Query psy4888
Match_columns 273
No_of_seqs 230 out of 816
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 20:21:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4888.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4888hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3461|consensus 100.0 3.2E-31 6.9E-36 221.0 4.8 112 39-188 18-131 (132)
2 KOG4605|consensus 99.9 1.1E-24 2.5E-29 181.1 7.8 83 126-227 38-120 (129)
3 KOG3461|consensus 99.6 1.5E-15 3.4E-20 127.3 4.6 67 176-242 65-131 (132)
4 KOG4605|consensus 99.6 4.3E-15 9.3E-20 124.2 5.7 58 179-251 45-102 (129)
5 smart00704 ZnF_CDGSH CDGSH-typ 99.4 1.6E-13 3.4E-18 93.9 4.1 36 134-173 2-37 (38)
6 PF09360 zf-CDGSH: Iron-bindin 99.4 2.1E-13 4.5E-18 93.1 2.9 37 132-169 2-38 (38)
7 smart00704 ZnF_CDGSH CDGSH-typ 99.4 3.9E-13 8.4E-18 92.0 3.8 27 201-227 11-37 (38)
8 PF09360 zf-CDGSH: Iron-bindin 99.3 8.5E-13 1.8E-17 90.1 1.9 37 178-223 2-38 (38)
9 PF10660 MitoNEET_N: Iron-cont 99.2 4.2E-12 9.1E-17 95.9 0.3 46 38-92 18-63 (64)
10 COG3369 Zinc finger domain con 99.0 2.8E-10 6E-15 88.9 3.9 50 179-228 2-55 (78)
11 COG3369 Zinc finger domain con 98.6 1.7E-08 3.6E-13 79.0 2.7 27 147-173 28-54 (78)
12 PF01807 zf-CHC2: CHC2 zinc fi 47.9 19 0.00042 28.4 2.9 38 202-258 29-66 (97)
13 PF06397 Desulfoferrod_N: Desu 40.5 16 0.00034 25.2 1.1 21 242-262 2-22 (36)
14 PF08772 NOB1_Zn_bind: Nin one 40.1 13 0.00029 29.0 0.8 20 237-256 15-34 (73)
15 PRK01816 hypothetical protein; 27.6 39 0.00084 29.7 1.7 23 36-58 85-107 (143)
16 COG3791 Uncharacterized conser 25.9 70 0.0015 26.7 2.9 68 180-258 11-81 (133)
17 PF14803 Nudix_N_2: Nudix N-te 25.0 55 0.0012 22.0 1.7 21 235-255 9-31 (34)
18 TIGR03830 CxxCG_CxxCG_HTH puta 23.8 73 0.0016 25.1 2.6 39 216-256 2-41 (127)
19 KOG3456|consensus 22.0 65 0.0014 27.5 2.0 33 215-255 80-113 (120)
No 1
>KOG3461|consensus
Probab=99.97 E-value=3.2e-31 Score=221.01 Aligned_cols=112 Identities=40% Similarity=0.645 Sum_probs=101.9
Q ss_pred CcCCcchHHHHHHHHhhhhcccchhhhhhhch--hhhhheeeeeeEEEeccCCCCCCCccccCCCcceeeeehhhhHhHh
Q psy4888 39 FTLPPGLAERFAEGIRKKVDAKSLADFVKYVP--YALVLGGISYGVYKVISPKGHINPNIQKSNSKVVNVINIEDIADTL 116 (273)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~~y~~~~~~~~k~~~n~~~~~~n~~vv~~~~ie~i~~~~ 116 (273)
