Query psy11631
Match_columns 219
No_of_seqs 146 out of 427
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 23:36:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11631.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11631hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1123|consensus 100.0 2.2E-52 4.8E-57 397.7 13.0 167 24-191 31-200 (776)
2 TIGR00603 rad25 DNA repair hel 100.0 1.5E-50 3.2E-55 400.1 16.5 140 52-191 1-140 (732)
3 PF13625 Helicase_C_3: Helicas 100.0 1.4E-38 3.1E-43 253.9 16.0 127 67-197 1-127 (129)
4 TIGR00625 tfb2 Transcription f 98.5 2.7E-06 5.8E-11 81.7 13.2 116 63-183 289-412 (448)
5 PF03849 Tfb2: Transcription f 98.0 2.2E-05 4.7E-10 73.5 8.0 72 62-136 293-364 (366)
6 KOG3471|consensus 97.7 0.00014 3.1E-09 69.4 8.1 93 66-161 306-407 (465)
7 COG5144 TFB2 RNA polymerase II 96.8 0.002 4.4E-08 60.4 5.2 93 66-161 291-390 (447)
8 PF08671 SinI: Anti-repressor 74.4 4.3 9.4E-05 25.4 2.9 20 115-134 9-28 (30)
9 PF05402 PqqD: Coenzyme PQQ sy 58.3 27 0.00059 24.1 4.7 34 108-143 13-48 (68)
10 PLN02892 isocitrate lyase 52.9 20 0.00043 36.2 4.4 61 75-139 403-463 (570)
11 PF03618 Kinase-PPPase: Kinase 52.4 14 0.00031 33.5 3.1 84 111-216 151-242 (255)
12 COG1412 Uncharacterized protei 51.2 61 0.0013 26.8 6.4 94 115-215 20-122 (136)
13 TIGR01346 isocit_lyase isocitr 46.9 35 0.00075 34.2 5.0 60 75-139 382-441 (527)
14 PF04255 DUF433: Protein of un 41.4 23 0.0005 24.4 2.1 28 109-136 18-45 (56)
15 TIGR02425 decarb_PcaC 4-carbox 36.6 34 0.00074 27.4 2.7 54 89-146 57-111 (123)
16 cd01670 Death Death Domain: a 36.4 58 0.0013 22.8 3.7 38 118-157 17-54 (79)
17 PRK05339 PEP synthetase regula 34.5 18 0.00039 33.1 0.9 85 111-216 157-246 (269)
18 PF05157 T2SE_Nter: Type II se 33.5 1.6E+02 0.0034 21.3 5.7 82 124-208 8-101 (109)
19 PF00463 ICL: Isocitrate lyase 33.5 83 0.0018 31.6 5.3 60 75-139 381-440 (526)
20 COG1806 Uncharacterized protei 33.0 24 0.00053 32.5 1.5 45 171-216 198-250 (273)
21 PF00690 Cation_ATPase_N: Cati 32.7 38 0.00082 23.7 2.2 21 120-140 18-38 (69)
22 PF10223 DUF2181: Uncharacteri 32.6 29 0.00062 31.3 1.8 82 62-152 96-186 (244)
23 TIGR02974 phageshock_pspF psp 32.5 3.1E+02 0.0067 25.2 8.6 90 68-157 89-196 (329)
24 PF12993 DUF3877: Domain of un 32.3 1.9E+02 0.004 25.2 6.6 51 113-175 33-83 (175)
25 smart00831 Cation_ATPase_N Cat 31.9 46 0.00099 22.7 2.4 24 120-143 8-31 (64)
26 PF03461 TRCF: TRCF domain; I 30.4 2.5E+02 0.0053 21.4 7.4 62 112-173 19-87 (101)
27 PF11834 DUF3354: Domain of un 29.7 1.1E+02 0.0023 22.5 4.1 19 139-157 23-41 (69)
28 cd04885 ACT_ThrD-I Tandem C-te 29.7 37 0.00081 23.6 1.7 25 191-215 44-68 (68)
29 COG0023 SUI1 Translation initi 29.5 87 0.0019 24.9 3.9 19 196-214 81-99 (104)
30 PF00067 p450: Cytochrome P450 29.1 1.7E+02 0.0036 25.6 6.0 45 141-185 19-63 (463)
31 COG0134 TrpC Indole-3-glycerol 27.8 3.9E+02 0.0085 24.3 8.3 90 75-181 84-173 (254)
32 cd02044 ov-serpin ovalbumin fa 27.7 56 0.0012 29.9 2.9 28 107-134 24-57 (370)
33 PF00356 LacI: Bacterial regul 27.7 1.3E+02 0.0028 20.1 4.0 37 118-156 6-42 (46)
34 PRK06498 isocitrate lyase; Pro 27.0 1.6E+02 0.0035 29.6 6.0 42 75-118 348-389 (531)
35 PF07499 RuvA_C: RuvA, C-termi 26.4 95 0.0021 20.5 3.1 39 115-154 7-45 (47)
36 TIGR02608 delta_60_rpt delta-6 26.1 50 0.0011 23.1 1.8 12 67-78 5-16 (55)
37 TIGR03859 PQQ_PqqD coenzyme PQ 25.9 1.4E+02 0.0029 22.0 4.2 48 107-154 26-77 (81)
38 COG4716 Myosin-crossreactive a 25.6 61 0.0013 32.1 2.8 41 64-121 476-516 (587)
39 COG2442 Uncharacterized conser 25.5 48 0.001 24.9 1.7 36 105-140 26-61 (79)
40 PF08349 DUF1722: Protein of u 25.2 2.2E+02 0.0048 22.2 5.5 49 112-160 55-107 (117)
41 PRK02079 pyrroloquinoline quin 25.1 1.4E+02 0.003 22.7 4.2 42 111-152 37-80 (88)
42 PTZ00062 glutaredoxin; Provisi 24.7 4E+02 0.0087 23.1 7.6 124 82-214 29-169 (204)
43 cd00172 SERPIN SERine Proteina 24.7 42 0.00091 30.4 1.5 61 107-170 21-91 (364)
44 PF12637 TSCPD: TSCPD domain; 24.5 1.6E+02 0.0035 22.4 4.5 43 76-136 26-68 (95)
45 cd02047 HCII Heparin cofactor 24.3 2.8E+02 0.006 26.6 7.0 28 107-134 89-122 (436)
46 cd08306 Death_FADD Fas-associa 24.1 1.3E+02 0.0028 22.4 3.9 38 118-156 20-57 (86)
47 cd08777 Death_RIP1 Death Domai 23.2 1.4E+02 0.003 22.4 3.9 39 118-156 20-58 (86)
48 PF14090 HTH_39: Helix-turn-he 23.0 81 0.0018 22.5 2.5 44 174-217 4-48 (70)
49 PLN02655 ent-kaurene oxidase 22.0 1.7E+02 0.0037 27.4 5.1 38 144-182 21-59 (466)
50 PF06888 Put_Phosphatase: Puta 21.9 83 0.0018 28.0 2.8 53 114-169 49-103 (234)
51 CHL00200 trpA tryptophan synth 21.8 1.8E+02 0.0039 26.2 5.0 39 114-152 65-116 (263)
52 PF02375 JmjN: jmjN domain; I 21.7 58 0.0012 20.8 1.3 20 142-161 14-33 (34)
53 PHA02948 serine protease inhib 21.6 1E+02 0.0023 28.7 3.5 58 88-150 25-88 (373)
54 PF10163 EnY2: Transcription f 21.5 96 0.0021 23.2 2.7 34 121-154 50-83 (86)
55 PRK14464 ribosomal RNA large s 21.3 2.8E+02 0.0062 26.1 6.3 92 119-216 203-312 (344)
56 PRK15063 isocitrate lyase; Pro 21.2 1.3E+02 0.0029 29.4 4.2 60 75-139 280-339 (428)
57 COG4824 Phage-related holin (L 21.2 1.2E+02 0.0027 25.1 3.4 34 124-157 95-130 (133)
58 smart00545 JmjN Small domain f 20.9 1E+02 0.0022 20.5 2.4 22 141-162 15-36 (42)
59 PRK01565 thiamine biosynthesis 20.7 3.3E+02 0.0072 25.7 6.7 66 143-208 25-93 (394)
60 PF05686 Glyco_transf_90: Glyc 20.1 2.6E+02 0.0057 26.5 5.9 43 125-171 9-51 (395)
61 COG3742 Uncharacterized protei 20.1 2.3E+02 0.005 23.5 4.8 56 105-160 28-91 (131)
62 smart00093 SERPIN SERine Prot 20.0 1.8E+02 0.0038 26.4 4.6 62 107-172 15-89 (359)
No 1
>KOG1123|consensus
Probab=100.00 E-value=2.2e-52 Score=397.67 Aligned_cols=167 Identities=72% Similarity=1.202 Sum_probs=158.5
Q ss_pred CCCCcchhhhccccc-cCCCCC--cCcccccccccccccCCCCCCCCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccc
Q psy11631 24 DEDGVPVAAKKNVEK-DDAAVP--EDEFGAKDYRAQMVLKPDHKSRPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVC 100 (219)
Q Consensus 24 ~~~~~~~~~~~~~~~-~~~~~~--~~~~~~~d~~~~~~lk~d~~~~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vs 100 (219)
+...+|.+|+++... ++.... +|+||++||| +|.||+||.+|||||.|||+||||+|+|+|++|+|||++||||+|
T Consensus 31 ~~~~i~~aa~~~~~~~~~~~~~~~~~~fg~~d~~-~l~Lk~Dh~srPLWv~~dG~IfLEsFsp~ykqA~DFLiaIaEPvc 109 (776)
T KOG1123|consen 31 KTKNIPNAAGDNDDNENDSRDKEGTDEFGAKDFR-QLPLKPDHTSRPLWVAPDGHIFLETFSPLYKQAQDFLIAIAEPVC 109 (776)
T ss_pred hcccCcccccCcccccccccccccccccccchhh-hccCCCCCCCCceEEcCCCeEEeeecCHHHHhHhhhhhhhccccC
Confidence 567899999998863 333322 6999999998 999999999999999999999999999999999999999999999
Q ss_pred cCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHH
Q psy11631 101 RPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKL 180 (219)
Q Consensus 101 rPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~L 180 (219)
||+|||+|+||+||||+|+|+|++++|||+.|+++||++||.+|+.||+.||-+||||+||+++|+|||++.++++++.|
T Consensus 110 RP~~iHEy~lTaySLYAAVSVGL~T~dIie~L~rlSKt~lp~~ii~FI~~cT~sYGKVKLVlK~nryFiEs~~~~Vlq~L 189 (776)
T KOG1123|consen 110 RPEHIHEYKLTAYSLYAAVSVGLQTEDIIEVLDRLSKTPLPESIIEFIRACTVSYGKVKLVLKHNRYFIESPHPDVLQML 189 (776)
T ss_pred ChhhhhhhcchhhhhhhhhccccchHHHHHHHHHhccCCCCHHHHHHHHHHhhccccEEEEEeccceeecCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCcccccccc
Q psy11631 181 LKDPVIQDCRL 191 (219)
Q Consensus 181 l~d~~i~~~~l 191 (219)
++||+|++|++
T Consensus 190 l~D~VI~~~r~ 200 (776)
T KOG1123|consen 190 LSDPVIQPCRI 200 (776)
T ss_pred hccccccceee
Confidence 99999999977
No 2
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.5e-50 Score=400.11 Aligned_cols=140 Identities=81% Similarity=1.334 Sum_probs=137.4
Q ss_pred ccccccccCCCCCCCCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHH
Q psy11631 52 DYRAQMVLKPDHKSRPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEY 131 (219)
Q Consensus 52 d~~~~~~lk~d~~~~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~ 131 (219)
||++.|.||+||.+||||||||||||||+|||.|++|++||++||||+|||+|||||||||+|||||+|+|+++++||++
T Consensus 1 d~~~~~~lk~dh~~~pl~v~~d~~i~lE~~~p~~~~a~~fl~~~aEp~~rp~~iHeY~lT~~sl~~A~s~g~~~~~ii~~ 80 (732)
T TIGR00603 1 DYSKQLELKPDHGSRPLWVAPDGHIFLESFSPLYKQAQDFLVAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETEDIIEV 80 (732)
