Query 039618
Match_columns 181
No_of_seqs 208 out of 619
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 11:28:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039618.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039618hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4198 RNA-binding Ran Zn-fin 99.7 4.6E-17 9.9E-22 141.1 8.1 150 1-154 3-168 (280)
2 KOG4198 RNA-binding Ran Zn-fin 99.6 5.6E-15 1.2E-19 128.2 6.5 133 2-158 60-213 (280)
3 KOG1995 Conserved Zn-finger pr 98.9 2.5E-09 5.4E-14 95.2 5.0 148 3-156 68-249 (351)
4 PF00641 zf-RanBP: Zn-finger i 98.6 1.7E-08 3.6E-13 59.9 1.7 30 3-32 1-30 (30)
5 PF00641 zf-RanBP: Zn-finger i 98.4 7.5E-08 1.6E-12 57.0 1.4 30 58-89 1-30 (30)
6 KOG1995 Conserved Zn-finger pr 98.2 4.7E-06 1E-10 74.5 7.6 36 55-91 212-247 (351)
7 smart00547 ZnF_RBZ Zinc finger 98.0 1.9E-06 4.2E-11 49.1 1.2 26 5-30 1-26 (26)
8 smart00547 ZnF_RBZ Zinc finger 98.0 3.1E-06 6.8E-11 48.2 1.6 25 60-86 1-25 (26)
9 PF12773 DZR: Double zinc ribb 94.3 0.051 1.1E-06 34.9 3.0 50 9-84 1-50 (50)
10 PRK14559 putative protein seri 92.6 0.11 2.3E-06 50.5 3.4 50 8-88 3-52 (645)
11 PF13248 zf-ribbon_3: zinc-rib 84.7 0.43 9.3E-06 27.1 0.7 23 7-29 3-25 (26)
12 PF12773 DZR: Double zinc ribb 83.0 1.3 2.8E-05 28.3 2.5 47 68-146 3-49 (50)
13 KOG4477 RING1 interactor RYBP 78.0 0.95 2.1E-05 38.0 0.8 29 4-32 22-50 (228)
14 cd00729 rubredoxin_SM Rubredox 76.9 2 4.3E-05 26.0 1.8 25 6-30 2-28 (34)
15 cd00350 rubredoxin_like Rubred 76.1 2 4.3E-05 25.6 1.6 25 6-30 1-27 (33)
16 PF13248 zf-ribbon_3: zinc-rib 74.4 2.1 4.5E-05 24.2 1.3 23 62-86 3-25 (26)
17 PF13240 zinc_ribbon_2: zinc-r 73.8 2.1 4.6E-05 23.8 1.2 22 63-86 1-22 (23)
18 PRK04136 rpl40e 50S ribosomal 71.7 1.9 4.2E-05 28.4 0.8 23 6-28 14-36 (48)
19 PRK14559 putative protein seri 71.3 3.8 8.2E-05 40.0 3.2 47 63-148 3-49 (645)
20 KOG4477 RING1 interactor RYBP 69.8 2.5 5.4E-05 35.5 1.3 36 54-91 17-52 (228)
21 PRK14714 DNA polymerase II lar 68.9 5 0.00011 42.0 3.5 53 7-91 668-723 (1337)
22 COG1592 Rubrerythrin [Energy p 60.2 3.8 8.2E-05 33.6 0.7 28 125-152 134-161 (166)
23 COG1552 RPL40A Ribosomal prote 55.4 2.4 5.1E-05 28.2 -1.0 22 8-29 16-37 (50)
24 PF00301 Rubredoxin: Rubredoxi 54.3 6.5 0.00014 25.6 0.9 17 118-134 27-43 (47)
25 COG3478 Predicted nucleic-acid 48.7 11 0.00023 26.5 1.3 12 124-135 3-14 (68)
26 cd04718 BAH_plant_2 BAH, or Br 46.8 9.9 0.00022 30.6 1.1 15 121-135 14-28 (148)
27 PF10571 UPF0547: Uncharacteri 44.2 12 0.00025 21.4 0.8 22 8-29 2-23 (26)
28 cd00730 rubredoxin Rubredoxin; 43.7 13 0.00027 24.5 1.0 17 118-134 27-43 (50)
29 PRK04136 rpl40e 50S ribosomal 42.8 15 0.00032 24.3 1.2 24 60-85 13-36 (48)
30 COG1773 Rubredoxin [Energy pro 34.9 26 0.00057 23.7 1.5 18 117-134 28-45 (55)
31 PF12172 DUF35_N: Rubredoxin-l 34.9 19 0.00042 21.5 0.8 22 8-29 13-34 (37)
32 smart00778 Prim_Zn_Ribbon Zinc 30.0 37 0.00081 21.0 1.5 10 124-133 24-33 (37)
33 COG1645 Uncharacterized Zn-fin 27.4 31 0.00067 27.3 1.0 25 20-71 28-52 (131)
34 PRK13130 H/ACA RNA-protein com 26.7 72 0.0016 21.6 2.6 24 8-33 7-30 (56)
35 PRK14714 DNA polymerase II lar 26.5 57 0.0012 34.6 3.0 25 59-87 665-689 (1337)
36 PF09862 DUF2089: Protein of u 24.7 44 0.00094 25.7 1.4 22 9-30 1-22 (113)
37 PF09855 DUF2082: Nucleic-acid 23.9 70 0.0015 22.1 2.1 10 126-135 1-10 (64)
38 PRK00398 rpoP DNA-directed RNA 21.5 66 0.0014 20.1 1.6 26 6-31 3-32 (46)
39 PRK04023 DNA polymerase II lar 20.6 1.2E+02 0.0027 31.6 3.9 28 60-91 650-677 (1121)
