Query psy16486
Match_columns 150
No_of_seqs 120 out of 243
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 22:31:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16486.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16486hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1233|consensus 99.9 4.6E-22 9.9E-27 178.0 6.0 98 1-98 425-523 (613)
2 PF02913 FAD-oxidase_C: FAD li 98.4 1.1E-07 2.3E-12 74.0 2.0 102 1-107 66-174 (248)
3 TIGR00387 glcD glycolate oxida 98.0 8.2E-06 1.8E-10 71.5 5.3 98 1-107 238-340 (413)
4 PRK11230 glycolate oxidase sub 97.3 0.0004 8.8E-09 63.0 6.0 99 1-108 295-398 (499)
5 PLN02805 D-lactate dehydrogena 96.9 0.0017 3.7E-08 60.1 5.6 100 1-108 370-475 (555)
6 COG3286 Uncharacterized protei 88.3 1.2 2.6E-05 37.3 5.4 81 2-82 44-135 (204)
7 PF09840 DUF2067: Uncharacteri 78.1 6.5 0.00014 32.2 5.7 81 2-82 41-132 (190)
8 cd00248 Mth938-like Mth938-lik 58.0 5.2 0.00011 29.5 1.0 33 25-62 56-88 (109)
9 TIGR02017 hutG_amidohyd N-form 49.4 24 0.00052 29.8 3.8 34 67-101 115-152 (263)
10 PF05013 FGase: N-formylglutam 47.8 26 0.00057 28.3 3.7 33 69-102 113-145 (222)
11 PRK09875 putative hydrolase; P 47.3 40 0.00086 29.1 4.9 51 53-106 117-168 (292)
12 cd05560 Xcc1710_like Xcc1710_l 46.7 9.1 0.0002 28.3 0.8 28 35-62 61-88 (109)
13 PF14257 DUF4349: Domain of un 46.2 31 0.00068 28.4 4.0 77 6-82 59-144 (262)
14 PLN02733 phosphatidylcholine-s 44.4 58 0.0013 29.7 5.7 59 44-102 112-175 (440)
15 PTZ00399 cysteinyl-tRNA-synthe 43.6 55 0.0012 31.4 5.6 10 79-88 523-533 (651)
16 PF02450 LCAT: Lecithin:choles 42.5 56 0.0012 28.8 5.2 58 44-102 69-132 (389)
17 TIGR03356 BGL beta-galactosida 34.1 57 0.0012 29.3 4.0 60 43-103 55-122 (427)
18 PF04794 YdjC: YdjC-like prote 34.0 97 0.0021 25.5 5.0 83 11-100 137-227 (261)
19 KOG0496|consensus 33.9 41 0.00089 32.7 3.1 91 6-111 142-239 (649)
20 PF02153 PDH: Prephenate dehyd 33.8 29 0.00063 28.6 1.9 36 63-101 73-108 (258)
21 PRK13511 6-phospho-beta-galact 33.2 43 0.00092 30.5 3.1 60 44-104 56-123 (469)
22 KOG4179|consensus 33.2 17 0.00037 34.2 0.5 26 48-74 511-538 (568)
23 KOG4364|consensus 32.1 48 0.001 32.8 3.3 7 52-58 212-218 (811)
24 COG3737 Uncharacterized conser 32.0 20 0.00044 28.1 0.7 46 14-64 59-107 (127)
25 KOG1374|consensus 31.2 45 0.00098 31.0 2.8 49 28-102 97-145 (448)
26 cd07947 DRE_TIM_Re_CS Clostrid 30.7 1.8E+02 0.004 24.8 6.3 61 5-66 110-180 (279)
27 COG2723 BglB Beta-glucosidase/ 30.6 48 0.001 30.9 3.0 57 44-101 61-126 (460)
28 cd05125 Mth938_2P1-like Mth938 30.4 28 0.0006 26.2 1.2 34 25-63 58-91 (114)
29 PRK09852 cryptic 6-phospho-bet 30.0 77 0.0017 29.1 4.2 54 44-97 73-135 (474)
30 TIGR01233 lacG 6-phospho-beta- 29.8 51 0.0011 30.1 2.9 57 44-101 55-119 (467)
31 PRK09487 sdhC succinate dehydr 29.4 31 0.00067 26.4 1.3 31 45-75 89-119 (129)
32 cd05126 Mth938 Mth938 domain. 28.9 26 0.00057 26.3 0.8 48 11-63 47-96 (117)
33 TIGR02884 spore_pdaA delta-lac 28.5 1.1E+02 0.0023 24.8 4.4 46 5-56 107-155 (224)
34 PF03162 Y_phosphatase2: Tyros 27.4 61 0.0013 25.4 2.7 39 71-110 75-118 (164)
35 PF11214 Med2: Mediator comple 27.3 65 0.0014 24.5 2.7 10 124-133 90-99 (105)
36 PF04430 DUF498: Protein of un 27.0 23 0.0005 25.7 0.2 28 35-62 62-89 (110)
37 cd07963 Anticodon_Ia_Cys Antic 26.9 42 0.0009 25.4 1.6 27 40-66 128-155 (156)
38 cd06291 PBP1_Qymf_like Ligand 25.7 2.6E+02 0.0057 21.5 6.0 74 15-96 103-180 (265)
39 PLN02998 beta-glucosidase 25.6 71 0.0015 29.6 3.2 60 44-104 84-151 (497)
40 PF00232 Glyco_hydro_1: Glycos 25.1 62 0.0013 29.1 2.6 62 44-106 60-130 (455)
41 PF02913 FAD-oxidase_C: FAD li 24.0 1.8E+02 0.004 22.2 4.8 22 8-29 186-207 (248)
42 PLN02849 beta-glucosidase 23.9 77 0.0017 29.4 3.1 58 44-102 81-146 (503)
43 PRK09589 celA 6-phospho-beta-g 23.7 1E+02 0.0022 28.3 3.7 58 44-102 69-135 (476)
44 PF10669 Phage_Gp23: Protein g 23.7 1.5E+02 0.0032 22.8 4.0 20 105-124 36-55 (121)
45 COG3931 Predicted N-formylglut 23.5 1.1E+02 0.0024 26.7 3.7 31 70-101 126-156 (263)
46 PRK11858 aksA trans-homoaconit 23.4 1.8E+02 0.0039 25.6 5.1 67 6-77 112-185 (378)
47 PF04182 B-block_TFIIIC: B-blo 22.9 65 0.0014 21.9 1.8 22 36-58 30-51 (75)
48 PLN02814 beta-glucosidase 22.6 83 0.0018 29.2 3.0 58 44-102 79-144 (504)
49 PLN02517 phosphatidylcholine-s 22.2 2.3E+02 0.0051 27.7 5.9 58 45-102 161-226 (642)
50 TIGR02660 nifV_homocitr homoci 22.1 1.9E+02 0.0041 25.3 5.0 67 6-77 109-182 (365)
51 PF01358 PARP_regulatory: Poly 21.9 44 0.00095 29.5 1.0 22 25-53 63-84 (294)
52 cd06274 PBP1_FruR Ligand bindi 21.8 3.6E+02 0.0078 20.8 6.1 83 14-104 107-193 (264)
53 cd05782 DNA_polB_like1_exo Unc 20.8 49 0.0011 26.7 1.0 39 11-55 81-119 (208)
54 PRK09593 arb 6-phospho-beta-gl 20.5 81 0.0018 28.9 2.4 56 44-100 75-139 (478)
55 PHA03108 poly(A) polymerase sm 20.4 55 0.0012 29.0 1.3 23 25-54 65-87 (300)
56 COG0287 TyrA Prephenate dehydr 20.4 51 0.0011 28.2 1.1 26 77-102 102-128 (279)
57 cd05781 DNA_polB_B3_exo DEDDy 20.3 1.1E+02 0.0023 24.3 2.9 41 11-56 51-91 (188)
No 1
>KOG1233|consensus
Probab=99.85 E-value=4.6e-22 Score=178.00 Aligned_cols=98 Identities=44% Similarity=0.828 Sum_probs=93.4
Q ss_pred CCCCHHHhhhHHHHHHHHHHHcCCccCCCccchhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHHHHHHHHH
Q psy16486 1 FSRDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLT 80 (150)
Q Consensus 1 FEGs~~~V~~~~~~a~~I~k~~GGv~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~Vk~Al~ 80 (150)
|||+.++|+++.++++.|+.+++|+++|..+|+.+|..+|.++||||+.+.+|+++++||||||||++..||++|++++.
T Consensus 425 fEGdre~V~qhE~~~y~iAekF~G~~aG~~NGqrGY~LTfvIAYiRDlgl~~gvlgESFETSvPWDrv~~LCRnVKer~~ 504 (613)
T KOG1233|consen 425 FEGDREEVDQHEERLYKIAEKFHGVVAGAENGQRGYRLTFVIAYIRDLGLNHGVLGESFETSVPWDRVLSLCRNVKERMK 504 (613)
T ss_pred ecccHHHHHHHHHHHHHHHHHhCCccccccccccceEEEEeHHHHHhhcccccchhhcccccCCHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCceEE-Eeecc
Q psy16486 81 RECTVSNGLLEFR-SETKK 98 (150)
Q Consensus 81 ~al~~~G~~~~~V-~CH~~ 98 (150)
+.|+++|+..+.+ .|+.-
T Consensus 505 rEck~~gv~~~~~s~CRVT 523 (613)
T KOG1233|consen 505 RECKAQGVTHPVLSNCRVT 523 (613)
T ss_pred HHHHhcCCCcccccceeEE
Confidence 9999999875544 48764
No 2
>PF02913 FAD-oxidase_C: FAD linked oxidases, C-terminal domain; InterPro: IPR004113 Some oxygen-dependent oxidoreductases are flavoproteins that contain a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. The region around the histidine that binds the FAD group is conserved in these enzymes (see IPR006093 from INTERPRO).; GO: 0003824 catalytic activity, 0050660 flavin adenine dinucleotide binding; PDB: 1WVE_B 1DII_B 1WVF_A 1DIQ_A 2UUU_B 2UUV_A 1W1M_A 1E8H_B 1E0Y_B 1DZN_B ....