T ss_pred CccccCCCCCCCCCCCEEEcCCCeEEEEeCCccHHHHHHHHHHhcccccChhheEEEeccHHHHHHHHHcCCCHHHHHHH
Confidence 79778999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCCCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcCcccccccc
Q psy11631 132 LKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKDPVIQDCRL 191 (219)
Q Consensus 132 L~~~Sk~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d~~i~~~~l 191 (219)
|++||||+||++|+.+|++||.||||+||++++++|||+|.|+.+|++|++|+.|++|++
T Consensus 81 L~~~sk~~~p~~i~~~i~~~~~~ygk~klv~~~~~~~~es~~~~~l~~l~~~~~i~~~~~ 140 (732)
T TIGR00603 81 LGRLSKTPIPKGIIEFIRLCTQSYGKVKLVLKHNRYFVESPHPEVLQRLLKDPVIAPCRI 140 (732)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHhcCcEEEEEcCCceEEecCCHHHHHHHHhchhhHHhhc
Confidence 999999999999999999999999999999999999999999999999999999988775
No 3
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=100.00 E-value=1.4e-38 Score=253.88 Aligned_cols=127 Identities=37% Similarity=0.564 Sum_probs=122.0
Q ss_pred CEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHH
Q psy11631 67 PLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVE 146 (219)
Q Consensus 67 PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~ 146 (219)
||||||||+|++|.++|.+..+ ++|++|||+ +||++||+||||+.|||+|++.|+++++|+++|+++|+++||++|.+
T Consensus 1 PliVqpd~~I~v~~~~~~~~~~-~~L~~fae~-~s~~~~~~yrlT~~Sl~~A~~~G~~~e~i~~~L~~~S~~~lP~~v~~ 78 (129)
T PF13625_consen 1 PLIVQPDFEILVEPGHPSPADA-WFLARFAEL-KSPDTMHVYRLTPASLWRAASAGLTAEEIIEFLERYSKNPLPQNVEQ 78 (129)
T ss_pred CEEECCCCEEEEeCCCCCHHHH-HHHHHHhcc-cccCceEEEEECHHHHHHHHHcCCCHHHHHHHHHHHcCCCCCHHHHH
Confidence 8999999999999999999877 999999999 78899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcCcccccccccccCCC
Q psy11631 147 FINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKDPVIQDCRLRRDTED 197 (219)
Q Consensus 147 ~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d~~i~~~~l~~~~~~ 197 (219)
+|++|+++||++++. .+.++|+|+|+.++++|+++|.++++.+++.+|+
T Consensus 79 ~i~~w~~~~g~v~l~--~~~~~l~~~d~~~l~~l~~~~~~~~~~~~~~~p~ 127 (129)
T PF13625_consen 79 SIEDWARRYGRVRLY--KGAYLLECDDPELLDELLADPELAKLILRRIAPT 127 (129)
T ss_pred HHHHHHHhcCCEEEe--cCeEEEEECCHHHHHHHHhChhhhhhhccccCCC
Confidence 999999999999995 5899999999999999999999999999888653
No 4
>TIGR00625 tfb2 Transcription factor tfb2. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.46 E-value=2.7e-06 Score=81.69 Aligned_cols=116 Identities=19% Similarity=0.254 Sum_probs=95.6
Q ss_pred CCCCCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhc------
Q psy11631 63 HKSRPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLS------ 136 (219)
Q Consensus 63 ~~~~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~S------ 136 (219)
..++-+||+.++.|..-+.+|+- ...|..|+++..|--++.+.+||..|+++|+..|+|+++||.||+.++
T Consensus 289 ~~~g~iivEtNfrvYaYt~s~l~---~~il~lF~~~~~r~pnlvvg~iTr~Sv~~A~~~GITa~qIi~fl~~~ahp~~~~ 365 (448)
T TIGR00625 289 DDLGFIIVETNYRLYAYTESPLQ---IALIALFSELLARFPNMVVGQITRESIRRALANGITAQQIIHYLRTHAHPQMRK 365 (448)
T ss_pred CCCceEEEEecceEEEecCCHHH---HHHHHHHHHHHhcCCceEEEEecHHHHHHHHHcCCCHHHHHHHHHhcCChhhhc
Confidence 44677888888888888888883 578999999999966999999999999999999999999999999987
Q ss_pred C--CCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcC
Q psy11631 137 K--TSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKD 183 (219)
Q Consensus 137 k--~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d 183 (219)
+ -.||.+|.+.|+-|-....|+++. ++.+|=.-.+....+.+.+.
T Consensus 366 ~~~~~lP~tv~dQi~lWe~e~~R~~~~--~~~l~~~f~s~~~y~~~~~y 412 (448)
T TIGR00625 366 EQTPVLPPTIVDQIRLWELERDRLRFT--EGVLYNDFLTQVDFELLLAY 412 (448)
T ss_pred cCCCCCChHHHHHHHHHHHHhcceEee--cceeeeecCCHHHHHHHHHH
Confidence 1 259999999999999999999985 45555554555545544443
No 5
>PF03849 Tfb2: Transcription factor Tfb2; InterPro: IPR004598 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p52 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=97.99 E-value=2.2e-05 Score=73.52 Aligned_cols=72 Identities=21% Similarity=0.249 Sum_probs=64.4
Q ss_pred CCCCCCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhc
Q psy11631 62 DHKSRPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLS 136 (219)
Q Consensus 62 d~~~~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~S 136 (219)
...++-+||+.+..|..-+.+|+ + -..|..|+|+..|=-+|.+-+||..|+++|+..|+||++||.||..++
T Consensus 293 ~~~~g~iivETNfrvYAYT~s~l--~-iaiL~lF~~~~~r~pnlvvg~iTr~Sv~~A~~~GIta~qIi~fL~~~a 364 (366)
T PF03849_consen 293 SNKEGFIIVETNFRVYAYTNSPL--Q-IAILSLFCELKYRFPNLVVGQITRESVRRALKNGITADQIISFLRSHA 364 (366)
T ss_pred cccCceEEEEecceEEEecCCHH--H-HHHHHHHHHHHhcCCCeEEEEEcHHHHHHHHHcCCCHHHHHHHHHhcC
Confidence 44566788999999998888888 3 489999999999966999999999999999999999999999999886
No 6
>KOG3471|consensus
Probab=97.68 E-value=0.00014 Score=69.37 Aligned_cols=93 Identities=20% Similarity=0.285 Sum_probs=77.6
Q ss_pred CCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCC-------
Q psy11631 66 RPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKT------- 138 (219)
Q Consensus 66 ~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~------- 138 (219)
+-+||.-+..|..-+.+|+- -.-|..|+|+--|=-+|-+=.||..|++.|+..|+|+++||.+|+.++.-
T Consensus 306 G~iIVETN~riYAYT~S~lQ---iAvi~LF~~l~~rf~nlvvG~iTreSVr~Al~~GITa~QII~fLet~ahpqm~~~~~ 382 (465)
T KOG3471|consen 306 GFIIVETNYRIYAYTNSPLQ---IAVIALFTELTYRFPNLVVGVITRESVRRALDNGITAEQIIHFLETHAHPQMRMLSP 382 (465)
T ss_pred ceEEEEeccEEEEecCCHHH---HHHHHHHHHHHhhccccceeeeeHHHHHHHHhcCCcHHHHHHHHHhccCchhhhcCC
Confidence 34555556666655666663 34678899999996689999999999999999999999999999999753
Q ss_pred --CCChhHHHHHHHHHHhcCceEEE
Q psy11631 139 --SVPDGIVEFINLCTLSYGKVKLV 161 (219)
Q Consensus 139 --~vPq~v~~~I~~~~~ryGklrlv 161 (219)
-+|.+|++.|+-|-..-.++++.
T Consensus 383 ~~~LPpTv~dQIrLWElernR~~~~ 407 (465)
T KOG3471|consen 383 VPCLPPTVVDQIRLWELERNRLRMT 407 (465)
T ss_pred CCCCCchHHhHHHHHHHhhcceecc
Confidence 49999999999999999999886
No 7
>COG5144 TFB2 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2 [Transcription / DNA replication, recombination, and repair]
Probab=96.77 E-value=0.002 Score=60.41 Aligned_cols=93 Identities=23% Similarity=0.294 Sum_probs=76.4
Q ss_pred CCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCC-------
Q psy11631 66 RPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKT------- 138 (219)
Q Consensus 66 ~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~------- 138 (219)
+-+||.-+..|.--+.+|+-. .-+..||-+--|=-++-.=.||..|+++|++.|+|+++||.+|+.++.-
T Consensus 291 gfiIVETN~kiYaYtnSplqi---avi~LF~nl~arf~Nlv~GiITreSirrAl~nGIta~QII~yLethahpqmr~~l~ 367 (447)
T COG5144 291 GFIIVETNNKIYAYTNSPLQI---AVIHLFCNLTARFPNLVKGIITRESIRRALDNGITAKQIIHYLETHAHPQMRKKLE 367 (447)
T ss_pred ceEEEEecceEEEecCChHHH---HHHHHhhhhhcccchhhhhhccHHHHHHHHhcCccHHHHHHHHHhccChhhhhcCC
Confidence 466777777777767777743 3466777777775577778999999999999999999999999999753
Q ss_pred CCChhHHHHHHHHHHhcCceEEE
Q psy11631 139 SVPDGIVEFINLCTLSYGKVKLV 161 (219)
Q Consensus 139 ~vPq~v~~~I~~~~~ryGklrlv 161 (219)
-+|+.|++.|.-|-..-.+++.+
T Consensus 368 llPPtivdQI~lWele~nRi~~~ 390 (447)
T COG5144 368 LLPPTIVDQIVLWELERNRIFMV 390 (447)
T ss_pred CCChhhhhheeeeeeccCcEEee
Confidence 26999999999999999988887
No 8
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=74.36 E-value=4.3 Score=25.43 Aligned_cols=20 Identities=30% Similarity=0.449 Sum_probs=15.9
Q ss_pred HHHHHHcCCCHHHHHHHHHh
Q psy11631 115 LYAAVSVGLETHDIIEYLKR 134 (219)
Q Consensus 115 L~~A~s~GltaedIi~~L~~ 134 (219)
+..|...|+|.+||.+||..
T Consensus 9 i~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 9 IKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp HHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHcCCCHHHHHHHHHh
Confidence 56799999999999999975
No 9
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=58.31 E-value=27 Score=24.06 Aligned_cols=34 Identities=15% Similarity=0.194 Sum_probs=20.8
Q ss_pred EEcC--hhhHHHHHHcCCCHHHHHHHHHhhcCCCCChh
Q psy11631 108 YKLT--AYSLYAAVSVGLETHDIIEYLKRLSKTSVPDG 143 (219)
Q Consensus 108 YRiT--p~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~ 143 (219)
|.|+ ...+|..++.+.|.++|++.|... |++|..