40 PF09862 DUF2089: Protein of u 20.4 30 0.00066 26.6 -0.3 29 128-157 1-29 (113)
41 PRK11788 tetratricopeptide rep 20.1 61 0.0013 27.8 1.5 30 57-88 350-379 (389)
No 1
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=99.69 E-value=4.6e-17 Score=141.10 Aligned_cols=150 Identities=30% Similarity=0.437 Sum_probs=102.5
Q ss_pred CCCCC-ceEcCCCCccceeccccccccCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCcccCCCCCCCccccCCc
Q 039618 1 MSRPG-DWNCRSCNHLNFQRRDSCQRCGEPRAGDRSGDYGSFGGRGSS-SFGFSTGPDVRPGDWYCSVGNCGAHNFASRS 78 (181)
Q Consensus 1 ~~k~G-dW~C~~C~~~Nfa~r~~C~~C~~pkp~~~~~~~~~~gg~~~~-~~g~~~~~~~~~GdW~C~~~~C~~~Nfa~R~ 78 (181)
|.++| ||.|..|.++||..+..|.+|.-+++- ..++--++.++..+ .+.+......++|||.|+ .|+++|||+|+
T Consensus 3 ~~r~g~~~~~~~~~~~~~~~~~~c~~c~~~~~~-i~~~~~~~~tid~~~~~~~~~~~~~~pgdw~c~--~c~~~n~arr~ 79 (280)
T KOG4198|consen 3 MFRKGVDSLKRLCLHVNFDERDSCGRCSLSRAY-IQPDDDEARTIDVMRLLLTNSKDPPRPGDWNCP--LCGFHNSARRL 79 (280)
T ss_pred cccccCCcccchhhhhccccccccccccCCccc-ccccccccCccchhhhcccccCCCCCCcccccC--ccchhhHHHhh
Confidence 55677 999999999999999999999999944 22211124444433 233344567899999999 69999999999
Q ss_pred ccccCCCCCCCCCCCCCC--CC--CCCCCcccccC---CC--CCCCC-----CCCCCCCCCcccCCCCccchhhhhhhcc
Q 039618 79 SCFKCGATKDDSAGGFGE--GG--DMPRMRGFRFG---GG--GSSSS-----SRSGWKSGDWICTLGLVAMSTILQAEQN 144 (181)
Q Consensus 79 ~C~~C~apkp~~~~~~g~--~~--~~~~~~g~g~g---~~--~~~~~-----~~~~~k~GDW~C~~C~~~N~~a~r~~Cn 144 (181)
.|++|+.++++....... .. +......+..+ .. .+... ....|++|||+|+.|..+| ++++..|-
T Consensus 80 ~c~~c~~s~~~~~~~~~~~~~g~~~~~~~~r~~~~~~~~~~~~g~~~~~n~~~~r~~~~GDW~Cp~C~fhN-farn~~C~ 158 (280)
T KOG4198|consen 80 LCFRCGFSKVPLDSALTAPNSGSRSLQTGPRYFKGDWLCPRCPGLGFSRNNKPKRPWRSGDWECPGCNFHN-FARNSECF 158 (280)
T ss_pred hcceecccCCCccccccCCCCcccccccccccccCCCCCCCCCCCcccccccccCCccccCcccCCCCcee-ccccchhh
Confidence 999999998876542100 00 00000001100 00 00000 1235999999999999999 99999999
Q ss_pred ccCCCcCCce
Q 039618 145 VLDAVHQGIL 154 (181)
Q Consensus 145 ~c~~~~~g~~ 154 (181)
+|+++++-..
T Consensus 159 rC~~~r~~~a 168 (280)
T KOG4198|consen 159 RCGAKRPLAA 168 (280)
T ss_pred hcCCcCcccc
Confidence 9998887633
No 2
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=99.55 E-value=5.6e-15 Score=128.15 Aligned_cols=133 Identities=31% Similarity=0.527 Sum_probs=94.1
Q ss_pred CCCCceEcCCCCccceeccccccccCCCCCCCCC----CCCC---------CC-CCC-CCCCCCCC------CCCCCCCC
Q 039618 2 SRPGDWNCRSCNHLNFQRRDSCQRCGEPRAGDRS----GDYG---------SF-GGR-GSSSFGFS------TGPDVRPG 60 (181)
Q Consensus 2 ~k~GdW~C~~C~~~Nfa~r~~C~~C~~pkp~~~~----~~~~---------~~-gg~-~~~~~g~~------~~~~~~~G 60 (181)
.++|||.|+.|+++||++|+.|++|+.+++.... ...+ .+ ++. ...+.+.+ .....++|
T Consensus 60 ~~pgdw~c~~c~~~n~arr~~c~~c~~s~~~~~~~~~~~~~g~~~~~~~~r~~~~~~~~~~~~g~~~~~n~~~~r~~~~G 139 (280)
T KOG4198|consen 60 PRPGDWNCPLCGFHNSARRLLCFRCGFSKVPLDSALTAPNSGSRSLQTGPRYFKGDWLCPRCPGLGFSRNNKPKRPWRSG 139 (280)
T ss_pred CCCcccccCccchhhHHHhhhcceecccCCCccccccCCCCcccccccccccccCCCCCCCCCCCcccccccccCCcccc
Confidence 4689999999999999999999999998865321 0000 00 000 01111111 11247999
Q ss_pred CcccCCCCCCCccccCCcccccCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCcccCCCCccchhhhh
Q 039618 61 DWYCSVGNCGAHNFASRSSCFKCGATKDDSAGGFGEGGDMPRMRGFRFGGGGSSSSSRSGWKSGDWICTLGLVAMSTILQ 140 (181)
Q Consensus 61 dW~C~~~~C~~~Nfa~R~~C~~C~apkp~~~~~~g~~~~~~~~~g~g~g~~~~~~~~~~~~k~GDW~C~~C~~~N~~a~r 140 (181)
||+|+ .|+++|||++..|++|+++++....- + ......+++||.+..+.... ..+.
