Query 024157
Match_columns 271
No_of_seqs 167 out of 1149
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 02:30:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024157.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024157hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10353 3-methyl-adenine DNA 100.0 3.3E-52 7.1E-57 365.2 12.6 110 159-270 1-110 (187)
2 TIGR00624 tag DNA-3-methyladen 100.0 6.5E-51 1.4E-55 354.9 12.2 107 160-268 1-107 (179)
3 COG2818 Tag 3-methyladenine DN 100.0 8.6E-51 1.9E-55 356.5 12.0 111 159-270 1-111 (188)
4 PF03352 Adenine_glyco: Methyl 100.0 9.9E-49 2.1E-53 341.1 10.6 105 164-270 1-105 (179)
5 cd00056 ENDO3c endonuclease II 94.0 0.35 7.5E-06 39.9 8.1 69 192-264 1-69 (158)
6 PRK10702 endonuclease III; Pro 93.0 0.71 1.5E-05 41.5 8.8 70 191-264 29-98 (211)
7 PF00730 HhH-GPD: HhH-GPD supe 91.5 1.2 2.5E-05 34.5 7.5 63 199-263 4-66 (108)
8 TIGR03252 uncharacterized HhH- 90.2 2.7 5.9E-05 37.6 9.4 73 191-263 18-92 (177)
9 TIGR01083 nth endonuclease III 89.8 2.6 5.6E-05 36.7 8.8 70 191-264 26-95 (191)
10 PRK13913 3-methyladenine DNA g 87.8 4.9 0.00011 36.7 9.5 72 191-264 30-106 (218)
11 smart00478 ENDO3c endonuclease 85.8 3.1 6.8E-05 34.0 6.6 57 204-264 5-61 (149)
12 PRK10880 adenine DNA glycosyla 84.8 7 0.00015 38.0 9.4 68 191-263 30-97 (350)
13 TIGR01084 mutY A/G-specific ad 79.0 11 0.00023 35.4 8.1 68 191-263 26-93 (275)
14 COG0177 Nth Predicted EndoIII- 74.5 22 0.00048 32.7 8.6 72 191-270 29-101 (211)
15 cd00166 SAM Sterile alpha moti 70.3 12 0.00025 25.6 4.6 43 214-258 17-61 (63)
16 PRK01229 N-glycosylase/DNA lya 64.7 29 0.00063 31.6 7.2 68 187-262 33-100 (208)
17 COG0122 AlkA 3-methyladenine D 59.7 60 0.0013 30.7 8.6 70 189-264 103-180 (285)
18 PF00536 SAM_1: SAM domain (St 58.3 21 0.00046 25.2 4.2 43 214-258 18-62 (64)
19 COG1393 ArsC Arsenate reductas 56.5 13 0.00027 30.8 3.2 47 199-248 47-93 (117)
20 PF07647 SAM_2: SAM domain (St 49.8 33 0.00072 24.2 4.1 43 214-258 19-64 (66)
21 PF13495 Phage_int_SAM_4: Phag 45.6 1.1E+02 0.0024 22.2 6.4 52 191-242 1-52 (85)
22 COG2231 Uncharacterized protei 43.5 93 0.002 29.1 6.9 74 171-249 14-87 (215)
23 PRK10308 3-methyl-adenine DNA 39.6 1.6E+02 0.0034 27.7 8.0 79 180-264 102-191 (283)
24 PF00356 LacI: Bacterial regul 38.8 44 0.00094 23.5 3.2 40 224-271 4-43 (46)
25 PF14493 HTH_40: Helix-turn-he 37.4 1.3E+02 0.0029 23.0 6.1 45 194-240 4-59 (91)
26 PF12583 TPPII_N: Tripeptidyl 33.7 24 0.00053 30.8 1.5 30 210-239 69-98 (139)
27 smart00454 SAM Sterile alpha m 33.3 1.3E+02 0.0029 20.4 5.0 43 216-260 21-66 (68)
28 PF13524 Glyco_trans_1_2: Glyc 33.1 38 0.00083 25.0 2.3 68 190-270 14-82 (92)
29 cd00052 EH Eps15 homology doma 30.2 31 0.00066 23.6 1.3 27 216-242 1-27 (67)
30 PF07862 Nif11: Nitrogen fixat 30.1 34 0.00075 23.6 1.5 22 249-271 20-41 (49)
31 PF02173 pKID: pKID domain; I 28.6 20 0.00044 25.5 0.2 17 207-223 13-29 (41)
32 PHA02543 regA translation repr 26.7 23 0.00049 30.5 0.2 59 192-251 54-112 (125)
33 cd05027 S-100B S-100B: S-100B 24.9 57 0.0012 25.3 2.1 47 213-259 7-60 (88)
34 cd03036 ArsC_like Arsenate Red 23.4 80 0.0017 25.2 2.7 58 188-248 34-93 (111)
35 KOG0898 40S ribosomal protein 23.3 94 0.002 27.5 3.3 32 210-241 13-45 (152)
36 PRK01172 ski2-like helicase; P 22.6 1.4E+02 0.0029 30.8 4.8 37 224-265 635-671 (674)
37 PF05075 DUF684: Protein of un 21.9 1.7E+02 0.0036 28.2 5.0 40 188-227 115-161 (345)
38 PF14534 DUF4440: Domain of un 21.6 93 0.002 22.4 2.6 47 209-256 1-47 (107)
39 PF15335 CAAP1: Caspase activi 21.2 1.2E+02 0.0026 23.4 3.1 48 209-256 9-64 (64)
40 PF12415 rpo132: Poxvirus DNA 21.0 92 0.002 21.2 2.2 14 251-264 18-31 (33)
41 KOG4384 Uncharacterized SAM do 20.9 1.1E+02 0.0024 30.6 3.5 43 219-263 235-278 (361)
42 COG3148 Uncharacterized conser 20.5 55 0.0012 30.8 1.4 35 162-196 42-78 (231)
43 PF06878 Pkip-1: Pkip-1 protei 20.1 3.1E+02 0.0067 24.6 5.9 82 182-269 26-126 (163)
44 TIGR03798 ocin_TIGR03798 bacte 20.0 71 0.0015 23.4 1.7 32 236-271 8-39 (64)
No 1
>PRK10353 3-methyl-adenine DNA glycosylase I; Provisional
Probab=100.00 E-value=3.3e-52 Score=365.20 Aligned_cols=110 Identities=39% Similarity=0.725 Sum_probs=107.7
Q ss_pred CCCCCCCCCCCChhhhhhhhcCCCccccChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHH
Q 024157 159 KKRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLA 238 (271)
Q Consensus 159 ~~RC~Wa~~~~dply~~YHD~EWGvPvhDDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~ 238 (271)
+.||.|++ +||+|++|||+|||+|+|||++|||+||||+|||||||.|||+||++||+||++|||++||+|+|++|++
T Consensus 1 m~rC~W~~--~~~l~~~YHD~eWG~P~~dd~~LFE~L~Le~~QAGLSW~tIL~Kre~fr~aF~~Fd~~~VA~~~e~die~ 78 (187)
T PRK10353 1 MERCGWVS--QDPLYIAYHDNEWGVPETDSKKLFEMICLEGQQAGLSWITVLKKRENYRACFHQFDPVKVAAMQEEDVER 78 (187)
T ss_pred CCCCCCCC--CChHHHHhhhccCCCcCCCcHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHcCCCHHHHhCCCHHHHHH
Confidence 36999996 7999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccchhhcchhHHHHHHHHHHHHHHHHHhcC
Q 024157 239 AGSAASSLLSELKLRAIIENARQISKVDFYFH 270 (271)
Q Consensus 239 L~~d~~IIRNr~KIrAII~NArailkI~~E~G 270 (271)
||+|++|||||+||+|||+||+++++|++|||
T Consensus 79 Ll~d~~IIRnr~KI~Avi~NA~~~l~i~~e~g 110 (187)
T PRK10353 79 LVQDAGIIRHRGKIQAIIGNARAYLQMEQNGE 110 (187)
T ss_pred HhcCchhHHhHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999987
No 2
>TIGR00624 tag DNA-3-methyladenine glycosylase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=6.5e-51 Score=354.88 Aligned_cols=107 Identities=35% Similarity=0.682 Sum_probs=104.9
Q ss_pred CCCCCCCCCCChhhhhhhhcCCCccccChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHh
Q 024157 160 KRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAA 239 (271)
Q Consensus 160 ~RC~Wa~~~~dply~~YHD~EWGvPvhDDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L 239 (271)
.||.|++ ++|+|++|||+|||+|+|||++|||+||||+|||||||.|||+||++||+||+||||++||.|+|++|++|
T Consensus 1 ~rC~W~~--~~~l~~~YHD~eWG~p~~dd~~LFE~L~Le~fQAGLSW~tIL~Kr~~fr~aF~~Fd~~~VA~~~e~~ie~L 78 (179)
T TIGR00624 1 VRCGWAS--VDPLYRAYHDNEWGVPLRDSVALFERMSLEGFQAGLSWITVLRKRENYRRAFSGFDIVKVARMTDADVERL 78 (179)
T ss_pred CCCCCcC--CChHHHHhhhccCCCcCcCCHHHHHHHHHHHHhCcCCHHHHHHhHHHHHHHHcCCCHHHHhCCCHHHHHHH
Confidence 4899996 79999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccchhhcchhHHHHHHHHHHHHHHHHHh