T Consensus 13 ~~Ln~~a~~Iw~~~~g~~t~~ei~~~l~~~--y~~~~~ 48 (68)
T PF05402_consen 13 FTLNETAAFIWELLDGPRTVEEIVDALAEE--YDVDPE 48 (68)
T ss_dssp ----THHHHHHHH--SSS-HHHHHHHHHHH--TT--HH
T ss_pred ccccHHHHHHHHHccCCCCHHHHHHHHHHH--cCCCHH
Confidence 4554 457999999999999999999877 466655
No 10
>PLN02892 isocitrate lyase
Probab=52.90 E-value=20 Score=36.21 Aligned_cols=61 Identities=25% Similarity=0.441 Sum_probs=53.6
Q ss_pred eEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCC
Q psy11631 75 HIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTS 139 (219)
Q Consensus 75 tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~ 139 (219)
-|.+|+..|...+|+.|-..|=+.. |+.+-.|-+||.==|.+ +|++.++|-.|...+++-+
T Consensus 403 liW~ET~~Pdl~~A~~Fa~~V~~~~--P~k~LaYNlSPSFNW~~--~g~~d~~i~~F~~dLaklG 463 (570)
T PLN02892 403 LIWMETASPDLAEATKFAEGVKAKH--PEIMLAYNLSPSFNWDA--SGMTDEQMAEFIPRLARLG 463 (570)
T ss_pred EEEecCCCCCHHHHHHHHHHHHHhC--CCCeeeecCCCCcCCCC--CCCCHHHHHHHHHHHHhcC
Confidence 4899999999999999888887665 99999999999988885 4999999999988888765
No 11
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=52.36 E-value=14 Score=33.49 Aligned_cols=84 Identities=18% Similarity=0.255 Sum_probs=51.4
Q ss_pred ChhhHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcCccccccc
Q psy11631 111 TAYSLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKDPVIQDCR 190 (219)
Q Consensus 111 Tp~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d~~i~~~~ 190 (219)
||.|+|=|. .|+.+.-+==.-+ .++|+.|... -+ .+.+=-.-||+.|.++.+. ++..++
T Consensus 151 TPlS~YLA~-~G~KvAN~PLvpe----~~lP~~L~~~--------~~-------~ki~GLtidp~~L~~IR~~-Rl~~lg 209 (255)
T PF03618_consen 151 TPLSMYLAN-KGYKVANVPLVPE----VPLPEELFEV--------DP-------KKIFGLTIDPERLIEIRRE-RLKSLG 209 (255)
T ss_pred CchhHHHHh-cCcceeecCcCCC----CCCCHHHHhC--------CC-------CcEEEEECCHHHHHHHHHH-HHhccC
Confidence 899999999 9998765432222 5788877532 11 1222225578888887554 344444
Q ss_pred ccccCCC--------chhHHHHHHHhcCCCCCcc
Q psy11631 191 LRRDTED--------SQTLINQADKKLKAPQFGL 216 (219)
Q Consensus 191 l~~~~~~--------~rg~lkq~L~~lGyPv~~~ 216 (219)
+. .... .-...++...++||||.+.
T Consensus 210 ~~-~s~Ya~~~~i~~El~~A~~l~~~~~~pvIdv 242 (255)
T PF03618_consen 210 LD-DSSYADLERIEEELEYAERLFRKLGCPVIDV 242 (255)
T ss_pred CC-CCCCCCHHHHHHHHHHHHHHHHHcCCCEEEC
Confidence 44 2111 3344566778999999875
No 12
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=51.20 E-value=61 Score=26.81 Aligned_cols=94 Identities=13% Similarity=0.100 Sum_probs=56.2
Q ss_pred HHHHHHcCCCHHHHHHHHHhhc-CCCCChhHHHHHHHHHHhcC-ceE--EEEe-----CCeEEEEcCCHHHHHHHhcCcc
Q psy11631 115 LYAAVSVGLETHDIIEYLKRLS-KTSVPDGIVEFINLCTLSYG-KVK--LVLK-----HNRYFIESPFAEVLQKLLKDPV 185 (219)
Q Consensus 115 L~~A~s~GltaedIi~~L~~~S-k~~vPq~v~~~I~~~~~ryG-klr--lvl~-----~~~~~L~s~d~~lL~~Ll~d~~ 185 (219)
|--....++...+.++.+-..+ +.-||+.|...++...++|+ +++ +.+. .......-.|+.++..+..+.
T Consensus 20 l~~~~q~~vdi~~~l~r~l~~~~~~~Ip~~Vi~EL~~l~~~~~~~~r~~ia~~~~er~~~~~~~~~aDe~i~~~a~~~~- 98 (136)
T COG1412 20 LLYPYQFKVDIFEELERLLGAKYKPAIPSCVIRELEKLKRKHRGKARIAIALKYAERLECIHKGRYADECLLEAALKHG- 98 (136)
T ss_pred HHHHHHccCCHHHHHHHHhcccccccchHHHHHHHHHHHHhcCchHHHHHHHHHhhccCccccCCChHHHHHHHHHHcC-
Confidence 3444555666655555554443 56799999999999998853 444 1110 000012223666666655554
Q ss_pred cccccccccCCCchhHHHHHHHhcCCCCCc
Q psy11631 186 IQDCRLRRDTEDSQTLINQADKKLKAPQFG 215 (219)
Q Consensus 186 i~~~~l~~~~~~~rg~lkq~L~~lGyPv~~ 215 (219)
.+.+.. .-.+||+.|++.|.||.-
T Consensus 99 --~~iVaT----nD~eLk~rlr~~GIPvi~ 122 (136)
T COG1412 99 --RYIVAT----NDKELKRRLRENGIPVIT 122 (136)
T ss_pred --CEEEEe----CCHHHHHHHHHcCCCEEE
Confidence 122222 448899999999999964
No 13
>TIGR01346 isocit_lyase isocitrate lyase. Isocitrate lyase and malate synthase are the enzymes of the glyoxylate shunt, a pathway associated with the TCA cycle.
Probab=46.88 E-value=35 Score=34.21 Aligned_cols=60 Identities=20% Similarity=0.431 Sum_probs=51.3
Q ss_pred eEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCC
Q psy11631 75 HIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTS 139 (219)
Q Consensus 75 tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~ 139 (219)
.|.+|+..|...+|+.|-..|=+.. |+.+-.|-+||.==|.|. ++.++|-.|...+++.+
T Consensus 382 liW~ET~~Pdl~~A~~Fa~~v~~~~--P~k~LaYN~SPSFNW~~~---~~d~~~~~F~~~L~~lG 441 (527)
T TIGR01346 382 LIWMETSTPDLELAKKFAEGVKSKF--PDQLLAYNLSPSFNWSAH---MEDDEIAKFIQELGDLG 441 (527)
T ss_pred EEEecCCCCCHHHHHHHHHHHHHHC--CCCeEEecCCCCcccccc---CCHHHHHHHHHHHHhcC
Confidence 4899999999999999888887655 999999999999889888 88888887777777654
No 14
>PF04255 DUF433: Protein of unknown function (DUF433); InterPro: IPR007367 This is a family of uncharacterised proteins.; PDB: 2GA1_B.
Probab=41.44 E-value=23 Score=24.40 Aligned_cols=28 Identities=14% Similarity=0.294 Sum_probs=20.1
Q ss_pred EcChhhHHHHHHcCCCHHHHHHHHHhhc
Q psy11631 109 KLTAYSLYAAVSVGLETHDIIEYLKRLS 136 (219)
Q Consensus 109 RiTp~SL~~A~s~GltaedIi~~L~~~S 136 (219)
||+-..++..+..|++.++|++....++
T Consensus 18 RI~v~~i~~~~~~G~s~eeI~~~yp~Lt 45 (56)
T PF04255_consen 18 RIPVRDILDLLAAGESPEEIAEDYPSLT 45 (56)
T ss_dssp S-BHHHHHHHHHTT--HHHHHHHSTT--
T ss_pred eecHHHHHHHHHcCCCHHHHHHHCCCCC
Confidence 7889999999999999999998754443
No 15
>TIGR02425 decarb_PcaC 4-carboxymuconolactone decarboxylase. Members of this family are 4-carboxymuconolactone decarboxylase, which catalyzes the third step in the catabolism of protocatechuate (and therefore the fourth step in the catabolism of para-hydroxybenzoate, of 3-hydroxybenzoate, of vanillate, etc.). Most members of this family are encoded within protocatechuate catabolism operons. This protein is sometimes found as a fusion protein with other enzymes of the pathway, as in Rhodococcus opacus, Streptomyces avermitilis, and Caulobacter crescentus.
Probab=36.58 E-value=34 Score=27.39 Aligned_cols=54 Identities=24% Similarity=0.214 Sum_probs=35.9
Q ss_pred HHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCC-CCChhHHH
Q psy11631 89 HDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKT-SVPDGIVE 146 (219)
Q Consensus 89 ~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~-~vPq~v~~ 146 (219)
...|+.+|=+..... .+. -..=+..|+.+|+|.++|.+.|-..+.| +.|..+-.
T Consensus 57 ~R~Litla~laa~g~-~~~---l~~h~~~Al~~G~T~~ei~Evl~q~~~y~G~P~a~~a 111 (123)
T TIGR02425 57 ERSLVTIALLAALGR-DEE---LAMHVRATANTGVTEDDIKEVLLHVAIYAGVPAANHA 111 (123)
T ss_pred HHHHHHHHHHHHCCC-HHH---HHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence 344555555554432 222 2344689999999999999999988875 78876544
No 16
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=36.36 E-value=58 Score=22.80 Aligned_cols=38 Identities=16% Similarity=0.158 Sum_probs=33.0
Q ss_pred HHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcCc
Q psy11631 118 AVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYGK 157 (219)
Q Consensus 118 A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryGk 157 (219)
|...|++..+|-.+=..+.. +++....++..|..++|.
T Consensus 17 a~~Lgl~~~~I~~i~~~~~~--~~~~~~~mL~~W~~~~~~ 54 (79)
T cd01670 17 ARKLGLSDGEIDQIEEDNPR--VREQAYQLLLKWEEREGD 54 (79)
T ss_pred HHHhCCCHHHHHHHHHhCCC--HHHHHHHHHHHHHhccCc
Confidence 56789999998888888776 899999999999999994
No 17
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=34.53 E-value=18 Score=33.13 Aligned_cols=85 Identities=16% Similarity=0.192 Sum_probs=50.6
Q ss_pred ChhhHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcCccccccc
Q psy11631 111 TAYSLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKDPVIQDCR 190 (219)
Q Consensus 111 Tp~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d~~i~~~~ 190 (219)
||.|+|=|. -|+.+.-+==..+ .++|+.|... - ..+.+=-.-||+.|.++...+.- .++
T Consensus 157 TPlS~YLA~-~G~KvAN~PLvpe----~~lP~~L~~~--------~-------~~kivGLtIdp~rL~~IR~~Rl~-~lg 215 (269)
T PRK05339 157 TPTSLYLAN-KGIKAANYPLVPE----VPLPEELFPI--------D-------PKKIFGLTIDPERLIEIRKERLP-NLG 215 (269)
T ss_pred cHHHHHHHc-cCCceEeeCCCCC----CCCCHHHHhC--------C-------CCcEEEEeCCHHHHHHHHHHHhc-ccC
Confidence 899999999 9998764432222 6788877652 1 11222225568888887654432 222
Q ss_pred ccccCC-----CchhHHHHHHHhcCCCCCcc
Q psy11631 191 LRRDTE-----DSQTLINQADKKLKAPQFGL 216 (219)
Q Consensus 191 l~~~~~-----~~rg~lkq~L~~lGyPv~~~ 216 (219)
+..-+. ..-...++..+++||||.|.
T Consensus 216 ~s~Ya~~~~i~~El~~A~~l~~k~~~pvIdv 246 (269)
T PRK05339 216 LSRYASLEQCREELAEAERLFRREGIPVIDV 246 (269)
T ss_pred cCcCCCHHHHHHHHHHHHHHHHHcCCCEEEC
Confidence 211111 13345566778999999875
No 18
>PF05157 T2SE_Nter: Type II secretion system (T2SS), protein E, N-terminal domain; InterPro: IPR007831 This domain is found at the N terminus of members of the general secretory system II protein E. Proteins in this subfamily are typically involved in Type IV pilus biogenesis (e.g. Q9X4G8 from SWISSPROT), though some are involved in other processes; for instance aggregation in Myxococcus xanthus (e.g. Q9RF11 from SWISSPROT) [].; GO: 0005524 ATP binding, 0006810 transport; PDB: 2D27_A 2D28_C.