Probab=98.42 E-value=1.1e-07 Score=73.97 Aligned_cols=102 Identities=22% Similarity=0.208 Sum_probs=78.0
Q ss_pred CCCCHHH-hhhHHH-HHHHHHHHcCCcc-----CCCccchhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHH
Q psy16486 1 FSRDPED-VKNNED-KIYSIAKRYGGIP-----AGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCI 73 (150)
Q Consensus 1 FEGs~~~-V~~~~~-~a~~I~k~~GGv~-----lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~ 73 (150)
|+|+... +..+.. .+.+++..+|+.. -+......|..-++..||+++.+...|.+.+|++++|||++++.+++
T Consensus 66 ~~g~~~~~~~~~~~~~i~~~~~~~~~~~~~~a~~~~~~~~~W~~R~~~~~~~~~~~~~~~~~~~~~dv~vp~~~l~~~~~ 145 (248)
T PF02913_consen 66 FEGSDEEAVEEQLEAEIEEICKKYGGEDVVIADDEEEQERLWAIRRAIMPYLRDAAGRAGPVWDTEDVAVPPSRLPEFLR 145 (248)
T ss_dssp CCCHHHCCHHHHHHHHHHHHHCTCTCCEEEEEHCHHCTSTHHHHHHHHCCGGGCSHCTTEEEEEEEEEESCHHHHHHHHH
T ss_pred ECCCcHHHHHHHHHHHHHHHHhhcCCceeEEeCCHHHHHhhhhhhhhhcccccccccccCCceeeeeecccchhhhhHHH
Confidence 5677744 555566 7788888887754 12234678888888888999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCCceEEEeecccchhhhhhh
Q psy16486 74 NVKKRLTRECTVSNGLLEFRSETKKEGNLGFRKR 107 (150)
Q Consensus 74 ~Vk~Al~~al~~~G~~~~~V~CH~~~~~~~~~~~ 107 (150)
.+++. +.+.+. ...++.|+-.|++-+.=.
T Consensus 146 ~~~~~----~~~~~~-~~~~~gH~~~g~~h~~~~ 174 (248)
T PF02913_consen 146 EIRAL----LREYGL-EVCHFGHAGDGNLHLYIL 174 (248)
T ss_dssp HHHHH----HHHCTE-EEEEEEEEEECEEEEEEE
T ss_pred hhhhh----hhhccc-cccceEEccCCeEEEEee
Confidence 98554 445555 367888888888766543
No 3
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=98.01 E-value=8.2e-06 Score=71.53 Aligned_cols=98 Identities=15% Similarity=0.079 Sum_probs=75.1
Q ss_pred CCCCHHHhhhHHHHHHHHHHHcCCccC----C-CccchhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHHHH
Q psy16486 1 FSRDPEDVKNNEDKIYSIAKRYGGIPA----G-ESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINV 75 (150)
Q Consensus 1 FEGs~~~V~~~~~~a~~I~k~~GGv~l----G-~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~V 75 (150)
|+|+.+.|+.+..++.++++.+|+..+ + ....+.|..-++..||+++.. ...+ +.++||||++++.+++.+
T Consensus 238 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~r~~~~~~~~~~~-~~~~---~~d~~vp~~~l~~~~~~~ 313 (413)
T TIGR00387 238 IDGVHEAVERDEEKIEQICRKNGAVDVQIAQDEEERALLWAGRRNAFKAASKLS-PLYL---IEDGTVPRSKLPEALRGI 313 (413)
T ss_pred ecCCcHHHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHHHHHhHHHHHhhC-CCcc---eeEEecCHHHHHHHHHHH
Confidence 578888899999999999999988533 1 235667888888899998743 2222 457999999999999998
Q ss_pred HHHHHHHHHhcCCCceEEEeecccchhhhhhh
Q psy16486 76 KKRLTRECTVSNGLLEFRSETKKEGNLGFRKR 107 (150)
Q Consensus 76 k~Al~~al~~~G~~~~~V~CH~~~~~~~~~~~ 107 (150)
++. +.+.|.. ..++.|.-.|+.-|+-.
T Consensus 314 ~~~----~~~~~~~-~~~~gH~g~g~lh~~~~ 340 (413)
T TIGR00387 314 ADI----ARKYDFT-IANFGHAGDGNLHPTIL 340 (413)
T ss_pred HHH----HHHcCCe-EEEEEEecCCccccccC
Confidence 554 4556764 67889999998888654
No 4
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=97.33 E-value=0.0004 Score=63.03 Aligned_cols=99 Identities=8% Similarity=-0.018 Sum_probs=71.5
Q ss_pred CCCCHHHhhhHHHHHHHHHHHcCCccCCC-----ccchhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHHHH
Q psy16486 1 FSRDPEDVKNNEDKIYSIAKRYGGIPAGE-----SNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINV 75 (150)
Q Consensus 1 FEGs~~~V~~~~~~a~~I~k~~GGv~lG~-----~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~V 75 (150)
|+|+.+.|..+.+++.+++..+|+..+.- .....|..-+...|+++.. ..+++ ..+++|||++++.+++.+
T Consensus 295 ~~g~~~~v~~~~~~l~~~~~~~g~~~~~~a~~~~~~~~~W~~R~~~~~~~~~~--~~~~~--~~dv~vP~~~l~~~~~~~ 370 (499)
T PRK11230 295 LDGVESDVQEDCERVNDILLKAGATDVRLAQDEAERVRFWAGRKNAFPAVGRI--SPDYY--CMDGTIPRRELPGVLEGI 370 (499)
T ss_pred ecCCchHHHHHHHHHHHHHHhcCCceEEEeCCHHHHHHHHHHHHhhHHHHHhh--CCCee--EEeecCChHHHHHHHHHH
Confidence 46888889899999999999999753321 2334676644556888763 33444 348899999999999998
Q ss_pred HHHHHHHHHhcCCCceEEEeecccchhhhhhhh
Q psy16486 76 KKRLTRECTVSNGLLEFRSETKKEGNLGFRKRQ 108 (150)
Q Consensus 76 k~Al~~al~~~G~~~~~V~CH~~~~~~~~~~~~ 108 (150)
++ .+...+.. ..++-|.-.||.-+.-+.
T Consensus 371 ~~----~~~~~~~~-~~~~gH~GdGn~H~~i~~ 398 (499)
T PRK11230 371 AR----LSQQYGLR-VANVFHAGDGNMHPLILF 398 (499)
T ss_pred HH----HHHHcCCe-EEEEEEeCCCcceeeecC
Confidence 65 44556774 556669999999887653
No 5
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=96.89 E-value=0.0017 Score=60.07 Aligned_cols=100 Identities=14% Similarity=-0.019 Sum_probs=68.8
Q ss_pred CCCCHHHhhhHHHHHHHHHHHcCCc--cCCCcc---chhhhhhhchhh-hhhHHHHhcccceeeeecccccCChHHHHHH
Q psy16486 1 FSRDPEDVKNNEDKIYSIAKRYGGI--PAGESN---GRRGYMLTYIIA-YIRDFACDYYFIGDSFETSVPWDKTVLLCIN 74 (150)
Q Consensus 1 FEGs~~~V~~~~~~a~~I~k~~GGv--~lG~~~---G~~W~~~RF~~P-YLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~ 74 (150)
|+|+...+..+...+.+|+.++|+. .+...+ .+.|. .|-... .+. .+.-+....+.++|||||+++.+++.
T Consensus 370 ~~g~~~~~~~~~~~~~~i~~~~g~~~~~~a~~~~e~~~lW~-~R~~~~~~~~--~~~~~~~~~~~DvaVP~s~L~e~i~~ 446 (555)
T PLN02805 370 FIGTEAYAREQTLIVQKIASKHNGSDFVFAEEPEAKKELWK-IRKEALWACF--AMEPKYEAMITDVCVPLSHLAELISR 446 (555)
T ss_pred EecCcHHHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHH-HHHHHHHHHh--hcCCCCceeEEEEEEEHHHHHHHHHH
Confidence 4688888888889999999999984 233333 44566 332222 111 01123334567899999999999988
Q ss_pred HHHHHHHHHHhcCCCceEEEeecccchhhhhhhh
Q psy16486 75 VKKRLTRECTVSNGLLEFRSETKKEGNLGFRKRQ 108 (150)
Q Consensus 75 Vk~Al~~al~~~G~~~~~V~CH~~~~~~~~~~~~ 108 (150)
+++. +.+.|.. ..++-|.-.||..|.=+.
T Consensus 447 ~~~~----~~~~~~~-~~~~gHaGdGnlH~~i~~ 475 (555)
T PLN02805 447 SKKE----LDASPLV-CTVIAHAGDGNFHTIILF 475 (555)
T ss_pred HHHH----HHHcCCe-EEEEEEcCCCcEEEEecc
Confidence 8654 4567774 788899999999887654
No 6
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=88.28 E-value=1.2 Score=37.27 Aligned_cols=81 Identities=12% Similarity=0.129 Sum_probs=56.6
Q ss_pred CCCHHHhhhHHHHHHHHHHHcCCccCCCccc-----hhhhhhhchhh--hhhHHHHhccccee----eeecccccCChHH
Q psy16486 2 SRDPEDVKNNEDKIYSIAKRYGGIPAGESNG-----RRGYMLTYIIA--YIRDFACDYYFIGD----SFETSVPWDKTVL 70 (150)
Q Consensus 2 EGs~~~V~~~~~~a~~I~k~~GGv~lG~~~G-----~~W~~~RF~~P--YLRD~Lld~Gi~vD----TfETAvtWs~v~~ 70 (150)
.|..+.++...+.+.++.+..-+..-+...| .--....=+.| -|+|+|--+||=++ -++|++||+-+..
T Consensus 44 ~G~~~eireair~irel~~~vr~r~~~~~~~ly~l~~~~~~a~p~Vp~~vl~daLk~~GyrVevr~~~l~T~ap~~ev~E 123 (204)
T COG3286 44 FGTKDEIREAIRAIRELHRRVRRRLYPDRQGLYTLYRIFEEASPNVPPDVLIDALKLLGYRVEVRGGELKTNAPWSEVVE 123 (204)
T ss_pred ecchHHHHHHHHHHHHHHHHHHhhhccCccceEeeHhHHHhhcCCCCHHHHHHHHHhCCceEEeeCceeecCCCHHHHHH
Confidence 4778888888888888887766643322211 11112222223 89999999998765 4899999999999
Q ss_pred HHHHHHHHHHHH
Q psy16486 71 LCINVKKRLTRE 82 (150)
Q Consensus 71 L~~~Vk~Al~~a 82 (150)
+...+-.+.+.+
T Consensus 124 ~vreLse~~~E~ 135 (204)
T COG3286 124 LVRELSEVYREA 135 (204)
T ss_pred HHHHHHHHHHHH
Confidence 999887766665
No 7
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=78.13 E-value=6.5 Score=32.19 Aligned_cols=81 Identities=11% Similarity=0.076 Sum_probs=56.8
Q ss_pred CCCHHHhhhHHHHHHHHHHHcCCccCCCc---cchhhhh----hhchhhhhhHHHHhcccce----eeeecccccCChHH
Q psy16486 2 SRDPEDVKNNEDKIYSIAKRYGGIPAGES---NGRRGYM----LTYIIAYIRDFACDYYFIG----DSFETSVPWDKTVL 70 (150)
Q Consensus 2 EGs~~~V~~~~~~a~~I~k~~GGv~lG~~---~G~~W~~----~RF~~PYLRD~Lld~Gi~v----DTfETAvtWs~v~~ 70 (150)
.|++.++....+.+.++.+...+.+-+.+ ..-.+.- ..|..|-|-|.|--+|+=+ +.+.|+++|+.+..