Q 024157 240 GSAASSLLSELKLRAIIENARQISKVDFY 268 (271)
Q Consensus 240 ~~d~~IIRNr~KIrAII~NArailkI~~E 268 (271)
|+|++|||||+||+|||+||+++++|++|
T Consensus 79 ~~d~~IIRnr~KI~Avi~NA~~~l~i~~e 107 (179)
T TIGR00624 79 LQDDGIIRNRGKIEATIANARAALQLEQN 107 (179)
T ss_pred hcCccchhhHHHHHHHHHHHHHHHHHHHc
Confidence 99999999999999999999999999987
No 3
>COG2818 Tag 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.6e-51 Score=356.54 Aligned_cols=111 Identities=43% Similarity=0.792 Sum_probs=107.9
Q ss_pred CCCCCCCCCCCChhhhhhhhcCCCccccChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHH
Q 024157 159 KKRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLA 238 (271)
Q Consensus 159 ~~RC~Wa~~~~dply~~YHD~EWGvPvhDDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~ 238 (271)
+.||.|+. +.||+|.+|||+|||+|++||+.|||+||||+|||||||.|||+||++||+||++|||++||.|+|++||+
T Consensus 1 ~~rC~w~~-~~~ply~~YHD~eWG~p~~Dd~~LFE~l~Le~fQAGLSW~tVL~KRe~freaF~~Fd~~kVA~~~~~dver 79 (188)
T COG2818 1 MNRCAWAG-GLDPLYLAYHDTEWGVPLHDDQRLFELLCLEGFQAGLSWLTVLKKREAFREAFHGFDPEKVAAMTEEDVER 79 (188)
T ss_pred CCcccccC-CCCchhhcccccccCCCCCChHHHHHHHHHHHHhccchHHHHHHhHHHHHHHHhcCCHHHHHcCCHHHHHH
Confidence 46999996 34899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccchhhcchhHHHHHHHHHHHHHHHHHhcC
Q 024157 239 AGSAASSLLSELKLRAIIENARQISKVDFYFH 270 (271)
Q Consensus 239 L~~d~~IIRNr~KIrAII~NArailkI~~E~G 270 (271)
||+|++|||||+||.|||+||+++++|++|||
T Consensus 80 Ll~d~gIIR~r~KI~A~i~NA~~~l~l~~e~G 111 (188)
T COG2818 80 LLADAGIIRNRGKIKATINNARAVLELQKEFG 111 (188)
T ss_pred HHhCcchhhhHHHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999998
No 4
>PF03352 Adenine_glyco: Methyladenine glycosylase; InterPro: IPR005019 This family of methyladenine glycosylases includes DNA-3-methyladenine glycosylase I (3.2.2.20 from EC) which acts as a base excision repair enzyme by severing the glycosylic bond of numerous damaged bases. The enzyme is constitutively expressed and is specific for the alkylated 3-methyladenine DNA.; GO: 0008725 DNA-3-methyladenine glycosylase I activity, 0006284 base-excision repair; PDB: 2OFI_A 2OFK_A 2JG6_A 4AIA_E 4AI5_C 4AI4_A 1LMZ_A 1P7M_A 1NKU_A.
Probab=100.00 E-value=9.9e-49 Score=341.06 Aligned_cols=105 Identities=48% Similarity=0.863 Sum_probs=95.5
Q ss_pred CCCCCCChhhhhhhhcCCCccccChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccc
Q 024157 164 WVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAA 243 (271)
Q Consensus 164 Wa~~~~dply~~YHD~EWGvPvhDDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~ 243 (271)
|+. ++|+|++|||+|||+|+|||++|||+||||+|||||||.+||+||++||+||+||||++||+|+|++|++||+|+
T Consensus 1 W~~--~~~~~~~YHD~eWG~P~~dD~~LFe~L~Le~fQaGLsW~~Il~Kr~~~r~aF~~Fd~~~vA~~~e~~ie~l~~d~ 78 (179)
T PF03352_consen 1 WAN--SDPLYRAYHDEEWGRPVHDDRKLFEMLTLEGFQAGLSWSTILKKREAFREAFAGFDPEKVAKMDEEDIERLMQDP 78 (179)
T ss_dssp TTT--SSHHHHHHHHHTTTSS---HHHHHHHHHHHHHTTTS-HHHHHHTHHHHHHHTGGGHHHHHHT--HHHHHHHTTST
T ss_pred CCC--CChHHHHHhcccCCCcccCHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHCCCHHHHHcCCHHHHHHHhcCc
Confidence 885 789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcchhHHHHHHHHHHHHHHHHHhcC
Q 024157 244 SSLLSELKLRAIIENARQISKVDFYFH 270 (271)
Q Consensus 244 ~IIRNr~KIrAII~NArailkI~~E~G 270 (271)
+||||++||+|||+||+++++|++|||
T Consensus 79 ~iIRnr~KI~Avi~NA~~~l~i~~e~g 105 (179)
T PF03352_consen 79 GIIRNRRKIRAVINNARAILKIQEEFG 105 (179)
T ss_dssp TSS--HHHHHHHHHHHHHHHHHHHTTS
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999998
No 5
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=94.01 E-value=0.35 Score=39.92 Aligned_cols=69 Identities=23% Similarity=0.139 Sum_probs=58.2
Q ss_pred HHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHH
Q 024157 192 FELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISK 264 (271)
Q Consensus 192 FElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailk 264 (271)
||.|+-.++..-.+|..+.+-...|.+.|. .+|+.|+..++++|..+...-+ .+.|.+.|++=|+.+.+
T Consensus 1 ~e~Li~~il~q~~s~~~a~~~~~~l~~~~g-pt~~~l~~~~~~~l~~~~~~~G---~~~kA~~i~~~a~~~~~ 69 (158)
T cd00056 1 FEVLVSEILSQQTTDKAVNKAYERLFERYG-PTPEALAAADEEELRELIRSLG---YRRKAKYLKELARAIVE 69 (158)
T ss_pred CHHHHHHHHHhcccHHHHHHHHHHHHHHhC-CCHHHHHCCCHHHHHHHHHhcC---hHHHHHHHHHHHHHHHH
Confidence 678888888888999999999999998886 7999999999999988765544 46788888888888754
No 6
>PRK10702 endonuclease III; Provisional
Probab=92.96 E-value=0.71 Score=41.53 Aligned_cols=70 Identities=17% Similarity=0.095 Sum_probs=54.8
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHH
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISK 264 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailk 264 (271)
-||.|+-++..+-=+|..|.+--+.|.+.| .+++.+++.++++|++++..-+. .+.|-+.+++.|+.+++
T Consensus 29 p~e~lvs~iLsq~t~~~~v~~~~~~L~~~~--pt~e~l~~a~~~~l~~~i~~~G~--y~~kA~~l~~~a~~i~~ 98 (211)
T PRK10702 29 PFELLIAVLLSAQATDVSVNKATAKLYPVA--NTPAAMLELGVEGVKTYIKTIGL--YNSKAENVIKTCRILLE 98 (211)
T ss_pred hHHHHHHHHHHhhcCHHHHHHHHHHHHHHc--CCHHHHHCCCHHHHHHHHHHcCC--HHHHHHHHHHHHHHHHH
Confidence 599999999988999999988777776554 48999999999999987665443 34455677888887653
No 7
>PF00730 HhH-GPD: HhH-GPD superfamily base excision DNA repair protein This entry corresponds to Endonuclease III This entry corresponds to Alkylbase DNA glycosidase; InterPro: IPR003265 Endonuclease III (4.2.99.18 from EC) is a DNA repair enzyme which removes a number of damaged pyrimidines from DNA via its glycosylase activity and also cleaves the phosphodiester backbone at apurinic / apyrimidinic sites via a beta-elimination mechanism [, ]. The structurally related DNA glycosylase MutY recognises and excises the mutational intermediate 8-oxoguanine-adenine mispair []. The 3-D structures of Escherichia coli endonuclease III [] and catalytic domain of MutY [] have been determined. The structures contain two all-alpha domains: a sequence-continuous, six-helix domain (residues 22-132) and a Greek-key, four-helix domain formed by one N-terminal and three C-terminal helices (residues 1-21 and 133-211) together with the [Fe4S4] cluster. The cluster is bound entirely within the C-terminal loop by four cysteine residues with