Query psy6139
Match_columns 69
No_of_seqs 104 out of 327
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 18:35:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6139.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6139hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12861 zf-Apc11: Anaphase-pr 99.8 3.6E-22 7.7E-27 122.7 1.8 62 1-66 2-64 (85)
2 COG5194 APC11 Component of SCF 99.8 1.4E-21 3.1E-26 119.5 -0.0 62 1-66 2-66 (88)
3 KOG1493|consensus 99.8 2E-20 4.4E-25 113.6 4.5 55 1-56 2-56 (84)
4 KOG2930|consensus 99.6 3.8E-16 8.2E-21 99.5 1.2 38 1-38 28-65 (114)
5 PF12678 zf-rbx1: RING-H2 zinc 99.6 1.5E-15 3.3E-20 89.9 2.1 55 1-56 1-55 (73)
6 KOG1257|consensus 98.7 9.1E-09 2E-13 79.8 2.9 39 30-69 540-578 (582)
7 PLN03129 NADP-dependent malic 87.4 0.4 8.6E-06 38.2 2.0 34 23-56 544-578 (581)
8 PRK13529 malate dehydrogenase; 86.1 0.44 9.6E-06 37.8 1.6 32 24-56 526-558 (563)
9 PF12907 zf-met2: Zinc-binding 82.9 0.38 8.3E-06 25.7 0.0 14 21-34 3-16 (40)
10 PF13639 zf-RING_2: Ring finge 75.8 1.1 2.5E-05 23.0 0.4 12 20-31 1-12 (44)
11 cd05312 NAD_bind_1_malic_enz N 70.6 2.3 5E-05 31.0 1.1 30 24-53 249-279 (279)
12 PF02132 RecR: RecR protein; 59.5 3 6.6E-05 21.7 0.0 11 18-28 28-38 (41)
13 PRK15202 type III secretion ch 55.8 7.8 0.00017 25.1 1.4 27 28-56 39-65 (117)
14 COG0295 Cdd Cytidine deaminase 54.1 3.7 7.9E-05 27.1 -0.3 16 19-34 85-100 (134)
15 PRK08298 cytidine deaminase; V 51.8 4.7 0.0001 26.3 -0.0 14 20-33 87-100 (136)
16 PHA02565 49 recombination endo 47.7 7.2 0.00016 26.5 0.3 15 18-32 19-33 (157)
17 PF12874 zf-met: Zinc-finger o 47.0 7.3 0.00016 17.4 0.2 12 21-32 2-13 (25)
18 COG0353 RecR Recombinational D 46.9 7.3 0.00016 27.3 0.3 39 18-56 65-105 (198)
19 PRK12411 cytidine deaminase; P 45.8 6.5 0.00014 25.4 -0.1 16 19-34 83-98 (132)
20 COG4357 Zinc finger domain con 45.5 11 0.00024 24.0 0.9 22 20-41 63-91 (105)
21 PF10886 DUF2685: Protein of u 41.6 12 0.00026 21.3 0.6 13 19-31 1-13 (54)
22 PRK13844 recombination protein 40.9 8.8 0.00019 26.8 -0.0 39 18-56 68-108 (200)
23 PRK13718 conjugal transfer pro 40.4 35 0.00077 20.9 2.5 18 2-19 19-36 (84)
24 TIGR00615 recR recombination p 38.5 10 0.00022 26.4 -0.0 39 18-56 64-104 (195)
25 KOG4265|consensus 38.3 11 0.00024 28.5 0.1 19 18-36 324-342 (349)
26 PRK00076 recR recombination pr 37.3 12 0.00025 26.0 0.1 39 18-56 64-104 (196)
27 PF13912 zf-C2H2_6: C2H2-type 36.9 11 0.00025 17.0 0.0 12 21-32 3-14 (27)
28 PF10367 Vps39_2: Vacuolar sor 36.1 16 0.00035 21.4 0.6 14 18-31 77-90 (109)
29 PF02945 Endonuclease_7: Recom 35.2 15 0.00032 22.1 0.3 14 18-31 21-34 (81)
30 PF13920 zf-C3HC4_3: Zinc fing 35.0 20 0.00044 18.7 0.8 12 19-30 37-48 (50)
31 PRK06848 hypothetical protein; 33.8 12 0.00026 24.4 -0.2 42 20-68 95-138 (139)
32 COG2174 RPL34A Ribosomal prote 32.3 22 0.00047 22.3 0.7 19 18-36 33-51 (93)
33 PF11100 TrbE: Conjugal transf 31.8 33 0.00072 20.2 1.4 16 3-18 12-27 (66)
34 PLN02182 cytidine deaminase 31.3 17 0.00036 27.4 0.1 16 19-34 129-144 (339)
35 PF02928 zf-C5HC2: C5HC2 zinc 31.3 27 0.00058 19.0 0.9 19 22-40 1-20 (54)
36 PF13832 zf-HC5HC2H_2: PHD-zin 31.3 20 0.00044 21.5 0.5 21 19-40 55-75 (110)
37 PHA02447 hypothetical protein 31.1 19 0.00041 21.7 0.3 14 10-23 41-54 (86)
38 PF14570 zf-RING_4: RING/Ubox 30.6 17 0.00037 20.0 0.0 20 20-39 23-46 (48)
39 PLN02402 cytidine deaminase 30.4 17 0.00037 26.9 0.0 14 20-33 102-115 (303)
40 PRK05578 cytidine deaminase; V 30.2 14 0.00031 23.8 -0.4 15 19-33 83-97 (131)
41 PF10146 zf-C4H2: Zinc finger- 28.1 21 0.00046 25.2 0.2 19 20-38 195-213 (230)
42 PTZ00317 NADP-dependent malic 27.3 46 0.00099 26.7 1.9 30 24-53 525-558 (559)
43 PF00096 zf-C2H2: Zinc finger, 26.8 24 0.00053 15.2 0.2 11 21-31 2-12 (23)
44 KOG1039|consensus 26.0 32 0.0007 25.9 0.8 17 17-33 159-175 (344)
45 PF15227 zf-C3HC4_4: zinc fing 24.7 29 0.00063 17.9 0.3 11 22-32 1-11 (42)
46 TIGR01355 cyt_deam_dimer cytid 24.6 25 0.00055 25.7 0.1 16 19-34 98-113 (283)
47 PF04438 zf-HIT: HIT zinc fing 23.7 28 0.0006 17.1 0.1 19 20-38 3-21 (30)
48 COG4844 Uncharacterized protei 23.5 28 0.0006 21.0 0.1 34 20-53 38-71 (78)
49 PF07824 Chaperone_III: Type I 23.3 7 0.00015 25.1 -2.7 27 28-56 38-64 (112)
50 PRK09027 cytidine deaminase; P 22.9 28 0.00061 25.6 0.0 16 19-34 126-141 (295)
51 PF13894 zf-C2H2_4: C2H2-type 22.8 29 0.00063 14.5 0.1 11 21-31 2-12 (24)
52 PF03107 C1_2: C1 domain; Int 21.9 34 0.00075 16.4 0.2 16 21-36 2-18 (30)
53 PRK08061 rpsN 30S ribosomal pr 21.8 29 0.00062 20.0 -0.1 20 21-40 36-55 (61)
54 TIGR01354 cyt_deam_tetra cytid 21.6 25 0.00054 22.2 -0.4 15 19-33 80-94 (127)
55 KOG0833|consensus 21.0 26 0.00056 24.1 -0.5 17 18-34 101-117 (173)
56 PF06677 Auto_anti-p27: Sjogre 21.0 32 0.00069 18.2 -0.0 17 15-31 13-29 (41)
57 smart00451 ZnF_U1 U1-like zinc 20.7 38 0.00082 16.0 0.2 12 21-32 5-16 (35)
58 cd00162 RING RING-finger (Real 20.7 37 0.00081 16.0 0.2 9 21-29 1-9 (45)
59 PF01363 FYVE: FYVE zinc finge 20.1 26 0.00057 19.3 -0.5 17 13-29 3-19 (69)
No 1