T Consensus 140 DW~Cp--~C~fhNfarn~~C~rC~~~r~~~a~~-------------~--------~~~s~~~~~~~~s~~~~~~~-~t~~ 195 (280)
T KOG4198|consen 140 DWECP--GCNFHNFARNSECFRCGAKRPLAALL-------------G--------NQASEATEHDWLSKVADSSS-STRF 195 (280)
T ss_pred CcccC--CCCceeccccchhhhcCCcCcccccc-------------c--------cccccccccccccccccccc-ceec
Confidence 99998 99999999999999999999875421 0 01224668999999999988 6778
Q ss_pred hhccccCCCcCCceeece
Q 039618 141 AEQNVLDAVHQGILQATS 158 (181)
Q Consensus 141 ~~Cn~c~~~~~g~~~~~~ 158 (181)
+.|-+|.+..+-.+...+
T Consensus 196 ~~~~r~~~~~~~~~~~~d 213 (280)
T KOG4198|consen 196 ESLLRCNARGEMSESRVD 213 (280)
T ss_pred ccchhhcccCcccccccc
Confidence 889999887766654443
No 3
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.86 E-value=2.5e-09 Score=95.24 Aligned_cols=148 Identities=18% Similarity=0.118 Sum_probs=80.0
Q ss_pred CCCceEcC--CCCccceeccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCcccc-----
Q 039618 3 RPGDWNCR--SCNHLNFQRRDSCQRCGEPRAGDRSGDYGSFGGRGSSSFGFSTGPDVRPGDWYCSVGNCGAHNFA----- 75 (181)
Q Consensus 3 k~GdW~C~--~C~~~Nfa~r~~C~~C~~pkp~~~~~~~~~~gg~~~~~~g~~~~~~~~~GdW~C~~~~C~~~Nfa----- 75 (181)
..++|.|+ +|.+.||.+.++|-.|+.+|.+..+.... +.-.-+ ........+...||.|. .|.+++|+
T Consensus 68 ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~-y~dkeT--~~~KGeatvS~~D~~~a--kaai~~~agkdf~ 142 (351)
T KOG1995|consen 68 TIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKI-YTDKET--GAPKGEATVSYEDPPAA--KAAIEWFAGKDFC 142 (351)
T ss_pred cceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhc-cccccc--cCcCCceeeeecChhhh--hhhhhhhcccccc
Confidence 35799997 89999999999999999999875321110 000000 00000012233444554 44555554
Q ss_pred ------------------CCcccccCCCCCCCC----CC-CCCCCCCCCCCcccccCC---CCCCCCCCCCCCCCCcccC
Q 039618 76 ------------------SRSSCFKCGATKDDS----AG-GFGEGGDMPRMRGFRFGG---GGSSSSSRSGWKSGDWICT 129 (181)
Q Consensus 76 ------------------~R~~C~~C~apkp~~----~~-~~g~~~~~~~~~g~g~g~---~~~~~~~~~~~k~GDW~C~ 129 (181)
.+..|..++++.... .. ..+..+.+....+..-++ ++.+...-.+..++||+|+
T Consensus 143 gn~ikvs~a~~r~~ve~~rg~~~~~~g~g~fg~~~~grg~~~G~gg~~~~~~~~~rGg~~~~g~~g~~~~~~~d~Dw~c~ 222 (351)
T KOG1995|consen 143 GNTIKVSLAERRTGVESVRGGYPNDGGAGEFGRLRGGRGGPGGPGGGDGEAGKGDRGGVPDGGESGGGNVQDEDGDWDCP 222 (351)
T ss_pred CCCchhhhhhhccCcccccccccCcCCCCCccccccCCCCCCCCCCccccccccccCCcCCCcccCCccccccccccccc
Confidence 444444444444320 00 000000000000000000 0000122346789999999
Q ss_pred -CCCccchhhhhhhccccCCCcCCceee
Q 039618 130 -LGLVAMSTILQAEQNVLDAVHQGILQA 156 (181)
Q Consensus 130 -~C~~~N~~a~r~~Cn~c~~~~~g~~~~ 156 (181)
.|+|+| ++.+..||+|+++|+.++..
T Consensus 223 ~~c~N~n-fa~r~~cnrck~~Kp~~~~~ 249 (351)
T KOG1995|consen 223 PSCGNRN-FAWREECNRCKAPKPERSLP 249 (351)
T ss_pred ccccccc-cccccccccccCCCcccccC
Confidence 999999 79999999999999977544
No 4
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=98.61 E-value=1.7e-08 Score=59.87 Aligned_cols=30 Identities=47% Similarity=1.194 Sum_probs=24.7
Q ss_pred CCCceEcCCCCccceeccccccccCCCCCC
Q 039618 3 RPGDWNCRSCNHLNFQRRDSCQRCGEPRAG 32 (181)
Q Consensus 3 k~GdW~C~~C~~~Nfa~r~~C~~C~~pkp~ 32 (181)
|+|+|.|+.|.++|++++..|.+|++|||.
T Consensus 1 k~g~W~C~~C~~~N~~~~~~C~~C~~~rp~ 30 (30)
T PF00641_consen 1 KEGDWKCPSCTFMNPASRSKCVACGAPRPG 30 (30)
T ss_dssp -SSSEEETTTTEEEESSSSB-TTT--BTTB
T ss_pred CCcCccCCCCcCCchHHhhhhhCcCCCCcC
Confidence 579999999999999999999999999973
No 5
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=98.44 E-value=7.5e-08 Score=57.04 Aligned_cols=30 Identities=47% Similarity=1.007 Sum_probs=24.4
Q ss_pred CCCCcccCCCCCCCccccCCcccccCCCCCCC
Q 039618 58 RPGDWYCSVGNCGAHNFASRSSCFKCGATKDD 89 (181)
Q Consensus 58 ~~GdW~C~~~~C~~~Nfa~R~~C~~C~apkp~ 89 (181)
++|+|.|+ .|.++|++++..|.+|+++||.
