Query 035605
Match_columns 131
No_of_seqs 130 out of 197
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 04:28:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035605.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035605hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4103 Mitochondrial F1F0-ATP 100.0 1E-34 2.2E-39 210.7 6.9 97 25-123 3-103 (103)
2 PF04718 ATP-synt_G: Mitochond 100.0 6.7E-31 1.4E-35 190.4 6.9 90 32-123 2-103 (103)
3 PF04718 ATP-synt_G: Mitochond 68.0 24 0.00052 25.5 6.0 42 18-59 6-50 (103)
4 PRK06718 precorrin-2 dehydroge 39.2 74 0.0016 25.0 4.9 56 43-98 125-180 (202)
5 TIGR01470 cysG_Nterm siroheme 39.1 81 0.0018 24.8 5.2 60 43-102 125-184 (205)
6 smart00648 SWAP Suppressor-of- 30.8 77 0.0017 19.7 3.1 23 12-34 4-26 (54)
7 PF01805 Surp: Surp module; I 24.6 1.4E+02 0.003 18.6 3.5 25 10-34 3-27 (55)
8 PF10958 DUF2759: Protein of u 24.1 76 0.0017 20.9 2.2 23 92-114 24-46 (52)
9 COG3581 Uncharacterized protei 22.7 42 0.00091 30.3 1.1 47 48-112 280-326 (420)
10 KOG2782 Putative SAM dependent 21.4 1.5E+02 0.0033 25.5 4.0 52 28-82 59-111 (303)
11 PF06449 DUF1082: Mitochondria 20.5 47 0.001 21.7 0.7 9 107-115 14-22 (51)
No 1
>KOG4103 consensus Mitochondrial F1F0-ATP synthase, subunit g/ATP20 [Energy production and conversion]
Probab=100.00 E-value=1e-34 Score=210.69 Aligned_cols=97 Identities=25% Similarity=0.316 Sum_probs=91.7
Q ss_pred HHHHHHHHhccccccCCchhhhHHHHHHHHHHhhhhcCCCChHHHHHHHHHHHHHHHH----hhhcCChHHHHHHHHHHH
Q 035605 25 AYIKQLLEDNKQHIKDPPNIETCQFLAKQLFHTRLASIPNRVDAFWKELDGLKQFLKN----RELEMNLDNAGLAALFGV 100 (131)
Q Consensus 25 ~~~~~l~~K~~~lv~~~v~~~K~~eL~kq~~Yak~el~PPt~~ef~~~~~~~k~~~k~----~~~~lt~~ea~~~~l~~~ 100 (131)
.++.+|++|.+.++++..+++| |+|+.+|.|+|+||.||+++|||++++++.++-+. .++|+|++|+++|++|++
T Consensus 3 ~~~~~l~~K~~~L~~~~~~~~~-p~l~~~~~y~K~eL~PPt~Ad~pai~q~l~~~~~~~~t~~~Knltv~Eall~~~v~~ 81 (103)
T KOG4103|consen 3 NYMSGLVEKAANLVNAALTYAK-PRLAIFWKYAKVELAPPTPADIPAIKQDLAKLKKFAQTGCYKNLTVKEALLNGLVTL 81 (103)
T ss_pred hHHHHHHHHHHHHHHHHHHhcC-chHHHHHHHHhcccCCCChhhHHHHHHHHHHhHHHHhhhhhhhhhHHHHHHHHHHHH
Confidence 3789999999999999999999 99999999999999999999999999998766555 678999999999999999
Q ss_pred HHHHHhhhhheeccCcceeeeec
Q 035605 101 ECFAWFCGGEIIGRGFTITGYHV 123 (131)
Q Consensus 101 Ev~~wF~vGEiIGRr~~lvGY~V 123 (131)
|+++||+|||||||| +|+||+|
T Consensus 82 Evi~wf~vGEiIGrR-~ivGY~v 103 (103)
T KOG4103|consen 82 EVIFWFYVGEIIGRR-HIVGYKV 103 (103)
T ss_pred HHHHHHHHHHHhccc-ccccccC
Confidence 999999999999999 9999986
No 2
>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=99.97 E-value=6.7e-31 Score=190.36 Aligned_cols=90 Identities=23% Similarity=0.313 Sum_probs=81.8