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.84 E-value=3.6e-22 Score=122.66 Aligned_cols=62 Identities=31% Similarity=0.664 Sum_probs=56.3
Q ss_pred CEEEEEEEeEEEeEeec-CCCeeccccchhhccCCCCCCCCchhhHHhhhcccccCCCCCCCccccC
Q psy6139 1 MFTLKKWNAVAMWSWDV-ECDTCAICRVQVMGTATVYPEPEDKLAFVKSFVYDYSYSEPSVPTSYSW 66 (69)
Q Consensus 1 ~~~i~~~~~v~~W~W~~-~~d~CaICr~~~~g~a~~~p~P~D~~~~V~~~~Y~~~Y~~s~lp~~y~w 66 (69)
+|+||+||+|+.|+||+ .+|+|||||++|+|.|+.|..|||.|++|.++ .++.|+ +..++.|
T Consensus 2 kv~i~~w~~va~W~Wd~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~-C~H~FH---~hCI~kW 64 (85)
T PF12861_consen 2 KVKIKEWHAVATWKWDVANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGK-CSHNFH---MHCILKW 64 (85)
T ss_pred eeEEEEEEEEEEEEEecCCCCceeeEecccccCCCCccCCCCCCceeecc-CccHHH---HHHHHHH
Confidence 68999999999999997 59999999999999999999999999999998 888886 5565555
No 2
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.82 E-value=1.4e-21 Score=119.51 Aligned_cols=62 Identities=39% Similarity=0.820 Sum_probs=55.3
Q ss_pred CEEEEEEEeEEEeEeecCCCeeccccchhhccCCCCCC---CCchhhHHhhhcccccCCCCCCCccccC
Q psy6139 1 MFTLKKWNAVAMWSWDVECDTCAICRVQVMGTATVYPE---PEDKLAFVKSFVYDYSYSEPSVPTSYSW 66 (69)
Q Consensus 1 ~~~i~~~~~v~~W~W~~~~d~CaICr~~~~g~a~~~p~---P~D~~~~V~~~~Y~~~Y~~s~lp~~y~w 66 (69)
+||||+||+|+.|+||+..|+||||||+|+|+|+.|.. |+|.|+.+.|. .++.|+ ...+|.|
T Consensus 2 kvkIkkw~aVa~Wswdi~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~-CnHaFH---~HCI~rW 66 (88)
T COG5194 2 KVKIKKWHAVALWSWDIPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGV-CNHAFH---DHCIYRW 66 (88)
T ss_pred ceEeeeEeEEEEEecccccchhhhhhccccCcCcccccCCCCCCcceEEEEe-cchHHH---HHHHHHH
Confidence 69999999999999999999999999999999999999 99999999886 677775 4455555
No 3
>KOG1493|consensus
Probab=99.81 E-value=2e-20 Score=113.64 Aligned_cols=55 Identities=29% Similarity=0.595 Sum_probs=51.3
Q ss_pred CEEEEEEEeEEEeEeecCCCeeccccchhhccCCCCCCCCchhhHHhhhcccccCC
Q psy6139 1 MFTLKKWNAVAMWSWDVECDTCAICRVQVMGTATVYPEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 1 ~~~i~~~~~v~~W~W~~~~d~CaICr~~~~g~a~~~p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
+||||++|+++.|+|+..+|+|||||.+|+|.|+.|+.|||.|++|.| ...+.|+
T Consensus 2 kvki~~~h~~a~wtW~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C~h~fh 56 (84)
T KOG1493|consen 2 KVKIKRYHAVAWWTWDAPDETCGICRMPFDGCCPDCKLPGDDCPLVWG-YCLHAFH 56 (84)
T ss_pred ceEEEEEEEEEEEEEcCCCCccceEecccCCcCCCCcCCCCCCccHHH-HHHHHHH
Confidence 689999999999999999999999999999999999999999999999 4666664
No 4
>KOG2930|consensus
Probab=99.58 E-value=3.8e-16 Score=99.51 Aligned_cols=38 Identities=50% Similarity=1.067 Sum_probs=36.1
Q ss_pred CEEEEEEEeEEEeEeecCCCeeccccchhhccCCCCCC
Q psy6139 1 MFTLKKWNAVAMWSWDVECDTCAICRVQVMGTATVYPE 38 (69)
Q Consensus 1 ~~~i~~~~~v~~W~W~~~~d~CaICr~~~~g~a~~~p~ 38 (69)
||+||||++||.|+||+..|+||||||+++++|..|.-
T Consensus 28 rF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa 65 (114)
T KOG2930|consen 28 RFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQA 65 (114)
T ss_pred ceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhcc
Confidence 69999999999999999999999999999999999853
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.55 E-value=1.5e-15 Score=89.89 Aligned_cols=55 Identities=38% Similarity=0.765 Sum_probs=47.6
Q ss_pred CEEEEEEEeEEEeEeecCCCeeccccchhhccCCCCCCCCchhhHHhhhcccccCC
Q psy6139 1 MFTLKKWNAVAMWSWDVECDTCAICRVQVMGTATVYPEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 1 ~~~i~~~~~v~~W~W~~~~d~CaICr~~~~g~a~~~p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
||+||+|++|+.|+|++.+|.||||+++|++.++.+..|++.++++.+. ..+.|+
T Consensus 1 ~~~i~~~~~v~~~~~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH 55 (73)
T PF12678_consen 1 KFKIKKWNAVALWSWDIADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFH 55 (73)
T ss_dssp SEEEEEEEEEEEEEESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEE
T ss_pred CeEEEEEEEEEEEeecCcCCcccccChhhhChhhhhcCCccccceEecc-cCCCEE
Confidence 7999999999999999999999999999999999999999888876554 455543
No 6
>KOG1257|consensus
Probab=98.70 E-value=9.1e-09 Score=79.84 Aligned_cols=39 Identities=44% Similarity=0.867 Sum_probs=37.1
Q ss_pred hccCCCCCCCCchhhHHhhhcccccCCCCCCCccccCCCC
Q psy6139 30 MGTATVYPEPEDKLAFVKSFVYDYSYSEPSVPTSYSWPKL 69 (69)
Q Consensus 30 ~g~a~~~p~P~D~~~~V~~~~Y~~~Y~~s~lp~~y~wp~~ 69 (69)
+|+|+.+|+|+|+++|++++||+++|+ +++|++|+||.+
T Consensus 540 ~glA~~~p~P~d~~~~~~~~~y~~~Y~-~~~~~~y~~p~~ 578 (582)
T KOG1257|consen 540 EGLATRYPEPKDKEKFIEESMYNPEYR-NSLPDTYDWPVE 578 (582)
T ss_pred cCccccCCCcccHHHHHHhccCCcccc-ccccccccCccc
Confidence 799999999999999999999999998 899999999963
No 7
>PLN03129 NADP-dependent malic enzyme; Provisional
Probab=87.38 E-value=0.4 Score=38.18 Aligned_cols=34 Identities=32% Similarity=0.524 Sum_probs=28.2
Q ss_pred ccccchh-hccCCCCCCCCchhhHHhhhcccccCC
Q psy6139 23 AICRVQV-MGTATVYPEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 23 aICr~~~-~g~a~~~p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
|+.+..+ +|+|...++|+|..++|+++||+++|.