a ligation pattern Cys-(Xaa)6-Cys-(Xaa)2-Cys-(Xaa)5-Cys which is distinct from all other known Fe4S4 proteins. This structural motif is referred to as a [Fe4S4] cluster loop (FCL) []. Two DNA-binding motifs have been proposed, one at either end of the interdomain groove: the helix-hairpin-helix (HhH) and FCL motifs (see IPR003651 from INTERPRO). The primary role of the iron-sulphur cluster appears to involve positioning conserved basic residues for interaction with the DNA phosphate backbone by forming the loop of the FCL motif [, ]. The HhH-GPD domain gets its name from its hallmark helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This domain is found in a diverse range of structurally related DNA repair proteins that include: endonuclease III, 4.2.99.18 from EC and DNA glycosylase MutY, an A/G-specific adenine glycosylase. Both of these enzymes have a C-terminal iron-sulphur cluster loop (FCL). The methyl-CPG binding protein (MBD4) also contain a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II 3.2.2.21 from EC, 8-oxoguanine DNA glycosylases and other members of the AlkA family.; GO: 0006284 base-excision repair; PDB: 3F0Z_A 3I0X_A 3F10_A 3I0W_A 3S6I_D 3N5N_Y 1PU7_A 1PU8_B 1PU6_B 1NGN_A ....
Probab=91.54 E-value=1.2 Score=34.53 Aligned_cols=63 Identities=22% Similarity=0.045 Sum_probs=52.0
Q ss_pred HHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHH
Q 024157 199 GALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQIS 263 (271)
Q Consensus 199 gfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArail 263 (271)
++..-.+|..+.+-...|.+.|...+|+.|+..++++|.++... .--++.|-+.|++=|+.++
T Consensus 4 Il~qq~s~~~a~~~~~~l~~~~g~pt~~~l~~~~~~el~~~i~~--~G~~~~ka~~i~~~a~~~~ 66 (108)
T PF00730_consen 4 ILSQQTSIKAARKIYRRLFERYGFPTPEALAEASEEELRELIRP--LGFSRRKAKYIIELARAIL 66 (108)
T ss_dssp HHCTTS-HHHHHHHHHHHHHHHSCSSHHHHHCSHHHHHHHHHTT--STSHHHHHHHHHHHHHHHH
T ss_pred eecCcCcHHHHHHHHHHHHHHhcCCCHHHHHhCCHHHHHHHhhc--cCCCHHHHHHHHHHHHHhh
Confidence 44556789999999999999999999999999999999998765 3456678888888888775
No 8
>TIGR03252 uncharacterized HhH-GPD family protein. This model describes a small, well-conserved bacterial protein family. Its sequence largely consists of a domain, HhH-GPD, found in a variety of related base excision DNA repair enzymes (see pfam00730).
Probab=90.23 E-value=2.7 Score=37.61 Aligned_cols=73 Identities=12% Similarity=0.060 Sum_probs=53.8
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhcc-chhhc-chhHHHHHHHHHHHHH
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSA-ASSLL-SELKLRAIIENARQIS 263 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d-~~IIR-Nr~KIrAII~NArail 263 (271)
-||+|+-.+.-+--+|..+.+--+.+.+.+...||+.+++++.++|++++.. +++.+ .+.|=+-|++=|+.|+
T Consensus 18 pFelLVa~ILSQqTtd~nv~kA~~~L~~~~g~~tp~~La~a~~eeL~~lI~~~pal~Gfy~~KAk~Lk~~a~~ii 92 (177)
T TIGR03252 18 PFALLTGMLLDQQVPMERAFAGPHKIARRMGSLDAEDIAKYDPQAFVALFSERPAVHRFPGSMAKRVQALAQYVV 92 (177)
T ss_pred hHHHHHHHHHhccCcHHHHHHHHHHHHHHhCCCCHHHHHcCCHHHHHHHHhcCccccCchHHHHHHHHHHHHHHH
Confidence 4999999999999999999877666644333489999999999999998753 33222 3456666666566553
No 9
>TIGR01083 nth endonuclease III. This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=89.80 E-value=2.6 Score=36.73 Aligned_cols=70 Identities=21% Similarity=0.157 Sum_probs=55.5
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHH
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISK 264 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailk 264 (271)
-||.|+-++.-.--+|..+.+-...|.+.| .+|+.|+..++++|++++..-+. .+.|.+.|++=|+.+.+
T Consensus 26 pf~~Li~~ILsqqt~~~~~~~~~~~l~~~~--pt~~~l~~~~~~~L~~~ir~~G~--~~~Ka~~i~~~a~~i~~ 95 (191)
T TIGR01083 26 PFELLVATILSAQATDKSVNKATKKLFEVY--PTPQALAQAGLEELEEYIKSIGL--YRNKAKNIIALCRILVE 95 (191)
T ss_pred HHHHHHHHHHHhhCcHHHHHHHHHHHHHHC--CCHHHHHcCCHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHH
Confidence 589999999988999999988777777655 48999999999999887665443 45777777777777643
No 10
>PRK13913 3-methyladenine DNA glycosylase; Provisional
Probab=87.76 E-value=4.9 Score=36.74 Aligned_cols=72 Identities=15% Similarity=0.200 Sum_probs=55.4
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHh-----CCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHH
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFV-----GFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISK 264 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~-----~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailk 264 (271)
-||.|+-.+.-.-=+|..+.+--+.++++|. .-+|+.|+.+++++|+++....+ -.++|.+.+.+=|+.|++
T Consensus 30 ~fevLV~aILsQqT~~~~v~~a~~~L~~~~~~~~~~~~t~e~L~~a~~eeL~~~Irp~G--f~~~KA~~Lk~la~~i~~ 106 (218)
T PRK13913 30 KFEALLGAVLTQNTKFEAVEKSLENLKNAFILENDDEINLKKIAYIEFSKLAECVRPSG--FYNQKAKRLIDLSENILK 106 (218)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHHhcccccccCCCHHHHHcCCHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHH
Confidence 3888888877777889888877777766653 23899999999999999877655 456787788777777754
No 11
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=85.81 E-value=3.1 Score=34.02 Aligned_cols=57 Identities=19% Similarity=0.152 Sum_probs=46.0
Q ss_pred CCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHH
Q 024157 204 LTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISK 264 (271)
Q Consensus 204 LSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailk 264 (271)
.+|..+.+-...|.+.|- +|+.|+..++++|++++..-+ ....|.+.|++.|+.+.+
T Consensus 5 ~~~~~a~~~~~~l~~~~~--~~~~l~~~~~~eL~~~l~~~g--~~~~ka~~i~~~a~~~~~ 61 (149)
T smart00478 5 TSDEAVNKATERLFEKFP--TPEDLAAADEEELEELIRPLG--FYRRKAKYLIELARILVE 61 (149)
T ss_pred ccHHHHHHHHHHHHHHCC--CHHHHHCCCHHHHHHHHHHcC--ChHHHHHHHHHHHHHHHH
Confidence 577888888888888886 799999999999988765422 456799999999988754
No 12
>PRK10880 adenine DNA glycosylase; Provisional
Probab=84.84 E-value=7 Score=38.04 Aligned_cols=68 Identities=10% Similarity=0.128 Sum_probs=55.9
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHH
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQIS 263 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArail 263 (271)
-|+.|+-|++..--+|.+++.-.+.|.+.| .|++.+|..++++|.++..--+.- + |.+-+..-|+.|.