.+-|.+|..++ - .++++|.+++| +++++|+++|++|++|+.+...|
T Consensus 18 ~~~~~~l~~~~----~-----~~~~~~~~v~~p~v~~~ta~~~y~ay~r~~~k~~~n----------------------- 65 (132)
T KOG3461|consen 18 WTTPMSLSSSS----L-----GTVKDIAAVTPPCVAAGTAATAYLAYKRFYVKDHQN----------------------- 65 (132)
T ss_pred cCchhhhhhhh----h-----ccccchhhcCCcceecchhhhhhhhheeeeeeeccc-----------------------
Confidence 46678888877 2 67889999998 88889999999999988887753
Q ss_pred hhhhcccccccccccccCceeEEeeecccCCcceEEeecCCCCCCCCCCcccccCccccCCCcccceeeecc
Q psy4888 117 ALCRCWRMYFNPNIQKSNSKVVNVINIEDIADTLALCRCWRSKTFPKCDGSHAQHNQCTGDNRVNKHLYKSE 188 (273)
Q Consensus 117 ~~C~cg~~~vnp~I~k~~PkvV~~~diEd~g~~y~~CrCGrSk~~PfCDGSH~~~nk~TgDn~GPLkVKkEE 188 (273)
++++|+.|++++|++||.+||||.|++..|||||||++||||||||.+||+++|||+|||++++++
T Consensus 66 ------~a~iN~hIqkd~pKIVd~~d~eDl~~ka~yCrCWrs~kfP~CDGsh~KhNk~tgdNvgpliikk~~ 131 (132)
T KOG3461|consen 66 ------KARINLHIQKDNPKIVDAFDMEDLGDKAAYCRCWRSKKFPLCDGSHGKHNKETGDNVGPLIIKKKE 131 (132)
T ss_pred ------CccccceeecCCCceeEEEehhhhcccceEEEeeccCCcccccCcccccccccccccccceeeecc
Confidence 889999999999999999999999999999999999999999999999999999999999998865
No 2
>KOG4605|consensus
Probab=99.91 E-value=1.1e-24 Score=181.13 Aligned_cols=83 Identities=27% Similarity=0.488 Sum_probs=74.4
Q ss_pred ccccccccCceeEEeeecccCCcceEEeecCCCCCCCCCCcccccCccccCCCcccceeeeccceeccceeecCCCCcEE
Q psy4888 126 FNPNIQKSNSKVVNVINIEDIADTLALCRCWRSKTFPKCDGSHAQHNQCTGDNRVNKHLYKSEDVVTNRFTVFPSDPPLV 205 (273)
Q Consensus 126 vnp~I~k~~PkvV~~~diEd~g~~y~~CrCGrSk~~PfCDGSH~~~nk~TgDn~GPLkVKkEE~~V~~~g~v~~~~~~~~ 205 (273)
-+..|+...|..|+++ .|++|.||.||+|++||||||||... .-.+..|+.|+.++ +++|+
T Consensus 38 ~~g~v~~k~p~KVhL~----a~KtY~WCsCG~S~sQPfCDGsHk~~---~~tklrPvrFkvek------------tg~~w 98 (129)
T KOG4605|consen 38 ARGVVALKTPIKVHLV----AGKTYRWCSCGRSKSQPFCDGSHKFQ---GRTKLRPVRFKVEK------------TGMVW 98 (129)
T ss_pred cCceecccCceEEEEe----cCCEEEEEeccccCCCcccccccccc---ccccccceEeEecc------------cceEE
Confidence 4778999999999996 89999999999999999999999852 24678999999887 68999
Q ss_pred EEecCCCCCCCcccCCCccCcc
Q psy4888 206 LCRCWESKKFPLCDGAHRAHNE 227 (273)
Q Consensus 206 lC~Cg~S~n~PfCDGSH~~~~~ 227 (273)
||.|+++.+.|||||+|+....