T Consensus 544 aVa~~A~~~G~A~~~~~~~~~~~~i~~~mw~P~Y~ 578 (581)
T PLN03129 544 AVAAKAYEEGLATRLPRPEDLVEYAESCMYSPVYR 578 (581)
T ss_pred HHHHHHHHcCCCCCCCCHHHHHHHHHHcCcCCCCC
Confidence 3445555 478888889999999999999999996
No 8
>PRK13529 malate dehydrogenase; Provisional
Probab=86.05 E-value=0.44 Score=37.79 Aligned_cols=32 Identities=16% Similarity=0.277 Sum_probs=25.7
Q ss_pred cccchh-hccCCCCCCCCchhhHHhhhcccccCC
Q psy6139 24 ICRVQV-MGTATVYPEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 24 ICr~~~-~g~a~~~p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
+.+.++ +|+|.. +.|+|..+||+++||+++|.
T Consensus 526 Va~~A~~~GlA~~-~~~~~~~~~i~~~~w~P~Y~ 558 (563)
T PRK13529 526 VAKAAIEEGLARE-TSDEDLEQAIEDNMWQPEYR 558 (563)
T ss_pred HHHHHHHhCCCCC-CCHHHHHHHHHhcCcCCCCc
Confidence 344444 467875 78999999999999999996
No 9
>PF12907 zf-met2: Zinc-binding
Probab=82.94 E-value=0.38 Score=25.71 Aligned_cols=14 Identities=43% Similarity=0.861 Sum_probs=12.0
Q ss_pred eeccccchhhccCC
Q psy6139 21 TCAICRVQVMGTAT 34 (69)
Q Consensus 21 ~CaICr~~~~g~a~ 34 (69)
.|.|||+.|+.++.
T Consensus 3 ~C~iC~qtF~~t~~ 16 (40)
T PF12907_consen 3 ICKICRQTFMQTTN 16 (40)
T ss_pred CcHHhhHHHHhcCC
Confidence 69999999988764
No 10
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=75.75 E-value=1.1 Score=23.04 Aligned_cols=12 Identities=33% Similarity=0.769 Sum_probs=9.9
Q ss_pred Ceeccccchhhc
Q psy6139 20 DTCAICRVQVMG 31 (69)
Q Consensus 20 d~CaICr~~~~g 31 (69)
|.|+||...|..
T Consensus 1 d~C~IC~~~~~~ 12 (44)
T PF13639_consen 1 DECPICLEEFED 12 (44)
T ss_dssp -CETTTTCBHHT
T ss_pred CCCcCCChhhcC
Confidence 689999999975
No 11
>cd05312 NAD_bind_1_malic_enz NAD(P) binding domain of malic enzyme (ME), subgroup 1. Malic enzyme (ME), a member of the amino acid dehydrogenase (DH)-like domain family, catalyzes the oxidative decarboxylation of L-malate to pyruvate in the presence of cations (typically Mg++ or Mn++) with the concomitant reduction of cofactor NAD+ or NADP+. ME has been found in all organisms, and plays important roles in diverse metabolic pathways such as photosynthesis and lipogenesis. This enzyme generally forms homotetramers. The conversion of malate to pyruvate by ME typically involves oxidation of malate to produce oxaloacetate, followed by decarboxylation of oxaloacetate to produce pyruvate and CO2. This subfamily consists of eukaryotic and bacterial ME. Amino acid DH-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH
Probab=70.60 E-value=2.3 Score=30.98 Aligned_cols=30 Identities=37% Similarity=0.585 Sum_probs=23.9
Q ss_pred cccchh-hccCCCCCCCCchhhHHhhhcccc
Q psy6139 24 ICRVQV-MGTATVYPEPEDKLAFVKSFVYDY 53 (69)
Q Consensus 24 ICr~~~-~g~a~~~p~P~D~~~~V~~~~Y~~ 53 (69)
+.+..+ +|+|...++|.|.++||+++||++
T Consensus 249 Va~~A~~~gla~~~~~~~~~~~~i~~~~w~P 279 (279)
T cd05312 249 VAKYAYEEGLATRYPPPEDLEEYVKSQMWEP 279 (279)
T ss_pred HHHHHHHcCCCCCCCCHHHHHHHHHhCccCC
Confidence 344455 478888888899999999999974
No 12
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=59.53 E-value=3 Score=21.73 Aligned_cols=11 Identities=45% Similarity=0.881 Sum_probs=7.5
Q ss_pred CCCeeccccch
Q psy6139 18 ECDTCAICRVQ 28 (69)
Q Consensus 18 ~~d~CaICr~~ 28 (69)
.++.|.||+++
T Consensus 28 e~~~C~IC~d~ 38 (41)
T PF02132_consen 28 EEDPCEICSDP 38 (41)
T ss_dssp SSSS-HHHH-T
T ss_pred CCCcCcCCCCC
Confidence 57899999875
No 13
>PRK15202 type III secretion chaperone protein SigE; Provisional
Probab=55.78 E-value=7.8 Score=25.10 Aligned_cols=27 Identities=15% Similarity=0.338 Sum_probs=22.2
Q ss_pred hhhccCCCCCCCCchhhHHhhhcccccCC
Q psy6139 28 QVMGTATVYPEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 28 ~~~g~a~~~p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
.++-+||.||-|+|...++ +.-+.+|.