Q ss_pred HhccccccCCchhhhHHHHHHHHHHhhhhcCCCChHHHHHHHHHHHHHHH---H---------hhhcCChHHHHHHHHHH
Q 035605 32 EDNKQHIKDPPNIETCQFLAKQLFHTRLASIPNRVDAFWKELDGLKQFLK---N---------RELEMNLDNAGLAALFG 99 (131)
Q Consensus 32 ~K~~~lv~~~v~~~K~~eL~kq~~Yak~el~PPt~~ef~~~~~~~k~~~k---~---------~~~~lt~~ea~~~~l~~ 99 (131)
++.+.++++.++++| +.+.+++.|++.||.||+++||++.++++.+.++ + +++|+|++|+++++++|
T Consensus 2 ~~~~~l~~~~v~~~k-v~le~~k~v~k~El~PPt~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~e~~~~~l~~ 80 (103)
T PF04718_consen 2 AKVTSLVNPAVYYSK-VGLELFKQVYKKELAPPTPAEFQSVYQQLFKTVKSAKSGSSPKSKLKQWKNLTVKEAAKNGLVG 80 (103)
T ss_pred chHHHHHHHHHHHhH-HHHHHHhHHHhhccCCcCHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHhhcCCHHHHHHHHHHH
Confidence 567888999999999 7777777888888999999999999999888777 2 26799999999999999
Q ss_pred HHHHHHhhhhheeccCcceeeeec
Q 035605 100 VECFAWFCGGEIIGRGFTITGYHV 123 (131)
Q Consensus 100 ~Ev~~wF~vGEiIGRr~~lvGY~V 123 (131)
+||+|||||||||||| +||||+|
T Consensus 81 ~Ev~~wF~vGEiIGRr-~ivGY~V 103 (103)
T PF04718_consen 81 AEVYGWFFVGEIIGRR-SIVGYKV 103 (103)
T ss_pred HHHHHHHhhheeeccC-ceeCccC
Confidence 9999999999999999 9999997
No 3
>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=68.01 E-value=24 Score=25.48 Aligned_cols=42 Identities=33% Similarity=0.256 Sum_probs=35.7
Q ss_pred HHHHhHHHHHHHHHHhccccc---cCCchhhhHHHHHHHHHHhhh
Q 035605 18 FLIKNGSAYIKQLLEDNKQHI---KDPPNIETCQFLAKQLFHTRL 59 (131)
Q Consensus 18 ~~~k~~~~~~~~l~~K~~~lv---~~~v~~~K~~eL~kq~~Yak~ 59 (131)
.+.+|++.+.+-.++.++++. -.||+.+.++++.+.+.+...
T Consensus 6 ~l~~~~v~~~kv~le~~k~v~k~El~PPt~~~~~~~~~~l~~~~~ 50 (103)
T PF04718_consen 6 SLVNPAVYYSKVGLELFKQVYKKELAPPTPAEFQSVYQQLFKTVK 50 (103)
T ss_pred HHHHHHHHHhHHHHHHHhHHHhhccCCcCHHHHHHHHHHHHHHHH
Confidence 456678889999999999998 789999999999999877655
No 4
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=39.15 E-value=74 Score=24.95 Aligned_cols=56 Identities=16% Similarity=0.090 Sum_probs=38.6
Q ss_pred hhhhHHHHHHHHHHhhhhcCCCChHHHHHHHHHHHHHHHHhhhcCChHHHHHHHHH
Q 035605 43 NIETCQFLAKQLFHTRLASIPNRVDAFWKELDGLKQFLKNRELEMNLDNAGLAALF 98 (131)
Q Consensus 43 ~~~K~~eL~kq~~Yak~el~PPt~~ef~~~~~~~k~~~k~~~~~lt~~ea~~~~l~ 98 (131)
|-++.|.|++++.-.=+++.||.++++-+....+.+.++++..+...+......++
T Consensus 125 T~G~sP~la~~lr~~ie~~~~~~~~~~~~~~~~~R~~~k~~~~~~~~R~~~~~~~~ 180 (202)
T PRK06718 125 TDGASPKLAKKIRDELEALYDESYESYIDFLYECRQKIKELQIEKREKQILLQEVL 180 (202)
T ss_pred CCCCChHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHh
Confidence 34566999998866556678999999988888888888775433333444444443
No 5