T Consensus 1 k~g~W~C~--~C~~~N~~~~~~C~~C~~~rp~ 30 (30)
T PF00641_consen 1 KEGDWKCP--SCTFMNPASRSKCVACGAPRPG 30 (30)
T ss_dssp -SSSEEET--TTTEEEESSSSB-TTT--BTTB
T ss_pred CCcCccCC--CCcCCchHHhhhhhCcCCCCcC
Confidence 46899998 9999999999999999999973
No 6
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.20 E-value=4.7e-06 Score=74.52 Aligned_cols=36 Identities=39% Similarity=0.864 Sum_probs=32.5
Q ss_pred CCCCCCCcccCCCCCCCccccCCcccccCCCCCCCCC
Q 039618 55 PDVRPGDWYCSVGNCGAHNFASRSSCFKCGATKDDSA 91 (181)
Q Consensus 55 ~~~~~GdW~C~~~~C~~~Nfa~R~~C~~C~apkp~~~ 91 (181)
...+++||.|+ +.|.|.||++|..|++|+++||...
T Consensus 212 ~~~~d~Dw~c~-~~c~N~nfa~r~~cnrck~~Kp~~~ 247 (351)
T KOG1995|consen 212 VQDEDGDWDCP-PSCGNRNFAWREECNRCKAPKPERS 247 (351)
T ss_pred ccccccccccc-ccccccccccccccccccCCCcccc
Confidence 34689999999 9999999999999999999999653
No 7
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=98.03 E-value=1.9e-06 Score=49.09 Aligned_cols=26 Identities=50% Similarity=1.324 Sum_probs=24.5
Q ss_pred CceEcCCCCccceeccccccccCCCC
Q 039618 5 GDWNCRSCNHLNFQRRDSCQRCGEPR 30 (181)
Q Consensus 5 GdW~C~~C~~~Nfa~r~~C~~C~~pk 30 (181)
|||.|+.|.++|++.+..|+.|++|.
T Consensus 1 g~W~C~~C~~~N~~~~~~C~~C~~p~ 26 (26)
T smart00547 1 GDWECPACTFLNFASRSKCFACGAPX 26 (26)
T ss_pred CcccCCCCCCcChhhhccccccCCcC
Confidence 69999999999999999999999873
No 8
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=98.00 E-value=3.1e-06 Score=48.21 Aligned_cols=25 Identities=64% Similarity=1.354 Sum_probs=23.9
Q ss_pred CCcccCCCCCCCccccCCcccccCCCC
Q 039618 60 GDWYCSVGNCGAHNFASRSSCFKCGAT 86 (181)
Q Consensus 60 GdW~C~~~~C~~~Nfa~R~~C~~C~ap 86 (181)
|||.|+ .|.++|++.+..|++|++|
T Consensus 1 g~W~C~--~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 1 GDWECP--ACTFLNFASRSKCFACGAP 25 (26)
T ss_pred CcccCC--CCCCcChhhhccccccCCc
Confidence 699999 9999999999999999987
No 9
>PF12773 DZR: Double zinc ribbon
Probab=94.31 E-value=0.051 Score=34.93 Aligned_cols=50 Identities=32% Similarity=0.713 Sum_probs=41.3
Q ss_pred cCCCCccceeccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCccccCCcccccCC
Q 039618 9 CRSCNHLNFQRRDSCQRCGEPRAGDRSGDYGSFGGRGSSSFGFSTGPDVRPGDWYCSVGNCGAHNFASRSSCFKCG 84 (181)
Q Consensus 9 C~~C~~~Nfa~r~~C~~C~~pkp~~~~~~~~~~gg~~~~~~g~~~~~~~~~GdW~C~~~~C~~~Nfa~R~~C~~C~ 84 (181)
|+.|+..+-.....|..|+++.+. .....++|+ .|+..|......|..|+
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~~------------------------~~~~~~~C~--~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLPP------------------------PDQSKKICP--NCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCcCCcCCccccCChhhcCChhh------------------------ccCCCCCCc--CCcCCCcCCcCccCccc
Confidence 788999999999999999998751 112456898 99999999999999886
No 10
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=92.59 E-value=0.11 Score=50.52 Aligned_cols=50 Identities=28% Similarity=0.694 Sum_probs=43.1
Q ss_pred EcCCCCccceeccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCccccCCcccccCCCCC
Q 039618 8 NCRSCNHLNFQRRDSCQRCGEPRAGDRSGDYGSFGGRGSSSFGFSTGPDVRPGDWYCSVGNCGAHNFASRSSCFKCGATK 87 (181)
Q Consensus 8 ~C~~C~~~Nfa~r~~C~~C~~pkp~~~~~~~~~~gg~~~~~~g~~~~~~~~~GdW~C~~~~C~~~Nfa~R~~C~~C~apk 87 (181)
.|+.|++.|-.....|.+|+++-.. + .|+ .|+..+......|..|+++-
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~l~~-------------------------~----~Cp--~CG~~~~~~~~fC~~CG~~~ 51 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTSLTH-------------------------K----PCP--QCGTEVPVDEAHCPNCGAET 51 (645)
T ss_pred cCCCCCCcCCCCCccccccCCCCCC-------------------------C----cCC--CCCCCCCcccccccccCCcc
Confidence 5999999999999999999987521 0 487 99999999999999999875
Q ss_pred C
Q 039618 88 D 88 (181)
Q Consensus 88 p 88 (181)
.