T Consensus 41 ~G~~~eike~~~~Ik~~~~~vr~k~~~~g~~~y~l~~i~r~a~~~vp~d~L~~~L~~~G~~ae~~~~~i~T~a~~eev~~ 120 (190)
T PF09840_consen 41 QGYEKEIKEAIRRIKELVRRVRSKYNKRGLYRYSLDDIFREAGYPVPPDLLVDALKLLGYKAEYREDVIKTDAPLEEVVE 120 (190)
T ss_pred ecChHHHHHHHHHHHHHHHHHHHHhccCCceEEcHHHHHHHcCCCCCHHHHHHHHHhCCCeeEEeCCeEEecCCHHHHHH
Confidence 37778888888887777766555221111 1112222 5667779999999999865 58999999999999
Q ss_pred HHHHHHHHHHHH
Q psy16486 71 LCINVKKRLTRE 82 (150)
Q Consensus 71 L~~~Vk~Al~~a 82 (150)
+.+.+-++....
T Consensus 121 l~~~Lse~~~e~ 132 (190)
T PF09840_consen 121 LAERLSEIYKEL 132 (190)
T ss_pred HHHHHHHHHHHH
Confidence 999987766543
No 8
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=58.00 E-value=5.2 Score=29.46 Aligned_cols=33 Identities=12% Similarity=0.094 Sum_probs=27.7
Q ss_pred ccCCCccchhhhhhhchhhhhhHHHHhcccceeeeecc
Q psy16486 25 IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETS 62 (150)
Q Consensus 25 v~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETA 62 (150)
+.+|. +...+|-.|-+++.|..+|+.+|.+-|.
T Consensus 56 liiGT-----G~~~~~~~~~~~~~l~~~gI~vE~m~T~ 88 (109)
T cd00248 56 LLIGT-----GAEIAFLPRALRAALRAAGIGVEVMSTG 88 (109)
T ss_pred EEEcC-----CCCCCcCCHHHHHHHHHcCCeEEEeCcH
Confidence 34576 4556788999999999999999999997
No 9
>TIGR02017 hutG_amidohyd N-formylglutamate amidohydrolase. In some species, histidine is converted to via urocanate and then formimino-L-glutamate to glutamate in four steps, where the fourth step is conversion of N-formimino-L-glutamate to L-glutamate and formamide. In others, that pathway from formimino-L-glutamate may differ, with the next enzyme being formiminoglutamate hydrolase (HutF) yielding N-formyl-L-glutamate. This model represents the enzyme N-formylglutamate deformylase, also called N-formylglutamate amidohydrolase, which then produces glutamate.
Probab=49.37 E-value=24 Score=29.84 Aligned_cols=34 Identities=6% Similarity=-0.075 Sum_probs=21.0
Q ss_pred ChHHHHHHHHHHHHHH----HHhcCCCceEEEeecccch
Q psy16486 67 KTVLLCINVKKRLTRE----CTVSNGLLEFRSETKKEGN 101 (150)
Q Consensus 67 ~v~~L~~~Vk~Al~~a----l~~~G~~~~~V~CH~~~~~ 101 (150)
++...|.---++|... .+..|. ..+|-||.|.+.
T Consensus 115 Ri~~yy~PYH~al~~~L~~~~~~~g~-~~liD~HSm~s~ 152 (263)
T TIGR02017 115 RRTQIFRPYHAALQAEIERLRAQHGY-AVLYDAHSIRSV 152 (263)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHhCCC-EEEEEeccCCcc
Confidence 3444444444444444 466777 489999999873
No 10
>PF05013 FGase: N-formylglutamate amidohydrolase; InterPro: IPR007709 Formylglutamate amidohydrolase (FGase) catalyzes the terminal reaction in the five-step pathway for histidine utilization in Pseudomonas putida. By this action, N-formyl-L-glutamate (FG) is hydrolyzed to produce L-glutamate plus formate [].; PDB: 2ODF_G 2Q7S_A.
Probab=47.84 E-value=26 Score=28.29 Aligned_cols=33 Identities=6% Similarity=-0.225 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 69 VLLCINVKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 69 ~~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
.+.|++|.+.|....+..|. +.+|.||.|.+..
T Consensus 113 ~Pyh~~l~~~l~~~~~~~g~-~illd~HS~~~~~ 145 (222)
T PF05013_consen 113 RPYHRALAALLERLRARFGK-VILLDCHSMPPVP 145 (222)
T ss_dssp HHHHHHHHHHHHHHHHCCS--EEEEEEEEE-TCC
T ss_pred HHHHHHHHHHHHHHHHhcCc-eEEEEeccCCCcc
Confidence 34566677777777777777 4799999998753
No 11
>PRK09875 putative hydrolase; Provisional
Probab=47.29 E-value=40 Score=29.07 Aligned_cols=51 Identities=12% Similarity=-0.025 Sum_probs=39.8
Q ss_pred ccceeee-ecccccCChHHHHHHHHHHHHHHHHhcCCCceEEEeecccchhhhhh
Q psy16486 53 YFIGDSF-ETSVPWDKTVLLCINVKKRLTRECTVSNGLLEFRSETKKEGNLGFRK 106 (150)
Q Consensus 53 Gi~vDTf-ETAvtWs~v~~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~~~~~ 106 (150)
|+-+-.+ |.++.|..+.+.-..|-.|...+..+-|.| |+.|+-.+..++.+
T Consensus 117 ~ikaGvIGeiG~~~~~it~~E~kvl~Aaa~a~~~TG~p---i~~Ht~~~~~g~e~ 168 (292)
T PRK09875 117 ELKAGIIAEIGSSEGKITPLEEKVFIAAALAHNQTGRP---ISTHTSFSTMGLEQ 168 (292)
T ss_pred CCcccEEEEEecCCCCCCHHHHHHHHHHHHHHHHHCCc---EEEcCCCccchHHH
Confidence 3444557 999999989999999877777777888887 88898777666654
No 12
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=46.75 E-value=9.1 Score=28.28 Aligned_cols=28 Identities=7% Similarity=-0.140 Sum_probs=25.3
Q ss_pred hhhhhchhhhhhHHHHhcccceeeeecc
Q psy16486 35 GYMLTYIIAYIRDFACDYYFIGDSFETS 62 (150)
Q Consensus 35 W~~~RF~~PYLRD~Lld~Gi~vDTfETA 62 (150)
+...+|-.|-++..|.++|+.+|.+-|+
T Consensus 61 G~~~~~~~~~~~~~l~~~gi~vE~m~T~ 88 (109)
T cd05560 61 GERQRFPPPALLAPLLARGIGVEVMDTQ 88 (109)
T ss_pred CCCCCcCCHHHHHHHHHcCCeEEEECHH
Confidence 5667788899999999999999999997
No 13
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=46.18 E-value=31 Score=28.44 Aligned_cols=77 Identities=19% Similarity=0.302 Sum_probs=55.2
Q ss_pred HHhhhHHHHHHHHHHHcCCccCCC-------ccchhhhhhhchhh--hhhHHHHhcccceeeeecccccCChHHHHHHHH
Q psy16486 6 EDVKNNEDKIYSIAKRYGGIPAGE-------SNGRRGYMLTYIIA--YIRDFACDYYFIGDSFETSVPWDKTVLLCINVK 76 (150)
Q Consensus 6 ~~V~~~~~~a~~I~k~~GGv~lG~-------~~G~~W~~~RF~~P--YLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~Vk 76 (150)
.++......+..++.++||...-. ..+.......+++| .+-++|...+=+.......+.=.+|..-|..+.
T Consensus 59 ~d~~~a~~~i~~~~~~~gG~i~~~~~~~~~~~~~~~~~~ltiRVP~~~~~~~l~~l~~~g~v~~~~~~~~DvT~~y~D~~ 138 (262)
T PF14257_consen 59 KDVEKAVKKIENLVESYGGYIESSSSSSSGGSDDERSASLTIRVPADKFDSFLDELSELGKVTSRNISSEDVTEQYVDLE 138 (262)
T ss_pred CCHHHHHHHHHHHHHHcCCEEEEEeeecccCCCCcceEEEEEEECHHHHHHHHHHHhccCceeeeeccccchHHHHHHHH
Confidence 346778889999999999965533 23456677788888 777777777766666666666677887777776
Q ss_pred HHHHHH
Q psy16486 77 KRLTRE 82 (150)
Q Consensus 77 ~Al~~a 82 (150)
.+|..-
T Consensus 139 arl~~l 144 (262)
T PF14257_consen 139 ARLKNL 144 (262)
T ss_pred HHHHHH
Confidence 665544
No 14
>PLN02733 phosphatidylcholine-sterol O-acyltransferase
Probab=44.42 E-value=58 Score=29.72 Aligned_cols=59 Identities=14% Similarity=0.032 Sum_probs=41.3
Q ss_pred hhhHHHHhcccce--eeeecccccCC---hHHHHHHHHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 44 YIRDFACDYYFIG--DSFETSVPWDK---TVLLCINVKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 44 YLRD~Lld~Gi~v--DTfETAvtWs~---v~~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
.|-+.|...|+.. |-+==..+|-. +......+++.|..++...|..+.++.||.|-|..
T Consensus 112 ~li~~L~~~GY~~~~dL~g~gYDwR~~~~~~~~~~~Lk~lIe~~~~~~g~~kV~LVGHSMGGlv 175 (440)
T PLN02733 112 DMIEQLIKWGYKEGKTLFGFGYDFRQSNRLPETMDGLKKKLETVYKASGGKKVNIISHSMGGLL 175 (440)
T ss_pred HHHHHHHHcCCccCCCcccCCCCccccccHHHHHHHHHHHHHHHHHHcCCCCEEEEEECHhHHH
Confidence 4666788888775 23333445543 34556788888888888877655899999998865
No 15
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=43.64 E-value=55 Score=31.36 Aligned_cols=10 Identities=10% Similarity=-0.349 Sum_probs=4.7
Q ss_pred HHH-HHHhcCC
Q psy16486 79 LTR-ECTVSNG 88 (150)
Q Consensus 79 l~~-al~~~G~ 88 (150)
|+. .|.+.|+
T Consensus 523 iRd~~L~~~Gi 533 (651)
T PTZ00399 523 LRDEWLPNLGI 533 (651)
T ss_pred HHHHHHHHCCC
Confidence 344 2555554
No 16
>PF02450 LCAT: Lecithin:cholesterol acyltransferase; InterPro: IPR003386 Lecithin:cholesterol acyltransferase (LACT), also known as phosphatidylcholine-sterol acyltransferase (2.3.1.43 from EC), is involved in extracellular metabolism of plasma lipoproteins, including cholesterol. It esterifies the free cholesterol transported in plasma lipoproteins, and is activated by apolipoprotein A-I. Defects in LACT cause Norum and Fish eye diseases. This family also includes phospholipid:diacylglycerol acyltransferase (PDAT)(2.3.1.158 from EC), which is involved in triacylglycerol formation by an acyl-CoA independent pathway. The enzyme specifically transfers acyl groups from the sn-2 position of a phospholipid to diacylglycerol, thus forming an sn-1-lysophospholipid [].; GO: 0008374 O-acyltransferase activity, 0006629 lipid metabolic process
Probab=42.47 E-value=56 Score=28.76 Aligned_cols=58 Identities=5% Similarity=-0.003 Sum_probs=42.4
Q ss_pred hhhHHHHhcccceee-eecc-cccCChHH----HHHHHHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 44 YIRDFACDYYFIGDS-FETS-VPWDKTVL----LCINVKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 44 YLRD~Lld~Gi~vDT-fETA-vtWs~v~~----L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
-|-+.|..+||.... +=-| .+|-.-+. ....+++.|..++...|.+ .++.||.|-|..