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=39.09 E-value=81 Score=24.82 Aligned_cols=60 Identities=12% Similarity=0.016 Sum_probs=40.5
Q ss_pred hhhhHHHHHHHHHHhhhhcCCCChHHHHHHHHHHHHHHHHhhhcCChHHHHHHHHHHHHH
Q 035605 43 NIETCQFLAKQLFHTRLASIPNRVDAFWKELDGLKQFLKNRELEMNLDNAGLAALFGVEC 102 (131)
Q Consensus 43 ~~~K~~eL~kq~~Yak~el~PPt~~ef~~~~~~~k~~~k~~~~~lt~~ea~~~~l~~~Ev 102 (131)
|-++.|.+++.+.-.=+++.|+.++++-+....+.+.++++..+.+.+......++.-++
T Consensus 125 T~G~sP~la~~lr~~ie~~l~~~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~ 184 (205)
T TIGR01470 125 SGGAAPVLARLLRERIETLLPPSLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAF 184 (205)
T ss_pred CCCCCcHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHH
Confidence 345669999988776778899999999888888888887754333333333333443333
No 6
>smart00648 SWAP Suppressor-of-White-APricot splicing regulator. domain present in regulators which are responsible for pre-mRNA splicing processes
Probab=30.80 E-value=77 Score=19.70 Aligned_cols=23 Identities=22% Similarity=0.589 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhHHHHHHHHHHhc
Q 035605 12 ASQASEFLIKNGSAYIKQLLEDN 34 (131)
Q Consensus 12 ~~~a~~~~~k~~~~~~~~l~~K~ 34 (131)
....+++|+++|.++-..|+++.
T Consensus 4 I~~tA~~Va~~G~~fe~~l~~~~ 26 (54)
T smart00648 4 IDKTAQFVARNGPEFEAKLMERE 26 (54)
T ss_pred HHHHHHHHHHhhHHHHHHHHHhc
Confidence 45678899999999999999875
No 7
>PF01805 Surp: Surp module; InterPro: IPR000061 SWAP is derived from the Suppressor-of-White-APricot splicing regulator from Drosophila melanogaster. The domain is found in regulators responsible for pervasive, nonsex-specific alternative pre-mRNA splicing characteristics and has been found in splicing regulatory proteins []. These ancient, conserved SWAP proteins share a colinearly arrayed series of novel sequence motifs [].; GO: 0003723 RNA binding, 0006396 RNA processing; PDB: 2E5Z_A 2DT7_B 2DT6_A 1UG0_A 1X4P_A 2E60_A 1X4O_A 4DGW_B.
Probab=24.62 E-value=1.4e+02 Score=18.62 Aligned_cols=25 Identities=28% Similarity=0.503 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHhc
Q 035605 10 SKASQASEFLIKNGSAYIKQLLEDN 34 (131)
Q Consensus 10 sk~~~a~~~~~k~~~~~~~~l~~K~ 34 (131)
.-....+++|+++|.++-..++++.
T Consensus 3 ~~I~~tA~~Va~~G~~fE~~l~~~~ 27 (55)
T PF01805_consen 3 EIIDKTAEFVAKNGPEFEEKLRERE 27 (55)
T ss_dssp HHHHHHHHHHHHCSHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHhc
Confidence 3456788899999999999999887
No 8
>PF10958 DUF2759: Protein of unknown function (DUF2759); InterPro: IPR024490 This family of proteins with unknown function appear to be restricted to Bacillales.