T Consensus 99 lCnCKqT~~rP~CDGtH~~~~~ 120 (129)
T KOG4605|consen 99 LCNCKQTQRRPYCDGTHRSERV 120 (129)
T ss_pred eecccccCCCCccCCccccccc
Confidence 9999999999999999987644
No 3
>KOG3461|consensus
Probab=99.57 E-value=1.5e-15 Score=127.31 Aligned_cols=67 Identities=40% Similarity=0.825 Sum_probs=62.7
Q ss_pred CCCcccceeeeccceeccceeecCCCCcEEEEecCCCCCCCcccCCCccCccCCCCCccceeEEEec
Q psy4888 176 GDNRVNKHLYKSEDVVTNRFTVFPSDPPLVLCRCWESKKFPLCDGAHRAHNERNKDNIGPAIISASN 242 (273)
Q Consensus 176 gDn~GPLkVKkEE~~V~~~g~v~~~~~~~~lC~Cg~S~n~PfCDGSH~~~~~~~~d~~~P~~~~~ek 242 (273)
+..+.+++|+++++++++.+++++.+....+|+||+|+++|||||||.+++++++||+||++++.++
T Consensus 65 n~a~iN~hIqkd~pKIVd~~d~eDl~~ka~yCrCWrs~kfP~CDGsh~KhNk~tgdNvgpliikk~~ 131 (132)
T KOG3461|consen 65 NKARINLHIQKDNPKIVDAFDMEDLGDKAAYCRCWRSKKFPLCDGSHGKHNKETGDNVGPLIIKKKE 131 (132)
T ss_pred cCccccceeecCCCceeEEEehhhhcccceEEEeeccCCcccccCcccccccccccccccceeeecc
Confidence 4567899999999999999999999999999999999999999999999999999999999997664
No 4
>KOG4605|consensus
Probab=99.55 E-value=4.3e-15 Score=124.16 Aligned_cols=58 Identities=17% Similarity=0.433 Sum_probs=51.2
Q ss_pred cccceeeeccceeccceeecCCCCcEEEEecCCCCCCCcccCCCccCccCCCCCccceeEEEeccceEEecCC
Q psy4888 179 RVNKHLYKSEDVVTNRFTVFPSDPPLVLCRCWESKKFPLCDGAHRAHNERNKDNIGPAIISASNKHNLYMNDT 251 (273)
Q Consensus 179 ~GPLkVKkEE~~V~~~g~v~~~~~~~~lC~Cg~S~n~PfCDGSH~~~~~~~~d~~~P~~~~~ek~~~v~lC~~ 251 (273)
..|.+|..+. +++|.||-||+|+++|||||||+... ..+.+|++|++||++.||||||
T Consensus 45 k~p~KVhL~a------------~KtY~WCsCG~S~sQPfCDGsHk~~~---~tklrPvrFkvektg~~wlCnC 102 (129)
T KOG4605|consen 45 KTPIKVHLVA------------GKTYRWCSCGRSKSQPFCDGSHKFQG---RTKLRPVRFKVEKTGMVWLCNC 102 (129)
T ss_pred cCceEEEEec------------CCEEEEEeccccCCCccccccccccc---cccccceEeEecccceEEeecc
Confidence 3576766555 68999999999999999999998865 5799999999999999999996
No 5
>smart00704 ZnF_CDGSH CDGSH-type zinc finger. Function unknown.