T Consensus 69 ~li~~L~~~GY~~~~~l~~~pYDWR~~~~~~~~~~~~lk~~ie~~~~~~~~k-v~li~HSmGgl~ 132 (389)
T PF02450_consen 69 KLIENLEKLGYDRGKDLFAAPYDWRLSPAERDEYFTKLKQLIEEAYKKNGKK-VVLIAHSMGGLV 132 (389)
T ss_pred HHHHHHHhcCcccCCEEEEEeechhhchhhHHHHHHHHHHHHHHHHHhcCCc-EEEEEeCCCchH
Confidence 355668889988754 3333 78876655 5567888888888888775 899999997754
No 17
>TIGR03356 BGL beta-galactosidase.
Probab=34.06 E-value=57 Score=29.27 Aligned_cols=60 Identities=17% Similarity=0.093 Sum_probs=44.5
Q ss_pred hhhhHHHHhcccceeeeecccccCChHHH----HH----HHHHHHHHHHHhcCCCceEEEeecccchhh
Q psy16486 43 AYIRDFACDYYFIGDSFETSVPWDKTVLL----CI----NVKKRLTRECTVSNGLLEFRSETKKEGNLG 103 (150)
Q Consensus 43 PYLRD~Lld~Gi~vDTfETAvtWs~v~~L----~~----~Vk~Al~~al~~~G~~~~~V~CH~~~~~~~ 103 (150)
=|-.|.-+-..+.++++=.++.||+|.+- .+ ..-..+...|.++|+. ++|..|-+.-..-
T Consensus 55 ~y~eDi~l~~~~G~~~~R~si~Wsri~p~g~~~~n~~~~~~y~~~i~~l~~~gi~-pivtL~Hfd~P~~ 122 (427)
T TIGR03356 55 RYEEDVALMKELGVDAYRFSIAWPRIFPEGTGPVNPKGLDFYDRLVDELLEAGIE-PFVTLYHWDLPQA 122 (427)
T ss_pred hHHHHHHHHHHcCCCeEEcccchhhcccCCCCCcCHHHHHHHHHHHHHHHHcCCe-eEEeeccCCccHH
Confidence 35678888888899999999999999765 11 2355677888999996 7777766654443
No 18
>PF04794 YdjC: YdjC-like protein; InterPro: IPR006879 This entry contains ChbG (YdjC), which is is an uncharacterised protein encoded by the chb (N,N'-diacetylchitobiose, also called [GlcNAc]2) or cel operon, which encodes enzymes involved in growth on an N,N'-diacetylchitobiose carbon source [, ]. The entry also contains HpnK, which is a protein associated with hopanoid biosynthesis.; PDB: 2E67_C 2I5I_B.
Probab=34.00 E-value=97 Score=25.46 Aligned_cols=83 Identities=10% Similarity=-0.078 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHcCCccCCCccchhh-------hhhhchhhhhhHHHHhccccee-eeecccccCChHHHHHHHHHHHHHH
Q psy16486 11 NEDKIYSIAKRYGGIPAGESNGRRG-------YMLTYIIAYIRDFACDYYFIGD-SFETSVPWDKTVLLCINVKKRLTRE 82 (150)
Q Consensus 11 ~~~~a~~I~k~~GGv~lG~~~G~~W-------~~~RF~~PYLRD~Lld~Gi~vD-TfETAvtWs~v~~L~~~Vk~Al~~a 82 (150)
....+.+++++||--.+ ..+...+ ....+....++..+..+|+-.. -| ....++ .....+.+...
T Consensus 137 v~~~~~~~a~~y~lp~i-R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-~g~~~~-----~~~~~~~~~~~ 209 (261)
T PF04794_consen 137 VREALLDLAKEYGLPWI-RNPREPTFPNLKFYLIVARLAARFRRRFYAAGLRTNDYF-YGFSEF-----GEDFRELLQEL 209 (261)
T ss_dssp HHHHHHHHHHHCT-EB--BS--TTCGGGGGGTTTSGGGHCCCCHHHCHGCSSHCC-E-TTS-CC--------CHHHHHHH
T ss_pred HHHHHHHHHHHcCCCcc-cCcccccccccchhhhHHHHHHHHHHHHHHcCCCCCCcc-cchhhh-----hHHHHHHHHHH
Confidence 45666788888887332 1111111 1122334466667777776553 35 333333 33334444555
Q ss_pred HHhcCCCceEEEeecccc
Q psy16486 83 CTVSNGLLEFRSETKKEG 100 (150)
Q Consensus 83 l~~~G~~~~~V~CH~~~~ 100 (150)
+.........||||+-..
T Consensus 210 l~~~~~g~~eim~HPg~~ 227 (261)
T PF04794_consen 210 LESLPPGITEIMCHPGYV 227 (261)
T ss_dssp HHCS-SCEEEEEE----C
T ss_pred HHhCCCCeEEEEEccCCC
Confidence 554332246999999775
No 19
>KOG0496|consensus
Probab=33.91 E-value=41 Score=32.71 Aligned_cols=91 Identities=16% Similarity=0.088 Sum_probs=61.7
Q ss_pred HHhhhHHHHHHH----HHHHcCC-ccCCCccchhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHHHHHHHHH
Q psy16486 6 EDVKNNEDKIYS----IAKRYGG-IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLT 80 (150)
Q Consensus 6 ~~V~~~~~~a~~----I~k~~GG-v~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~Vk~Al~ 80 (150)
.+|+.....+.. +..+.|| +.+.+-=-+-+.-.|+-.++-+..+-+.++++-++-|.++|-.+-..-
T Consensus 142 ~~~~~~~~~iv~~mk~L~~~qGGPIIl~QIENEYG~~~~~~~~~~k~y~~w~a~m~~~l~~gvpw~mCk~~d-------- 213 (649)
T KOG0496|consen 142 AEMERWTTKIVPMMKKLFASQGGPIILVQIENEYGNYLRALGAEGKSYLKWAAVLATSLGTGVPWVMCKQDD-------- 213 (649)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCEEEEEeechhhHHHHHHHHHHHHhhccceEEEEecCCCCceeEecCCC--------
Confidence 456666666665 8888999 444443233337778889999999999999999999999997644332
Q ss_pred HHHHhcCCCce-EEEeecccchhhhh-hhhhhh
Q psy16486 81 RECTVSNGLLE-FRSETKKEGNLGFR-KRQGEK 111 (150)
Q Consensus 81 ~al~~~G~~~~-~V~CH~~~~~~~~~-~~~~~~ 111 (150)
.|.+ +=.|+=+.....|. ..+..|
T Consensus 214 -------apd~~in~cng~~c~~~f~~pn~~~k 239 (649)
T KOG0496|consen 214 -------APDPGINTCNGFYCGDTFKRPNSPNK 239 (649)
T ss_pred -------CCCccccccCCccchhhhccCCCCCC
Confidence 2223 33488777755554 555444
No 20
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=33.76 E-value=29 Score=28.63 Aligned_cols=36 Identities=8% Similarity=0.033 Sum_probs=21.0
Q ss_pred cccCChHHHHHHHHHHHHHHHHhcCCCceEEEeecccch
Q psy16486 63 VPWDKTVLLCINVKKRLTRECTVSNGLLEFRSETKKEGN 101 (150)
Q Consensus 63 vtWs~v~~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~ 101 (150)
+.+..+.++-..+.+++.+.+. .+ ..+|.+|+|.|.
T Consensus 73 ~iv~Dv~SvK~~~~~~~~~~~~-~~--~~~v~~HPM~G~ 108 (258)
T PF02153_consen 73 AIVTDVGSVKAPIVEAMERLLP-EG--VRFVGGHPMAGP 108 (258)
T ss_dssp SEEEE--S-CHHHHHHHHHHHT-SS--GEEEEEEESCST
T ss_pred cEEEEeCCCCHHHHHHHHHhcC-cc--cceeecCCCCCC
Confidence 3344444444556556665554 22 369999999998
No 21
>PRK13511 6-phospho-beta-galactosidase; Provisional
Probab=33.25 E-value=43 Score=30.52 Aligned_cols=60 Identities=17% Similarity=0.172 Sum_probs=43.9
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH------HHH--HHHHHHHHHHhcCCCceEEEeecccchhhh
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL------CIN--VKKRLTRECTVSNGLLEFRSETKKEGNLGF 104 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L------~~~--Vk~Al~~al~~~G~~~~~V~CH~~~~~~~~ 104 (150)
|-.|.-+-..+.++++=+|+.||||.+- -+. -...|-..|.++|+. |+|.=|-+.-..-+
T Consensus 56 y~eDi~L~~~lG~~~yRfSIsWsRI~P~G~g~vN~~gl~~Y~~lid~l~~~GI~-P~VTL~H~dlP~~L 123 (469)
T PRK13511 56 YPEDLKLAEEFGVNGIRISIAWSRIFPDGYGEVNPKGVEYYHRLFAECHKRHVE-PFVTLHHFDTPEAL 123 (469)
T ss_pred hHHHHHHHHHhCCCEEEeeccHhhcCcCCCCCcCHHHHHHHHHHHHHHHHcCCE-EEEEecCCCCcHHH
Confidence 6678888888999999999999999874 112 255778889999996 65555544444433
No 22
>KOG4179|consensus
Probab=33.25 E-value=17 Score=34.19 Aligned_cols=26 Identities=27% Similarity=0.426 Sum_probs=18.5
Q ss_pred HHHhcccceeeeecccccCC--hHHHHHH
Q psy16486 48 FACDYYFIGDSFETSVPWDK--TVLLCIN 74 (150)
Q Consensus 48 ~Lld~Gi~vDTfETAvtWs~--v~~L~~~ 74 (150)
+.-|.|++.|| |||+.||| +...+..