Probab=33.52 E-value=1.6e+02 Score=21.33 Aligned_cols=82 Identities=11% Similarity=-0.026 Sum_probs=43.6
Q ss_pred CHHHHHHHHHhhcCC--------CCChh-HHHHHHHHHHhcCceEEEEeCCeEEEEcCCH---HHHHHHhcCcccccccc
Q psy11631 124 ETHDIIEYLKRLSKT--------SVPDG-IVEFINLCTLSYGKVKLVLKHNRYFIESPFA---EVLQKLLKDPVIQDCRL 191 (219)
Q Consensus 124 taedIi~~L~~~Sk~--------~vPq~-v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~---~lL~~Ll~d~~i~~~~l 191 (219)
+.+++.+.|.++... +++.. +..+=..++++|+-+=+...++.++|-+.|| ..++.|..-=...++.+
T Consensus 8 se~~l~~~la~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~lPl~~~~~~l~va~~dP~~~~~~~~l~~~~~~~~i~~ 87 (109)
T PF05157_consen 8 SEDQLLEALAEQLGLPFVDLDELPVDPELLDRLPLEFARRNRVLPLRQDDGTLVVAVADPLDPEALDELEFLLGKYPIEF 87 (109)
T ss_dssp -HHHHHHHHHHHHT--B--GGGS-SS-----G--HHHHHHHTEEEEEECTTCEEEEES-TT-HHHHHHHHHHH-S--EEE
T ss_pred CHHHHHHHHHHHhCCCeechhhcCCCHHHHHhhHHHHHHHcCEEEEEEECCEEEEEEcCCCCHHHHHHHHHHcCCCCeEE
Confidence 446777777776543 23333 3446678999999998887789999988887 44444432211112223
Q ss_pred cccCCCchhHHHHHHHh
Q psy11631 192 RRDTEDSQTLINQADKK 208 (219)
Q Consensus 192 ~~~~~~~rg~lkq~L~~ 208 (219)
... .+..+.+.|.+
T Consensus 88 ~la---~~~~i~~~l~~ 101 (109)
T PF05157_consen 88 VLA---TREDIDQLLER 101 (109)
T ss_dssp EE-----HHHHHHHHHH
T ss_pred EEe---CHHHHHHHHHH
Confidence 332 45666666654
No 19
>PF00463 ICL: Isocitrate lyase family; InterPro: IPR000918 Isocitrate lyase (4.1.3.1 from EC) [, ] is an enzyme that catalyzes the conversion of isocitrate to succinate and glyoxylate. This is the first step in the glyoxylate bypass, an alternative to the tricarboxylic acid cycle in bacteria, fungi and plants. A cysteine, a histidine and a glutamate or aspartate have been found to be important for the enzyme's catalytic activity. Only one cysteine residue is conserved between the sequences of the fungal, plant and bacterial enzymes; it is located in the middle of a conserved hexapeptide. Other enzymes also belong to this family including carboxyvinyl-carboxyphosphonate phosphorylmutase (2.7.8.23 from EC) which catalyses the conversion of 1-carboxyvinyl carboxyphosphonate to 3-(hydrohydroxyphosphoryl) pyruvate carbon dioxide, and phosphoenolpyruvate mutase (5.4.2.9 from EC), which is involved in the biosynthesis of phosphinothricin tripeptide antiobiotics. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1IGW_D 3P0X_B 3EOL_B 3E5B_B 3OQ8_D 3LG3_A 3I4E_D 1F8I_B 1F8M_D 1F61_A ....
Probab=33.50 E-value=83 Score=31.60 Aligned_cols=60 Identities=20% Similarity=0.335 Sum_probs=45.3
Q ss_pred eEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCC
Q psy11631 75 HIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTS 139 (219)
Q Consensus 75 tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~ 139 (219)
.|.+|+..|...+|+.|-..|=+.. |+.+-.|-+||.==|.+. | ..++|-.|-..+++-+
T Consensus 381 llW~ET~~Pd~~~a~~Fa~~V~~~~--P~k~LaYNlSPSFNW~~~--~-~~~ei~~F~~dLak~G 440 (526)
T PF00463_consen 381 LLWMETKTPDLAQAKEFAEGVHAVY--PGKKLAYNLSPSFNWDAA--G-SDDEIKSFQWDLAKLG 440 (526)
T ss_dssp EEEE--SS--HHHHHHHHHHHHHHS--TT-EEEEEE-SSSTHHHH--S--HHHHHHHHHHHHHTT
T ss_pred eeeEecCCCCHHHHHHHHHHHHHhC--CcceEEecCCcccchhhh--h-hhhHHHHHHHHHHhhh
Confidence 4889999999999999999998876 899999999999999995 5 6666888888777654
No 20
>COG1806 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.02 E-value=24 Score=32.48 Aligned_cols=45 Identities=11% Similarity=0.158 Sum_probs=31.7
Q ss_pred cCCHHHHHHHhcCcccccccccccCCC--------chhHHHHHHHhcCCCCCcc
Q psy11631 171 SPFAEVLQKLLKDPVIQDCRLRRDTED--------SQTLINQADKKLKAPQFGL 216 (219)
Q Consensus 171 s~d~~lL~~Ll~d~~i~~~~l~~~~~~--------~rg~lkq~L~~lGyPv~~~ 216 (219)
.-+|+-|.+|...+ +..++++..... .-......++|.||||.+.
T Consensus 198 ti~peRL~~IR~eR-L~~~~~~~~s~Ya~~~~~~eEl~~ae~l~~r~~~pvidv 250 (273)
T COG1806 198 TISPERLSAIREER-LKSLGLRENSRYASLDQCREELAYAEALFRRNGIPVIDV 250 (273)
T ss_pred ecCHHHHHHHHHHH-hhccCCCCccccccHHHHHHHHHHHHHHHHHhCCCEEec
Confidence 45678888888888 888777665422 2344455678999999875
No 21
>PF00690 Cation_ATPase_N: Cation transporter/ATPase, N-terminus; InterPro: IPR004014 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+ (3.6.3.6 from EC), Na+ (3.6.3.7 from EC), Ca2+ (3.6.3.8 from EC), Na+/K+ (3.6.3.9 from EC), and H+/K+ (3.6.3.10 from EC). In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; PDB: 3KDP_C 3N2F_A 3B8E_A 3N23_A 2XZB_A 1MHS_B 3A3Y_A 2ZXE_A 3B8C_A 3B9B_A ....
Probab=32.72 E-value=38 Score=23.68 Aligned_cols=21 Identities=24% Similarity=0.387 Sum_probs=19.5
Q ss_pred HcCCCHHHHHHHHHhhcCCCC
Q psy11631 120 SVGLETHDIIEYLKRLSKTSV 140 (219)
Q Consensus 120 s~GltaedIi~~L~~~Sk~~v 140 (219)
..|++.+++.+.+++|..|.+
T Consensus 18 ~~GLs~~ev~~r~~~~G~N~l 38 (69)
T PF00690_consen 18 SQGLSSEEVEERRKKYGPNEL 38 (69)
T ss_dssp SSBBTHHHHHHHHHHHSSSST
T ss_pred CCCCCHHHHHHHHHhcccccc
Confidence 589999999999999999988
No 22
>PF10223 DUF2181: Uncharacterized conserved protein (DUF2181); InterPro: IPR019356 This is region of approximately 250 residues with no known function.
Probab=32.56 E-value=29 Score=31.33 Aligned_cols=82 Identities=21% Similarity=0.323 Sum_probs=44.3
Q ss_pred CCCCCCEEEcCCCeEEEeCCCC---CHHHHHHHHHHhhcccc----cCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHh
Q psy11631 62 DHKSRPLWVAPNGHIFLESFSP---VYRHAHDFLIAIAEPVC----RPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKR 134 (219)
Q Consensus 62 d~~~~PLiVqpD~tIlLE~~~P---~~~~a~dfL~~iAE~vs----rPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~ 134 (219)
+.-++|+||..| |+==.+++ ..-.++.||..+++..- +++--+.| .+. ....|+ ++++++.+.+
T Consensus 96 ~~l~~PvWiNAD--Il~Gp~~~~~~~~Vd~~~Fl~~v~~~fP~~tLS~GWTT~~--~~~----~~~~~Y-t~~~v~~M~~ 166 (244)
T PF10223_consen 96 DKLTRPVWINAD--ILPGPNGPTIPGPVDAKEFLSLVAEKFPHATLSLGWTTRW--GPE----VPNGGY-TWEMVEEMLE 166 (244)
T ss_pred hccCCCeeEeee--eccCCCCCCCCcccCHHHHHHHHHHhCCCEEEecCccccc--Ccc----CCCccc-cHHHHHHHHH
Confidence 457899999998 66221222 33368999999999752 12211111 000 112233 3444444444
Q ss_pred hcC--CCCChhHHHHHHHHH
Q psy11631 135 LSK--TSVPDGIVEFINLCT 152 (219)
Q Consensus 135 ~Sk--~~vPq~v~~~I~~~~ 152 (219)
..+ +.+||+|..-++-..
T Consensus 167 l~~~~~~l~Q~VTFpvRA~l 186 (244)
T PF10223_consen 167 LCKGINQLPQPVTFPVRAGL 186 (244)
T ss_pred HHHhhccCCCceeeeehhhh
Confidence 443 468888777666443
No 23
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=32.48 E-value=3.1e+02 Score=25.19 Aligned_cols=90 Identities=17% Similarity=0.090 Sum_probs=62.9
Q ss_pred EEEcCCCeEEEeCCCCCHHHHHHHHHHhhccc--cc-------CCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhc--
Q psy11631 68 LWVAPNGHIFLESFSPVYRHAHDFLIAIAEPV--CR-------PEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLS-- 136 (219)
Q Consensus 68 LiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~v--sr-------Pe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~S-- 136 (219)
+--..+||+||+--+-+....+..|..+-+-- .+ +..+..--.|..+|...+..|.=-+++...|.-..
T Consensus 89 ~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~dL~~rl~~~~i~ 168 (329)
T TIGR02974 89 FERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLDRLAFDVIT 168 (329)
T ss_pred hhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHHHHHHHhcchhcC
Confidence 33445799999999989999999887765321 11 12234445577788999999988888887775432
Q ss_pred -------CCCCChhHHHHHHHHHHhcCc
Q psy11631 137 -------KTSVPDGIVEFINLCTLSYGK 157 (219)
Q Consensus 137 -------k~~vPq~v~~~I~~~~~ryGk 157 (219)
+-.||.-+..|+..++.+||+
T Consensus 169 lPpLReR~eDI~~L~~~fl~~~~~~~~~ 196 (329)
T TIGR02974 169 LPPLRERQEDIMLLAEHFAIRMARELGL 196 (329)
T ss_pred CCchhhhhhhHHHHHHHHHHHHHHHhCC
Confidence 124666677788888888886
No 24
>PF12993 DUF3877: Domain of unknown function, E. rectale Gene description (DUF3877); InterPro: IPR024539 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=32.34 E-value=1.9e+02 Score=25.19 Aligned_cols=51 Identities=18% Similarity=0.232 Sum_probs=41.0
Q ss_pred hhHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHH
Q psy11631 113 YSLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAE 175 (219)
Q Consensus 113 ~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~ 175 (219)
.||-+=+..-.+.++|...|+.++ ...+.+.|.|++.-+++|+.+..+...
T Consensus 33 sSLn~~l~~e~~~~em~~~L~~f~------------~~~~~~lG~v~vs~k~eRFCf~IP~~g 83 (175)
T PF12993_consen 33 SSLNHFLGTEDDEEEMQEALEEFP------------EYVKDRLGEVEVSHKGERFCFHIPEEG 83 (175)
T ss_pred HHHHHHhcccccHHHHHHHHHHhH------------HHHHhhhccEEEEecCcEEEEEcCcHH
Confidence 467777777778899988888754 567889999999988999999876543
No 25
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=31.91 E-value=46 Score=22.67 Aligned_cols=24 Identities=21% Similarity=0.405 Sum_probs=20.8
Q ss_pred HcCCCHHHHHHHHHhhcCCCCChh
Q psy11631 120 SVGLETHDIIEYLKRLSKTSVPDG 143 (219)
Q Consensus 120 s~GltaedIi~~L~~~Sk~~vPq~ 143 (219)
..|++.+++-+.+++|..|.+|..
T Consensus 8 ~~GLs~~~v~~r~~~~G~N~l~~~ 31 (64)
T smart00831 8 ESGLSSEEAARRLERYGPNELPPP 31 (64)
T ss_pred ccCCCHHHHHHHHHHhCCCCCCCC
Confidence 349999999999999999987654
No 26
>PF03461 TRCF: TRCF domain; InterPro: IPR005118 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by the transcription-repair-coupling factor (TRCF) which releases RNAP and the truncated transcript.; GO: 0003684 damaged DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0006281 DNA repair; PDB: 2QSR_A 2EYQ_A.