T Consensus 30 py~ilVseILlQQT~v~~v~~~~~rl~~~f--Pt~~~La~a~~eel~~~~~glGyy-~--RAr~L~~~A~~i~ 97 (350)
T PRK10880 30 PYKVWLSEVMLQQTQVATVIPYFERFMARF--PTVTDLANAPLDEVLHLWTGLGYY-A--RARNLHKAAQQVA 97 (350)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHHC--cCHHHHHCcCHHHHHHHHHcCChH-H--HHHHHHHHHHHHH
Confidence 478999999999999999999888888876 579999999999999887766654 2 6667777777663
No 13
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=79.05 E-value=11 Score=35.44 Aligned_cols=68 Identities=12% Similarity=0.148 Sum_probs=55.2
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHH
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQIS 263 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArail 263 (271)
.|+.|+-+++..=-+|.+++.-.+.|.+.| -+++.|+..++++|..+...-+.- + |.+.+.+=|+.|.
T Consensus 26 py~vlvseIL~QQT~v~~v~~~~~rl~~~f--pt~~~La~a~~eeL~~~~~~lG~y-~--RAr~L~~~A~~i~ 93 (275)
T TIGR01084 26 PYRVWLSEVMLQQTQVATVIPYFERFLERF--PTVQALANAPQDEVLKLWEGLGYY-A--RARNLHKAAQEVV 93 (275)
T ss_pred HHHHHHHHHHHhhccHHHHHHHHHHHHHhC--CCHHHHHCcCHHHHHHHHHHCCcH-H--HHHHHHHHHHHHH
Confidence 589999999999999999999999998887 579999999999998877665654 2 5566666666553
No 14
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=74.46 E-value=22 Score=32.66 Aligned_cols=72 Identities=22% Similarity=0.139 Sum_probs=46.8
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCC-HHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHHHHHhc
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFD-PIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISKVDFYF 269 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FD-p~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailkI~~E~ 269 (271)
-||+|+--+..+-=+=..+- .++++.|.-|+ |+.+++.++++|+++...-+.- +.|-..|+.=|+.+ .++|
T Consensus 29 pf~lLva~iLSaqttD~~vn---~at~~Lf~~~~t~e~l~~a~~~~l~~~I~~iGly--r~KAk~I~~~~~~l---~e~~ 100 (211)
T COG0177 29 PFELLVAVILSAQTTDEVVN---KATPALFKRYPTPEDLLNADEEELEELIKSIGLY--RNKAKNIKELARIL---LEKF 100 (211)
T ss_pred cHHHHHHHHHhccCchHHHH---HHHHHHHHHcCCHHHHHcCCHHHHHHHHHhcCCc--HHHHHHHHHHHHHH---HHHc
Confidence 57877644433332222222 45566666665 9999999999999998865554 55656788777776 4555
Q ss_pred C
Q 024157 270 H 270 (271)
Q Consensus 270 G 270 (271)
|
T Consensus 101 ~ 101 (211)
T COG0177 101 G 101 (211)
T ss_pred C
Confidence 4
No 15
>cd00166 SAM Sterile alpha motif.; Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerization.
Probab=70.26 E-value=12 Score=25.60 Aligned_cols=43 Identities=21% Similarity=0.196 Sum_probs=32.2
Q ss_pred HHHHHHH--hCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHH
Q 024157 214 HIFREVF--VGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIEN 258 (271)
Q Consensus 214 e~fReAF--~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~N 258 (271)
+.|.+.| ++||-..+..++++++..+.... .-+|.||...|.+
T Consensus 17 ~~y~~~f~~~~i~g~~L~~l~~~dL~~lgi~~--~g~r~~i~~~i~~ 61 (63)
T cd00166 17 GQYADNFRENGIDGDLLLLLTEEDLKELGITL--PGHRKKILKAIQK 61 (63)
T ss_pred HHHHHHHHHcCCCHHHHhHCCHHHHHHcCCCC--HHHHHHHHHHHHH
Confidence 6677777 56889999999999999765432 4577788766653
No 16
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=64.74 E-value=29 Score=31.64 Aligned_cols=68 Identities=13% Similarity=0.092 Sum_probs=49.7
Q ss_pred ChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHH
Q 024157 187 DDKKLFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQI 262 (271)
Q Consensus 187 DDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArai 262 (271)
|+.-+|+.|+..+.-+.-+|..+.+--+.+ +++.+ .+++++|++++...+.--.++|=+-|++-++.+
T Consensus 33 ~~~~~f~~Lv~~ILsqnT~~~~v~~a~~~L-------~~~~l-~~~~eeL~~~Ir~~Gygf~~~KAk~I~~~~~~~ 100 (208)
T PRK01229 33 DEEDLFSELSFCILTANSSAEGGIKAQKEI-------GDGFL-YLSEEELEEKLKEVGHRFYNKRAEYIVEARKLY 100 (208)
T ss_pred ccCChHHHHHHHHhcCcCcHHHHHHHHHhc-------CHHHc-CCCHHHHHHHHHHhhcccHHHHHHHHHHHHHHH
Confidence 778899999999999999999988765555 34445 789999999876543123455655666666553
No 17
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=59.71 E-value=60 Score=30.70 Aligned_cols=70 Identities=21% Similarity=0.142 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhC--------CCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHH
Q 024157 189 KKLFELLVLSGALSELTWPAILSKRHIFREVFVG--------FDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENAR 260 (271)
Q Consensus 189 r~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~--------FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NAr 260 (271)
.-+||.|+--+.+.-+|-..+-+-+.-|.+.|.+ =.|+.|+..+++.+.++ ..++.|.+.|++=|+
T Consensus 103 ~d~fe~lv~aI~~QqvS~~~A~~i~~rl~~~~g~~~~~~~~fptpe~l~~~~~~~l~~~------g~s~~Ka~yi~~~A~ 176 (285)
T COG0122 103 PDPFEALVRAILSQQVSVAAAAKIWARLVSLYGNALEIYHSFPTPEQLAAADEEALRRC------GLSGRKAEYIISLAR 176 (285)
T ss_pred CCHHHHHHHHHHHhHhhHHHHHHHHHHHHHHhCCccccccCCCCHHHHHhcCHHHHHHh------CCcHHHHHHHHHHHH
Confidence 4589999999999999999999999999999984 58999999999998743 457899999999999
Q ss_pred HHHH
Q 024157 261 QISK 264 (271)
Q Consensus 261 ailk 264 (271)
++..
T Consensus 177 ~~~~ 180 (285)
T COG0122 177 AAAE 180 (285)
T ss_pred HHHc
Confidence 8764
No 18
>PF00536 SAM_1: SAM domain (Sterile alpha motif); InterPro: IPR021129 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents type 1 SAM domains. ; PDB: 2KIV_A 3HIL_B 3KKA_A 3K1R_B 3SEN_B 3SEI_B 1V85_A 2KE7_A 2EAM_A 1WWV_A ....
Probab=58.29 E-value=21 Score=25.18 Aligned_cols=43 Identities=23% Similarity=0.257 Sum_probs=31.8
Q ss_pred HHHHHHH-hC-CCHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHH
Q 024157 214 HIFREVF-VG-FDPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIEN 258 (271)
Q Consensus 214 e~fReAF-~~-FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~N 258 (271)
+.|.+.| .+ -|-..+..+++++++++... .+-+|.||...|..