T Consensus 511 ytg~~gylsdt-ets~~w~~e~~~~~~~r 538 (568)
T KOG4179|consen 511 YTGDSGYLSDT-ETSQQWDNETSETDWDR 538 (568)
T ss_pred ecCCCccccCc-ccccccccccchhhhhh
Confidence 34577999998 99999995 3344443
No 23
>KOG4364|consensus
Probab=32.15 E-value=48 Score=32.77 Aligned_cols=7 Identities=29% Similarity=0.159 Sum_probs=2.7
Q ss_pred cccceee
Q psy16486 52 YYFIGDS 58 (150)
Q Consensus 52 ~Gi~vDT 58 (150)
+|.+.||
T Consensus 212 ~~~~sdt 218 (811)
T KOG4364|consen 212 LGKISDT 218 (811)
T ss_pred hhccCCc
Confidence 3333333
No 24
>COG3737 Uncharacterized conserved protein [Function unknown]
Probab=32.01 E-value=20 Score=28.06 Aligned_cols=46 Identities=11% Similarity=0.047 Sum_probs=35.1
Q ss_pred HHHHHHHHcCC---ccCCCccchhhhhhhchhhhhhHHHHhcccceeeeecccc
Q psy16486 14 KIYSIAKRYGG---IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVP 64 (150)
Q Consensus 14 ~a~~I~k~~GG---v~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvt 64 (150)
...++++-..- +.+|+ +...||--|-||..|...||.+|.+-|...
T Consensus 59 ~f~~vl~~a~~~EilliGT-----G~~~rf~p~~l~aal~~~gIsve~Mst~AA 107 (127)
T COG3737 59 DFERVLAEAPDVEILLIGT-----GARLRFPPPKLRAALKAAGISVEPMSTGAA 107 (127)
T ss_pred HHHHHHhcCCCceEEEEec-----CccccCCCHHHHHHHHHcCCccccccchhh
Confidence 34455555443 34566 678999889999999999999999998765
No 25
>KOG1374|consensus
Probab=31.20 E-value=45 Score=30.95 Aligned_cols=49 Identities=18% Similarity=0.066 Sum_probs=32.8
Q ss_pred CCccchhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHHHHHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 28 GESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 28 G~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
|.+.|..|..+-=.+|-+-+-.+| -|.+.......-.+|+.||.++|--
T Consensus 97 ggGAGNNWA~GY~~G~~~~e~Imd--------------------------iIdrEad~~DsleGF~l~hSiAGGT 145 (448)
T KOG1374|consen 97 GGGAGNNWASGYSQGERVQEDIMD--------------------------IIDREADGSDSLEGFVLCHSIAGGT 145 (448)
T ss_pred CCCcccccccccccchhhHHHHHH--------------------------HHHHhhcCCCcccceeEEEeecCCC
Confidence 778899999886666665555444 3455544333324799999999864
No 26
>cd07947 DRE_TIM_Re_CS Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain. Re-citrate synthase (Re-CS) is a Clostridium kluyveri enzyme that converts acetyl-CoA and oxaloacetate to citrate. In most organisms, this reaction is catalyzed by Si-citrate synthase which is Si-face stereospecific with respect to C-2 of oxaloacetate, and phylogenetically unrelated to Re-citrate synthase. Re-citrate synthase is also found in a few other strictly anaerobic organisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with
Probab=30.72 E-value=1.8e+02 Score=24.76 Aligned_cols=61 Identities=11% Similarity=0.059 Sum_probs=36.1
Q ss_pred HHHhhhHHHHHHHHHHHcCCccCCCccchhhhhh--hchhhhhhHHHHh---ccc-----ceeeeecccccC
Q psy16486 5 PEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYML--TYIIAYIRDFACD---YYF-----IGDSFETSVPWD 66 (150)
Q Consensus 5 ~~~V~~~~~~a~~I~k~~GGv~lG~~~G~~W~~~--RF~~PYLRD~Lld---~Gi-----~vDTfETAvtWs 66 (150)
.+++-.....+.+.++.+|-. +--.+...|+.- -|..+|+..++-. +|+ ++||.-.++||+
T Consensus 110 ~~e~l~~~~~~v~~a~~~g~~-v~~~~ed~~r~d~~~~v~~~~~~~~~~~~~~G~~~~i~l~DTvG~a~P~~ 180 (279)
T cd07947 110 REEAMEKYLEIVEEALDHGIK-PRCHLEDITRADIYGFVLPFVNKLMKLSKESGIPVKIRLCDTLGYGVPYP 180 (279)
T ss_pred HHHHHHHHHHHHHHHHHCCCe-EEEEEEcccCCCcccchHHHHHHHHHHHHHCCCCEEEEeccCCCcCCccc
Confidence 445556667777888888642 222222234331 2334577765542 554 469999999995
No 27
>COG2723 BglB Beta-glucosidase/6-phospho-beta-glucosidase/beta-galactosidase [Carbohydrate transport and metabolism]
Probab=30.61 E-value=48 Score=30.89 Aligned_cols=57 Identities=19% Similarity=0.138 Sum_probs=43.2
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH-----HH----HHHHHHHHHHHhcCCCceEEEeecccch
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL-----CI----NVKKRLTRECTVSNGLLEFRSETKKEGN 101 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L-----~~----~Vk~Al~~al~~~G~~~~~V~CH~~~~~ 101 (150)
|=.|..+-.-+...+|=||+.|||+-+- .+ +.-.+|-+.|.++|+. |+|.-|-+.-.
T Consensus 61 YkeDi~L~~emG~~~~R~SI~WsRIfP~g~~~e~N~~gl~fY~~l~del~~~gIe-p~vTL~Hfd~P 126 (460)
T COG2723 61 YKEDIALAKEMGLNAFRTSIEWSRIFPNGDGGEVNEKGLRFYDRLFDELKARGIE-PFVTLYHFDLP 126 (460)
T ss_pred hHHHHHHHHHcCCCEEEeeeeEEEeecCCCCCCcCHHHHHHHHHHHHHHHHcCCE-EEEEecccCCc
Confidence 6678888888999999999999999761 11 1355668889999996 77776666543
No 28
>cd05125 Mth938_2P1-like Mth938_2P1-like domain. This model contains sequences that are similar to 2P1, a partially characterized nuclear protein, which is homologous to E3-3 from rat and known to be alternatively spliced. Its function is unknown. This family is part of the Mth938 family, for which structures, but no functional data are available.
Probab=30.44 E-value=28 Score=26.15 Aligned_cols=34 Identities=12% Similarity=0.093 Sum_probs=28.1
Q ss_pred ccCCCccchhhhhhhchhhhhhHHHHhcccceeeeeccc
Q psy16486 25 IPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSV 63 (150)
Q Consensus 25 v~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAv 63 (150)
+.+|. +...+|-.|-++..|..+|+.+|.+.|..
T Consensus 58 liiGt-----G~~~~~~~~~~~~~l~~~gi~vevm~T~~ 91 (114)
T cd05125 58 LVIGT-----GRKSRPLSPELRKYFKKLGIAVEVVDTRN 91 (114)
T ss_pred EEEcc-----CCCCCcCCHHHHHHHHHcCCEEEEECHHH
Confidence 55677 34478889999999999999999999853
No 29
>PRK09852 cryptic 6-phospho-beta-glucosidase; Provisional
Probab=29.99 E-value=77 Score=29.11 Aligned_cols=54 Identities=17% Similarity=0.072 Sum_probs=38.2
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH------HH---HHHHHHHHHHHhcCCCceEEEeec
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL------CI---NVKKRLTRECTVSNGLLEFRSETK 97 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L------~~---~Vk~Al~~al~~~G~~~~~V~CH~ 97 (150)
|-.|.-+-..+.++++=+|+.||+|.+- -. +-...|-.+|.+.|+.|.+.+.|-
T Consensus 73 y~eDi~l~~~lG~~~yR~si~WsRi~P~g~~~~~n~~~~~~Y~~~i~~l~~~gi~p~VtL~H~ 135 (474)
T PRK09852 73 YKEDIALMAEMGFKVFRTSIAWSRLFPQGDELTPNQQGIAFYRSVFEECKKYGIEPLVTLCHF 135 (474)
T ss_pred hHHHHHHHHHcCCCeEEeeceeeeeeeCCCCCCCCHHHHHHHHHHHHHHHHcCCEEEEEeeCC
Confidence 4667777788889999999999999542 11 124567788999999633444443
No 30
>TIGR01233 lacG 6-phospho-beta-galactosidase. This enzyme is part of the tagatose-6-phosphate pathway of galactose-6-phosphate degradation.
Probab=29.78 E-value=51 Score=30.12 Aligned_cols=57 Identities=14% Similarity=0.211 Sum_probs=41.9
Q ss_pred hhhHHHHhcccceeeeecccccCChHHHH--------HHHHHHHHHHHHhcCCCceEEEeecccch
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLLC--------INVKKRLTRECTVSNGLLEFRSETKKEGN 101 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L~--------~~Vk~Al~~al~~~G~~~~~V~CH~~~~~ 101 (150)
|--|.-+-..+.+.++=+|+.||||.+-= =+-...|-..|.++|+. |+|.=|-+.--
T Consensus 55 y~eDi~L~~~lG~~~yRfSIsWsRI~P~g~~~~N~~gl~~Y~~lid~l~~~GI~-P~VTL~H~dlP 119 (467)
T TIGR01233 55 YPVDLELAEEYGVNGIRISIAWSRIFPTGYGEVNEKGVEFYHKLFAECHKRHVE-PFVTLHHFDTP 119 (467)
T ss_pred HHHHHHHHHHcCCCEEEEecchhhccCCCCCCcCHHHHHHHHHHHHHHHHcCCE-EEEeccCCCCc
Confidence 56677777888899999999999998741 11355778889999996 66655545433
No 31
>PRK09487 sdhC succinate dehydrogenase cytochrome b556 large membrane subunit; Provisional
Probab=29.36 E-value=31 Score=26.43 Aligned_cols=31 Identities=19% Similarity=0.339 Sum_probs=23.2
Q ss_pred hhHHHHhcccceeeeecccccCChHHHHHHH
Q psy16486 45 IRDFACDYYFIGDSFETSVPWDKTVLLCINV 75 (150)
Q Consensus 45 LRD~Lld~Gi~vDTfETAvtWs~v~~L~~~V 75 (150)
+|..+||.|+..|+++++...+.+.-+...|
T Consensus 89 IRHL~wD~g~g~~~~~~~~~sa~~v~~~s~v 119 (129)
T PRK09487 89 IRHLLMDFGYLEETLEAGKRSAKISFVITVV 119 (129)
T ss_pred HHHHHHHccccchhHHHHHHHHHHHHHHHHH
Confidence 7999999999998888887766554444333
No 32
>cd05126 Mth938 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the protein has not been determined.