Probab=99.42 E-value=1.6e-13 Score=93.86 Aligned_cols=36 Identities=56% Similarity=0.994 Sum_probs=29.4
Q ss_pred CceeEEeeecccCCcceEEeecCCCCCCCCCCcccccCcc
Q psy4888 134 NSKVVNVINIEDIADTLALCRCWRSKTFPKCDGSHAQHNQ 173 (273)
Q Consensus 134 ~PkvV~~~diEd~g~~y~~CrCGrSk~~PfCDGSH~~~nk 173 (273)
.|..+++ | .+++|+||+||+|+++|||||||..+++
T Consensus 2 ~P~~~~~---e-~~~~~~lC~C~~S~~~PfCDGsH~~~~~ 37 (38)
T smart00704 2 RPDEVEV---E-KREKYALCRCGRSKNFPYCDGSHKKHNE 37 (38)
T ss_pred CCEEEEe---c-CCCEEEEeeCCCCCCCCccCCcccCcCc
Confidence 4666655 3 5789999999999999999999986543
No 6
>PF09360 zf-CDGSH: Iron-binding zinc finger CDGSH type; InterPro: IPR018967 This entry represents iron-sulphur domain containing proteins that have a CDGSH sequence motif (although the Ser residue can also be an Ala or Thr), and is found in proteins from a wide range of organisms with the exception of fungi. The CDGSH-type domain binds a redox-active pH-labile 2Fe-2S cluster. The conserved sequence C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H is a defining feature of this family []. CDGSH-type domains are found in mitoNEET, an iron-containing integral protein of the outer mitochondrian membrane (OMM). MitoNEET forms a dimeric structure with a NEET fold, and contains two domains: a beta-cap region and a cluster-binding domain that coordinated two acid-labile 2Fe-2S clusters (one bound to each protomer) []. The CDGSH iron-sulphur domain is oriented towards the cytoplasm and is tethered to the mitochondrial membrane by a more N-terminal domain found in higher vertebrates, (IPR019610 from INTERPRO) [, ]. The whole protein regulates oxidative capacity and may function in electron transfer, for instance in redox reactions with metabolic intermediates, cofactors and/or proteins localized at the OMM. ; GO: 0051537 2 iron, 2 sulfur cluster binding, 0043231 intracellular membrane-bounded organelle; PDB: 3TBO_A 3FNV_B 3TBM_B 3TBN_A 3S2R_A 3S2Q_A 3LPQ_A 2QH7_A 3EW0_A 2R13_A ....
Probab=99.38 E-value=2.1e-13 Score=93.10 Aligned_cols=37 Identities=43% Similarity=0.635 Sum_probs=25.5
Q ss_pred ccCceeEEeeecccCCcceEEeecCCCCCCCCCCcccc
Q psy4888 132 KSNSKVVNVINIEDIADTLALCRCWRSKTFPKCDGSHA 169 (273)
Q Consensus 132 k~~PkvV~~~diEd~g~~y~~CrCGrSk~~PfCDGSH~ 169 (273)
+++|++|+. +.+...++|+|||||+|+++|||||||+
T Consensus 2 ~~~P~~v~g-~~~~~~~~~~lC~Cg~S~~~PfCDGsH~ 38 (38)
T PF09360_consen 2 DNGPYKVEG-DTELEKGTYALCRCGKSKNKPFCDGSHK 38 (38)
T ss_dssp TTSSEEEEE-CGGCSTSEEEE-SSS--TTTTB--SHHH
T ss_pred CCcCEEEEe-eEEecCCEEEEecCCCCCCCCccCCcCC
Confidence 578999965 3333458999999999999999999994
No 7
>smart00704 ZnF_CDGSH CDGSH-type zinc finger. Function unknown.
Probab=99.38 E-value=3.9e-13 Score=91.96 Aligned_cols=27 Identities=56% Similarity=1.149 Sum_probs=24.3
Q ss_pred CCcEEEEecCCCCCCCcccCCCccCcc
Q psy4888 201 DPPLVLCRCWESKKFPLCDGAHRAHNE 227 (273)
Q Consensus 201 ~~~~~lC~Cg~S~n~PfCDGSH~~~~~ 227 (273)
++.++||+||+|+|+|||||||...+.