T Consensus 18 ~~y~~~F~~~~i~g~~L~~lt~~dL~~lgi~--~~ghr~ki~~~i~~ 62 (64)
T PF00536_consen 18 EQYAENFEKNYIDGEDLLSLTEEDLEELGIT--KLGHRKKILRAIQK 62 (64)
T ss_dssp GGGHHHHHHTTSSHHHHTTSCHHHHHHTT-S--SHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCchHHHHHhcCHHHHHHcCCC--CHHHHHHHHHHHHH
Confidence 5677777 44 49999999999999996432 24578888877764
No 19
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=56.49 E-value=13 Score=30.83 Aligned_cols=47 Identities=9% Similarity=-0.156 Sum_probs=36.0
Q ss_pred HHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcc
Q 024157 199 GALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLS 248 (271)
Q Consensus 199 gfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRN 248 (271)
..+.|..|..+++++..+-+... .+.....+++.++.|+.++.+|+-
T Consensus 47 l~~~g~~~~~li~t~~~~~r~L~---~~~~~~~~~~~~~~i~~~~~LikR 93 (117)
T COG1393 47 LSKLGDGVEELINTRGTTYRELN---LDKEDLSDEELIEALLENPSLIKR 93 (117)
T ss_pred HHHcCccHHHHHHhccchHHHcC---CcccccChHHHHHHHHhChhhccC
Confidence 45789999999999988766655 445566677888889999866653
No 20
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=49.77 E-value=33 Score=24.23 Aligned_cols=43 Identities=26% Similarity=0.331 Sum_probs=30.8
Q ss_pred HHHHHHHh--CCCH-HHHhcCCHHHHHHhhccchhhcchhHHHHHHHH
Q 024157 214 HIFREVFV--GFDP-IAVSKLNEKKLLAAGSAASSLLSELKLRAIIEN 258 (271)
Q Consensus 214 e~fReAF~--~FDp-~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~N 258 (271)
+.|.+.|. ++|- +.++.++++++.++.... .-+|.||...|++
T Consensus 19 ~~y~~~f~~~~i~g~~~L~~l~~~~L~~lGI~~--~~~r~kll~~i~~ 64 (66)
T PF07647_consen 19 EQYADNFRENGIDGLEDLLQLTEEDLKELGITN--LGHRRKLLSAIQE 64 (66)
T ss_dssp GGGHHHHHHTTCSHHHHHTTSCHHHHHHTTTTH--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCcHHHHHhhCCHHHHHHcCCCC--HHHHHHHHHHHHH
Confidence 56777776 5666 779999999999876632 2467777666654
No 21
>PF13495 Phage_int_SAM_4: Phage integrase, N-terminal SAM-like domain; PDB: 2A3V_A.
Probab=45.59 E-value=1.1e+02 Score=22.16 Aligned_cols=52 Identities=12% Similarity=0.016 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhcc
Q 024157 191 LFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSA 242 (271)
Q Consensus 191 LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d 242 (271)
|++.+....-..|+|=.||-.-+..++.-..-|+-..+..++.++|+..+..
T Consensus 1 Ll~~f~~~l~~~~~s~~Ti~~Y~~~l~~f~~~~~~~~~~~it~~~i~~y~~~ 52 (85)
T PF13495_consen 1 LLEEFLEYLRLKGLSEKTIKNYRYHLKRFLRFLGNKPPDEITPEDIEQYLNY 52 (85)
T ss_dssp -HHHHHHHHHHTT--HHHHHHHHHHHHHHHTTSSS--GGG--HHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcccCccchhHHHHHHHHHHH
Confidence 4455555666699999999999999998777777688999999999886654
No 22
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=43.47 E-value=93 Score=29.06 Aligned_cols=74 Identities=12% Similarity=0.188 Sum_probs=55.5
Q ss_pred hhhhhhhhcCCCccccChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcch
Q 024157 171 PCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSE 249 (271)
Q Consensus 171 ply~~YHD~EWGvPvhDDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr 249 (271)
.++..|+|.-|=--...+ |.++=-+.--.-+|..|++.-++++..+. +++.+|..+++++++++....+--+..
T Consensus 14 ~L~~~yg~q~WWp~~~~~----EiiigAILtQNT~WknvekAlenLk~~~~-~~l~~I~~~~~~~L~elIrpsGFYnqK 87 (215)
T COG2231 14 ELLRLYGDQGWWPADNKD----EIIIGAILTQNTSWKNVEKALENLKNEGI-LNLKKILKLDEEELAELIRPSGFYNQK 87 (215)
T ss_pred HHHHHcCCccCCCCCCch----hHHHHHHHhccccHHHHHHHHHHHHHccc-CCHHHHhcCCHHHHHHHHhccchHHHH
Confidence 467789998885333333 64444444455789999999999998765 679999999999999988777765543
No 23
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=39.65 E-value=1.6e+02 Score=27.75 Aligned_cols=79 Identities=14% Similarity=0.060 Sum_probs=53.2
Q ss_pred CCCccccChHHHHHHHHHHHHhccCCHHHHHHhHHHHHHHHh----------CC-CHHHHhcCCHHHHHHhhccchhhcc
Q 024157 180 EWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVFV----------GF-DPIAVSKLNEKKLLAAGSAASSLLS 248 (271)
Q Consensus 180 EWGvPvhDDr~LFElL~LEgfQAGLSW~tILkKRe~fReAF~----------~F-Dp~~VA~~~E~~Ie~L~~d~~IIRN 248 (271)
.=|.-+....-.||.|+-.+.-.-.|=..+.+-...|.+.|. -| +|+.|+..++++|..+ -..
T Consensus 102 ~~GlR~p~~~d~fE~lv~aIigQqisv~~a~~~~~rlv~~~G~~l~~~~~~~~FPtpe~La~~~~~eL~~~------Gl~ 175 (283)
T PRK10308 102 RPGLRLPGSVDAFEQGVRAILGQLVSVAMAAKLTAKVAQLYGERLDDFPEYVCFPTPERLAAADPQALKAL------GMP 175 (283)
T ss_pred CCCCcCCCCCCHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCccccCCCCccCCCCHHHHHcCCHHHHHHC------CCC
Confidence 446656555668999988776555555555554555555543 34 7999999999998753 234
Q ss_pred hhHHHHHHHHHHHHHH
Q 024157 249 ELKLRAIIENARQISK 264 (271)
Q Consensus 249 r~KIrAII~NArailk 264 (271)
+.|.+.|+.=|+++.+
T Consensus 176 ~~Ra~~L~~lA~~i~~ 191 (283)
T PRK10308 176 LKRAEALIHLANAALE 191 (283)
T ss_pred HHHHHHHHHHHHHHHc
Confidence 6688888888887754
No 24
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=38.75 E-value=44 Score=23.54 Aligned_cols=40 Identities=10% Similarity=0.082 Sum_probs=27.9
Q ss_pred CHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHHHHHhcCC
Q 024157 224 DPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISKVDFYFHY 271 (271)
Q Consensus 224 Dp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailkI~~E~G~ 271 (271)
|+++.+.++-.-+-+.+.++.-|... ..+.|+++.+++||
T Consensus 4 dIA~~agvS~~TVSr~ln~~~~vs~~--------tr~rI~~~a~~lgY 43 (46)
T PF00356_consen 4 DIAREAGVSKSTVSRVLNGPPRVSEE--------TRERILEAAEELGY 43 (46)
T ss_dssp HHHHHHTSSHHHHHHHHTTCSSSTHH--------HHHHHHHHHHHHTB
T ss_pred HHHHHHCcCHHHHHHHHhCCCCCCHH--------HHHHHHHHHHHHCC
Confidence 46667777777777777776555433 34677788888887
No 25
>PF14493 HTH_40: Helix-turn-helix domain
Probab=37.42 E-value=1.3e+02 Score=23.01 Aligned_cols=45 Identities=16% Similarity=0.033 Sum_probs=31.8
Q ss_pred HHHHHHHhccCCHHHHHHhH-----------HHHHHHHhCCCHHHHhcCCHHHHHHhh
Q 024157 194 LLVLSGALSELTWPAILSKR-----------HIFREVFVGFDPIAVSKLNEKKLLAAG 240 (271)
Q Consensus 194 lL~LEgfQAGLSW~tILkKR-----------e~fReAF~~FDp~~VA~~~E~~Ie~L~ 240 (271)
..+++-||.|+|-..|-++| ..+-.....||+..+ +++++++.+.