Probab=28.94 E-value=26 Score=26.29 Aligned_cols=48 Identities=8% Similarity=-0.109 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHcCC-ccCCCccchhhhhhhc-hhhhhhHHHHhcccceeeeeccc
Q psy16486 11 NEDKIYSIAKRYGG-IPAGESNGRRGYMLTY-IIAYIRDFACDYYFIGDSFETSV 63 (150)
Q Consensus 11 ~~~~a~~I~k~~GG-v~lG~~~G~~W~~~RF-~~PYLRD~Lld~Gi~vDTfETAv 63 (150)
....+..|+...-= +.+|+ +..++| ..|-+++.|...|+-++.+.|..
T Consensus 47 ~~~~l~~ll~~~peivliGT-----G~~~~~~~~~~~~~~l~~~Gi~ve~m~T~a 96 (117)
T cd05126 47 QPEELEELLEEGVEVIVIGT-----GQSGALKVPPETVEKLEKRGVEVLVLPTEE 96 (117)
T ss_pred CHHHHHHHHhcCCCEEEEcC-----CCCccccCCHHHHHHHHhcCCEEEEcChHH
Confidence 34445566643211 45577 677774 57889999999999999998863
No 33
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=28.51 E-value=1.1e+02 Score=24.78 Aligned_cols=46 Identities=9% Similarity=0.031 Sum_probs=25.4
Q ss_pred HHHhhhHHHHHHHHHHHcCCcc-CC--CccchhhhhhhchhhhhhHHHHhcccce
Q psy16486 5 PEDVKNNEDKIYSIAKRYGGIP-AG--ESNGRRGYMLTYIIAYIRDFACDYYFIG 56 (150)
Q Consensus 5 ~~~V~~~~~~a~~I~k~~GGv~-lG--~~~G~~W~~~RF~~PYLRD~Lld~Gi~v 56 (150)
..++.....++.+++.+..|.. .. ..|+ +.| .+.+++.|.++||-+
T Consensus 107 ~~~~~~ei~~~~~~i~~~~G~~~~~~fR~P~-----G~~-~~~~~~~l~~~Gy~~ 155 (224)
T TIGR02884 107 DEKFKEELTGVEEEFKKVTGQKEMKYFRPPR-----GVF-SERTLAYTKELGYYT 155 (224)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCCCEEeCCC-----CCc-CHHHHHHHHHcCCcE
Confidence 3455666677777777665543 10 0011 112 245778888888854
No 34
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=27.42 E-value=61 Score=25.44 Aligned_cols=39 Identities=18% Similarity=-0.118 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHhcCCCceEEEeeccc-----chhhhhhhhhh
Q psy16486 71 LCINVKKRLTRECTVSNGLLEFRSETKKE-----GNLGFRKRQGE 110 (150)
Q Consensus 71 L~~~Vk~Al~~al~~~G~~~~~V~CH~~~-----~~~~~~~~~~~ 110 (150)
-.+.|.++|.-.+.....| .+|.|+.-. -+.-+|++||=
T Consensus 75 ~~~~v~~aL~~ild~~n~P-vLiHC~~G~~rTG~vvg~lRk~Q~W 118 (164)
T PF03162_consen 75 SEEQVAEALEIILDPRNYP-VLIHCNHGKDRTGLVVGCLRKLQGW 118 (164)
T ss_dssp -HHHHHHHHHHHH-GGG-S-EEEE-SSSSSHHHHHHHHHHHHTTB
T ss_pred CHHHHHHHHHHHhCCCCCC-EEEEeCCCCcchhhHHHHHHHHcCC
Confidence 3456777887777776665 789994332 23446666653
No 35
>PF11214 Med2: Mediator complex subunit 2; InterPro: IPR021017 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family of mediator complex subunit 2 proteins is conserved in fungi. Cyclin-dependent kinase CDK8 or Srb10 interacts with and phosphorylates Med2. Post-translational modifications of Mediator subunits are important for regulation of gene expression [, ].
Probab=27.26 E-value=65 Score=24.52 Aligned_cols=10 Identities=70% Similarity=0.909 Sum_probs=3.8
Q ss_pred hhHHHHHHhH
Q psy16486 124 KKEEEEKKKK 133 (150)
Q Consensus 124 ~~~~~~~~~~ 133 (150)
.++|+|.+++
T Consensus 90 ~keE~E~~rk 99 (105)
T PF11214_consen 90 IKEEEERKRK 99 (105)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 36
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=26.97 E-value=23 Score=25.74 Aligned_cols=28 Identities=11% Similarity=0.135 Sum_probs=22.1
Q ss_pred hhhhhchhhhhhHHHHhcccceeeeecc
Q psy16486 35 GYMLTYIIAYIRDFACDYYFIGDSFETS 62 (150)
Q Consensus 35 W~~~RF~~PYLRD~Lld~Gi~vDTfETA 62 (150)
+....|..|=+++.|.++|+-+|.+-|.
T Consensus 62 G~~~~~~~~~~~~~l~~~GI~ve~m~T~ 89 (110)
T PF04430_consen 62 GKRQLFLPPELREYLRKKGIGVEVMDTP 89 (110)
T ss_dssp TTS-SECTHHHHHHHHTTT-EEEEE-HH
T ss_pred CCccccCCHHHHHHHHHcCCeEEEECHH
Confidence 4458899999999999999999999885
No 37
>cd07963 Anticodon_Ia_Cys Anticodon-binding domain of cysteinyl tRNA synthetases. This domain is found in cysteinyl tRNA synthetases (CysRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. CysRS catalyzes the transfer of cysteine to the 3'-end of its tRNA.
Probab=26.93 E-value=42 Score=25.44 Aligned_cols=27 Identities=22% Similarity=0.234 Sum_probs=22.0
Q ss_pred chhh-hhhHHHHhcccceeeeecccccC
Q psy16486 40 YIIA-YIRDFACDYYFIGDSFETSVPWD 66 (150)
Q Consensus 40 F~~P-YLRD~Lld~Gi~vDTfETAvtWs 66 (150)
|... .|||-|..+||.+..--.-++|.
T Consensus 128 f~~AD~IRd~L~~~Gi~i~Dt~~Gt~w~ 155 (156)
T cd07963 128 WAEADRIRDELAAQGIILEDSPEGTTWR 155 (156)
T ss_pred HHHHHHHHHHHHHCCcEEEECCCCceee
Confidence 7766 99999999999988765567775
No 38
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=25.68 E-value=2.6e+02 Score=21.48 Aligned_cols=74 Identities=12% Similarity=-0.042 Sum_probs=37.4
Q ss_pred HHHHHHHcCCc---cCCCccc-hhhhhhhchhhhhhHHHHhcccceeeeecccccCChHHHHHHHHHHHHHHHHhcCCCc
Q psy16486 15 IYSIAKRYGGI---PAGESNG-RRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTRECTVSNGLL 90 (150)
Q Consensus 15 a~~I~k~~GGv---~lG~~~G-~~W~~~RF~~PYLRD~Lld~Gi~vDTfETAvtWs~v~~L~~~Vk~Al~~al~~~G~~~ 90 (150)
+.+.+.+.|.. +++..+. ......|+.+ +++.|.++|+-+.......+|+.- . ..+++.+.|..+..+
T Consensus 103 ~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~g--f~~~l~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~l~~~~~~- 174 (265)
T cd06291 103 AAEELIERGCKHIAHIGGPNNTVSPTNLRYEG--FLDVLKENGLEVRIIEIQENFDDA-E----KKEEIKELLEEYPDI- 174 (265)
T ss_pred HHHHHHHcCCcEEEEEccCcccccchHHHHHH--HHHHHHHcCCCCChheeeccccch-H----HHHHHHHHHhCCCCC-
Confidence 33444445542 2333333 2444556544 577888888765544445555532 2 233445556554433
Q ss_pred eEEEee
Q psy16486 91 EFRSET 96 (150)
Q Consensus 91 ~~V~CH 96 (150)
..|+|.
T Consensus 175 ~ai~~~ 180 (265)
T cd06291 175 DGIFAS 180 (265)
T ss_pred CEEEEC
Confidence 445553
No 39
>PLN02998 beta-glucosidase
Probab=25.61 E-value=71 Score=29.57 Aligned_cols=60 Identities=10% Similarity=0.060 Sum_probs=44.2
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH----H----HHHHHHHHHHHHhcCCCceEEEeecccchhhh
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL----C----INVKKRLTRECTVSNGLLEFRSETKKEGNLGF 104 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L----~----~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~~~ 104 (150)
|-.|.-+-.-+.++++=+|+.||||.+- . =+-...|-.+|.++|+. |+|.=|-+.--.-+
T Consensus 84 y~EDi~lmk~lG~~~YRfSIsWsRI~P~G~g~vN~~gl~~Y~~lid~L~~~GIe-P~VTL~H~dlP~~L 151 (497)
T PLN02998 84 YKEDVKLMADMGLEAYRFSISWSRLLPSGRGPINPKGLQYYNNLIDELITHGIQ-PHVTLHHFDLPQAL 151 (497)
T ss_pred hHHHHHHHHHcCCCeEEeeccHHhcCcCCCCCcCHHHHHHHHHHHHHHHHcCCc-eEEEecCCCCCHHH
Confidence 6678778888889999999999999874 1 11356778889999996 76666655544433
No 40
>PF00232 Glyco_hydro_1: Glycosyl hydrolase family 1; InterPro: IPR001360 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 1 GH1 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-galactosidase (3.2.1.23 from EC); 6-phospho-beta-galactosidase (3.2.1.85 from EC); 6-phospho-beta-glucosidase (3.2.1.86 from EC); lactase-phlorizin hydrolase (3.2.1.62 from EC), (3.2.1.108 from EC); beta-mannosidase (3.2.1.25 from EC); myrosinase (3.2.1.147 from EC). ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1QVB_A 3AHY_D 2E9L_A 2ZOX_A 2JFE_X 2E9M_A 3FIZ_A 3FIY_A 3CMJ_A 3FJ0_A ....
Probab=25.14 E-value=62 Score=29.07 Aligned_cols=62 Identities=13% Similarity=0.044 Sum_probs=42.4
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH-------HHHH--HHHHHHHHHhcCCCceEEEeecccchhhhhh
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL-------CINV--KKRLTRECTVSNGLLEFRSETKKEGNLGFRK 106 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L-------~~~V--k~Al~~al~~~G~~~~~V~CH~~~~~~~~~~ 106 (150)
|-.|.-+-..+.+.++=.|+.|++|.+- -+.+ ...|.+.|.+.|+. |+|.-|-+.-.+-|..