T Consensus 39 ~lem~CPf~~LPdn~~~Lq--~~LsLNYa 65 (117)
T PRK15202 39 TLEMCCPFMPLPDNILTLQ--HFLSLNYT 65 (117)
T ss_pred chhccCCcccCCccHHHHH--HHHhhccc
Confidence 4677899999999999887 56677775
No 14
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=54.13 E-value=3.7 Score=27.07 Aligned_cols=16 Identities=19% Similarity=0.470 Sum_probs=13.6
Q ss_pred CCeeccccchhhccCC
Q psy6139 19 CDTCAICRVQVMGTAT 34 (69)
Q Consensus 19 ~d~CaICr~~~~g~a~ 34 (69)
.--||.||+-+.+.+.
T Consensus 85 ~sPCG~CRQ~i~Ef~~ 100 (134)
T COG0295 85 VSPCGACRQVLAEFCG 100 (134)
T ss_pred cCCcHHHHHHHHHhcC
Confidence 4679999999998883
No 15
>PRK08298 cytidine deaminase; Validated
Probab=51.80 E-value=4.7 Score=26.32 Aligned_cols=14 Identities=14% Similarity=0.589 Sum_probs=11.9
Q ss_pred CeeccccchhhccC
Q psy6139 20 DTCAICRVQVMGTA 33 (69)
Q Consensus 20 d~CaICr~~~~g~a 33 (69)
--||+||+-+.+..
T Consensus 87 sPCG~CRQvl~Ef~ 100 (136)
T PRK08298 87 SPCGVCQERLFYWG 100 (136)
T ss_pred CCChhHHHHHHHhC
Confidence 47999999998873
No 16
>PHA02565 49 recombination endonuclease VII; Provisional
Probab=47.67 E-value=7.2 Score=26.48 Aligned_cols=15 Identities=20% Similarity=0.740 Sum_probs=12.2
Q ss_pred CCCeeccccchhhcc
Q psy6139 18 ECDTCAICRVQVMGT 32 (69)
Q Consensus 18 ~~d~CaICr~~~~g~ 32 (69)
+...|+||+.+|.+.
T Consensus 19 Q~G~CaiC~~~l~~~ 33 (157)
T PHA02565 19 QNGICPLCKRELDGD 33 (157)
T ss_pred hCCcCCCCCCccCCC
Confidence 578899999998653
No 17
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=46.98 E-value=7.3 Score=17.40 Aligned_cols=12 Identities=25% Similarity=0.628 Sum_probs=9.2
Q ss_pred eeccccchhhcc
Q psy6139 21 TCAICRVQVMGT 32 (69)
Q Consensus 21 ~CaICr~~~~g~ 32 (69)
.|.||...|.+.
T Consensus 2 ~C~~C~~~f~s~ 13 (25)
T PF12874_consen 2 YCDICNKSFSSE 13 (25)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCCcCCH
Confidence 589998888653
No 18
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=46.95 E-value=7.3 Score=27.35 Aligned_cols=39 Identities=31% Similarity=0.505 Sum_probs=32.2
Q ss_pred CCCeeccccchhhccCCCC--CCCCchhhHHhhhcccccCC
Q psy6139 18 ECDTCAICRVQVMGTATVY--PEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~~~--p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
..|.|.||.++-.+-...| -.|.|..++=+.+.|+--|+
T Consensus 65 e~d~C~ICsd~~Rd~~~icVVe~p~Dv~a~E~~~~f~G~Yh 105 (198)
T COG0353 65 ESDPCDICSDESRDKSQLCVVEEPKDVLALEKTGEFRGLYH 105 (198)
T ss_pred CCCcCcCcCCcccCCceEEEEcchHHHHHHHHhcccCeeEE
Confidence 5789999998887766655 57999999999999998885
No 19
>PRK12411 cytidine deaminase; Provisional
Probab=45.76 E-value=6.5 Score=25.39 Aligned_cols=16 Identities=19% Similarity=0.532 Sum_probs=13.2
Q ss_pred CCeeccccchhhccCC
Q psy6139 19 CDTCAICRVQVMGTAT 34 (69)
Q Consensus 19 ~d~CaICr~~~~g~a~ 34 (69)
.--||.||+-+.+.+.
T Consensus 83 ~sPCG~CRQ~l~Ef~~ 98 (132)
T PRK12411 83 VPPCGACRQVMVELCK 98 (132)
T ss_pred cCCchhHHHHHHHhCC
Confidence 3589999999998754
No 20
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=45.50 E-value=11 Score=23.96 Aligned_cols=22 Identities=23% Similarity=0.569 Sum_probs=17.1
Q ss_pred Ceeccccchh-------hccCCCCCCCCc
Q psy6139 20 DTCAICRVQV-------MGTATVYPEPED 41 (69)
Q Consensus 20 d~CaICr~~~-------~g~a~~~p~P~D 41 (69)
-.||.||+.| -+.|+.|..|=|
T Consensus 63 iiCGvC~~~LT~~EY~~~~~Cp~C~spFN 91 (105)
T COG4357 63 IICGVCRKLLTRAEYGMCGSCPYCQSPFN 91 (105)
T ss_pred EEhhhhhhhhhHHHHhhcCCCCCcCCCCC
Confidence 5799999988 466888877755
No 21
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=41.59 E-value=12 Score=21.25 Aligned_cols=13 Identities=15% Similarity=0.733 Sum_probs=10.2
Q ss_pred CCeeccccchhhc
Q psy6139 19 CDTCAICRVQVMG 31 (69)
Q Consensus 19 ~d~CaICr~~~~g 31 (69)
++.|+.|++++..