T Consensus 4 ~~T~~l~~~G~si~eIA~~R~L~~sTI~~HL~~~~~~g~~~~~~~~--l~~e~~~~I~ 59 (91)
T PF14493_consen 4 QITYELFQKGLSIEEIAKIRGLKESTIYGHLAELIESGEPLDIEEL--LSEEEIKQIE 59 (91)
T ss_pred HHHHHHHHcCCCHHHHHHHcCCCHHHHHHHHHHHHHhCCCCCHHHh--CCHHHHHHHH
Confidence 36788888888888877777 345556666787777 6777666543
No 26
>PF12583 TPPII_N: Tripeptidyl peptidase II N terminal; InterPro: IPR022232 This entry represents a region of approximately 190 amino acids in length and is found in association with PF00082 from PFAM. The members are serine peptidases belonging to MEROPS peptidase family S8A, tripeptidyl peptidase II (TPPII), clan SB. They are a crucial component of the proteolytic cascade acting downstream of the 26S proteasome in the ubiquitin-proteasome pathway. It is an amino peptidase belonging to the subtilase family removing tripeptides from the free N terminus of oligopeptides. ; PDB: 3LXU_X.
Probab=33.70 E-value=24 Score=30.84 Aligned_cols=30 Identities=17% Similarity=0.185 Sum_probs=22.1
Q ss_pred HHhHHHHHHHHhCCCHHHHhcCCHHHHHHh
Q 024157 210 LSKRHIFREVFVGFDPIAVSKLNEKKLLAA 239 (271)
Q Consensus 210 LkKRe~fReAF~~FDp~~VA~~~E~~Ie~L 239 (271)
..|++.|+|++-+|-+..|++|+-+..|.+
T Consensus 69 ktk~DeY~EaLRDfq~~~iaKle~e~Ae~v 98 (139)
T PF12583_consen 69 KTKWDEYSEALRDFQCSWIAKLEPENAEQV 98 (139)
T ss_dssp ---HHHHHHHHHHHHHHHHTTS-HHHHHHH
T ss_pred cccHHHHHHHHHHHHHHHHHhhCHHHHHHH
Confidence 357889999999999999999988766544
No 27
>smart00454 SAM Sterile alpha motif. Widespread domain in signalling and nuclear proteins. In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. In many cases mediates homodimerisation.
Probab=33.34 E-value=1.3e+02 Score=20.36 Aligned_cols=43 Identities=23% Similarity=0.311 Sum_probs=30.8
Q ss_pred HHHHH--hCCCHHHHhcCC-HHHHHHhhccchhhcchhHHHHHHHHHH
Q 024157 216 FREVF--VGFDPIAVSKLN-EKKLLAAGSAASSLLSELKLRAIIENAR 260 (271)
Q Consensus 216 fReAF--~~FDp~~VA~~~-E~~Ie~L~~d~~IIRNr~KIrAII~NAr 260 (271)
|.+.| ++||-..+..++ +++++++.... +-+|.||...|.+-+
T Consensus 21 y~~~f~~~~i~g~~ll~~~~~~~l~~lgi~~--~~~r~~ll~~i~~l~ 66 (68)
T smart00454 21 YADNFRKNGIDGALLLLLTSEEDLKELGITK--LGHRKKILKAIQKLK 66 (68)
T ss_pred HHHHHHHCCCCHHHHHhcChHHHHHHcCCCc--HHHHHHHHHHHHHHH
Confidence 66666 577778888998 88888876522 357888877776543
No 28
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=33.08 E-value=38 Score=24.96 Aligned_cols=68 Identities=19% Similarity=0.115 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHhccCCHHHHHHhHHHHHHHHhCC-CHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHHHHHh
Q 024157 190 KLFELLVLSGALSELTWPAILSKRHIFREVFVGF-DPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISKVDFY 268 (271)
Q Consensus 190 ~LFElL~LEgfQAGLSW~tILkKRe~fReAF~~F-Dp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailkI~~E 268 (271)
++||.|...++.-+-.. +.+++.|.+= +...+. +.+++...+. .++.|....+.+..||+.+. +++
T Consensus 14 r~~E~~a~G~~vi~~~~-------~~~~~~~~~~~~~~~~~--~~~el~~~i~--~ll~~~~~~~~ia~~a~~~v--~~~ 80 (92)
T PF13524_consen 14 RIFEAMACGTPVISDDS-------PGLREIFEDGEHIITYN--DPEELAEKIE--YLLENPEERRRIAKNARERV--LKR 80 (92)
T ss_pred HHHHHHHCCCeEEECCh-------HHHHHHcCCCCeEEEEC--CHHHHHHHHH--HHHCCHHHHHHHHHHHHHHH--HHh
Confidence 56665554444433333 6777776332 111111 5555544322 24456667777888887763 444
Q ss_pred cC
Q 024157 269 FH 270 (271)
Q Consensus 269 ~G 270 (271)
|.
T Consensus 81 ~t 82 (92)
T PF13524_consen 81 HT 82 (92)
T ss_pred CC
Confidence 43
No 29
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=30.21 E-value=31 Score=23.62 Aligned_cols=27 Identities=11% Similarity=0.202 Sum_probs=17.4
Q ss_pred HHHHHhCCCHHHHhcCCHHHHHHhhcc
Q 024157 216 FREVFVGFDPIAVSKLNEKKLLAAGSA 242 (271)
Q Consensus 216 fReAF~~FDp~~VA~~~E~~Ie~L~~d 242 (271)
|+++|.-||.+.=-.++.+++..++..
T Consensus 1 ~~~~F~~~D~~~~G~i~~~el~~~l~~ 27 (67)
T cd00052 1 YDQIFRSLDPDGDGLISGDEARPFLGK 27 (67)
T ss_pred ChHHHHHhCCCCCCcCcHHHHHHHHHH
Confidence 466777777766556666666665543
No 30
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=30.08 E-value=34 Score=23.58 Aligned_cols=22 Identities=18% Similarity=0.250 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCC
Q 024157 249 ELKLRAIIENARQISKVDFYFHY 271 (271)
Q Consensus 249 r~KIrAII~NArailkI~~E~G~ 271 (271)
+.||.+ +.|...+++|.+++||
T Consensus 20 ~~~l~~-~~~~~e~~~lA~~~Gy 41 (49)
T PF07862_consen 20 REQLKA-CQNPEEVVALAREAGY 41 (49)
T ss_pred HHHHHh-cCCHHHHHHHHHHcCC
Confidence 345555 3488999999999998
No 31
>PF02173 pKID: pKID domain; InterPro: IPR003102 The nuclear factor CREB activates transcription of target genes in part through direct interactions with the KIX domain of the coactivator CBP in a phosphorylation-dependent manner. CBP and P300 bind to the pKID (phosphorylated kinase-inducible-domain) domain of CREB [].; GO: 0005515 protein binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1KDX_B.
Probab=28.63 E-value=20 Score=25.49 Aligned_cols=17 Identities=29% Similarity=0.585 Sum_probs=14.7
Q ss_pred HHHHHhHHHHHHHHhCC
Q 024157 207 PAILSKRHIFREVFVGF 223 (271)
Q Consensus 207 ~tILkKRe~fReAF~~F 223 (271)
..||.+|+.||++|.+.