T Consensus 52 ~ 52 (645)
T PRK14559 52 G 52 (645)
T ss_pred c
Confidence 4
No 11
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=84.71 E-value=0.43 Score=27.11 Aligned_cols=23 Identities=22% Similarity=0.495 Sum_probs=20.7
Q ss_pred eEcCCCCccceeccccccccCCC
Q 039618 7 WNCRSCNHLNFQRRDSCQRCGEP 29 (181)
Q Consensus 7 W~C~~C~~~Nfa~r~~C~~C~~p 29 (181)
..|+.|+..+......|..|+++
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCcCCcccccChhhCCC
Confidence 46999999999999999999986
No 12
>PF12773 DZR: Double zinc ribbon
Probab=82.96 E-value=1.3 Score=28.27 Aligned_cols=47 Identities=17% Similarity=0.179 Sum_probs=35.5
Q ss_pred CCCCccccCCcccccCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCcccCCCCccchhhhhhhcccc
Q 039618 68 NCGAHNFASRSSCFKCGATKDDSAGGFGEGGDMPRMRGFRFGGGGSSSSSRSGWKSGDWICTLGLVAMSTILQAEQNVL 146 (181)
Q Consensus 68 ~C~~~Nfa~R~~C~~C~apkp~~~~~~g~~~~~~~~~g~g~g~~~~~~~~~~~~k~GDW~C~~C~~~N~~a~r~~Cn~c 146 (181)
.|+..+-.....|..|+++-+.. ...-++|+.|+..| .....-|..|
T Consensus 3 ~Cg~~~~~~~~fC~~CG~~l~~~-------------------------------~~~~~~C~~Cg~~~-~~~~~fC~~C 49 (50)
T PF12773_consen 3 HCGTPNPDDAKFCPHCGTPLPPP-------------------------------DQSKKICPNCGAEN-PPNAKFCPNC 49 (50)
T ss_pred CcCCcCCccccCChhhcCChhhc-------------------------------cCCCCCCcCCcCCC-cCCcCccCcc
Confidence 89999999999999999887510 12246799999988 6667777665
No 13
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=78.00 E-value=0.95 Score=38.01 Aligned_cols=29 Identities=24% Similarity=0.655 Sum_probs=25.7
Q ss_pred CCceEcCCCCccceeccccccccCCCCCC
Q 039618 4 PGDWNCRSCNHLNFQRRDSCQRCGEPRAG 32 (181)
Q Consensus 4 ~GdW~C~~C~~~Nfa~r~~C~~C~~pkp~ 32 (181)
.|-|+|..|-++|-|-+.+|+.|..-+..
T Consensus 22 eg~WdCsvCTFrNsAeAfkC~vCdvRKGT 50 (228)
T KOG4477|consen 22 EGKWDCSVCTFRNSAEAFKCFVCDVRKGT 50 (228)
T ss_pred cCceeeeeeeecchhhhhheeeecccccc
Confidence 47899999999999999999999876644
No 14
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=76.88 E-value=2 Score=25.97 Aligned_cols=25 Identities=28% Similarity=0.894 Sum_probs=20.2
Q ss_pred ceEcCCCCccceec--cccccccCCCC
Q 039618 6 DWNCRSCNHLNFQR--RDSCQRCGEPR 30 (181)
Q Consensus 6 dW~C~~C~~~Nfa~--r~~C~~C~~pk 30 (181)
-|.|..|++.-... ...|..|++++
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~~ 28 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAPK 28 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCch
Confidence 49999999885543 47899999986
No 15
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=76.15 E-value=2 Score=25.64 Aligned_cols=25 Identities=24% Similarity=0.648 Sum_probs=19.6
Q ss_pred ceEcCCCCccceec--cccccccCCCC
Q 039618 6 DWNCRSCNHLNFQR--RDSCQRCGEPR 30 (181)
Q Consensus 6 dW~C~~C~~~Nfa~--r~~C~~C~~pk 30 (181)
.|.|..|++.-... ...|..|++++
T Consensus 1 ~~~C~~CGy~y~~~~~~~~CP~Cg~~~ 27 (33)
T cd00350 1 KYVCPVCGYIYDGEEAPWVCPVCGAPK 27 (33)
T ss_pred CEECCCCCCEECCCcCCCcCcCCCCcH
Confidence 38999999885443 56899999876
No 16
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=74.37 E-value=2.1 Score=24.22 Aligned_cols=23 Identities=39% Similarity=0.869 Sum_probs=20.1
Q ss_pred cccCCCCCCCccccCCcccccCCCC
Q 039618 62 WYCSVGNCGAHNFASRSSCFKCGAT 86 (181)
Q Consensus 62 W~C~~~~C~~~Nfa~R~~C~~C~ap 86 (181)
..|+ .|+..+......|..|+++
T Consensus 3 ~~Cp--~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCP--NCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred CCCc--ccCCcCCcccccChhhCCC
Confidence 4687 9999999999999999875
No 17
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=73.78 E-value=2.1 Score=23.75 Aligned_cols=22 Identities=41% Similarity=0.937 Sum_probs=18.9
Q ss_pred ccCCCCCCCccccCCcccccCCCC
Q 039618 63 YCSVGNCGAHNFASRSSCFKCGAT 86 (181)
Q Consensus 63 ~C~~~~C~~~Nfa~R~~C~~C~ap 86 (181)
.|+ .|+..+......|..|+++
T Consensus 1 ~Cp--~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCP--NCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCc--ccCCCCCCcCcchhhhCCc
Confidence 366 8999999999999999876
No 18
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=71.67 E-value=1.9 Score=28.45 Aligned_cols=23 Identities=35% Similarity=0.706 Sum_probs=21.3
Q ss_pred ceEcCCCCccceeccccccccCC
Q 039618 6 DWNCRSCNHLNFQRRDSCQRCGE 28 (181)
Q Consensus 6 dW~C~~C~~~Nfa~r~~C~~C~~ 28 (181)
-++|-.|...|-.+.+.|.+|+.