T Consensus 1 m~~CvVCKqpi~~ 13 (54)
T PF10886_consen 1 MEICVVCKQPIDD 13 (54)
T ss_pred CCeeeeeCCccCc
Confidence 3679999998865
No 22
>PRK13844 recombination protein RecR; Provisional
Probab=40.88 E-value=8.8 Score=26.81 Aligned_cols=39 Identities=23% Similarity=0.330 Sum_probs=31.5
Q ss_pred CCCeeccccchhhccCCCC--CCCCchhhHHhhhcccccCC
Q psy6139 18 ECDTCAICRVQVMGTATVY--PEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~~~--p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
++|.|.||+++-.+-...| -.|.|..++=++..|+=-|+
T Consensus 68 e~~~C~IC~d~~Rd~~~iCVVE~~~Dv~aiE~t~~y~G~Yh 108 (200)
T PRK13844 68 EDDVCNICSNTNRDDTKLCIIESMLDMIAIEEAGIYRGKYF 108 (200)
T ss_pred CCCCCCCCCCCCCCCCEEEEECCHHHHHHHHhhCccceEEE
Confidence 6789999999886554444 57899999999999988886
No 23
>PRK13718 conjugal transfer protein TrbE; Provisional
Probab=40.39 E-value=35 Score=20.91 Aligned_cols=18 Identities=33% Similarity=0.573 Sum_probs=14.0
Q ss_pred EEEEEEEeEEEeEeecCC
Q psy6139 2 FTLKKWNAVAMWSWDVEC 19 (69)
Q Consensus 2 ~~i~~~~~v~~W~W~~~~ 19 (69)
+++.=+++|-.|+||..-
T Consensus 19 vT~IViSPviywSWDtVK 36 (84)
T PRK13718 19 ITAIVISPVIYWSWDTVK 36 (84)
T ss_pred eEEEEecceEEEEehhcc
Confidence 456678999999999643
No 24
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.46 E-value=10 Score=26.39 Aligned_cols=39 Identities=21% Similarity=0.472 Sum_probs=32.0
Q ss_pred CCCeeccccchhhccCCCC--CCCCchhhHHhhhcccccCC
Q psy6139 18 ECDTCAICRVQVMGTATVY--PEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~~~--p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
+++.|.||+++-.+....| -.|.|..++=++..|+=-|+
T Consensus 64 e~~~C~IC~d~~Rd~~~iCVVE~~~Dv~aiE~~~~y~G~Yh 104 (195)
T TIGR00615 64 DQEVCNICSDERRDNSVICVVEDPKDVFALEKTKEFRGRYH 104 (195)
T ss_pred CCCcCCCCCCCCCCCCEEEEECCHHHHHHHHhhCccceEEE
Confidence 6789999999987654444 57899999999999988886
No 25
>KOG4265|consensus
Probab=38.33 E-value=11 Score=28.53 Aligned_cols=19 Identities=26% Similarity=0.751 Sum_probs=12.5
Q ss_pred CCCeeccccchhhccCCCC
Q psy6139 18 ECDTCAICRVQVMGTATVY 36 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~~~ 36 (69)
..++|-|||+++..+-..+
T Consensus 324 q~n~CPICRqpi~~ll~i~ 342 (349)
T KOG4265|consen 324 QTNNCPICRQPIEELLEIY 342 (349)
T ss_pred hhcCCCccccchHhhheec
Confidence 4567777777777665444
No 26
>PRK00076 recR recombination protein RecR; Reviewed
Probab=37.34 E-value=12 Score=26.05 Aligned_cols=39 Identities=28% Similarity=0.432 Sum_probs=31.8
Q ss_pred CCCeeccccchhhccCCCC--CCCCchhhHHhhhcccccCC
Q psy6139 18 ECDTCAICRVQVMGTATVY--PEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~~~--p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
+++.|.||+++-.+-...| -.|.|.-++=++..|+=-|+
T Consensus 64 e~~~C~IC~d~~Rd~~~icVVE~~~Dv~aiE~s~~y~G~Yh 104 (196)
T PRK00076 64 EQDPCEICSDPRRDQSLICVVESPADVLAIERTGEYRGLYH 104 (196)
T ss_pred CCCcCCCCCCCCCCCCEEEEECCHHHHHHHHhhCcCceEEE
Confidence 6789999999987665544 57899999999999988775
No 27
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=36.93 E-value=11 Score=17.04 Aligned_cols=12 Identities=17% Similarity=0.418 Sum_probs=9.4
Q ss_pred eeccccchhhcc
Q psy6139 21 TCAICRVQVMGT 32 (69)
Q Consensus 21 ~CaICr~~~~g~ 32 (69)
.|.+|...|...
T Consensus 3 ~C~~C~~~F~~~ 14 (27)
T PF13912_consen 3 ECDECGKTFSSL 14 (27)
T ss_dssp EETTTTEEESSH
T ss_pred CCCccCCccCCh
Confidence 589999988654
No 28
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=36.12 E-value=16 Score=21.36 Aligned_cols=14 Identities=21% Similarity=0.638 Sum_probs=12.1
Q ss_pred CCCeeccccchhhc
Q psy6139 18 ECDTCAICRVQVMG 31 (69)
Q Consensus 18 ~~d~CaICr~~~~g 31 (69)
.+..|++|...|.+
T Consensus 77 ~~~~C~vC~k~l~~ 90 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN 90 (109)
T ss_pred CCCCccCcCCcCCC
Confidence 47889999999976
No 29
>PF02945 Endonuclease_7: Recombination endonuclease VII; InterPro: IPR004211 This family of proteins which includes Bacteriophage T4 endonuclease VII, Mycobacteriophage D29 gene 59, and other as yet uncharacterised proteins. The T4 endonuclease VII (Endo VII) recognises a broad spectrum of DNA substrates ranging from branched DNAs to single base mismatches. The structure of this enzyme has been resolved and it was found that the monomers form an elongated, intertwined molecular dimer that exibits extreme domain swapping. Two pairs of antiparallel helices which form a novel 'four-helix cross' motif are the major dimerisation elements [].; PDB: 3GOX_A 3FC3_A 1EN7_B 1E7L_B 2QNF_A 2QNC_A 1E7D_A.
Probab=35.22 E-value=15 Score=22.08 Aligned_cols=14 Identities=36% Similarity=0.764 Sum_probs=8.6
Q ss_pred CCCeeccccchhhc
Q psy6139 18 ECDTCAICRVQVMG 31 (69)
Q Consensus 18 ~~d~CaICr~~~~g 31 (69)
+...|+||..++.+
T Consensus 21 q~~~C~iC~~~~~~ 34 (81)
T PF02945_consen 21 QGGRCAICGKPLPG 34 (81)
T ss_dssp TTTE-TTT-SEEET
T ss_pred hCCcCcCCCCCccc
Confidence 56899999985543
No 30
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=34.98 E-value=20 Score=18.70 Aligned_cols=12 Identities=33% Similarity=0.811 Sum_probs=6.1
Q ss_pred CCeeccccchhh
Q psy6139 19 CDTCAICRVQVM 30 (69)
Q Consensus 19 ~d~CaICr~~~~ 30 (69)
...|.|||.+++
T Consensus 37 ~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 37 KKKCPICRQPIE 48 (50)
T ss_dssp TSBBTTTTBB-S
T ss_pred CCCCCcCChhhc
Confidence 455666665554
No 31
>PRK06848 hypothetical protein; Validated
Probab=33.81 E-value=12 Score=24.35 Aligned_cols=42 Identities=14% Similarity=0.279 Sum_probs=24.7
Q ss_pred CeeccccchhhccCCCCCCCCchhhHHhhh--cccccCCCCCCCccccCCC
Q psy6139 20 DTCAICRVQVMGTATVYPEPEDKLAFVKSF--VYDYSYSEPSVPTSYSWPK 68 (69)
Q Consensus 20 d~CaICr~~~~g~a~~~p~P~D~~~~V~~~--~Y~~~Y~~s~lp~~y~wp~ 68 (69)
--||.||+-|.+..+ |..-+|-+. .-..... .+||..|..++
T Consensus 95 ~PCG~CRQvl~E~~~------~~~v~v~~~~~~~~~~l~-eLLP~~f~~~~ 138 (139)
T PRK06848 95 SPCGACRELISDYGK------NTNVIVPYNDELVKVNIM-ELLPNKYTREV 138 (139)
T ss_pred CCChhhHHHHHHhCC------CCEEEEECCCCeEEEEHH-HhCccccCCCC
Confidence 379999999988632 322222111 1123443 68888887765
No 32
>COG2174 RPL34A Ribosomal protein L34E [Translation, ribosomal structure and biogenesis]
Probab=32.32 E-value=22 Score=22.26 Aligned_cols=19 Identities=26% Similarity=0.417 Sum_probs=15.6
Q ss_pred CCCeeccccchhhccCCCC
Q psy6139 18 ECDTCAICRVQVMGTATVY 36 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~~~ 36 (69)
.--.||||-.+|+|....-
T Consensus 33 ~~p~C~~cg~pL~Gi~r~R 51 (93)
T COG2174 33 TIPKCAICGRPLGGIPRGR 51 (93)
T ss_pred CCCcccccCCccCCccCCC
Confidence 4578999999999987653
No 33
>PF11100 TrbE: Conjugal transfer protein TrbE ; InterPro: IPR020150 TrbE is encoded by the F-plasmid and is located between traN and traF. The product of trbE is a small, integral, inner membrane protein. Mutation of trbE by insertional mutagenesis suggests that TrbE is not essential for F transfer from Escherichia coli (strain K12) under standard mating conditions [].