T Consensus 60 y~eDi~l~~~lg~~~yRfsi~W~Ri~P~g~~g~~n~~~~~~Y~~~i~~l~~~gi~-P~vtL~H~~~P~~l~~ 130 (455)
T PF00232_consen 60 YKEDIALMKELGVNAYRFSISWSRIFPDGFEGKVNEEGLDFYRDLIDELLENGIE-PIVTLYHFDLPLWLED 130 (455)
T ss_dssp HHHHHHHHHHHT-SEEEEE--HHHHSTTSSSSSS-HHHHHHHHHHHHHHHHTT-E-EEEEEESS--BHHHHH
T ss_pred hhHHHHHHHhhccceeeeecchhheeecccccccCHhHhhhhHHHHHHHHhhccc-eeeeeeecccccceee
Confidence 7889999999999999999999999655 2222 45667889999996 7777776766555555
No 41
>PF02913 FAD-oxidase_C: FAD linked oxidases, C-terminal domain; InterPro: IPR004113 Some oxygen-dependent oxidoreductases are flavoproteins that contain a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. The region around the histidine that binds the FAD group is conserved in these enzymes (see IPR006093 from INTERPRO).; GO: 0003824 catalytic activity, 0050660 flavin adenine dinucleotide binding; PDB: 1WVE_B 1DII_B 1WVF_A 1DIQ_A 2UUU_B 2UUV_A 1W1M_A 1E8H_B 1E0Y_B 1DZN_B ....
Probab=24.00 E-value=1.8e+02 Score=22.20 Aligned_cols=22 Identities=23% Similarity=0.389 Sum_probs=15.6
Q ss_pred hhhHHHHHHHHHHHcCCccCCC
Q psy16486 8 VKNNEDKIYSIAKRYGGIPAGE 29 (150)
Q Consensus 8 V~~~~~~a~~I~k~~GGv~lG~ 29 (150)
+......+.+.+.++||...+.
T Consensus 186 ~~~~~~~~~~~~~~~gG~is~e 207 (248)
T PF02913_consen 186 AEALWDELYELVLELGGSISAE 207 (248)
T ss_dssp HHHHHHHHHHHHHHTT-BBSSS
T ss_pred HHHHHHHHHHHHHhcccccccc
Confidence 4455666777799999988766
No 42
>PLN02849 beta-glucosidase
Probab=23.94 E-value=77 Score=29.39 Aligned_cols=58 Identities=14% Similarity=0.036 Sum_probs=42.9
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH------HHH--HHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL------CIN--VKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L------~~~--Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
|-.|.-+-..+.++++=+|+.||||.+- -+. -...|-.+|.++|+. |+|.=|-+.-..
T Consensus 81 Y~eDI~Lm~~lG~~aYRfSIsWsRI~P~G~g~vN~~gl~fY~~lid~l~~~GI~-P~VTL~H~dlP~ 146 (503)
T PLN02849 81 YKEDVKLMVETGLDAFRFSISWSRLIPNGRGSVNPKGLQFYKNFIQELVKHGIE-PHVTLFHYDHPQ 146 (503)
T ss_pred HHHHHHHHHHcCCCeEEEeccHHhcCcCCCCCCCHHHHHHHHHHHHHHHHcCCe-EEEeecCCCCcH
Confidence 6678888888999999999999999873 111 356778889999997 666555444433
No 43
>PRK09589 celA 6-phospho-beta-glucosidase; Reviewed
Probab=23.73 E-value=1e+02 Score=28.33 Aligned_cols=58 Identities=19% Similarity=0.111 Sum_probs=43.6
Q ss_pred hhhHHHHhcccceeeeecccccCChHHHH-------HH--HHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLLC-------IN--VKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L~-------~~--Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
|-.|.-+-..+.+.++=+|+.||||.+-= +. -...|-..|.++|+. |+|.=|-+.-..
T Consensus 69 y~eDi~Lm~~lG~~~yRfSIsWsRI~P~G~~~~~N~~gl~~Y~~lid~L~~~GI~-P~VTL~H~dlP~ 135 (476)
T PRK09589 69 YKEDIALFAEMGFKCFRTSIAWTRIFPQGDELEPNEEGLQFYDDLFDECLKQGIE-PVVTLSHFEMPY 135 (476)
T ss_pred hHHHHHHHHHcCCCEEEeccchhhcCcCCCCCCCCHHHHHHHHHHHHHHHHcCCE-EEEEecCCCCCH
Confidence 66788888889999999999999998731 11 356788899999996 766655555433
No 44
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=23.69 E-value=1.5e+02 Score=22.82 Aligned_cols=20 Identities=25% Similarity=0.263 Sum_probs=10.1
Q ss_pred hhhhhhhhhhchHHHHHHhh
Q psy16486 105 RKRQGEKKKKNEEKEEEKKK 124 (150)
Q Consensus 105 ~~~~~~~~~~~~~~~~~~~~ 124 (150)
|-++..+--+-+-|||..|+
T Consensus 36 ~IW~~~r~~r~~MKEER~K~ 55 (121)
T PF10669_consen 36 SIWHDSRQVRIRMKEERSKK 55 (121)
T ss_pred HHhhhHHHHHHHHHHHHHHH
Confidence 44555555555666643333
No 45
>COG3931 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]
Probab=23.47 E-value=1.1e+02 Score=26.67 Aligned_cols=31 Identities=6% Similarity=-0.130 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHhcCCCceEEEeecccch
Q psy16486 70 LLCINVKKRLTRECTVSNGLLEFRSETKKEGN 101 (150)
Q Consensus 70 ~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~ 101 (150)
++|++|...|....+. |.++.+|+-|.|-..
T Consensus 126 PfH~av~~~ia~r~Aa-G~~~~vvsvHSFTPv 156 (263)
T COG3931 126 PFHEAVTRIIAERAAA-GRAPFVVSVHSFTPV 156 (263)
T ss_pred hHHHHHHHHHHHHHhc-CCCcEEEEEeccCcc
Confidence 4566676666666666 887679999998653
No 46
>PRK11858 aksA trans-homoaconitate synthase; Reviewed
Probab=23.42 E-value=1.8e+02 Score=25.64 Aligned_cols=67 Identities=15% Similarity=0.047 Sum_probs=41.4
Q ss_pred HHhhhHHHHHHHHHHHcCCccCCCccchhhhhhhchhhhhhHHH---Hhcc----cceeeeecccccCChHHHHHHHHH
Q psy16486 6 EDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFA---CDYY----FIGDSFETSVPWDKTVLLCINVKK 77 (150)
Q Consensus 6 ~~V~~~~~~a~~I~k~~GGv~lG~~~G~~W~~~RF~~PYLRD~L---ld~G----i~vDTfETAvtWs~v~~L~~~Vk~ 77 (150)
+++-.....+.+.++.+|..+... .....|.+..||.+.+ .++| +++||.-.++|+ .+..+...+++
T Consensus 112 ~~~l~~~~~~v~~a~~~G~~v~~~----~ed~~r~~~~~l~~~~~~~~~~Ga~~I~l~DT~G~~~P~-~v~~lv~~l~~ 185 (378)
T PRK11858 112 EEVLERMVEAVEYAKDHGLYVSFS----AEDASRTDLDFLIEFAKAAEEAGADRVRFCDTVGILDPF-TMYELVKELVE 185 (378)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEE----eccCCCCCHHHHHHHHHHHHhCCCCEEEEeccCCCCCHH-HHHHHHHHHHH
Confidence 444455666777888888643322 1244555666666554 4455 567999999995 45566655544
No 47
>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks. This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.
Probab=22.93 E-value=65 Score=21.93 Aligned_cols=22 Identities=14% Similarity=-0.185 Sum_probs=17.3
Q ss_pred hhhhchhhhhhHHHHhcccceee
Q psy16486 36 YMLTYIIAYIRDFACDYYFIGDS 58 (150)
Q Consensus 36 ~~~RF~~PYLRD~Lld~Gi~vDT 58 (150)
.+.|. ++|+++.|.++|+++-.
T Consensus 30 ~D~r~-i~~~~k~L~~~gLI~k~ 51 (75)
T PF04182_consen 30 IDPRS-IFYRLKKLEKKGLIVKQ 51 (75)
T ss_pred CCchH-HHHHHHHHHHCCCEEEE
Confidence 44454 78999999999999753
No 48
>PLN02814 beta-glucosidase
Probab=22.58 E-value=83 Score=29.20 Aligned_cols=58 Identities=16% Similarity=0.037 Sum_probs=42.2
Q ss_pred hhhHHHHhcccceeeeecccccCChHHH-----HH---HHHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLL-----CI---NVKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L-----~~---~Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
|-.|.-+-..+.++++=+|+.||||.+= -. +-...|-..|.++|+. |+|.=|-+.-..
T Consensus 79 y~EDI~L~k~lG~~ayRfSIsWsRI~P~G~g~~N~~Gl~fY~~lId~l~~~GI~-P~VTL~H~dlP~ 144 (504)
T PLN02814 79 YKEDVKLMAEMGLESFRFSISWSRLIPNGRGLINPKGLLFYKNLIKELRSHGIE-PHVTLYHYDLPQ 144 (504)
T ss_pred hHHHHHHHHHcCCCEEEEeccHhhcCcCCCCCCCHHHHHHHHHHHHHHHHcCCc-eEEEecCCCCCH
Confidence 5677778888889999999999999872 11 2356778889999997 655554444333
No 49
>PLN02517 phosphatidylcholine-sterol O-acyltransferase
Probab=22.21 E-value=2.3e+02 Score=27.68 Aligned_cols=58 Identities=5% Similarity=-0.051 Sum_probs=43.2
Q ss_pred hhHHHHhcccceeeeecc-cccCCh-------HHHHHHHHHHHHHHHHhcCCCceEEEeecccchh
Q psy16486 45 IRDFACDYYFIGDSFETS-VPWDKT-------VLLCINVKKRLTRECTVSNGLLEFRSETKKEGNL 102 (150)
Q Consensus 45 LRD~Lld~Gi~vDTfETA-vtWs~v-------~~L~~~Vk~Al~~al~~~G~~~~~V~CH~~~~~~ 102 (150)
|-+.|...||-..||=.| .+|-.- ...+..+++-|..++...|..+.++.+|.|-|.-
T Consensus 161 LIe~L~~iGY~~~nL~gAPYDWRls~~~le~rd~YF~rLK~lIE~ay~~nggkKVVLV~HSMGglv 226 (642)
T PLN02517 161 LIANLARIGYEEKNMYMAAYDWRLSFQNTEVRDQTLSRLKSNIELMVATNGGKKVVVVPHSMGVLY 226 (642)
T ss_pred HHHHHHHcCCCCCceeecccccccCccchhhhhHHHHHHHHHHHHHHHHcCCCeEEEEEeCCchHH
Confidence 557888999987777665 567654 4455678888888888885444899999998743
No 50
>TIGR02660 nifV_homocitr homocitrate synthase NifV. This family consists of the NifV clade of homocitrate synthases, most of which are found in operons for nitrogen fixation. Members are closely homologous to enzymes that include 2-isopropylmalate synthase, (R)-citramalate synthase, and homocitrate synthases associated with other processes. The homocitrate made by this enzyme becomes a part of the iron-molybdenum cofactor of nitrogenase.