Probab=30.44 E-value=2.5e+02 Score=21.42 Aligned_cols=62 Identities=13% Similarity=0.250 Sum_probs=44.3
Q ss_pred hhhHHHHHHcCCCHHHHHHHHHhhcC--CCCChhHHHHH-----HHHHHhcCceEEEEeCCeEEEEcCC
Q psy11631 112 AYSLYAAVSVGLETHDIIEYLKRLSK--TSVPDGIVEFI-----NLCTLSYGKVKLVLKHNRYFIESPF 173 (219)
Q Consensus 112 p~SL~~A~s~GltaedIi~~L~~~Sk--~~vPq~v~~~I-----~~~~~ryGklrlvl~~~~~~L~s~d 173 (219)
...+|+-++.--+.+++-+..+.+.. .++|..+..++ +..+++.|-.++...++..+|+-..
T Consensus 19 Rl~~Yrrl~~~~~~~el~~l~~El~DRFG~~P~ev~~L~~~~~lk~~a~~~gi~~i~~~~~~i~i~~~~ 87 (101)
T PF03461_consen 19 RLELYRRLASAESEEELEDLREELIDRFGPLPEEVENLLELARLKILARKLGIESIKQKGNSIYITFSK 87 (101)
T ss_dssp HHHHHHHHHC--SHHHHHHHHHHHHHHH-S--HHHHHHHHHHHHHHHHHHCTECEEEEETTEEEEEE-T
T ss_pred HHHHHHHHhhCCCHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHCCCcEEEecCCEEEEEECC
Confidence 45788888888888888877666653 48999998875 5588999999998888888886543
No 27
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=29.72 E-value=1.1e+02 Score=22.52 Aligned_cols=19 Identities=21% Similarity=0.558 Sum_probs=17.9
Q ss_pred CCChhHHHHHHHHHHhcCc
Q psy11631 139 SVPDGIVEFINLCTLSYGK 157 (219)
Q Consensus 139 ~vPq~v~~~I~~~~~ryGk 157 (219)
.||+++.+++.-.+.+||.
T Consensus 23 ~lP~SleeLl~ia~~kfg~ 41 (69)
T PF11834_consen 23 WLPDSLEELLKIASEKFGF 41 (69)
T ss_pred EcCccHHHHHHHHHHHhCC
Confidence 5999999999999999997
No 28
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.70 E-value=37 Score=23.57 Aligned_cols=25 Identities=8% Similarity=0.131 Sum_probs=19.0
Q ss_pred ccccCCCchhHHHHHHHhcCCCCCc
Q psy11631 191 LRRDTEDSQTLINQADKKLKAPQFG 215 (219)
Q Consensus 191 l~~~~~~~rg~lkq~L~~lGyPv~~ 215 (219)
+...+++....+++.|.+.||.+.+
T Consensus 44 ie~~~~~~~~~i~~~L~~~G~~~~d 68 (68)
T cd04885 44 IQVPDREDLAELKERLEALGYPYVD 68 (68)
T ss_pred EEeCCHHHHHHHHHHHHHcCCCccC
Confidence 3444456888999999999998764
No 29
>COG0023 SUI1 Translation initiation factor 1 (eIF-1/SUI1) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=29.54 E-value=87 Score=24.94 Aligned_cols=19 Identities=11% Similarity=-0.108 Sum_probs=17.0
Q ss_pred CCchhHHHHHHHhcCCCCC
Q psy11631 196 EDSQTLINQADKKLKAPQF 214 (219)
Q Consensus 196 ~~~rg~lkq~L~~lGyPv~ 214 (219)
.+.|..|+..|.++|||+.
T Consensus 81 Gdhr~~v~~~L~~~G~k~k 99 (104)
T COG0023 81 GDHRDKVKELLIKKGFKVK 99 (104)
T ss_pred ChHHHHHHHHHHHcCCchh
Confidence 4599999999999999974
No 30
>PF00067 p450: Cytochrome P450 p450 superfamily signature b-class p450 signature mitochondrial p450 signature E-class p450 group I signature E-class p450 group II signature E-class p450 group IV signature; InterPro: IPR001128 Cytochrome P450 enzymes are a superfamily of haem-containing mono-oxygenases that are found in all kingdoms of life, and which show extraordinary diversity in their reaction chemistry. In mammals, these proteins are found primarily in microsomes of hepatocytes and other cell types, where they oxidise steroids, fatty acids and xenobiotics, and are important for the detoxification and clearance of various compounds, as well as for hormone synthesis and breakdown, cholesterol synthesis and vitamin D metabolism. In plants, these proteins are important for the biosynthesis of several compounds such as hormones, defensive compounds and fatty acids. In bacteria, they are important for several metabolic processes, such as the biosynthesis of antibiotic erythromycin in Saccharopolyspora erythraea (Streptomyces erythraeus). Cytochrome P450 enzymes use haem to oxidise their substrates, using protons derived from NADH or NADPH to split the oxygen so a single atom can be added to a substrate. They also require electrons, which they receive from a variety of redox partners. In certain cases, cytochrome P450 can be fused to its redox partner to produce a bi-functional protein, such as with P450BM-3 from Bacillus megaterium [], which has haem and flavin domains. Organisms produce many different cytochrome P450 enzymes (at least 58 in humans), which together with alternative splicing can provide a wide array of enzymes with different substrate and tissue specificities. Individual cytochrome P450 proteins follow the nomenclature: CYP, followed by a number (family), then a letter (subfamily), and another number (protein); e.g. CYP3A4 is the fourth protein in family 3, subfamily A. In general, family members should share >40% identity, while subfamily members should share >55% identity. Cytochrome P450 proteins can also be grouped by two different schemes. One scheme was based on a taxonomic split: class I (prokaryotic/mitochondrial) and class II (eukaryotic microsomes). The other scheme was based on the number of components in the system: class B (3-components) and class E (2-components). These classes merge to a certain degree. Most prokaryotes and mitochondria (and fungal CYP55) have 3-component systems (class I/class B) - a FAD-containing flavoprotein (NAD(P)H-dependent reductase), an iron-sulphur protein and P450. Most eukaryotic microsomes have 2-component systems (class II/class E) - NADPH:P450 reductase (FAD and FMN-containing flavoprotein) and P450. There are exceptions to this scheme, such as 1-component systems that resemble class E enzymes [, , ]. The class E enzymes can be further subdivided into five sequence clusters, groups I-V, each of which may contain more than one cytochrome P450 family (eg, CYP1 and CYP2 are both found in group I). The divergence of the cytochrome P450 superfamily into B- and E-classes, and further divergence into stable clusters within the E-class, appears to be very ancient, occurring before the appearance of eukaryotes. More information about these proteins can be found at Protein of the Month: Cytochrome P450 [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 0020037 heme binding, 0055114 oxidation-reduction process; PDB: 2RFC_B 2RFB_A 3EJB_H 3EJE_H 3EJD_H 1N6B_A 1NR6_A 1DT6_A 3EL3_A 3DBG_B ....
Probab=29.12 E-value=1.7e+02 Score=25.65 Aligned_cols=45 Identities=13% Similarity=0.206 Sum_probs=37.0
Q ss_pred ChhHHHHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcCcc
Q psy11631 141 PDGIVEFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKDPV 185 (219)
Q Consensus 141 Pq~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d~~ 185 (219)
....-.++..|.++||.+--+.-++.-++...|++++++++..+.
T Consensus 19 ~~~~~~~~~~~~~kyG~i~~~~~~~~~~vvv~~pe~~~~il~~~~ 63 (463)
T PF00067_consen 19 KGNPHEFFRELHKKYGPIFRIWPGGQPIVVVSDPELIKEILRSRS 63 (463)
T ss_dssp THHHHHHHHHHHHHHTSEEEEEETTEEEEEEESHHHHHHHHTTTT
T ss_pred CCcHHHHHHHHHHHhCCEEEEeEecccccccccchhhcccccccc
Confidence 567788899999999996544446788888899999999998874
No 31
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=27.83 E-value=3.9e+02 Score=24.34 Aligned_cols=90 Identities=19% Similarity=0.243 Sum_probs=69.3
Q ss_pred eEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHh
Q psy11631 75 HIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLS 154 (219)
Q Consensus 75 tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~r 154 (219)
.|+ +.-+.|.-.-++|..+.+.++-|=..+-|-|+||=++.|...|-++==+|-. -+++.-...+.+.+.+
T Consensus 84 SVL--Td~~~F~Gs~e~L~~v~~~v~~PvL~KDFiiD~yQI~~Ar~~GADavLLI~~-------~L~~~~l~el~~~A~~ 154 (254)
T COG0134 84 SVL--TDPKYFQGSFEDLRAVRAAVDLPVLRKDFIIDPYQIYEARAAGADAVLLIVA-------ALDDEQLEELVDRAHE 154 (254)
T ss_pred EEe--cCccccCCCHHHHHHHHHhcCCCeeeccCCCCHHHHHHHHHcCcccHHHHHH-------hcCHHHHHHHHHHHHH
Confidence 455 6666677788999999999999999999999999999999999887444322 2456666677788888
Q ss_pred cCceEEEEeCCeEEEEcCCHHHHHHHh
Q psy11631 155 YGKVKLVLKHNRYFIESPFAEVLQKLL 181 (219)
Q Consensus 155 yGklrlvl~~~~~~L~s~d~~lL~~Ll 181 (219)
+|-=-| +++.|.+-|+..+
T Consensus 155 LGm~~L--------VEVh~~eEl~rAl 173 (254)
T COG0134 155 LGMEVL--------VEVHNEEELERAL 173 (254)
T ss_pred cCCeeE--------EEECCHHHHHHHH
Confidence 885444 6788877776654
No 32
>cd02044 ov-serpin ovalbumin family of serpins (ov-serpins). Family of closely related proteins, whose members can be secreted (ovalbumin), cytosolic (leukocyte elastase inhibitor, LEI), or targeted to both compartments (plasminogen activator inhibitor 2, PAI-2). This subgroup corresponds to clade B of the serpin superfamily. In general, serpins exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate blood coagulation cascades. Non-inhibitory serpins perform many diverse functions such as chaperoning proteins or transporting hormones. Serpins are of medical interest because mutants can cause blood clotting disorders, emphysema, cirrhosis, and dementia.
Probab=27.73 E-value=56 Score=29.91 Aligned_cols=28 Identities=11% Similarity=0.178 Sum_probs=24.1
Q ss_pred EEEcChhhHHHHHH------cCCCHHHHHHHHHh
Q psy11631 107 EYKLTAYSLYAAVS------VGLETHDIIEYLKR 134 (219)
Q Consensus 107 eYRiTp~SL~~A~s------~GltaedIi~~L~~ 134 (219)
-+-++|+|+|.|++ .|-|.++|.+.|.-
T Consensus 24 N~v~SP~si~~aL~~l~~Ga~g~T~~el~~~L~~ 57 (370)
T cd02044 24 NVFFSPIAIMSSLAMVYLGAKGSTANQIGKVLHF 57 (370)
T ss_pred cEEECHHHHHHHHHHHhhhcCCcHHHHHHHHhCC
Confidence 57899999999986 68899999999954
No 33
>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=27.68 E-value=1.3e+02 Score=20.12 Aligned_cols=37 Identities=19% Similarity=0.164 Sum_probs=32.8
Q ss_pred HHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcC
Q psy11631 118 AVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYG 156 (219)
Q Consensus 118 A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryG 156 (219)
|-.+|.+..-|-..|... -.|.+....-|...++.+|
T Consensus 6 A~~agvS~~TVSr~ln~~--~~vs~~tr~rI~~~a~~lg 42 (46)
T PF00356_consen 6 AREAGVSKSTVSRVLNGP--PRVSEETRERILEAAEELG 42 (46)
T ss_dssp HHHHTSSHHHHHHHHTTC--SSSTHHHHHHHHHHHHHHT
T ss_pred HHHHCcCHHHHHHHHhCC--CCCCHHHHHHHHHHHHHHC
Confidence 667899999999999877 4899999999999999988
No 34
>PRK06498 isocitrate lyase; Provisional
Probab=27.01 E-value=1.6e+02 Score=29.63 Aligned_cols=42 Identities=17% Similarity=0.207 Sum_probs=37.7
Q ss_pred eEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHH
Q psy11631 75 HIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAA 118 (219)
Q Consensus 75 tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A 118 (219)
.|.+|+..|...+++.|-..|=+.+ |+.+-.|-+||.==|.+
T Consensus 348 LlW~ET~~P~~~qa~~fa~~Ir~~~--P~~~LaYN~SPSFNW~~ 389 (531)
T PRK06498 348 LLWIETEKPHVAQIAGMVNRIREVV--PNAKLVYNNSPSFNWTL 389 (531)
T ss_pred EEEecCCCCCHHHHHHHHHHHHHHC--CCCeEEecCCCCcchhh
Confidence 3789999999999999999998887 89999999999877766
No 35
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=26.41 E-value=95 Score=20.55 Aligned_cols=39 Identities=18% Similarity=0.183 Sum_probs=27.9
Q ss_pred HHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHh
Q psy11631 115 LYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLS 154 (219)
Q Consensus 115 L~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~r 154 (219)
+-+=++.|++..+|-..+.+... .-+.++...|+.+-+.