Probab=31.81 E-value=33 Score=20.16 Aligned_cols=16 Identities=38% Similarity=0.684 Sum_probs=12.6
Q ss_pred EEEEEEeEEEeEeecC
Q psy6139 3 TLKKWNAVAMWSWDVE 18 (69)
Q Consensus 3 ~i~~~~~v~~W~W~~~ 18 (69)
++.=+++|-.||||..
T Consensus 12 T~IviSPvIywSWDaV 27 (66)
T PF11100_consen 12 TAIVISPVIYWSWDAV 27 (66)
T ss_pred hheeecceEEEEeccc
Confidence 4556789999999964
No 34
>PLN02182 cytidine deaminase
Probab=31.31 E-value=17 Score=27.43 Aligned_cols=16 Identities=19% Similarity=0.405 Sum_probs=13.6
Q ss_pred CCeeccccchhhccCC
Q psy6139 19 CDTCAICRVQVMGTAT 34 (69)
Q Consensus 19 ~d~CaICr~~~~g~a~ 34 (69)
.--||.||+-+.+...
T Consensus 129 ~sPCG~CRQfm~Ef~~ 144 (339)
T PLN02182 129 GTPCGHCLQFLMEMSN 144 (339)
T ss_pred cCCCchhHHHHHHhCC
Confidence 3589999999999865
No 35
>PF02928 zf-C5HC2: C5HC2 zinc finger; InterPro: IPR004198 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 a predicted zinc finger with eight potential zinc ligand binding residues. This domain is found in Jumonji [], and may have a DNA binding function. The mouse jumonji protein is required for neural tube formation, and is essential for normal heart development. It also plays a role in the down-regulation of cell proliferation signalling. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005634 nucleus
Probab=31.29 E-value=27 Score=19.03 Aligned_cols=19 Identities=26% Similarity=0.700 Sum_probs=11.8
Q ss_pred eccccchhhccCCCCC-CCC
Q psy6139 22 CAICRVQVMGTATVYP-EPE 40 (69)
Q Consensus 22 CaICr~~~~g~a~~~p-~P~ 40 (69)
|.+||...--.+..|+ .|+
T Consensus 1 C~~Ck~~~yLS~v~C~C~~~ 20 (54)
T PF02928_consen 1 CSICKAYCYLSAVTCSCKPD 20 (54)
T ss_pred CcccCCchhhcccccCCCCC
Confidence 5667766666666666 444
No 36
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.27 E-value=20 Score=21.52 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=17.8
Q ss_pred CCeeccccchhhccCCCCCCCC
Q psy6139 19 CDTCAICRVQVMGTATVYPEPE 40 (69)
Q Consensus 19 ~d~CaICr~~~~g~a~~~p~P~ 40 (69)
...|.||+.. .|.+..|..|+
T Consensus 55 ~~~C~iC~~~-~G~~i~C~~~~ 75 (110)
T PF13832_consen 55 KLKCSICGKS-GGACIKCSHPG 75 (110)
T ss_pred CCcCcCCCCC-CceeEEcCCCC
Confidence 5789999999 88888887776
No 37
>PHA02447 hypothetical protein
Probab=31.08 E-value=19 Score=21.65 Aligned_cols=14 Identities=43% Similarity=0.907 Sum_probs=11.5
Q ss_pred EEEeEeecCCCeec
Q psy6139 10 VAMWSWDVECDTCA 23 (69)
Q Consensus 10 v~~W~W~~~~d~Ca 23 (69)
.+.++|++++.+|+
T Consensus 41 agdfrwsvedntca 54 (86)
T PHA02447 41 AGDFRWSVEDNTCA 54 (86)
T ss_pred ccceeeeeccchHH
Confidence 35688999999997
No 38
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=30.64 E-value=17 Score=20.02 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=9.0
Q ss_pred Ceeccc----cchhhccCCCCCCC
Q psy6139 20 DTCAIC----RVQVMGTATVYPEP 39 (69)
Q Consensus 20 d~CaIC----r~~~~g~a~~~p~P 39 (69)
..|.-| +...+|.||.|.+|
T Consensus 23 ~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 23 QICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp ---HHHHHHHTTSS-SB-TTT--B
T ss_pred cHHHHHHHHHHhccCCCCCCCCCC
Confidence 345555 44568888888876
No 39
>PLN02402 cytidine deaminase
Probab=30.41 E-value=17 Score=26.95 Aligned_cols=14 Identities=21% Similarity=0.449 Sum_probs=12.7
Q ss_pred CeeccccchhhccC
Q psy6139 20 DTCAICRVQVMGTA 33 (69)
Q Consensus 20 d~CaICr~~~~g~a 33 (69)
.-||+||+-+.+.+
T Consensus 102 sPCG~CRQ~l~Ef~ 115 (303)
T PLN02402 102 APCGHCRQFFQEIR 115 (303)
T ss_pred CCCcccHHHHHHhc
Confidence 69999999999885
No 40
>PRK05578 cytidine deaminase; Validated
Probab=30.25 E-value=14 Score=23.78 Aligned_cols=15 Identities=20% Similarity=0.456 Sum_probs=12.8
Q ss_pred CCeeccccchhhccC
Q psy6139 19 CDTCAICRVQVMGTA 33 (69)
Q Consensus 19 ~d~CaICr~~~~g~a 33 (69)
.--||.||+-|.+..