T Consensus 13 ReiLsRRPSYRKIlndL 29 (41)
T PF02173_consen 13 REILSRRPSYRKILNDL 29 (41)
T ss_dssp HHHHTTSTHHHHHHHHH
T ss_pred HHHHhhCchHHHHHHHh
Confidence 56999999999999765
No 32
>PHA02543 regA translation repressor protein; Provisional
Probab=26.75 E-value=23 Score=30.52 Aligned_cols=59 Identities=19% Similarity=0.219 Sum_probs=43.7
Q ss_pred HHHHHHHHHhccCCHHHHHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhH
Q 024157 192 FELLVLSGALSELTWPAILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELK 251 (271)
Q Consensus 192 FElL~LEgfQAGLSW~tILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~K 251 (271)
=|||.|.|-|.+|++..|++ |...-+...+++.-.|..=+.-+--...++-++|.+.+|
T Consensus 54 KeLl~lDG~~~~~~~eDi~R-rn~Ia~LL~~Wgl~~iv~~~~~~~~~~~n~frVishkqK 112 (125)
T PHA02543 54 KELLALDGRQVDLTEEDIQR-RNNIAKLLEDWGLIEIVDPDQMEEVSPTNNFRVISHKQK 112 (125)
T ss_pred HHHHhhcCcccCCCHHHHHH-HHHHHHHHHhCCceEEeccchhcccCCcCceEEEEeccc
Confidence 37899999999999999986 566677788888776665332222246778888888776
No 33
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=24.88 E-value=57 Score=25.32 Aligned_cols=47 Identities=13% Similarity=0.138 Sum_probs=32.5
Q ss_pred HHHHHHHHhCCC-HHHHh-cCCHHHHHHhhcc-----chhhcchhHHHHHHHHH
Q 024157 213 RHIFREVFVGFD-PIAVS-KLNEKKLLAAGSA-----ASSLLSELKLRAIIENA 259 (271)
Q Consensus 213 Re~fReAF~~FD-p~~VA-~~~E~~Ie~L~~d-----~~IIRNr~KIrAII~NA 259 (271)
-..+++||.-|| .+.=- .++.+++..+|.. -+-.-++..|..++..+
T Consensus 7 ~~~l~~aF~~fD~~dgdG~~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~ 60 (88)
T cd05027 7 MVALIDVFHQYSGREGDKHKLKKSELKELINNELSHFLEEIKEQEVVDKVMETL 60 (88)
T ss_pred HHHHHHHHHHhcccCCCcCEECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHh
Confidence 457889999998 66655 4888888888876 33333555577777654
No 34
>cd03036 ArsC_like Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX) function as protein disulfide oxidoreductases, altering the redox state of target proteins via the reversible oxidation of the active site dithiol. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via GRX, through a single catalytic cysteine.
Probab=23.35 E-value=80 Score=25.16 Aligned_cols=58 Identities=16% Similarity=0.040 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHHHhccCCHHHHHHhHH-HHHHHHhCCCHHHHhcCCHHHH-HHhhccchhhcc
Q 024157 188 DKKLFELLVLSGALSELTWPAILSKRH-IFREVFVGFDPIAVSKLNEKKL-LAAGSAASSLLS 248 (271)
Q Consensus 188 Dr~LFElL~LEgfQAGLSW~tILkKRe-~fReAF~~FDp~~VA~~~E~~I-e~L~~d~~IIRN 248 (271)
|..-++.|.-=..+.|..|..++++|. .|++.- .+ +.+..++++++ +.|..+|.+|+-
T Consensus 34 ~~~~~~el~~~~~~~~~~~~~l~~~~~~~~~~l~--~~-~~~~~~s~~e~~~~l~~~p~LikR 93 (111)
T cd03036 34 EPPSKEELKKWLEKSGLPLKKFFNTSGKSYRELG--LK-DKLPSLSEEEALELLSSDGMLIKR 93 (111)
T ss_pred CcccHHHHHHHHHHcCCCHHHHHhcCCchHHhCC--cc-cccccCCHHHHHHHHHhCcCeeeC
Confidence 333344454445677888999999996 455542 22 33567776665 456667777763
No 35
>KOG0898 consensus 40S ribosomal protein S15 [Translation, ribosomal structure and biogenesis]
Probab=23.32 E-value=94 Score=27.54 Aligned_cols=32 Identities=22% Similarity=0.387 Sum_probs=28.2
Q ss_pred HHhHHHHHH-HHhCCCHHHHhcCCHHHHHHhhc
Q 024157 210 LSKRHIFRE-VFVGFDPIAVSKLNEKKLLAAGS 241 (271)
Q Consensus 210 LkKRe~fRe-AF~~FDp~~VA~~~E~~Ie~L~~ 241 (271)
++|...||. .|-|+|++.+.+|+-+++..|+.
T Consensus 13 ~kKKRTFrkftyrGVdld~Lldms~~~~~~l~~ 45 (152)
T KOG0898|consen 13 LKKKRTFRKFTYRGVDLDQLLDMSTEQLVKLFP 45 (152)
T ss_pred HhhhhhhhhccccCCCHHHHhcCCHHHHHHHHH
Confidence 777778876 68999999999999999998876
No 36
>PRK01172 ski2-like helicase; Provisional
Probab=22.58 E-value=1.4e+02 Score=30.82 Aligned_cols=37 Identities=16% Similarity=0.205 Sum_probs=31.8
Q ss_pred CHHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHHHH
Q 024157 224 DPIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQISKV 265 (271)
Q Consensus 224 Dp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArailkI 265 (271)
++..|+.++++++++++. ....+.+.||+.|+.++.+
T Consensus 635 ~~~di~~~~~~~~~~i~~-----~~~~~~~~i~~~~~~~~~~ 671 (674)
T PRK01172 635 TVDDIARSSPERIKKIYG-----FSDTLANAIVNRAMKISSM 671 (674)
T ss_pred CHHHHHhCCHHHHHHHhc-----cCHHHHHHHHHHHHHHHHH
Confidence 688888999999998865 4678999999999999876
No 37
>PF05075 DUF684: Protein of unknown function (DUF684); InterPro: IPR007767 This family contains uncharacterised proteins from Caenorhabditis elegans.
Probab=21.88 E-value=1.7e+02 Score=28.23 Aligned_cols=40 Identities=23% Similarity=0.124 Sum_probs=31.2
Q ss_pred hHHHHHHHHHHHHhccC-------CHHHHHHhHHHHHHHHhCCCHHH
Q 024157 188 DKKLFELLVLSGALSEL-------TWPAILSKRHIFREVFVGFDPIA 227 (271)
Q Consensus 188 Dr~LFElL~LEgfQAGL-------SW~tILkKRe~fReAF~~FDp~~ 227 (271)
+..|-.+|.||+|.+|| .+..|+.+-..+.+..+.|+-+.