T Consensus 11 ~~~~~lC~C~~S~~~PfCDGsH~~~~~ 37 (38)
T smart00704 11 REKYALCRCGRSKNFPYCDGSHKKHNE 37 (38)
T ss_pred CCEEEEeeCCCCCCCCccCCcccCcCc
Confidence 578999999999999999999987643
No 8
>PF09360 zf-CDGSH: Iron-binding zinc finger CDGSH type; InterPro: IPR018967 This entry represents iron-sulphur domain containing proteins that have a CDGSH sequence motif (although the Ser residue can also be an Ala or Thr), and is found in proteins from a wide range of organisms with the exception of fungi. The CDGSH-type domain binds a redox-active pH-labile 2Fe-2S cluster. The conserved sequence C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H is a defining feature of this family []. CDGSH-type domains are found in mitoNEET, an iron-containing integral protein of the outer mitochondrian membrane (OMM). MitoNEET forms a dimeric structure with a NEET fold, and contains two domains: a beta-cap region and a cluster-binding domain that coordinated two acid-labile 2Fe-2S clusters (one bound to each protomer) []. The CDGSH iron-sulphur domain is oriented towards the cytoplasm and is tethered to the mitochondrial membrane by a more N-terminal domain found in higher vertebrates, (IPR019610 from INTERPRO) [, ]. The whole protein regulates oxidative capacity and may function in electron transfer, for instance in redox reactions with metabolic intermediates, cofactors and/or proteins localized at the OMM. ; GO: 0051537 2 iron, 2 sulfur cluster binding, 0043231 intracellular membrane-bounded organelle; PDB: 3TBO_A 3FNV_B 3TBM_B 3TBN_A 3S2R_A 3S2Q_A 3LPQ_A 2QH7_A 3EW0_A 2R13_A ....
Probab=99.30 E-value=8.5e-13 Score=90.08 Aligned_cols=37 Identities=30% Similarity=0.562 Sum_probs=24.6
Q ss_pred CcccceeeeccceeccceeecCCCCcEEEEecCCCCCCCcccCCCc
Q psy4888 178 NRVNKHLYKSEDVVTNRFTVFPSDPPLVLCRCWESKKFPLCDGAHR 223 (273)
Q Consensus 178 n~GPLkVKkEE~~V~~~g~v~~~~~~~~lC~Cg~S~n~PfCDGSH~ 223 (273)
..+|+.|+++. ..+.++++||+||+|+|+|||||||+
T Consensus 2 ~~~P~~v~g~~---------~~~~~~~~lC~Cg~S~~~PfCDGsH~ 38 (38)
T PF09360_consen 2 DNGPYKVEGDT---------ELEKGTYALCRCGKSKNKPFCDGSHK 38 (38)
T ss_dssp TTSSEEEEECG---------GCSTSEEEE-SSS--TTTTB--SHHH
T ss_pred CCcCEEEEeeE---------EecCCEEEEecCCCCCCCCccCCcCC
Confidence 35788887622 22348999999999999999999995
No 9
>PF10660 MitoNEET_N: Iron-containing outer mitochondrial membrane protein N-terminus ; InterPro: IPR019610 The CDGSH iron sulphur domain are a group of iron-sulphur (Fe-S) clusters and a unique 39 amino acid CDGSH domain [C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H]. The CDGSH iron sulphur domain protein (also referred to as mitoNEET) is an integral membrane protein located in the outer mitochondrial membrane and whose function may be to transport iron into the mitochondria []. Iron in turn is essential for the function of several mitochondrial enzymes. This entry represents the N-terminal of the mitoNEET and Miner-type proteins that carry a CDGSH-type cluster-binding domain (IPR018967 from INTERPRO) that coordinate a redox-active 2Fe-2S cluster. In the outer mitochondrian membrane (OMM), the CDGSH 2Fe-2S-containing domain is oriented towards the cytoplasm and is tethered to the mitochondrial membrane by the N-terminal domain found in higher vertebrates [, , ]. The whole protein regulates oxidative capacity and may function in electron transfer, for instance in redox reactions with metabolic intermediates, cofactors and/or proteins localized at the OMM.; GO: 0051537 2 iron, 2 sulfur cluster binding, 0043231 intracellular membrane-bounded organelle; PDB: 2R13_A 3REE_A 2QD0_B.