Probab=24.15 E-value=76 Score=20.89 Aligned_cols=23 Identities=35% Similarity=0.358 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHhhhhheecc
Q 035605 92 AGLAALFGVECFAWFCGGEIIGR 114 (131)
Q Consensus 92 a~~~~l~~~Ev~~wF~vGEiIGR 114 (131)
+...++..+=++|||.|--+|--
T Consensus 24 ~i~F~~~t~~VFGwFtimTii~~ 46 (52)
T PF10958_consen 24 GIGFALVTVAVFGWFTIMTIIHS 46 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 56778889999999999877643
No 9
>COG3581 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.74 E-value=42 Score=30.33 Aligned_cols=47 Identities=26% Similarity=0.419 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhhhcCCCChHHHHHHHHHHHHHHHHhhhcCChHHHHHHHHHHHHHHHHhhhhhee
Q 035605 48 QFLAKQLFHTRLASIPNRVDAFWKELDGLKQFLKNRELEMNLDNAGLAALFGVECFAWFCGGEII 112 (131)
Q Consensus 48 ~eL~kq~~Yak~el~PPt~~ef~~~~~~~k~~~k~~~~~lt~~ea~~~~l~~~Ev~~wF~vGEiI 112 (131)
.++-+.+ +....+-.+.++.++.+.++.++.-+. . +-| |||++||||
T Consensus 280 k~m~k~L---~~s~~f~~~~s~k~ia~~a~~~l~~g~---~----------~GE--Gw~ltgem~ 326 (420)
T COG3581 280 KPMKKAL---KLSKRFDPMKSIKKIADAAKDYLSLGN---K----------TGE--GWFLTGEML 326 (420)
T ss_pred HHHHHHH---HHhccCCCcccHHHHHHHHhhhccccc---c----------Cce--eeeeHHHHH
Confidence 4444544 444466666677777776655543321 1 222 799999986
No 10
>KOG2782 consensus Putative SAM dependent methyltransferases [General function prediction only]
Probab=21.42 E-value=1.5e+02 Score=25.48 Aligned_cols=52 Identities=10% Similarity=0.110 Sum_probs=37.8
Q ss_pred HHHHHhccccccCCchhhhH-HHHHHHHHHhhhhcCCCChHHHHHHHHHHHHHHHH
Q 035605 28 KQLLEDNKQHIKDPPNIETC-QFLAKQLFHTRLASIPNRVDAFWKELDGLKQFLKN 82 (131)
Q Consensus 28 ~~l~~K~~~lv~~~v~~~K~-~eL~kq~~Yak~el~PPt~~ef~~~~~~~k~~~k~ 82 (131)
+.+++|-+++.+.+....-+ ..|+.+. ..|+.||+........+.++++++.
T Consensus 59 ~~ilqk~se~k~yalDrDP~A~~La~~~---s~el~~~~l~a~Lg~Fs~~~~l~~~ 111 (303)
T KOG2782|consen 59 SSILQKHSELKNYALDRDPVARKLAHFH---SDELMHPTLKAVLGNFSYIKSLIAD 111 (303)
T ss_pred HHHHHhCcHhhhhhhccChHHHHHHHHh---hHhhcchhHHHHHhhhHHHHHHHHH
Confidence 46788888888766543222 5566655 6699999999887777777877776
No 11
>PF06449 DUF1082: Mitochondrial domain of unknown function (DUF1082); InterPro: IPR009455 The domain is found exclusively in plant mitochonchria and is a putative homing endonuclease, though such a function remains to be demonstrated. The domain is found C-terminal to the plant mitochondrial ATPase subunit 8 domain IPR003319 from INTERPRO.; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0005739 mitochondrion, 0016021 integral to membrane
Probab=20.51 E-value=47 Score=21.71 Aligned_cols=9 Identities=56% Similarity=0.892 Sum_probs=8.0
Q ss_pred hhhheeccC
Q 035605 107 CGGEIIGRG 115 (131)
Q Consensus 107 ~vGEiIGRr 115 (131)
|.|||.|-|
T Consensus 14 cFGEIsgSr 22 (51)
T PF06449_consen 14 CFGEISGSR 22 (51)
T ss_pred Eeceeeccc
Confidence 679999998
Done!