T Consensus 7 ~~AL~~LGy~~~e~~~av~~~~~-~~~~~~e~~ik~aLk~ 45 (47)
T PF07499_consen 7 LEALISLGYSKAEAQKAVSKLLE-KPGMDVEELIKQALKL 45 (47)
T ss_dssp HHHHHHTTS-HHHHHHHHHHHHH-STTS-HHHHHHHHHCC
T ss_pred HHHHHHcCCCHHHHHHHHHHhhc-CCCCCHHHHHHHHHhh
Confidence 34557899999999999999985 4444578888776543
No 36
>TIGR02608 delta_60_rpt delta-60 repeat domain. This domain occurs in tandem repeats, as many as 13, in proteins from Bdellovibrio bacteriovorus, Azotobacter vinelandii, Geobacter sulfurreducens, Pirellula sp. 1, Myxococcus xanthus, and others, many of which are Deltaproteobacteria. The periodicity of the repeat ranges from about 57 to 61 amino acids, and a core region of about 54 is represented by this model and seed alignment.
Probab=26.11 E-value=50 Score=23.15 Aligned_cols=12 Identities=25% Similarity=0.537 Sum_probs=10.4
Q ss_pred CEEEcCCCeEEE
Q psy11631 67 PLWVAPNGHIFL 78 (219)
Q Consensus 67 PLiVqpD~tIlL 78 (219)
-+-+||||.||+
T Consensus 5 ~~~~q~DGkIlv 16 (55)
T TIGR02608 5 AVAVQSDGKILV 16 (55)
T ss_pred EEEECCCCcEEE
Confidence 578999999997
No 37
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=25.88 E-value=1.4e+02 Score=21.99 Aligned_cols=48 Identities=17% Similarity=0.223 Sum_probs=32.6
Q ss_pred EEEc--ChhhHHHHHHcCCCHHHHHHHHHhhcCC--CCChhHHHHHHHHHHh
Q psy11631 107 EYKL--TAYSLYAAVSVGLETHDIIEYLKRLSKT--SVPDGIVEFINLCTLS 154 (219)
Q Consensus 107 eYRi--Tp~SL~~A~s~GltaedIi~~L~~~Sk~--~vPq~v~~~I~~~~~r 154 (219)
.|+| |..-+|.-++...|.++|++.|.+.-.- .+-+.|..|+.+...+
T Consensus 26 ~~~Ln~~g~~Iw~lldg~~tv~eI~~~L~~~Y~~~e~~~~dV~~fL~~L~~~ 77 (81)
T TIGR03859 26 MVKLNDSAGEILELCDGKRSLAEIIQELAQRFPAAEEIEDDVIAFLAVARAK 77 (81)
T ss_pred eeeeChHHHHHHHHccCCCcHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHC
Confidence 4666 4567999999999999999988654322 2334555666655443
No 38
>COG4716 Myosin-crossreactive antigen [Function unknown]
Probab=25.63 E-value=61 Score=32.07 Aligned_cols=41 Identities=37% Similarity=0.556 Sum_probs=30.0
Q ss_pred CCCCEEEcCCCeEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHc
Q psy11631 64 KSRPLWVAPNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSV 121 (219)
Q Consensus 64 ~~~PLiVqpD~tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~ 121 (219)
.+||++| |+|.+=| .||..|||-. |- . +| -|+||+++|+.+
T Consensus 476 gDRP~Vv-Pe~S~Nl-----------afignFaEt~-rD-t--VF-TtEYSvRtAmeA 516 (587)
T COG4716 476 GDRPLVV-PEGSVNL-----------AFIGNFAETE-RD-T--VF-TTEYSVRTAMEA 516 (587)
T ss_pred CCCceec-CCCceeh-----------HHhhhhcccc-cc-c--ee-eeehhHHHHHHH
Confidence 4788877 6776543 6999999996 42 2 22 389999999865
No 39
>COG2442 Uncharacterized conserved protein [Function unknown]
Probab=25.47 E-value=48 Score=24.93 Aligned_cols=36 Identities=11% Similarity=0.314 Sum_probs=27.7
Q ss_pred eeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCCC
Q psy11631 105 IHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTSV 140 (219)
Q Consensus 105 iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~v 140 (219)
|--=||+..-+-..+.+|+|.+||++..-.++.-.|
T Consensus 26 I~GtRI~V~~Il~~l~~G~s~eeil~dyp~Lt~~dI 61 (79)
T COG2442 26 IRGTRIPVWDILEMLAAGESIEEILADYPDLTLEDI 61 (79)
T ss_pred EeCceecHHHHHHHHHCCCCHHHHHHhCCCCCHHHH
Confidence 455689999999999999999999887655553333
No 40
>PF08349 DUF1722: Protein of unknown function (DUF1722); InterPro: IPR013560 This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from Escherichia coli.
Probab=25.17 E-value=2.2e+02 Score=22.20 Aligned_cols=49 Identities=8% Similarity=0.184 Sum_probs=36.4
Q ss_pred hhhHHHHHHcCCCHH---HHHHHHHhhcCCCCCh-hHHHHHHHHHHhcCceEE
Q psy11631 112 AYSLYAAVSVGLETH---DIIEYLKRLSKTSVPD-GIVEFINLCTLSYGKVKL 160 (219)
Q Consensus 112 p~SL~~A~s~Gltae---dIi~~L~~~Sk~~vPq-~v~~~I~~~~~ryGklrl 160 (219)
-.-+|.=.+--++.+ ..++.|++|-...||- .+..+|+.|+.+|+.-.|
T Consensus 55 l~Hi~Gyfk~~ls~~EK~~~~~~i~~yr~g~i~l~~~l~~L~~~~~ry~~~YL 107 (117)
T PF08349_consen 55 LQHIFGYFKKKLSSEEKQHFLDLIEDYREGKIPLSVPLTLLKHLARRYPDEYL 107 (117)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHCCCHHH
Confidence 345566666677775 5677788888888987 567899999999995444
No 41
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=25.07 E-value=1.4e+02 Score=22.73 Aligned_cols=42 Identities=14% Similarity=0.256 Sum_probs=28.8
Q ss_pred ChhhHHHHHHcCCCHHHHHHHHHhhc-C-CCCChhHHHHHHHHH
Q psy11631 111 TAYSLYAAVSVGLETHDIIEYLKRLS-K-TSVPDGIVEFINLCT 152 (219)
Q Consensus 111 Tp~SL~~A~s~GltaedIi~~L~~~S-k-~~vPq~v~~~I~~~~ 152 (219)
|..-+|..++..-|.++|++.|..-- . ..+-+.|..||+...
T Consensus 37 tg~~Iw~~~DG~~tv~eIi~~L~~~y~~~~~~~~DV~~fl~~L~ 80 (88)
T PRK02079 37 SAGEILGLIDGKRTVAAIIAELQQQFPDVPGLDEDVLEFLEVAR 80 (88)
T ss_pred HHHHHHHHccCCCCHHHHHHHHHHHccchhhHHHHHHHHHHHHH
Confidence 45678999999999999998884432 2 134466666666554
No 42
>PTZ00062 glutaredoxin; Provisional
Probab=24.75 E-value=4e+02 Score=23.14 Aligned_cols=124 Identities=16% Similarity=0.228 Sum_probs=76.5
Q ss_pred CCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHH----------------cCCCHHHHHHHHHhhcCCCCChhHH
Q psy11631 82 SPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVS----------------VGLETHDIIEYLKRLSKTSVPDGIV 145 (219)
Q Consensus 82 ~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s----------------~GltaedIi~~L~~~Sk~~vPq~v~ 145 (219)
.|..+++.+.|..+|+-- | .+.-|++..- |.=.+ .|-.+.++...+.+|...+-.+.+.
T Consensus 29 ~~~C~~m~~vl~~l~~~~--~-~~~F~~V~~d--~~V~~vPtfv~~~~g~~i~r~~G~~~~~~~~~~~~~~~~~~~~~~~ 103 (204)
T PTZ00062 29 EPEYEQLMDVCNALVEDF--P-SLEFYVVNLA--DANNEYGVFEFYQNSQLINSLEGCNTSTLVSFIRGWAQKGSSEDTV 103 (204)
T ss_pred CcchHHHHHHHHHHHHHC--C-CcEEEEEccc--cCcccceEEEEEECCEEEeeeeCCCHHHHHHHHHHHcCCCCHHHHH
Confidence 677778888888888844 4 3666666543 11110 2667899999999999877777788
Q ss_pred HHHHHHHHhcCceEEEEeCCeEEEEcCCHHHHHHHhcCcccccccccccCCCchhHHHHHHHhc-CCCCC
Q psy11631 146 EFINLCTLSYGKVKLVLKHNRYFIESPFAEVLQKLLKDPVIQDCRLRRDTEDSQTLINQADKKL-KAPQF 214 (219)
Q Consensus 146 ~~I~~~~~ryGklrlvl~~~~~~L~s~d~~lL~~Ll~d~~i~~~~l~~~~~~~rg~lkq~L~~l-GyPv~ 214 (219)
..|+....++- |-|..+|....=.|..-.-+..+++...+.-..+... ....+.+.|.+. |+|.+
T Consensus 104 ~~v~~li~~~~-Vvvf~Kg~~~~p~C~~C~~~k~~L~~~~i~y~~~DI~---~d~~~~~~l~~~sg~~Tv 169 (204)
T PTZ00062 104 EKIERLIRNHK-ILLFMKGSKTFPFCRFSNAVVNMLNSSGVKYETYNIF---EDPDLREELKVYSNWPTY 169 (204)
T ss_pred HHHHHHHhcCC-EEEEEccCCCCCCChhHHHHHHHHHHcCCCEEEEEcC---CCHHHHHHHHHHhCCCCC
Confidence 89999888865 3343444333234666666777777665543222222 223455555543 66554
No 43
>cd00172 SERPIN SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate blood coagulation cascades. Non-inhibitory serpins perform many diverse functions such as chaperoning proteins or transporting hormones. Serpins are of medical interest because mutants have been associated with blood clotting disorders, emphysema, cirrhosis, and dementia.
Probab=24.70 E-value=42 Score=30.44 Aligned_cols=61 Identities=18% Similarity=0.214 Sum_probs=37.2
Q ss_pred EEEcChhhHHHHHH------cCCCHHHHHHHHHhh--cCCCCChhHHHHHHHHHHh--cCceEEEEeCCeEEEE
Q psy11631 107 EYKLTAYSLYAAVS------VGLETHDIIEYLKRL--SKTSVPDGIVEFINLCTLS--YGKVKLVLKHNRYFIE 170 (219)
Q Consensus 107 eYRiTp~SL~~A~s------~GltaedIi~~L~~~--Sk~~vPq~v~~~I~~~~~r--yGklrlvl~~~~~~L~ 170 (219)
-.-++|+|||.|++ .|-|.++|.+.|.-- +...+......++...... -..+++ .++.|+.