Probab=99.17 E-value=4.2e-12 Score=95.90 Aligned_cols=46 Identities=30% Similarity=0.617 Sum_probs=3.9
Q ss_pred CCcCCcchHHHHHHHHhhhhcccchhhhhhhchhhhhheeeeeeEEEeccCCCCC
Q psy4888 38 RFTLPPGLAERFAEGIRKKVDAKSLADFVKYVPYALVLGGISYGVYKVISPKGHI 92 (273)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~y~~~~~~~~k~~~ 92 (273)
++|||+++++|| + |+++||++++|+++++|++||++|+.|++|.+.
T Consensus 18 ~lPiP~s~gg~f----~-----Ls~kdWl~Lvp~~~~va~igYlayk~f~pk~~~ 63 (64)
T PF10660_consen 18 SLPIPDSFGGFF----K-----LSVKDWLALVPFAAAVAGIGYLAYKPFCPKKKC 63 (64)
T ss_dssp -----------------------------------------------CC---STT
T ss_pred cccccccccccc----c-----ccHHHHHHHHhHHHHHHHHHHHhheeecccccC
Confidence 589999999999 7 999999999999999999999999999999864
No 10
>COG3369 Zinc finger domain containing protein (CDGSH-type) [Function unknown]
Probab=99.00 E-value=2.8e-10 Score=88.92 Aligned_cols=50 Identities=28% Similarity=0.406 Sum_probs=35.0
Q ss_pred cccceeeeccceecc-cee---ecCCCCcEEEEecCCCCCCCcccCCCccCccC
Q psy4888 179 RVNKHLYKSEDVVTN-RFT---VFPSDPPLVLCRCWESKKFPLCDGAHRAHNER 228 (273)
Q Consensus 179 ~GPLkVKkEE~~V~~-~g~---v~~~~~~~~lC~Cg~S~n~PfCDGSH~~~~~~ 228 (273)
.||..+++...+|.. +|- +.+....++|||||.|.|+|||||||++...+
T Consensus 2 nGPy~v~~~~riv~~~~gh~~~~~~g~~~~~LCrCG~S~NKPfCDGtH~k~gf~ 55 (78)
T COG3369 2 NGPYLVRGRLRIVTHTAGHPEEVKDGDEQAALCRCGHSENKPFCDGTHKKTGFD 55 (78)
T ss_pred CCceeccceEEEeecCCCCcEEEeecceEEEEEeccCcCCCCccCCcccccccc
Confidence 356777665555543 121 11224678999999999999999999987653
No 11
>COG3369 Zinc finger domain containing protein (CDGSH-type) [Function unknown]
Probab=98.63 E-value=1.7e-08 Score=79.04 Aligned_cols=27 Identities=41% Similarity=0.811 Sum_probs=23.6
Q ss_pred CcceEEeecCCCCCCCCCCcccccCcc
Q psy4888 147 ADTLALCRCWRSKTFPKCDGSHAQHNQ 173 (273)
Q Consensus 147 g~~y~~CrCGrSk~~PfCDGSH~~~nk 173 (273)
...+++||||.|.|.|||||+|.+..+
T Consensus 28 ~~~~~LCrCG~S~NKPfCDGtH~k~gf 54 (78)
T COG3369 28 DEQAALCRCGHSENKPFCDGTHKKTGF 54 (78)
T ss_pred ceEEEEEeccCcCCCCccCCccccccc
Confidence 367999999999999999999997443
No 12
>PF01807 zf-CHC2: CHC2 zinc finger; InterPro: IPR002694 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents CycHisCysCys (CHC2) type zinc finger domains, which are found in bacteria and viruses. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0003896 DNA primase activity, 0008270 zinc ion binding, 0006260 DNA replication; PDB: 1D0Q_B 2AU3_A.