T Consensus 14 k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 14 KKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred ccchhcccCCCCccccccccCCC
Confidence 47899999999999999999987
No 19
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=71.34 E-value=3.8 Score=40.01 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=35.5
Q ss_pred ccCCCCCCCccccCCcccccCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCcccCCCCccchhhhhhh
Q 039618 63 YCSVGNCGAHNFASRSSCFKCGATKDDSAGGFGEGGDMPRMRGFRFGGGGSSSSSRSGWKSGDWICTLGLVAMSTILQAE 142 (181)
Q Consensus 63 ~C~~~~C~~~Nfa~R~~C~~C~apkp~~~~~~g~~~~~~~~~g~g~g~~~~~~~~~~~~k~GDW~C~~C~~~N~~a~r~~ 142 (181)
.|+ .|+..|-.....|.+|+++-.. + .|+.|+..+ .....-
T Consensus 3 ~Cp--~Cg~~n~~~akFC~~CG~~l~~--------------------------------~----~Cp~CG~~~-~~~~~f 43 (645)
T PRK14559 3 ICP--QCQFENPNNNRFCQKCGTSLTH--------------------------------K----PCPQCGTEV-PVDEAH 43 (645)
T ss_pred cCC--CCCCcCCCCCccccccCCCCCC--------------------------------C----cCCCCCCCC-Cccccc
Confidence 587 9999999999999999887521 0 277777777 556677
Q ss_pred ccccCC
Q 039618 143 QNVLDA 148 (181)
Q Consensus 143 Cn~c~~ 148 (181)
|..|.+
T Consensus 44 C~~CG~ 49 (645)
T PRK14559 44 CPNCGA 49 (645)
T ss_pred ccccCC
Confidence 777763
No 20
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=69.84 E-value=2.5 Score=35.54 Aligned_cols=36 Identities=36% Similarity=0.726 Sum_probs=30.5
Q ss_pred CCCCCCCCcccCCCCCCCccccCCcccccCCCCCCCCC
Q 039618 54 GPDVRPGDWYCSVGNCGAHNFASRSSCFKCGATKDDSA 91 (181)
Q Consensus 54 ~~~~~~GdW~C~~~~C~~~Nfa~R~~C~~C~apkp~~~ 91 (181)
......|-|+|. .|-++|-|-.-.|+.|..-+..+.
T Consensus 17 kp~~Deg~WdCs--vCTFrNsAeAfkC~vCdvRKGTST 52 (228)
T KOG4477|consen 17 KPNDDEGKWDCS--VCTFRNSAEAFKCFVCDVRKGTST 52 (228)
T ss_pred CCccccCceeee--eeeecchhhhhheeeecccccccc
Confidence 345668999999 999999999999999988776554
No 21
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=68.89 E-value=5 Score=42.03 Aligned_cols=53 Identities=25% Similarity=0.659 Sum_probs=37.8
Q ss_pred eEcCCCCccceeccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCccccC---CcccccC
Q 039618 7 WNCRSCNHLNFQRRDSCQRCGEPRAGDRSGDYGSFGGRGSSSFGFSTGPDVRPGDWYCSVGNCGAHNFAS---RSSCFKC 83 (181)
Q Consensus 7 W~C~~C~~~Nfa~r~~C~~C~~pkp~~~~~~~~~~gg~~~~~~g~~~~~~~~~GdW~C~~~~C~~~Nfa~---R~~C~~C 83 (181)
-.|+.|+...+.. .|..|+++... .+.|+ .|+...-.. ++.|..|
T Consensus 668 rkCPkCG~~t~~~--fCP~CGs~te~----------------------------vy~CP--sCGaev~~des~a~~CP~C 715 (1337)
T PRK14714 668 RRCPSCGTETYEN--RCPDCGTHTEP----------------------------VYVCP--DCGAEVPPDESGRVECPRC 715 (1337)
T ss_pred EECCCCCCccccc--cCcccCCcCCC----------------------------ceeCc--cCCCccCCCccccccCCCC
Confidence 5788888887653 88888887411 24787 898865433 6789999
Q ss_pred CCCCCCCC
Q 039618 84 GATKDDSA 91 (181)
Q Consensus 84 ~apkp~~~ 91 (181)
+.+.....
T Consensus 716 Gtplv~~~ 723 (1337)
T PRK14714 716 DVELTPYQ 723 (1337)
T ss_pred CCcccccc
Confidence 98876543
No 22
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=60.22 E-value=3.8 Score=33.55 Aligned_cols=28 Identities=11% Similarity=0.156 Sum_probs=21.6
Q ss_pred CcccCCCCccchhhhhhhccccCCCcCC
Q 039618 125 DWICTLGLVAMSTILQAEQNVLDAVHQG 152 (181)
Q Consensus 125 DW~C~~C~~~N~~a~r~~Cn~c~~~~~g 152 (181)
-|+|+.||..-----...|-+|.+|+.-
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~k~~ 161 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAPKEK 161 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCChHHH
Confidence 7999999997622335789999998753
No 23
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=55.44 E-value=2.4 Score=28.18 Aligned_cols=22 Identities=36% Similarity=0.830 Sum_probs=19.4
Q ss_pred EcCCCCccceeccccccccCCC
Q 039618 8 NCRSCNHLNFQRRDSCQRCGEP 29 (181)
Q Consensus 8 ~C~~C~~~Nfa~r~~C~~C~~p 29 (181)
+|..|...|-.+.+.|.+|+.-
T Consensus 16 IC~rC~Arnp~~A~kCRkC~~k 37 (50)
T COG1552 16 ICRRCYARNPPRATKCRKCGYK 37 (50)
T ss_pred HHHHhcCCCCcchhHHhhccCC
Confidence 5778999999999999999764
No 24
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=54.34 E-value=6.5 Score=25.62 Aligned_cols=17 Identities=18% Similarity=0.356 Sum_probs=10.0
Q ss_pred CCCCCCCCcccCCCCcc
Q 039618 118 RSGWKSGDWICTLGLVA 134 (181)
Q Consensus 118 ~~~~k~GDW~C~~C~~~ 134 (181)
.|.--+.||.|+.|+..