T Consensus 21 N~v~SP~si~~aL~~l~~Ga~g~T~~el~~~L~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~---an~~~~~ 91 (364)
T cd00172 21 NVVFSPLSIASALALLYLGAGGETREQLRKVLGLPSLDDEDVHQAFKSLLSSLKDSEKGVELKL---ANRLFVQ 91 (364)
T ss_pred CEEEcHHHHHHHHHHHhhhcCchHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHhCCCCCceeee---ehhhhhh
Confidence 45899999999886 577888998888543 2233444444444443322 123444 4677764
No 44
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=24.48 E-value=1.6e+02 Score=22.40 Aligned_cols=43 Identities=23% Similarity=0.329 Sum_probs=30.7
Q ss_pred EEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhc
Q psy11631 76 IFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLS 136 (219)
Q Consensus 76 IlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~S 136 (219)
||+.....- .....+.+++-++| .|+..|+..++|++.|+...
T Consensus 26 vf~~~~~~G--g~~~~~~ai~rliS----------------~~Lr~G~~~~~ii~~L~gi~ 68 (95)
T PF12637_consen 26 VFINVGKAG--GCSGNLEAIARLIS----------------LALRSGVPPEEIIDQLRGIR 68 (95)
T ss_pred EEEecCcCC--CchHHHHHHHHHHH----------------HHHHcCCCHHHHHHHhcCCC
Confidence 665443322 23677777777775 47889999999999998875
No 45
>cd02047 HCII Heparin cofactor II (HCII) inhibits thrombin, the final protease of the coagulation cascade. HCII is allosterically activated by binding to cell surface glycosaminoglycans (GAGs). The specificity of HCII for thrombin is conferred by a highly acidic hirudin-like N-terminal tail, which becomes available after GAG binding for interaction with the anion-binding exosite I of thrombin. This subgroup corresponds to clade D of the serpin superfamily.
Probab=24.32 E-value=2.8e+02 Score=26.62 Aligned_cols=28 Identities=14% Similarity=0.199 Sum_probs=23.6
Q ss_pred EEEcChhhHHHHHH------cCCCHHHHHHHHHh
Q psy11631 107 EYKLTAYSLYAAVS------VGLETHDIIEYLKR 134 (219)
Q Consensus 107 eYRiTp~SL~~A~s------~GltaedIi~~L~~ 134 (219)
-.-++|+|+|.|++ .|-|.++|.+.|.-
T Consensus 89 Niv~SP~SI~~aLaml~~GA~G~T~~ql~~~Lg~ 122 (436)
T cd02047 89 NILLAPVGISTAMGMISLGLKGQTQEQVLSTLGF 122 (436)
T ss_pred cEEEChHHHHHHHHHHHhhcccHHHHHHHHHhcc
Confidence 45899999999986 67889999999953
No 46
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=24.08 E-value=1.3e+02 Score=22.41 Aligned_cols=38 Identities=11% Similarity=0.079 Sum_probs=33.8
Q ss_pred HHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcC
Q psy11631 118 AVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYG 156 (219)
Q Consensus 118 A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryG 156 (219)
|-..|++..+|-.+-..+.. .+.+.+.+.+..|..+.|
T Consensus 20 aR~LGlse~~Id~i~~~~~~-~~~eq~~~mL~~W~~~~g 57 (86)
T cd08306 20 ARKLGLSETKIESIEEAHPR-NLREQVRQSLREWKKIKK 57 (86)
T ss_pred HHHcCCCHHHHHHHHHHCCC-CHHHHHHHHHHHHHHhHC
Confidence 66789999999988888885 588999999999999999
No 47
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=23.15 E-value=1.4e+02 Score=22.41 Aligned_cols=39 Identities=13% Similarity=0.275 Sum_probs=33.6
Q ss_pred HHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHhcC
Q psy11631 118 AVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLSYG 156 (219)
Q Consensus 118 A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryG 156 (219)
|-..|++-.+|-.+=..|.+.++.+.+...+..|..+.|
T Consensus 20 ar~LG~s~~eI~~ie~~~~r~~~~eq~~~mL~~W~~r~g 58 (86)
T cd08777 20 ARKLGFTESEIEEIDHDYERDGLKEKVHQMLHKWKMKEG 58 (86)
T ss_pred HHHcCCCHHHHHHHHHhcccCCHHHHHHHHHHHHHHccC
Confidence 567899999988876667777788999999999999998
No 48
>PF14090 HTH_39: Helix-turn-helix domain
Probab=23.01 E-value=81 Score=22.48 Aligned_cols=44 Identities=14% Similarity=-0.001 Sum_probs=29.0
Q ss_pred HHHHHHHhcCccccccccc-ccCCCchhHHHHHHHhcCCCCCccc
Q psy11631 174 AEVLQKLLKDPVIQDCRLR-RDTEDSQTLINQADKKLKAPQFGLY 217 (219)
Q Consensus 174 ~~lL~~Ll~d~~i~~~~l~-~~~~~~rg~lkq~L~~lGyPv~~~~ 217 (219)
..+|+.|.+...|..+... ...-...+.--.+|++.|||+....
T Consensus 4 ~rIL~~L~~~~~it~~ea~~~~gi~~~~aRI~eLR~~G~~I~t~~ 48 (70)
T PF14090_consen 4 KRILAALRRGGSITTLEARRELGIMRLAARISELRKKGYPIVTEW 48 (70)
T ss_pred HHHHHHHHcCCCcCHHHHHHHcCCCCHHHHHHHHHHcCCeeeEEE
Confidence 4678888788877766422 2222244556667999999997643
No 49
>PLN02655 ent-kaurene oxidase
Probab=22.05 E-value=1.7e+02 Score=27.37 Aligned_cols=38 Identities=11% Similarity=0.056 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhcCce-EEEEeCCeEEEEcCCHHHHHHHhc
Q psy11631 144 IVEFINLCTLSYGKV-KLVLKHNRYFIESPFAEVLQKLLK 182 (219)
Q Consensus 144 v~~~I~~~~~ryGkl-rlvl~~~~~~L~s~d~~lL~~Ll~ 182 (219)
...++++|.++||.+ ++.+ ++.-.|...||+++++++.
T Consensus 21 ~~~~~~~~~~~yG~i~~~~~-g~~~~vvv~~pe~~k~il~ 59 (466)
T PLN02655 21 PHRTFTKWSEIYGPIYTIRT-GASSVVVLNSTEVAKEAMV 59 (466)
T ss_pred hhHHHHHHHHHhCCeEEEEE-CCEeEEEeCCHHHHHHHHH
Confidence 346899999999976 3333 6778888899999999975
No 50
>PF06888 Put_Phosphatase: Putative Phosphatase; InterPro: IPR016965 This group represents phosphatases related to PHOSPHO1 and PHOSPHO2 []. It includes plant phosphatases with homology to the haloacid dehalogenase (HAD) superfamily [, ]. PHOSPHO1 is a phosphoethanolamine/phosphocholine phosphatase [], while PHOSPHO2 has high activity toward pyridoxal 5'-phosphate (PLP), and it is active at much lower level toward pyrophosphate, phosphoethanolamine (PEA)and phosphocholine (PCho) []. ; GO: 0016791 phosphatase activity
Probab=21.91 E-value=83 Score=28.01 Aligned_cols=53 Identities=21% Similarity=0.395 Sum_probs=32.7
Q ss_pred hHHHHHHcCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHH-hcC-ceEEEEeCCeEEE
Q psy11631 114 SLYAAVSVGLETHDIIEYLKRLSKTSVPDGIVEFINLCTL-SYG-KVKLVLKHNRYFI 169 (219)
Q Consensus 114 SL~~A~s~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~-ryG-klrlvl~~~~~~L 169 (219)
-+..--+.|.+.++|.+.|+. .|+-+.+..+|+.+++ +.| .+.++.++|.+||
T Consensus 49 vl~~L~~~gvt~~~I~~~l~~---ip~~pgm~~~l~~l~~~~~~~~~~IiSDaNs~fI 103 (234)
T PF06888_consen 49 VLQLLHEQGVTPEDIRDALRS---IPIDPGMKELLRFLAKNQRGFDLIIISDANSFFI 103 (234)
T ss_pred HHHHHHHcCCCHHHHHHHHHc---CCCCccHHHHHHHHHhcCCCceEEEEeCCcHhHH
Confidence 344445678999999888854 4667778888888865 222 2334443455544
No 51
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=21.75 E-value=1.8e+02 Score=26.19 Aligned_cols=39 Identities=23% Similarity=0.403 Sum_probs=30.9
Q ss_pred hHHHHHHcCCCHHHHHHHHHhhcC-CCCC------------hhHHHHHHHHH
Q psy11631 114 SLYAAVSVGLETHDIIEYLKRLSK-TSVP------------DGIVEFINLCT 152 (219)
Q Consensus 114 SL~~A~s~GltaedIi~~L~~~Sk-~~vP------------q~v~~~I~~~~ 152 (219)
+=.+|++.|++.+++++.+.++.+ ..+| .++..|+++|.
T Consensus 65 a~~rAL~~g~~~~~~~~~~~~~r~~~~~p~vlm~Y~N~i~~~G~e~F~~~~~ 116 (263)
T CHL00200 65 ASNRALKQGINLNKILSILSEVNGEIKAPIVIFTYYNPVLHYGINKFIKKIS 116 (263)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHHhCHHHHHHHHH
Confidence 447899999999999999999875 3566 26777887774
No 52
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=21.74 E-value=58 Score=20.80 Aligned_cols=20 Identities=25% Similarity=0.208 Sum_probs=14.9
Q ss_pred hhHHHHHHHHHHhcCceEEE
Q psy11631 142 DGIVEFINLCTLSYGKVKLV 161 (219)
Q Consensus 142 q~v~~~I~~~~~ryGklrlv 161 (219)
..-...|+..+.+||-+|++
T Consensus 14 ~~yi~~i~~~g~~~Gi~KIv 33 (34)
T PF02375_consen 14 IKYISSIEPEGEKYGICKIV 33 (34)
T ss_dssp HHHHHHHHHTTGGGSEEEE-
T ss_pred HHHHHHHHHHHHHCCEEEec
Confidence 34455688999999999985
No 53
>PHA02948 serine protease inhibitor-like protein; Provisional
Probab=21.63 E-value=1e+02 Score=28.74 Aligned_cols=58 Identities=10% Similarity=0.154 Sum_probs=35.8
Q ss_pred HHHHHHHhhcccccCCceeEEEcChhhHHHHHH------cCCCHHHHHHHHHhhcCCCCChhHHHHHHH
Q psy11631 88 AHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVS------VGLETHDIIEYLKRLSKTSVPDGIVEFINL 150 (219)
Q Consensus 88 a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s------~GltaedIi~~L~~~Sk~~vPq~v~~~I~~ 150 (219)
+-+.+..+++. +++ .-.-++|+|+|.|++ .|-|.++|.+.|. +....+...+..++..
T Consensus 25 ~~~l~~~l~~~--~~~--~Nv~~SP~Si~~aL~ml~~GA~G~T~~el~~~L~-~~~~~~~~~~~~l~~~ 88 (373)
T PHA02948 25 GILAYKNIQDG--NED--DNIVFSPFGYSFSMFMSLLPASGNTRVELLKTMD-LRKRDLGPAFTELISG 88 (373)
T ss_pred HHHHHHHHHhc--CCC--CCEEEchHHHHHHHHHHHhccCCcHHHHHHHHhC-CCchhHHHHHHHHHHH
Confidence 44555555442 222 246899999999885 6889999999994 2333344444444433
No 54
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=21.46 E-value=96 Score=23.18 Aligned_cols=34 Identities=18% Similarity=0.214 Sum_probs=28.1
Q ss_pred cCCCHHHHHHHHHhhcCCCCChhHHHHHHHHHHh
Q psy11631 121 VGLETHDIIEYLKRLSKTSVPDGIVEFINLCTLS 154 (219)
Q Consensus 121 ~GltaedIi~~L~~~Sk~~vPq~v~~~I~~~~~r 154 (219)
..++.++|++.+.-.++.-||+.|...+-...+.