T Consensus 83 ~sPCG~CRQ~l~e~~ 97 (131)
T PRK05578 83 LSPCGRCRQVLAEFG 97 (131)
T ss_pred cCccHHHHHHHHHhC
Confidence 357999999999886
No 41
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=28.13 E-value=21 Score=25.24 Aligned_cols=19 Identities=32% Similarity=0.649 Sum_probs=17.0
Q ss_pred CeeccccchhhccCCCCCC
Q psy6139 20 DTCAICRVQVMGTATVYPE 38 (69)
Q Consensus 20 d~CaICr~~~~g~a~~~p~ 38 (69)
-+|--|.+.++.-||.||.
T Consensus 195 K~C~sC~qqIHRNAPiCPl 213 (230)
T PF10146_consen 195 KTCQSCHQQIHRNAPICPL 213 (230)
T ss_pred chhHhHHHHHhcCCCCCcc
Confidence 3799999999999999984
No 42
>PTZ00317 NADP-dependent malic enzyme; Provisional
Probab=27.33 E-value=46 Score=26.72 Aligned_cols=30 Identities=27% Similarity=0.298 Sum_probs=20.7
Q ss_pred cccchh-hccCCCCCCC---CchhhHHhhhcccc
Q psy6139 24 ICRVQV-MGTATVYPEP---EDKLAFVKSFVYDY 53 (69)
Q Consensus 24 ICr~~~-~g~a~~~p~P---~D~~~~V~~~~Y~~ 53 (69)
+.+.++ +|+|...+.| .|..+||+++||++
T Consensus 525 V~~~A~~~G~A~~~~~~~~~~~~~~~i~~~~w~P 558 (559)
T PTZ00317 525 VIEEAQEMGIAKNKDLPDNRDELLALVKDRMWVP 558 (559)
T ss_pred HHHHHHHhCCCccCCCCCCHHHHHHHHHhcCcCC
Confidence 344444 4688764434 47799999999986
No 43
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=26.83 E-value=24 Score=15.21 Aligned_cols=11 Identities=27% Similarity=0.727 Sum_probs=7.9
Q ss_pred eeccccchhhc
Q psy6139 21 TCAICRVQVMG 31 (69)
Q Consensus 21 ~CaICr~~~~g 31 (69)
.|.+|...|..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 47888877754
No 44
>KOG1039|consensus
Probab=26.01 E-value=32 Score=25.85 Aligned_cols=17 Identities=24% Similarity=0.454 Sum_probs=14.1
Q ss_pred cCCCeeccccchhhccC
Q psy6139 17 VECDTCAICRVQVMGTA 33 (69)
Q Consensus 17 ~~~d~CaICr~~~~g~a 33 (69)
..+.+||||.......+
T Consensus 159 s~~k~CGICme~i~ek~ 175 (344)
T KOG1039|consen 159 SSEKECGICMETINEKA 175 (344)
T ss_pred cccccceehhhhccccc
Confidence 36899999998887776
No 45
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=24.75 E-value=29 Score=17.92 Aligned_cols=11 Identities=27% Similarity=0.591 Sum_probs=7.1
Q ss_pred eccccchhhcc
Q psy6139 22 CAICRVQVMGT 32 (69)
Q Consensus 22 CaICr~~~~g~ 32 (69)
|.||...|.+.
T Consensus 1 CpiC~~~~~~P 11 (42)
T PF15227_consen 1 CPICLDLFKDP 11 (42)
T ss_dssp ETTTTSB-SSE
T ss_pred CCccchhhCCc
Confidence 77888877653
No 46
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=24.59 E-value=25 Score=25.70 Aligned_cols=16 Identities=19% Similarity=0.403 Sum_probs=13.6
Q ss_pred CCeeccccchhhccCC
Q psy6139 19 CDTCAICRVQVMGTAT 34 (69)
Q Consensus 19 ~d~CaICr~~~~g~a~ 34 (69)
..-||.||+-+.+.+.
T Consensus 98 ~~PCG~CRQ~l~Ef~~ 113 (283)
T TIGR01355 98 YAPCGHCRQFLNEIRN 113 (283)
T ss_pred eCCcchhHHHHHHhcC
Confidence 4589999999999864
No 47
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=23.72 E-value=28 Score=17.10 Aligned_cols=19 Identities=11% Similarity=0.247 Sum_probs=12.1
Q ss_pred CeeccccchhhccCCCCCC
Q psy6139 20 DTCAICRVQVMGTATVYPE 38 (69)
Q Consensus 20 d~CaICr~~~~g~a~~~p~ 38 (69)
..|+||.+.-.=.|+.|-.
T Consensus 3 ~~C~vC~~~~kY~Cp~C~~ 21 (30)
T PF04438_consen 3 KLCSVCGNPAKYRCPRCGA 21 (30)
T ss_dssp EEETSSSSEESEE-TTT--
T ss_pred CCCccCcCCCEEECCCcCC
Confidence 5799999866666776644
No 48
>COG4844 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.53 E-value=28 Score=20.95 Aligned_cols=34 Identities=12% Similarity=0.285 Sum_probs=20.2
Q ss_pred CeeccccchhhccCCCCCCCCchhhHHhhhcccc
Q psy6139 20 DTCAICRVQVMGTATVYPEPEDKLAFVKSFVYDY 53 (69)
Q Consensus 20 d~CaICr~~~~g~a~~~p~P~D~~~~V~~~~Y~~ 53 (69)
-.||||.+++-.+-..=-.-|+.-+=...++|.+
T Consensus 38 t~Cg~Ca~~lfALVnGevV~Get~eeLv~NIY~~ 71 (78)
T COG4844 38 THCGICAASLFALVNGEVVEGETPEELVENIYTF 71 (78)
T ss_pred hhhhhHHHhHHHHhcCceecCCCHHHHHHHHHHH
Confidence 4699999998766654444444443333455543
No 49
>PF07824 Chaperone_III: Type III secretion chaperone domain; InterPro: IPR013095 Type III secretion chaperones are involved in delivering virulence effector proteins from bacterial pathogens directly into eukaryotic cells. The chaperones may prevent aggregation and degradation of their substrates, may target the effector to the secretion apparatus, and may ensure a secretion-component unfolded conformation of their specific substrate. One member of this family, SigE (O30917 from SWISSPROT) forms homodimers in crystal. The monomers have a novel fold with an alpha-beta(3)-alpha-beta(2)-alpha topology []. ; PDB: 1K3S_B.
Probab=23.33 E-value=7 Score=25.15 Aligned_cols=27 Identities=15% Similarity=0.263 Sum_probs=17.6
Q ss_pred hhhccCCCCCCCCchhhHHhhhcccccCC
Q psy6139 28 QVMGTATVYPEPEDKLAFVKSFVYDYSYS 56 (69)
Q Consensus 28 ~~~g~a~~~p~P~D~~~~V~~~~Y~~~Y~ 56 (69)
.++-+||.||-|+|...++ +.-+.+|.