T Consensus 27 ~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 27 PFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp -GGGS-TT-B-TTTSSB
T ss_pred CHHHCCCCCcCcCCCCc
Confidence 45555899999999864
No 25
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=48.66 E-value=11 Score=26.55 Aligned_cols=12 Identities=8% Similarity=0.028 Sum_probs=10.2
Q ss_pred CCcccCCCCccc
Q 039618 124 GDWICTLGLVAM 135 (181)
Q Consensus 124 GDW~C~~C~~~N 135 (181)
+-|.|++|+|+|
T Consensus 3 ~~~kCpKCgn~~ 14 (68)
T COG3478 3 NAFKCPKCGNTN 14 (68)
T ss_pred ccccCCCcCCcc
Confidence 347799999999
No 26
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=46.84 E-value=9.9 Score=30.61 Aligned_cols=15 Identities=40% Similarity=0.829 Sum_probs=12.5
Q ss_pred CCCCCcccCCCCccc
Q 039618 121 WKSGDWICTLGLVAM 135 (181)
Q Consensus 121 ~k~GDW~C~~C~~~N 135 (181)
..+|||.|+.|.+..
T Consensus 14 ~P~g~W~Cp~C~~~~ 28 (148)
T cd04718 14 VPEGDWICPFCEVEK 28 (148)
T ss_pred CCCCCcCCCCCcCCC
Confidence 347999999999866
No 27
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=44.23 E-value=12 Score=21.43 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=18.3
Q ss_pred EcCCCCccceeccccccccCCC
Q 039618 8 NCRSCNHLNFQRRDSCQRCGEP 29 (181)
Q Consensus 8 ~C~~C~~~Nfa~r~~C~~C~~p 29 (181)
.||.|....-.....|..|+..
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCC
Confidence 4888999888888899988754
No 28
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=43.72 E-value=13 Score=24.53 Aligned_cols=17 Identities=18% Similarity=0.360 Sum_probs=12.9
Q ss_pred CCCCCCCCcccCCCCcc
Q 039618 118 RSGWKSGDWICTLGLVA 134 (181)
Q Consensus 118 ~~~~k~GDW~C~~C~~~ 134 (181)
.+.--+.||.|+.|+..
T Consensus 27 ~f~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 27 PFEDLPDDWVCPVCGAG 43 (50)
T ss_pred CHhHCCCCCCCCCCCCc
Confidence 34445789999999864
No 29
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=42.76 E-value=15 Score=24.31 Aligned_cols=24 Identities=33% Similarity=0.648 Sum_probs=21.7
Q ss_pred CCcccCCCCCCCccccCCcccccCCC
Q 039618 60 GDWYCSVGNCGAHNFASRSSCFKCGA 85 (181)
Q Consensus 60 GdW~C~~~~C~~~Nfa~R~~C~~C~a 85 (181)
.-++|- .|...|-.+.+.|-+|+.
T Consensus 13 ~k~ICr--kC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICM--RCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchh--cccCCCCccccccccCCC
Confidence 457898 999999999999999986
No 30
>COG1773 Rubredoxin [Energy production and conversion]
Probab=34.93 E-value=26 Score=23.69 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=14.5
Q ss_pred CCCCCCCCCcccCCCCcc
Q 039618 117 SRSGWKSGDWICTLGLVA 134 (181)
Q Consensus 117 ~~~~~k~GDW~C~~C~~~ 134 (181)
.++..-+.||.|+.|+..
T Consensus 28 T~fedlPd~w~CP~Cg~~ 45 (55)
T COG1773 28 TPFEDLPDDWVCPECGVG 45 (55)
T ss_pred CchhhCCCccCCCCCCCC
Confidence 456677899999999963
No 31
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=34.91 E-value=19 Score=21.53 Aligned_cols=22 Identities=36% Similarity=1.066 Sum_probs=13.4
Q ss_pred EcCCCCccceeccccccccCCC
Q 039618 8 NCRSCNHLNFQRRDSCQRCGEP 29 (181)
Q Consensus 8 ~C~~C~~~Nfa~r~~C~~C~~p 29 (181)
.|..|+...|.-+..|..|+..
T Consensus 13 rC~~Cg~~~~pPr~~Cp~C~s~ 34 (37)
T PF12172_consen 13 RCRDCGRVQFPPRPVCPHCGSD 34 (37)
T ss_dssp E-TTT--EEES--SEETTTT--
T ss_pred EcCCCCCEecCCCcCCCCcCcc
Confidence 4789999999999999999754
No 32
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=30.04 E-value=37 Score=21.01 Aligned_cols=10 Identities=30% Similarity=1.009 Sum_probs=9.0
Q ss_pred CCcccCCCCc
Q 039618 124 GDWICTLGLV 133 (181)
Q Consensus 124 GDW~C~~C~~ 133 (181)
|.|+|..|+.
T Consensus 24 G~~~C~~Cg~ 33 (37)
T smart00778 24 GTWFCSVCGA 33 (37)
T ss_pred cCEEeCCCCC
Confidence 8999999976
No 33
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=27.35 E-value=31 Score=27.30 Aligned_cols=25 Identities=32% Similarity=0.965 Sum_probs=18.9
Q ss_pred cccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCC
Q 039618 20 RDSCQRCGEPRAGDRSGDYGSFGGRGSSSFGFSTGPDVRPGDWYCSVGNCGA 71 (181)
Q Consensus 20 r~~C~~C~~pkp~~~~~~~~~~gg~~~~~~g~~~~~~~~~GdW~C~~~~C~~ 71 (181)
...|..|+.|. |. ++|+-+|+ .|+.
T Consensus 28 ~~hCp~Cg~PL------------------------F~-KdG~v~CP--vC~~ 52 (131)
T COG1645 28 AKHCPKCGTPL------------------------FR-KDGEVFCP--VCGY 52 (131)
T ss_pred HhhCcccCCcc------------------------ee-eCCeEECC--CCCc
Confidence 35788888886 33 67899998 8884
No 34
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=26.73 E-value=72 Score=21.55 Aligned_cols=24 Identities=21% Similarity=0.731 Sum_probs=20.2
Q ss_pred EcCCCCccceeccccccccCCCCCCC
Q 039618 8 NCRSCNHLNFQRRDSCQRCGEPRAGD 33 (181)
Q Consensus 8 ~C~~C~~~Nfa~r~~C~~C~~pkp~~ 33 (181)
.|+.|++-.. ...|..|+.+-...