Probab=22.13 E-value=1.9e+02 Score=25.28 Aligned_cols=67 Identities=13% Similarity=0.063 Sum_probs=38.5
Q ss_pred HHhhhHHHHHHHHHHHcCCccCCCccchhhhhhhchhhhhhHH---HHhcc----cceeeeecccccCChHHHHHHHHH
Q psy16486 6 EDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDF---ACDYY----FIGDSFETSVPWDKTVLLCINVKK 77 (150)
Q Consensus 6 ~~V~~~~~~a~~I~k~~GGv~lG~~~G~~W~~~RF~~PYLRD~---Lld~G----i~vDTfETAvtWs~v~~L~~~Vk~ 77 (150)
.++-.....+.+.++++|-.+.-. .....|.+..||.+. +.++| .++||...++|+ .+..+...+++
T Consensus 109 ~e~l~~~~~~i~~ak~~g~~v~~~----~ed~~r~~~~~l~~~~~~~~~~Ga~~i~l~DT~G~~~P~-~v~~lv~~l~~ 182 (365)
T TIGR02660 109 AWVLERLARLVSFARDRGLFVSVG----GEDASRADPDFLVELAEVAAEAGADRFRFADTVGILDPF-STYELVRALRQ 182 (365)
T ss_pred HHHHHHHHHHHHHHHhCCCEEEEe----ecCCCCCCHHHHHHHHHHHHHcCcCEEEEcccCCCCCHH-HHHHHHHHHHH
Confidence 344444556777888888532211 122334444455433 45566 467999999994 56666655544
No 51
>PF01358 PARP_regulatory: Poly A polymerase regulatory subunit; InterPro: IPR000176 This family contains viral proteins that are bifunctional, acting as both an mRNA cap-specific RNA 2'-O-methyltransferase, which methylates the ribose 2' OH group of the first transcribed nucleotide, thereby producing a 2'-o-methylpurine cap and a poly(A) polymerase processivity factor which binds to Poly(A) but has no catalytic activity. The structure of this protein is known [].; GO: 0004483 mRNA (nucleoside-2'-O-)-methyltransferase activity, 0006370 mRNA capping, 0006397 mRNA processing; PDB: 4DCG_A 1B42_A 3ERC_A 1AV6_A 2VP3_A 1JTF_A 1JTE_A 1VP3_A 3ER9_A 1P39_A ....
Probab=21.86 E-value=44 Score=29.53 Aligned_cols=22 Identities=23% Similarity=0.354 Sum_probs=17.5
Q ss_pred ccCCCccchhhhhhhchhhhhhHHHHhcc
Q psy16486 25 IPAGESNGRRGYMLTYIIAYIRDFACDYY 53 (150)
Q Consensus 25 v~lG~~~G~~W~~~RF~~PYLRD~Lld~G 53 (150)
+++|++||- .+|||+|..-++|
T Consensus 63 VYiGsApG~-------Hi~~L~~lf~~~~ 84 (294)
T PF01358_consen 63 VYIGSAPGT-------HIPFLFDLFPDLK 84 (294)
T ss_dssp EEES-SS-H-------HHHHHHHHHHHTT
T ss_pred EEecCCCcc-------hHHHHHHHHHhcC
Confidence 677999994 5999999999998
No 52
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=21.80 E-value=3.6e+02 Score=20.76 Aligned_cols=83 Identities=7% Similarity=-0.232 Sum_probs=42.8
Q ss_pred HHHHHHHHcCCc---cCCCccchhhhhhhchhhhhhHHHHhcccceeeeec-ccccCChHHHHHHHHHHHHHHHHhcCCC
Q psy16486 14 KIYSIAKRYGGI---PAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFET-SVPWDKTVLLCINVKKRLTRECTVSNGL 89 (150)
Q Consensus 14 ~a~~I~k~~GGv---~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~vDTfET-AvtWs~v~~L~~~Vk~Al~~al~~~G~~ 89 (150)
.+..+++ .|.. ++|..++..+...|..+ +++.+.++|+-.+.... ..+|+. . ....++...+..++.+
T Consensus 107 ~~~~l~~-~g~~~i~~i~~~~~~~~~~~R~~g--f~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~~l~~~~~~ 178 (264)
T cd06274 107 LTRELLA-APPEEVLFLGGLPELSPSRERLAG--FRQALADAGLPVQPDWIYAEGYSP-E----SGYQLMAELLARLGRL 178 (264)
T ss_pred HHHHHHH-CCCCcEEEEeCCCcccchHHHHHH--HHHHHHHcCCCCCcceeecCCCCh-H----HHHHHHHHHHccCCCC
Confidence 3334443 4542 33444555566667644 57788999875544332 356762 2 2234445555554332
Q ss_pred ceEEEeecccchhhh
Q psy16486 90 LEFRSETKKEGNLGF 104 (150)
Q Consensus 90 ~~~V~CH~~~~~~~~ 104 (150)
+..|+|..-..+.++
T Consensus 179 ~~ai~~~~d~~A~g~ 193 (264)
T cd06274 179 PRALFTTSYTLLEGV 193 (264)
T ss_pred CcEEEEcChHHHHHH
Confidence 245666654444443
No 53
>cd05782 DNA_polB_like1_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=20.85 E-value=49 Score=26.73 Aligned_cols=39 Identities=3% Similarity=-0.195 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHcCCccCCCccchhhhhhhchhhhhhHHHHhcccc
Q psy16486 11 NEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFI 55 (150)
Q Consensus 11 ~~~~a~~I~k~~GGv~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~ 55 (150)
..+....++..+.-+.+ .|=-..|++|||+.-++.+|+-
T Consensus 81 lL~~F~~~i~~~~p~lv------~yNg~~FDlP~L~~Ra~~~gi~ 119 (208)
T cd05782 81 LLEDFFQLIEKKNPRLV------SFNGRGFDLPVLHLRALIHGVS 119 (208)
T ss_pred HHHHHHHHHHHhCCEEE------ecCCCcCCHHHHHHHHHHhCCC
Confidence 34455566666532222 3555789999999999999994
No 54
>PRK09593 arb 6-phospho-beta-glucosidase; Reviewed
Probab=20.46 E-value=81 Score=28.94 Aligned_cols=56 Identities=14% Similarity=0.138 Sum_probs=41.6
Q ss_pred hhhHHHHhcccceeeeecccccCChHHHH-------H--HHHHHHHHHHHhcCCCceEEEeecccc
Q psy16486 44 YIRDFACDYYFIGDSFETSVPWDKTVLLC-------I--NVKKRLTRECTVSNGLLEFRSETKKEG 100 (150)
Q Consensus 44 YLRD~Lld~Gi~vDTfETAvtWs~v~~L~-------~--~Vk~Al~~al~~~G~~~~~V~CH~~~~ 100 (150)
|--|.-+-..+.++++=.|+.||||.+-= + +-...|-..|.++|+. |+|.=|-+.-
T Consensus 75 y~eDi~Lm~~lG~~aYRfSIsWsRI~P~G~~~~~N~~gl~~Y~~lId~L~~~GI~-P~VTL~H~dl 139 (478)
T PRK09593 75 YKEDIALFAEMGFKTYRMSIAWTRIFPKGDELEPNEAGLQFYEDIFKECHKYGIE-PLVTITHFDC 139 (478)
T ss_pred hHHHHHHHHHcCCCEEEEecchhhcccCCCCCCCCHHHHHHHHHHHHHHHHcCCE-EEEEecccCC
Confidence 55677777788899999999999998741 1 2356788899999996 6555554443
No 55
>PHA03108 poly(A) polymerase small subunit; Provisional
Probab=20.39 E-value=55 Score=29.03 Aligned_cols=23 Identities=26% Similarity=0.375 Sum_probs=19.2
Q ss_pred ccCCCccchhhhhhhchhhhhhHHHHhccc
Q psy16486 25 IPAGESNGRRGYMLTYIIAYIRDFACDYYF 54 (150)
Q Consensus 25 v~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi 54 (150)
+++|++|| +.+|||+|..-++|+
T Consensus 65 VYiGSApG-------~HI~~L~~lf~~lg~ 87 (300)
T PHA03108 65 VYIGSAPG-------THIRYLRDHFYSLGV 87 (300)
T ss_pred EEecCCCC-------ccHHHHHHHHHhcCC
Confidence 56799998 459999999999863
No 56
>COG0287 TyrA Prephenate dehydrogenase [Amino acid transport and metabolism]
Probab=20.35 E-value=51 Score=28.21 Aligned_cols=26 Identities=8% Similarity=-0.100 Sum_probs=16.9
Q ss_pred HHHHHHHHhcCCC-ceEEEeecccchh
Q psy16486 77 KRLTRECTVSNGL-LEFRSETKKEGNL 102 (150)
Q Consensus 77 ~Al~~al~~~G~~-~~~V~CH~~~~~~ 102 (150)
..+..++...... +.+|.+|+|.|.+
T Consensus 102 ~~v~~a~~~~~~~~~~~vg~HPM~G~~ 128 (279)
T COG0287 102 SSVVEAMEKYLPGDVRFVGGHPMFGPE 128 (279)
T ss_pred HHHHHHHHHhccCCCeeEecCCCCCCc
Confidence 4445555554432 1599999999995
No 57
>cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal proteins with similarity to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B3 exhibits both polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Archaeal proteins that are involved in DNA replicatio
Probab=20.34 E-value=1.1e+02 Score=24.27 Aligned_cols=41 Identities=10% Similarity=-0.168 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHcCCccCCCccchhhhhhhchhhhhhHHHHhcccce
Q psy16486 11 NEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIG 56 (150)
Q Consensus 11 ~~~~a~~I~k~~GGv~lG~~~G~~W~~~RF~~PYLRD~Lld~Gi~v 56 (150)
.......+++.+.--.+-+ |--..|+.|||.+-+..+|+-.
T Consensus 51 lL~~F~~~i~~~dPd~i~g-----yN~~~FDlpyl~~Ra~~~gi~~ 91 (188)
T cd05781 51 IIREFVKYVKEYDPDIIVG-----YNSNAFDWPYLVERARVLGVKL 91 (188)
T ss_pred HHHHHHHHHHHcCCCEEEe-----cCCCcCcHHHHHHHHHHhCCCc
Confidence 3455667777776443333 6778899999999999999754
Done!