Probab=47.95 E-value=19 Score=28.44 Aligned_cols=38 Identities=21% Similarity=0.304 Sum_probs=22.1
Q ss_pred CcEEEEecCCCCCCCcccCCCccCccCCCCCccceeEEEeccceEEecCCCCCcccc
Q psy4888 202 PPLVLCRCWESKKFPLCDGAHRAHNERNKDNIGPAIISASNKHNLYMNDTSGNETNV 258 (273)
Q Consensus 202 ~~~~lC~Cg~S~n~PfCDGSH~~~~~~~~d~~~P~~~~~ek~~~v~lC~~~gn~~~~ 258 (273)
+..+.|.| |||+..|. .+.+..++++|-|-.||..-++
T Consensus 29 G~~~~~~C------PfH~d~~p-------------S~~i~~~k~~~~Cf~Cg~~Gd~ 66 (97)
T PF01807_consen 29 GREYRCLC------PFHDDKTP-------------SFSINPDKNRFKCFGCGKGGDV 66 (97)
T ss_dssp TTEEEE--------SSS--SS---------------EEEETTTTEEEETTT--EE-H
T ss_pred CCeEEEEC------cCCCCCCC-------------ceEEECCCCeEEECCCCCCCcH
Confidence 55688888 88886442 4667777889999999976544
No 13
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=40.47 E-value=16 Score=25.19 Aligned_cols=21 Identities=29% Similarity=0.490 Sum_probs=13.1
Q ss_pred ccceEEecCCCCCcccccccC
Q psy4888 242 NKHNLYMNDTSGNETNVAHAN 262 (273)
Q Consensus 242 k~~~v~lC~~~gn~~~~~~~~ 262 (273)
+..+.|-|+.|||..-+.++-
T Consensus 2 ~~~~~YkC~~CGniVev~~~g 22 (36)
T PF06397_consen 2 KKGEFYKCEHCGNIVEVVHDG 22 (36)
T ss_dssp -TTEEEE-TTT--EEEEEE--
T ss_pred CcccEEEccCCCCEEEEEECC
Confidence 457899999999998887763
No 14
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=40.06 E-value=13 Score=28.98 Aligned_cols=20 Identities=15% Similarity=0.162 Sum_probs=9.3
Q ss_pred eEEEeccceEEecCCCCCcc
Q psy4888 237 IISASNKHNLYMNDTSGNET 256 (273)
Q Consensus 237 ~~~~ek~~~v~lC~~~gn~~ 256 (273)
.|++..+....+|..|||.|
T Consensus 15 Cf~~t~~~~k~FCp~CGn~T 34 (73)
T PF08772_consen 15 CFKITKDMTKQFCPKCGNAT 34 (73)
T ss_dssp S--EES-SS--S-SSS--S-
T ss_pred cccCcCCCCceeCcccCCCc
Confidence 46677788999999999986
No 15
>PRK01816 hypothetical protein; Provisional
Probab=27.62 E-value=39 Score=29.75 Aligned_cols=23 Identities=30% Similarity=0.381 Sum_probs=18.9
Q ss_pred CCCCcCCcchHHHHHHHHhhhhc
Q psy4888 36 KPRFTLPPGLAERFAEGIRKKVD 58 (273)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~ 58 (273)
.-+-+|||+|+.||-|-++|.++
T Consensus 85 Ra~tpLPpsL~~Wy~el~~Kl~~ 107 (143)
T PRK01816 85 RSVTPLPPALLNWFYEVREKLQE 107 (143)
T ss_pred ccCCCCChHHHHHHHHHHHHHHH
Confidence 34668999999999888887665
No 16
>COG3791 Uncharacterized conserved protein [Function unknown]
Probab=25.94 E-value=70 Score=26.70 Aligned_cols=68 Identities=13% Similarity=0.057 Sum_probs=41.7
Q ss_pred ccceeeeccceeccceeecCCCCcEEEEecCCCCCC---CcccCCCccCccCCCCCccceeEEEeccceEEecCCCCCcc
Q psy4888 180 VNKHLYKSEDVVTNRFTVFPSDPPLVLCRCWESKKF---PLCDGAHRAHNERNKDNIGPAIISASNKHNLYMNDTSGNET 256 (273)
Q Consensus 180 GPLkVKkEE~~V~~~g~v~~~~~~~~lC~Cg~S~n~---PfCDGSH~~~~~~~~d~~~P~~~~~ek~~~v~lC~~~gn~~ 256 (273)
|.+.|+.+.+ ......|.|....++ +|-=...........+.-.|.++.....-...+|..||-..
