smart00459 25 VERPKDWYRT 34 (50)
T ss_pred cccHHHHHHH
Confidence 3555668873
No 40
>PRK08366 vorA 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=24.03 E-value=1.3e+02 Score=25.11 Aligned_cols=77 Identities=10% Similarity=0.068 Sum_probs=48.6
Q ss_pred HHHHHHhcCCCeEEEeeccCCcCC---CCCCCCccccCCCc---ccccceEecCCCCCHHHHHHHHHHHHHHHHhccc--
Q psy5271 35 VTTTSWMLEPRWVISMGSCANGGG---YYHYSYSVVRGCDR---IIPVDIYVPGCPPTAEALMYGILQLQKKVKRMKI-- 106 (113)
Q Consensus 35 ~~~~~~~~~~k~vIA~GtCA~~GG---i~~~~~~~~~~v~~---~v~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~~-- 106 (113)
+.+.+..+++|.|+.+=-+..+|- ++.+.-......+. .+..-+-+-|=|-+|++|.+.+..+.+.++..+.
T Consensus 302 ~~i~~~l~~~k~ViVvE~n~~~Gq~g~l~~ev~~~l~~~~~~~~~~~~i~g~gGr~~t~~~i~~~~~~~~~~~~~~~~~~ 381 (390)
T PRK08366 302 EELYEIAESVKGIAVLDRNFSFGQEGILFTEAKGALYNTDARPIMKNYIVGLGGRDFTVNDVKAIAEDMKKVIEKGKLDK 381 (390)
T ss_pred HHHHHHHhcCCEEEEEeCCCCCCcccHHHHHHHHHHhccCCCCceeceEeCcCCccCCHHHHHHHHHHHHHHHhcCCCCC
Confidence 677788889999998888876653 11110000001111 2223366899999999999998888766666555
Q ss_pred ccccc
Q psy5271 107 LQSWY 111 (113)
Q Consensus 107 ~~~~~ 111 (113)
...||
T Consensus 382 ~~~~~ 386 (390)
T PRK08366 382 EVDWY 386 (390)
T ss_pred ceeee
Confidence 34565
No 41
>COG0813 DeoD Purine-nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=22.78 E-value=96 Score=24.56 Aligned_cols=34 Identities=24% Similarity=0.338 Sum_probs=27.4
Q ss_pred CcccccceEecCCCCCHHHHHHHHHHHHHHHHhcc
Q psy5271 71 DRIIPVDIYVPGCPPTAEALMYGILQLQKKVKRMK 105 (113)
Q Consensus 71 ~~~v~vdi~IpGCPP~Pe~i~~~l~~l~~~i~~~~ 105 (113)
+++-++ +-+||-|-++.+|.+.++.....+++.-
T Consensus 11 gdia~~-VLmPGDPlRAK~iAetfLe~~~~vnevR 44 (236)
T COG0813 11 GDIAEV-VLMPGDPLRAKYIAETFLENAVCVNEVR 44 (236)
T ss_pred CccCce-eecCCCCchHHHHHHHHHhhhhhhhhhc
Confidence 344444 8999999999999999999888877543
No 42
>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].
Probab=21.13 E-value=38 Score=17.36 Aligned_cols=7 Identities=43% Similarity=1.213 Sum_probs=4.6
Q ss_pred eEecCCC
Q psy5271 78 IYVPGCP 84 (113)
Q Consensus 78 i~IpGCP 84 (113)
-.|.|||
T Consensus 20 ~LlS~CP 26 (26)
T PF07723_consen 20 RLLSGCP 26 (26)
T ss_pred HhhccCc
Confidence 3477777
Done!