T Consensus 115 ~~vl~q~l~lEafa~Gl~~~~n~~~~~~L~e~~~~~~~~~~~w~~~Y 161 (345)
T PF05075_consen 115 DGVLGQLLFLEAFASGLFKDKNMYDPDRLIEKIEEINEKMDKWKEEY 161 (345)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 34588999999999999 56778888877777776666555
No 38
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=21.63 E-value=93 Score=22.36 Aligned_cols=47 Identities=15% Similarity=0.204 Sum_probs=29.5
Q ss_pred HHHhHHHHHHHHhCCCHHHHhcCCHHHHHHhhccchhhcchhHHHHHH
Q 024157 209 ILSKRHIFREVFVGFDPIAVSKLNEKKLLAAGSAASSLLSELKLRAII 256 (271)
Q Consensus 209 ILkKRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII 256 (271)
|+...+.|.+||...|++.++.+=.++..-. ...+-+.++..+-+.+
T Consensus 1 I~a~~~~~~~A~~~~D~~~~~~~~~~d~~~~-~~~g~~~~~~~~l~~~ 47 (107)
T PF14534_consen 1 IRALEEQYEDAFNAGDIDALASLYADDFVFV-GPGGTILGKEAILAAF 47 (107)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHTTEEEEEEEE-ETTSEEEEHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCHHHHHhhhCCCEEEE-CCCCCEeCHHHHHHHH
Confidence 6777899999999999999987644333222 2223334554444443
No 39
>PF15335 CAAP1: Caspase activity and apoptosis inhibitor 1
Probab=21.23 E-value=1.2e+02 Score=23.39 Aligned_cols=48 Identities=19% Similarity=0.259 Sum_probs=33.4
Q ss_pred HHHhHHHHHHHHhCCCHHHHhcC--------CHHHHHHhhccchhhcchhHHHHHH
Q 024157 209 ILSKRHIFREVFVGFDPIAVSKL--------NEKKLLAAGSAASSLLSELKLRAII 256 (271)
Q Consensus 209 ILkKRe~fReAF~~FDp~~VA~~--------~E~~Ie~L~~d~~IIRNr~KIrAII 256 (271)
|-.|++-.+++|.---+.++-.| +-++|.+++.|.-..-+..+|.+|+
T Consensus 9 i~Dr~Eml~Q~F~~l~~kkl~~MlPd~LK~~~l~elk~lCl~eL~~~S~krl~~Il 64 (64)
T PF15335_consen 9 IDDRKEMLRQCFSVLKEKKLQKMLPDILKGCSLEELKELCLEELEGMSEKRLLSIL 64 (64)
T ss_pred HccHHHHHHHHHHHcCHHHHHHHCHHHHhcCCHHHHHHHHHHHHHcccHHHHHhhC
Confidence 56788888999976665555544 5666777777776666776666653
No 40
>PF12415 rpo132: Poxvirus DNA dependent RNA polymerase; InterPro: IPR024390 All three classes of poxvirus genes - early, intermediate and late - are transcribed by the viral RNA polymerase compex []. This complex is composed of nine distinct subunits which total more than 500kDa in mass. The two largest subunits (147 and 136kDa) are homologous to the largest subunits of eukaryotic and prokaryotic RNA polymerases and, like them, are thought to form a claw-shaped structure whose cleft is the site of template interaction and phosphodiester bond formation. While the smaller subunits of poxvirus RNA polymerase show much less similarity, if any, to the smaller subunits of the eukaryotic and prokaryotic enzymes, it is thought that they may play a similar role in interacting with transcription factors. The 132kDa subunit is the second largest subunit of the poxvirus DNA dependent RNA polymerase and shows structural similarity to the second-largest RNA polymerase subunits of eubacteria, archaebacteria, and eukaryotes.
Probab=21.00 E-value=92 Score=21.23 Aligned_cols=14 Identities=29% Similarity=0.477 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHH
Q 024157 251 KLRAIIENARQISK 264 (271)
Q Consensus 251 KIrAII~NArailk 264 (271)
+|.++|+|++.+++
T Consensus 18 lvnalIestk~i~~ 31 (33)
T PF12415_consen 18 LVNALIESTKRILA 31 (33)
T ss_pred HHHHHHHHHHHHHh
Confidence 78999999999874
No 41
>KOG4384 consensus Uncharacterized SAM domain protein [General function prediction only]
Probab=20.88 E-value=1.1e+02 Score=30.62 Aligned_cols=43 Identities=21% Similarity=0.238 Sum_probs=34.1
Q ss_pred HHhCCC-HHHHhcCCHHHHHHhhccchhhcchhHHHHHHHHHHHHH
Q 024157 219 VFVGFD-PIAVSKLNEKKLLAAGSAASSLLSELKLRAIIENARQIS 263 (271)
Q Consensus 219 AF~~FD-p~~VA~~~E~~Ie~L~~d~~IIRNr~KIrAII~NArail 263 (271)
.+.||| ++.+.+++|+||+.|..+. --||+||...|++-+.+-
T Consensus 235 L~nGYd~le~~k~i~e~dL~~lgI~n--P~Hr~kLL~av~~~~e~d 278 (361)
T KOG4384|consen 235 LENGYDTLEDLKDITEEDLEELGIDN--PDHRKKLLSAVELLKEID 278 (361)
T ss_pred HHcchHHHHHHHhccHHHHHHhCCCC--HHHHHHHHHHHHHHHhcc
Confidence 456888 9999999999999986532 258999999988866553
No 42
>COG3148 Uncharacterized conserved protein [Function unknown]
Probab=20.53 E-value=55 Score=30.78 Aligned_cols=35 Identities=23% Similarity=0.364 Sum_probs=26.1
Q ss_pred CCCCCCC--CChhhhhhhhcCCCccccChHHHHHHHH
Q 024157 162 CAWVTPN--TDPCYAAFHDEEWGVPVHDDKKLFELLV 196 (271)
Q Consensus 162 C~Wa~~~--~dply~~YHD~EWGvPvhDDr~LFElL~ 196 (271)
|+|+.+- ...+..--||+||++|...-+.+-.-|+
T Consensus 42 Ca~ip~~ea~~~~~Ll~hdtE~~kpsNTgrliad~l~ 78 (231)
T COG3148 42 CATIPPLEARSRFCLLMHDTEPMKPSNTGRLIADILA 78 (231)
T ss_pred ccCcCCcccceeEEEEecCccccCCCcchhHHHHhhh
Confidence 7888642 2346677899999999999998855443
No 43
>PF06878 Pkip-1: Pkip-1 protein; InterPro: IPR009672 This family consists of several Pkip-1 proteins, which seem to be specific to Nucleopolyhedroviruses. The function of this family is unknown although it has been found that Pkip-1 is not essential for virus replication in cell culture or by in vivo intrahaemocoelic injection [].
Probab=20.15 E-value=3.1e+02 Score=24.56 Aligned_cols=82 Identities=16% Similarity=0.191 Sum_probs=50.4
Q ss_pred CccccChHHHHHHHHHHHHhccCCHHH--HHH------hHHHHHHHHhCCCHHHHhcCCHHHHHHhhccch---------
Q 024157 182 GVPVHDDKKLFELLVLSGALSELTWPA--ILS------KRHIFREVFVGFDPIAVSKLNEKKLLAAGSAAS--------- 244 (271)
Q Consensus 182 GvPvhDDr~LFElL~LEgfQAGLSW~t--ILk------KRe~fReAF~~FDp~~VA~~~E~~Ie~L~~d~~--------- 244 (271)
-.|..+++.--||++|.+-+-|+-=++ +++ .|-.|=-=..+| .|+.++|+.++...+
T Consensus 26 kk~~~~e~~~~em~~lsA~i~G~~EQl~~L~~~~~~~~~k~dFindl~eL------d~~~~~ie~l~~~~~~~~~l~~ky 99 (163)
T PF06878_consen 26 KKPKKDENFANEMLILSADIFGQEEQLYSLLSANATDEEKLDFINDLSEL------DFDNEEIESLCARKDNDEYLLKKY 99 (163)
T ss_pred hCCCccccHHHHHHHHHHHHHhHHHHHHHHHccccchHHHHHHHhhhhhc------CCCHHHHHHHHhcccHHHHHHHhc
Confidence 456666888889999999999976444 222 223332222333 356666766666222
Q ss_pred -hhcchhHHHHHHH-HHHHHHHHHHhc
Q 024157 245 -SLLSELKLRAIIE-NARQISKVDFYF 269 (271)
Q Consensus 245 -IIRNr~KIrAII~-NArailkI~~E~ 269 (271)
+.+=..-|.++++ |++.|+++-.+|
T Consensus 100 ~~~~~~~~~~~~~~~n~~~F~kvl~qF 126 (163)
T PF06878_consen 100 NADRLPEAIQKVFDKNSKKFIKVLEQF 126 (163)
T ss_pred chhhhHHHHHHHHHHhhHHHHHHHHHH
Confidence 2222345666665 899999988776
No 44
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=20.01 E-value=71 Score=23.37 Aligned_cols=32 Identities=16% Similarity=0.113 Sum_probs=21.4
Q ss_pred HHHhhccchhhcchhHHHHHHHHHHHHHHHHHhcCC
Q 024157 236 LLAAGSAASSLLSELKLRAIIENARQISKVDFYFHY 271 (271)
Q Consensus 236 Ie~L~~d~~IIRNr~KIrAII~NArailkI~~E~G~ 271 (271)
|..+..|+.+ +.||.+ ..|...+++|.++.||
T Consensus 8 l~~~~~d~~L---~~~l~~-~~~~e~~~~lA~~~Gf 39 (64)
T TIGR03798 8 LEKVKTDPDL---REKLKA-AEDPEDRVAIAKEAGF 39 (64)
T ss_pred HHHHHcCHHH---HHHHHH-cCCHHHHHHHHHHcCC
Confidence 3444455432 345555 4678899999999998
Done!