T Consensus 11 GaVrf~v~~~-----------~~~~~~ChCs~Crk~~G~~~~~~~~~~~~~~~~~~g~~~~~~~s~~~~r~FC~~CGs~l 79 (133)
T COG3791 11 GAVRFEVEGD-----------PGHVSACHCSDCRKASGAAFAAYAVVPRDALRGTRGLPTYYFSSGSAGRGFCPTCGSPL 79 (133)
T ss_pred ceEEEEEecC-----------CCCceeeCchHhhhhhCCceeeeeecccceeeecCCCceEEeecCCCCCeecccCCCce
Confidence 5666665542 345569999887654 44433333332333344456677777777788999999655
Q ss_pred cc
Q psy4888 257 NV 258 (273)
Q Consensus 257 ~~ 258 (273)
--
T Consensus 80 ~~ 81 (133)
T COG3791 80 FW 81 (133)
T ss_pred EE
Confidence 43
No 17
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=24.96 E-value=55 Score=22.02 Aligned_cols=21 Identities=10% Similarity=0.055 Sum_probs=12.8
Q ss_pred ceeEEEe--ccceEEecCCCCCc
Q psy4888 235 PAIISAS--NKHNLYMNDTSGNE 255 (273)
Q Consensus 235 P~~~~~e--k~~~v~lC~~~gn~ 255 (273)
|+...+- .++...+|..||..
T Consensus 9 ~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 9 PLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp B-EEE--TT-SS-EEEETTTTEE
T ss_pred hhhhhcCCCCCccceECCCCCCE
Confidence 4555544 78999999999975
No 18
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=23.79 E-value=73 Score=25.15 Aligned_cols=39 Identities=13% Similarity=0.249 Sum_probs=22.4
Q ss_pred CcccCCCccCccCCC-CCccceeEEEeccceEEecCCCCCcc
Q psy4888 216 PLCDGAHRAHNERNK-DNIGPAIISASNKHNLYMNDTSGNET 256 (273)
Q Consensus 216 PfCDGSH~~~~~~~~-d~~~P~~~~~ek~~~v~lC~~~gn~~ 256 (273)
|+|++.+-.....+. -..+-..+.+ +-..+.|+.||.+.
T Consensus 2 ~~C~~~~~~~~~~~~~~~~~G~~~~v--~~~~~~C~~CGe~~ 41 (127)
T TIGR03830 2 PICGSGELVRDVKDEPYTYKGESITI--GVPGWYCPACGEEL 41 (127)
T ss_pred CCCCCccceeeeecceEEEcCEEEEE--eeeeeECCCCCCEE
Confidence 788765543211111 1223345556 57889999999863
No 19
>KOG3456|consensus
Probab=22.04 E-value=65 Score=27.53 Aligned_cols=33 Identities=21% Similarity=0.309 Sum_probs=23.4
Q ss_pred CCcccCCCccCccCCCCCccc-eeEEEeccceEEecCCCCCc
Q psy4888 215 FPLCDGAHRAHNERNKDNIGP-AIISASNKHNLYMNDTSGNE 255 (273)
Q Consensus 215 ~PfCDGSH~~~~~~~~d~~~P-~~~~~ek~~~v~lC~~~gn~ 255 (273)
--||||.|..+.- | +.|..|+.+. -.|--||+.
T Consensus 80 VV~CdGg~~aLGH-------PkvyInLDk~~~-~~CgYCGlr 113 (120)
T KOG3456|consen 80 VVACDGGTPALGH-------PKVYINLDKPGP-HICGYCGLR 113 (120)
T ss_pred EEEecCCCCCCCC-------CeEEEEcCCCCC-cccccchhh
Confidence 4589999976532 4 4557777666 889889875
Done!