T Consensus 50 ~~~~~~~l~~~i~P~Ar~~VP~~vk~ell~~Ir~ 83 (86)
T PF10163_consen 50 DNLTFEDLLEEITPKARAMVPDEVKKELLQRIRA 83 (86)
T ss_dssp TTSBHHHHHHHHHHHHHHCS-HHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
Confidence 3578999999999999999999999888766554
No 55
>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=21.33 E-value=2.8e+02 Score=26.14 Aligned_cols=92 Identities=10% Similarity=0.104 Sum_probs=50.4
Q ss_pred HHcCCCHHHHHHHHHhhcC-CCCChhHHHHHHHHHHhcC-ceEEEEeCCeEEE---EcCCHHHHHHHhc---Ccccc---
Q psy11631 119 VSVGLETHDIIEYLKRLSK-TSVPDGIVEFINLCTLSYG-KVKLVLKHNRYFI---ESPFAEVLQKLLK---DPVIQ--- 187 (219)
Q Consensus 119 ~s~GltaedIi~~L~~~Sk-~~vPq~v~~~I~~~~~ryG-klrlvl~~~~~~L---~s~d~~lL~~Ll~---d~~i~--- 187 (219)
+|.--..+++...|....+ ++ ++.|...++.+.+.+| ++.+ .|.| .-|+++-+.+|.+ ...+.
T Consensus 203 iSLhA~~~e~R~~imP~~~~~~-l~el~~a~~~~~~~~grri~~-----EyvLl~GVNDs~e~a~~L~~~l~~~~~~vNL 276 (344)
T PRK14464 203 LSLHTTRAELRARLLPRAPRIA-PEELVELGEAYARATGYPIQY-----QWTLLEGVNDSDEEMDGIVRLLKGKYAVMNL 276 (344)
T ss_pred HHhcCCChhHhheeCCccCCCC-HHHHHHHHHHHHHHHCCEEEE-----EEEEeCCCCCCHHHHHHHHHHHhccccccce
Confidence 3444444666666666664 44 5667778888888998 3444 2333 2356666655443 21111
Q ss_pred -------cccccccCCCchhHHHHHHHhcCCCCCcc
Q psy11631 188 -------DCRLRRDTEDSQTLINQADKKLKAPQFGL 216 (219)
Q Consensus 188 -------~~~l~~~~~~~rg~lkq~L~~lGyPv~~~ 216 (219)
.....++..+.-....+.|...|++|.=.
T Consensus 277 IPyN~v~g~~~~rp~~~~i~~f~~~L~~~gi~~tiR 312 (344)
T PRK14464 277 IPYNSVDGDAYRRPSGERIVAMARYLHRRGVLTKVR 312 (344)
T ss_pred ecCCccCCCCccCCCHHHHHHHHHHHHHCCceEEEE
Confidence 11111111112346778899999988543
No 56
>PRK15063 isocitrate lyase; Provisional
Probab=21.21 E-value=1.3e+02 Score=29.38 Aligned_cols=60 Identities=20% Similarity=0.311 Sum_probs=46.8
Q ss_pred eEEEeCCCCCHHHHHHHHHHhhcccccCCceeEEEcChhhHHHHHHcCCCHHHHHHHHHhhcCCC
Q psy11631 75 HIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETHDIIEYLKRLSKTS 139 (219)
Q Consensus 75 tIlLE~~~P~~~~a~dfL~~iAE~vsrPe~iHeYRiTp~SL~~A~s~GltaedIi~~L~~~Sk~~ 139 (219)
-|++|+..|...+++.|-..+-.+. |..+..|-.||.==|.+. ++.++|-.|.+.+.+.+
T Consensus 280 ~iw~Et~~~d~ee~~~fa~~v~~~~--P~~~layn~sPsfnW~~~---~~~~~~~~f~~eL~~~G 339 (428)
T PRK15063 280 LIWCETSTPDLEEARRFAEAIHAKF--PGKLLAYNCSPSFNWKKN---LDDATIAKFQRELGAMG 339 (428)
T ss_pred EEEeCCCCCCHHHHHHHHHhhcccC--ccceeecCCCCCcccccc---cCHHHHHHHHHHHHHcC
Confidence 4889988899888887766665433 788999999998888874 88888888877777654
No 57
>COG4824 Phage-related holin (Lysis protein) [General function prediction only]
Probab=21.20 E-value=1.2e+02 Score=25.15 Aligned_cols=34 Identities=18% Similarity=0.348 Sum_probs=28.7
Q ss_pred CHHHHHHHHHhhcCC--CCChhHHHHHHHHHHhcCc
Q psy11631 124 ETHDIIEYLKRLSKT--SVPDGIVEFINLCTLSYGK 157 (219)
Q Consensus 124 taedIi~~L~~~Sk~--~vPq~v~~~I~~~~~ryGk 157 (219)
=+.|-|..++..|+- |+|+.+.+.|+..-.++|.
T Consensus 95 iaNE~isI~EN~s~lGlpvPe~L~~~l~~lknk~~~ 130 (133)
T COG4824 95 IANEGISILENASRLGLPVPEMLKDLLETLKNKFGD 130 (133)
T ss_pred HHhhhHHHHHHHHHhCCCchHHHHHHHHHHHhhccc
Confidence 356888889999884 7999999999999888874
No 58
>smart00545 JmjN Small domain found in the jumonji family of transcription factors. To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).
Probab=20.88 E-value=1e+02 Score=20.48 Aligned_cols=22 Identities=27% Similarity=0.294 Sum_probs=16.9
Q ss_pred ChhHHHHHHHHHHhcCceEEEE
Q psy11631 141 PDGIVEFINLCTLSYGKVKLVL 162 (219)
Q Consensus 141 Pq~v~~~I~~~~~ryGklrlvl 162 (219)
|-..+.-|+..+.+||-+|++.
T Consensus 15 p~~yi~~i~~~~~~yGi~KIvP 36 (42)
T smart00545 15 PLAYISKIRPQAEKYGICKVVP 36 (42)
T ss_pred HHHHHHHHHHHHhhCCEEEEEC
Confidence 3445556888899999999974
No 59
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=20.69 E-value=3.3e+02 Score=25.71 Aligned_cols=66 Identities=23% Similarity=0.178 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHhcCceEEEEeCCeEEEEcCCH---HHHHHHhcCcccccccccccCCCchhHHHHHHHh
Q psy11631 143 GIVEFINLCTLSYGKVKLVLKHNRYFIESPFA---EVLQKLLKDPVIQDCRLRRDTEDSQTLINQADKK 208 (219)
Q Consensus 143 ~v~~~I~~~~~ryGklrlvl~~~~~~L~s~d~---~lL~~Ll~d~~i~~~~l~~~~~~~rg~lkq~L~~ 208 (219)
-+..-|+...+.+|.+++....++.||+.++. ++++.|.+-+.|.++.....-+...+.|+..+..
T Consensus 25 ~L~~ni~~~l~~~~~~~~~~~~~r~~v~~~~~~~~~~~~~l~~vfGI~~~s~~~~~~~~~e~I~~~~~~ 93 (394)
T PRK01565 25 RLKRNIKKALKDLPEVKVEAERDRMYIELNGEDYEEVIERLKKVFGIQSFSPVYKVEKDLEAIKEAALE 93 (394)
T ss_pred HHHHHHHHHHHhcCCeeEEEECCEEEEEeCCcCHHHHHHHHhhCCCcceEEEEEEECCCHHHHHHHHHH
Confidence 45566777777888777777679999986433 3677788888888774332223344555554443
No 60
>PF05686 Glyco_transf_90: Glycosyl transferase family 90; InterPro: IPR006598 Cryptococcus neoformans is a pathogenic fungus which most commonly affects the central nervous system and causes fatal meningoencephalitis primarily in patients with AIDS. This fungus produces a thick extracellular polysaccharide capsule which is well recognised as a virulence factor. CAP10 is required for capsule formation and virulence [].
Probab=20.11 E-value=2.6e+02 Score=26.50 Aligned_cols=43 Identities=19% Similarity=0.301 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhcCCCCChhHHHHHHHHHHhcCceEEEEeCCeEEEEc
Q psy11631 125 THDIIEYLKRLSKTSVPDGIVEFINLCTLSYGKVKLVLKHNRYFIES 171 (219)
Q Consensus 125 aedIi~~L~~~Sk~~vPq~v~~~I~~~~~ryGklrlvl~~~~~~L~s 171 (219)
-.+|.+-|+-+-..+|-...++ .. ++.|.+|++..+|++|+++
T Consensus 9 f~~I~~dl~~w~~~gIt~~~l~---~~-~~~~~~r~~I~~g~lYv~~ 51 (395)
T PF05686_consen 9 FRQIHRDLAPWRETGITREMLD---RA-RRRAMFRYVIKDGRLYVES 51 (395)
T ss_pred HHHHHHHHHHhhcCCCCHHHHH---HH-HhcCceEEEEECCEEEEEe
Confidence 4678888999988888554433 33 7889999999999999976
No 61
>COG3742 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.07 E-value=2.3e+02 Score=23.53 Aligned_cols=56 Identities=20% Similarity=0.210 Sum_probs=40.1
Q ss_pred eeEEEcChhhHHHHHHc-----CCCHHHHHHHHHhhcC---CCCChhHHHHHHHHHHhcCceEE
Q psy11631 105 IHEYKLTAYSLYAAVSV-----GLETHDIIEYLKRLSK---TSVPDGIVEFINLCTLSYGKVKL 160 (219)
Q Consensus 105 iHeYRiTp~SL~~A~s~-----GltaedIi~~L~~~Sk---~~vPq~v~~~I~~~~~ryGklrl 160 (219)
.|.+++++.|.|.|+.+ |-.+..+++.|-.... ..|-...-..-.+..+||||.+.
T Consensus 28 a~~~~~Sa~~~~E~~~vl~rr~~p~a~~~vd~~l~~~~~~v~~i~~~~~~~A~~A~~rfGKg~~ 91 (131)
T COG3742 28 AHVRRMSAASYLEAAAVLTRRGGPEARRLVDLLLSEAGAQVVAVTADQARAALRAYRRFGKGRG 91 (131)
T ss_pred CCCeeechhHHHHHHHHHHhhcCcHHHHHHHHHHHhcCCeEEeecHHHHHHHHHHHHHhCcCCC
Confidence 48999999999988753 4455555555544432 25677777778888999999884
No 62
>smart00093 SERPIN SERine Proteinase INhibitors.
Probab=20.00 E-value=1.8e+02 Score=26.44 Aligned_cols=62 Identities=18% Similarity=0.208 Sum_probs=37.2
Q ss_pred EEEcChhhHHHHHH------cCCCHHHHHHHHHhhcCCCCC-hhHHHHHHHHHHhcC------ceEEEEeCCeEEEEcC
Q psy11631 107 EYKLTAYSLYAAVS------VGLETHDIIEYLKRLSKTSVP-DGIVEFINLCTLSYG------KVKLVLKHNRYFIESP 172 (219)
Q Consensus 107 eYRiTp~SL~~A~s------~GltaedIi~~L~~~Sk~~vP-q~v~~~I~~~~~ryG------klrlvl~~~~~~L~s~ 172 (219)
-.-++|+|+|.|++ .|-|.++|.+.|.- .....+ ..+............ .+++ .++.|+...
T Consensus 15 N~v~SP~si~~~L~ml~~GA~g~T~~el~~~L~~-~~~~~~~~~~~~~~~~l~~~l~~~~~~~~l~~---an~i~~~~~ 89 (359)
T smart00093 15 NIFFSPVSISSALAMLSLGAKGSTATQILEVLGF-NLTELSEADIHQGFQHLLQLLNRPDSQLELKT---ANALFVDKS 89 (359)
T ss_pred eEEEChHHHHHHHHHHHcccCchHHHHHHHHcCC-CCCCCCHHHHHHHHHHHHHHHhCCCCcceEEe---eeeehccCC
Confidence 57899999999885 57788999998853 222222 233333333333221 2444 578887543
Done!