T Consensus 7 ~C~~CgvYTL--k~~CP~CG~~t~~~ 30 (56)
T PRK13130 7 KCPKCGVYTL--KEICPVCGGKTKNP 30 (56)
T ss_pred ECCCCCCEEc--cccCcCCCCCCCCC
Confidence 5889999888 88999999986554
No 35
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.48 E-value=57 Score=34.63 Aligned_cols=25 Identities=28% Similarity=0.880 Sum_probs=19.7
Q ss_pred CCCcccCCCCCCCccccCCcccccCCCCC
Q 039618 59 PGDWYCSVGNCGAHNFASRSSCFKCGATK 87 (181)
Q Consensus 59 ~GdW~C~~~~C~~~Nfa~R~~C~~C~apk 87 (181)
-+.-.|+ .|+...+.. .|..|+++.
T Consensus 665 V~~rkCP--kCG~~t~~~--fCP~CGs~t 689 (1337)
T PRK14714 665 VGRRRCP--SCGTETYEN--RCPDCGTHT 689 (1337)
T ss_pred EEEEECC--CCCCccccc--cCcccCCcC
Confidence 3457898 999988764 999998875
No 36
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=24.68 E-value=44 Score=25.73 Aligned_cols=22 Identities=27% Similarity=0.602 Sum_probs=20.1
Q ss_pred cCCCCccceeccccccccCCCC
Q 039618 9 CRSCNHLNFQRRDSCQRCGEPR 30 (181)
Q Consensus 9 C~~C~~~Nfa~r~~C~~C~~pk 30 (181)
||.|+..=-+.+..|..|++.-
T Consensus 1 CPvCg~~l~vt~l~C~~C~t~i 22 (113)
T PF09862_consen 1 CPVCGGELVVTRLKCPSCGTEI 22 (113)
T ss_pred CCCCCCceEEEEEEcCCCCCEE
Confidence 8999999999999999999853
No 37
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=23.91 E-value=70 Score=22.11 Aligned_cols=10 Identities=10% Similarity=0.032 Sum_probs=9.0
Q ss_pred cccCCCCccc
Q 039618 126 WICTLGLVAM 135 (181)
Q Consensus 126 W~C~~C~~~N 135 (181)
|.|++|++.+
T Consensus 1 y~C~KCg~~~ 10 (64)
T PF09855_consen 1 YKCPKCGNEE 10 (64)
T ss_pred CCCCCCCCcc
Confidence 7899999987
No 38
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=21.52 E-value=66 Score=20.09 Aligned_cols=26 Identities=19% Similarity=0.468 Sum_probs=18.0
Q ss_pred ceEcCCCCcccee----ccccccccCCCCC
Q 039618 6 DWNCRSCNHLNFQ----RRDSCQRCGEPRA 31 (181)
Q Consensus 6 dW~C~~C~~~Nfa----~r~~C~~C~~pkp 31 (181)
...|+.|+..... ....|+.|+.+..
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEE
Confidence 3578888887532 2567999988753
No 39
>PRK04023 DNA polymerase II large subunit; Validated
Probab=20.65 E-value=1.2e+02 Score=31.62 Aligned_cols=28 Identities=25% Similarity=0.581 Sum_probs=19.8
Q ss_pred CCcccCCCCCCCccccCCcccccCCCCCCCCC
Q 039618 60 GDWYCSVGNCGAHNFASRSSCFKCGATKDDSA 91 (181)
Q Consensus 60 GdW~C~~~~C~~~Nfa~R~~C~~C~apkp~~~ 91 (181)
..|.|+ .|+...- ...|.+|+.......
T Consensus 650 ~i~fCP--~CG~~~~--~y~CPKCG~El~~~s 677 (1121)
T PRK04023 650 PVYRCP--RCGIEVE--EDECEKCGREPTPYS 677 (1121)
T ss_pred cceeCc--cccCcCC--CCcCCCCCCCCCccc
Confidence 346887 8876643 366999998876554
No 40
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=20.36 E-value=30 Score=26.60 Aligned_cols=29 Identities=7% Similarity=0.103 Sum_probs=23.1
Q ss_pred cCCCCccchhhhhhhccccCCCcCCceeec
Q 039618 128 CTLGLVAMSTILQAEQNVLDAVHQGILQAT 157 (181)
Q Consensus 128 C~~C~~~N~~a~r~~Cn~c~~~~~g~~~~~ 157 (181)
||.|+... ...+.+|..|++.=.|.-++.
T Consensus 1 CPvCg~~l-~vt~l~C~~C~t~i~G~F~l~ 29 (113)
T PF09862_consen 1 CPVCGGEL-VVTRLKCPSCGTEIEGEFELP 29 (113)
T ss_pred CCCCCCce-EEEEEEcCCCCCEEEeeeccc
Confidence 89999888 889999999997666654443
No 41
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=20.07 E-value=61 Score=27.84 Aligned_cols=30 Identities=27% Similarity=0.461 Sum_probs=25.7
Q ss_pred CCCCCcccCCCCCCCccccCCcccccCCCCCC
Q 039618 57 VRPGDWYCSVGNCGAHNFASRSSCFKCGATKD 88 (181)
Q Consensus 57 ~~~GdW~C~~~~C~~~Nfa~R~~C~~C~apkp 88 (181)
..+-+|.|. .|+..-..+...|..|++--.
T Consensus 350 ~~~p~~~c~--~cg~~~~~~~~~c~~c~~~~~ 379 (389)
T PRK11788 350 KRKPRYRCR--NCGFTARTLYWHCPSCKAWET 379 (389)
T ss_pred hCCCCEECC--CCCCCCccceeECcCCCCccC
Confidence 456679998 999999999999999988643
Done!