T Consensus 38 ~lem~CPf~~LPd~i~~Lq--~~L~lNYs 64 (112)
T PF07824_consen 38 SLEMCCPFMPLPDNINTLQ--HFLSLNYS 64 (112)
T ss_dssp EEEEEEEEEE---SHHHHH--HHHHHHHH
T ss_pred ceeeecCcccCcchHHHHH--HHHhhccc
Confidence 3567899999999999876 44556664
No 50
>PRK09027 cytidine deaminase; Provisional
Probab=22.88 E-value=28 Score=25.59 Aligned_cols=16 Identities=19% Similarity=0.418 Sum_probs=13.8
Q ss_pred CCeeccccchhhccCC
Q psy6139 19 CDTCAICRVQVMGTAT 34 (69)
Q Consensus 19 ~d~CaICr~~~~g~a~ 34 (69)
..-||.||+-+.+.+.
T Consensus 126 ~sPCG~CRQ~l~E~~~ 141 (295)
T PRK09027 126 YTPCGHCRQFMNELNS 141 (295)
T ss_pred ecCchhhHHHHHHhCC
Confidence 4589999999999875
No 51
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=22.76 E-value=29 Score=14.47 Aligned_cols=11 Identities=27% Similarity=0.715 Sum_probs=5.6
Q ss_pred eeccccchhhc
Q psy6139 21 TCAICRVQVMG 31 (69)
Q Consensus 21 ~CaICr~~~~g 31 (69)
.|.+|...|..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 47777766644
No 52
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=21.92 E-value=34 Score=16.39 Aligned_cols=16 Identities=25% Similarity=0.507 Sum_probs=12.2
Q ss_pred eeccccchhhcc-CCCC
Q psy6139 21 TCAICRVQVMGT-ATVY 36 (69)
Q Consensus 21 ~CaICr~~~~g~-a~~~ 36 (69)
.|.+|+..++|. .=.|
T Consensus 2 ~C~~C~~~~~~~~~Y~C 18 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHC 18 (30)
T ss_pred CCCCCCCCcCCCEeEEe
Confidence 589999999887 4444
No 53
>PRK08061 rpsN 30S ribosomal protein S14; Reviewed
Probab=21.82 E-value=29 Score=19.98 Aligned_cols=20 Identities=20% Similarity=0.243 Sum_probs=16.6
Q ss_pred eeccccchhhccCCCCCCCC
Q psy6139 21 TCAICRVQVMGTATVYPEPE 40 (69)
Q Consensus 21 ~CaICr~~~~g~a~~~p~P~ 40 (69)
..++||+.|.++|..--.||
T Consensus 36 ~fgl~R~~FRe~A~~G~ipG 55 (61)
T PRK08061 36 KFGLCRICFRELAYKGQIPG 55 (61)
T ss_pred cCCccHHHHHHHHHcCcCCC
Confidence 45799999999998887776
No 54
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric. This small, homotetrameric zinc metalloprotein is found in humans and most bacteria. A related, homodimeric form with a much larger subunit is found in E. coli and in Arabidopsis. Both types may act on deoxycytidine as well as cytidine.
Probab=21.57 E-value=25 Score=22.22 Aligned_cols=15 Identities=27% Similarity=0.567 Sum_probs=13.3
Q ss_pred CCeeccccchhhccC
Q psy6139 19 CDTCAICRVQVMGTA 33 (69)
Q Consensus 19 ~d~CaICr~~~~g~a 33 (69)
.--||.||+-+...+
T Consensus 80 ~sPCG~Crq~l~e~~ 94 (127)
T TIGR01354 80 VSPCGACRQVLAEFA 94 (127)
T ss_pred cCccHHHHHHHHHhC
Confidence 468999999999987
No 55
>KOG0833|consensus
Probab=21.01 E-value=26 Score=24.14 Aligned_cols=17 Identities=18% Similarity=0.413 Sum_probs=13.7
Q ss_pred CCCeeccccchhhccCC
Q psy6139 18 ECDTCAICRVQVMGTAT 34 (69)
Q Consensus 18 ~~d~CaICr~~~~g~a~ 34 (69)
-..-||.||+.+.+...
T Consensus 101 f~tPCG~CRQfl~Ef~~ 117 (173)
T KOG0833|consen 101 FTTPCGVCRQFLREFGN 117 (173)
T ss_pred cCCCcHHHHHHHHHHhh
Confidence 36789999999977665
No 56
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=20.99 E-value=32 Score=18.17 Aligned_cols=17 Identities=24% Similarity=0.698 Sum_probs=12.4
Q ss_pred eecCCCeeccccchhhc
Q psy6139 15 WDVECDTCAICRVQVMG 31 (69)
Q Consensus 15 W~~~~d~CaICr~~~~g 31 (69)
|..-++.|..|..++..
T Consensus 13 ~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 13 WTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HhHhcCccCCCCCeeEE
Confidence 34567888888888765
No 57
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=20.75 E-value=38 Score=16.00 Aligned_cols=12 Identities=25% Similarity=0.742 Sum_probs=9.1
Q ss_pred eeccccchhhcc
Q psy6139 21 TCAICRVQVMGT 32 (69)
Q Consensus 21 ~CaICr~~~~g~ 32 (69)
.|.+|...|.+.
T Consensus 5 ~C~~C~~~~~~~ 16 (35)
T smart00451 5 YCKLCNVTFTDE 16 (35)
T ss_pred EccccCCccCCH
Confidence 588998888743
No 58
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=20.69 E-value=37 Score=15.99 Aligned_cols=9 Identities=33% Similarity=0.922 Sum_probs=7.0
Q ss_pred eeccccchh
Q psy6139 21 TCAICRVQV 29 (69)
Q Consensus 21 ~CaICr~~~ 29 (69)
.|+||...+
T Consensus 1 ~C~iC~~~~ 9 (45)
T cd00162 1 ECPICLEEF 9 (45)
T ss_pred CCCcCchhh
Confidence 488888877
No 59
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=20.13 E-value=26 Score=19.32 Aligned_cols=17 Identities=35% Similarity=0.827 Sum_probs=8.8
Q ss_pred eEeecCCCeeccccchh
Q psy6139 13 WSWDVECDTCAICRVQV 29 (69)
Q Consensus 13 W~W~~~~d~CaICr~~~ 29 (69)
|.=+-+...|.+|+..|
T Consensus 3 W~~d~~~~~C~~C~~~F 19 (69)
T PF01363_consen 3 WVPDSEASNCMICGKKF 19 (69)
T ss_dssp SSSGGG-SB-TTT--B-
T ss_pred cCCCCCCCcCcCcCCcC
Confidence 44455678999999999
Done!