Query 032961
Match_columns 130
No_of_seqs 103 out of 1091
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:04:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032961.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032961hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0242 Def N-formylmethionyl- 100.0 2.8E-55 6E-60 330.2 10.8 129 1-129 35-164 (168)
2 PRK12846 peptide deformylase; 100.0 1.3E-53 2.9E-58 320.6 12.1 127 1-129 36-162 (165)
3 TIGR00079 pept_deformyl peptid 100.0 3.3E-53 7.1E-58 317.4 11.8 128 1-129 33-160 (161)
4 PRK14597 peptide deformylase; 100.0 2.7E-53 5.9E-58 319.2 11.0 123 1-128 32-154 (166)
5 PRK00150 def peptide deformyla 100.0 1.2E-52 2.5E-57 315.4 12.6 127 1-129 35-162 (165)
6 PRK14598 peptide deformylase; 100.0 8.8E-53 1.9E-57 321.6 11.5 127 1-128 34-162 (187)
7 PRK14595 peptide deformylase; 100.0 9.8E-53 2.1E-57 315.1 10.5 118 1-122 35-152 (162)
8 PF01327 Pep_deformylase: Poly 100.0 1.6E-52 3.6E-57 311.7 9.3 121 1-121 34-156 (156)
9 PRK14596 peptide deformylase; 100.0 1.1E-51 2.5E-56 318.1 11.6 127 1-128 34-174 (199)
10 cd00487 Pep_deformylase Polype 100.0 1.6E-50 3.4E-55 296.9 10.8 112 1-112 30-141 (141)
11 PRK09218 peptide deformylase; 100.0 1.9E-47 4.2E-52 279.4 9.5 105 1-112 30-136 (136)
12 KOG3137 Peptide deformylase [T 100.0 3E-43 6.4E-48 272.6 7.5 127 1-127 113-253 (267)
13 COG4740 Predicted metalloprote 98.4 2.6E-07 5.7E-12 68.6 3.4 71 38-110 75-160 (176)
14 PHA02858 EIF2a-like PKR inhibi 57.0 12 0.00026 25.5 2.6 53 58-127 8-61 (86)
15 PF13670 PepSY_2: Peptidase pr 50.6 31 0.00067 22.3 3.8 32 72-103 52-83 (83)
16 cd03074 PDI_b'_Calsequestrin_C 46.8 7.7 0.00017 27.8 0.4 24 2-31 69-92 (120)
17 smart00666 PB1 PB1 domain. Pho 46.4 16 0.00035 23.2 1.9 30 74-103 39-68 (81)
18 smart00435 TOPEUc DNA Topoisom 32.3 83 0.0018 27.1 4.4 71 57-127 141-214 (391)
19 PF04986 Y2_Tnp: Putative tran 31.6 50 0.0011 24.8 2.7 45 58-104 116-163 (183)
20 PF04237 YjbR: YjbR; InterPro 30.2 61 0.0013 21.1 2.7 13 60-72 1-13 (92)
21 cd06398 PB1_Joka2 The PB1 doma 28.8 55 0.0012 22.1 2.3 32 71-102 41-72 (91)
22 PF11730 DUF3297: Protein of u 28.6 94 0.002 20.3 3.2 38 51-95 29-66 (71)
23 cd06396 PB1_NBR1 The PB1 domai 28.1 54 0.0012 22.0 2.1 22 75-96 39-60 (81)
24 cd06401 PB1_TFG The PB1 domain 27.1 66 0.0014 21.6 2.4 29 71-99 39-67 (81)
25 COG2916 Hns DNA-binding protei 27.1 27 0.00058 25.5 0.5 38 73-112 85-122 (128)
26 cd06407 PB1_NLP A PB1 domain i 27.0 54 0.0012 21.7 2.0 27 74-100 39-65 (82)
27 cd06409 PB1_MUG70 The MUG70 pr 25.8 85 0.0018 21.2 2.8 32 71-102 39-70 (86)
28 cd05992 PB1 The PB1 domain is 25.5 56 0.0012 20.4 1.8 29 74-102 39-67 (81)
29 COG2941 CAT5 Ubiquinone biosyn 25.3 29 0.00064 27.1 0.5 11 98-108 78-88 (204)
30 PF06486 DUF1093: Protein of u 25.2 92 0.002 19.9 2.8 22 74-95 28-49 (78)
31 PF14657 Integrase_AP2: AP2-li 25.0 1.2E+02 0.0027 17.3 3.1 22 75-96 3-25 (46)
32 cd06402 PB1_p62 The PB1 domain 24.8 1.1E+02 0.0023 20.7 3.2 27 74-100 46-72 (87)
33 cd00659 Topo_IB_C DNA topoisom 22.7 2.8E+02 0.006 21.7 5.6 69 58-127 69-144 (218)
34 KOG3416 Predicted nucleic acid 22.6 60 0.0013 23.8 1.7 42 40-81 60-103 (134)
35 smart00204 TGFB Transforming g 22.4 1.4E+02 0.0031 20.2 3.5 34 64-97 63-96 (102)
36 KOG0782 Predicted diacylglycer 22.2 73 0.0016 29.3 2.4 23 23-45 353-375 (1004)
37 KOG1349 Gpi-anchor transamidas 21.6 59 0.0013 26.8 1.6 47 56-103 260-306 (309)
38 TIGR01655 yxeA_fam conserved h 20.9 1.4E+02 0.0031 20.7 3.3 21 74-94 55-75 (114)
39 PF00564 PB1: PB1 domain; Int 20.9 54 0.0012 20.7 1.0 29 73-101 39-67 (84)
No 1
>COG0242 Def N-formylmethionyl-tRNA deformylase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-55 Score=330.15 Aligned_cols=129 Identities=37% Similarity=0.707 Sum_probs=119.9
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCC-CCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGER-GEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKID 79 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~-~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~ 79 (130)
|++|||++.||||||||||+++|+||++...+. .+..+.+||||+|++.|.+....+|||||+||+++.|+||.+|+|+
T Consensus 35 M~etm~~~~GVGLAApQIGi~kri~vi~~~~~~~~~~~~~vlINP~I~~~~~~~~~~~EGCLSvP~~~~~V~R~~~I~V~ 114 (168)
T COG0242 35 MLETMYAAEGVGLAAPQIGISKRIFVIDVEEDGRPKEPPLVLINPEIISKSEETLTGEEGCLSVPGVRGEVERPERITVK 114 (168)
T ss_pred HHHHHHhCCCeeeeehhcCceeeEEEEEccCccCcCcCceEEECCEEeecCCcccccCcceEeecCceeeeecccEEEEE
Confidence 899999999999999999999999999986542 2345689999999999888889999999999999999999999999
Q ss_pred EEcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHhc
Q 032961 80 ARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLE 129 (130)
Q Consensus 80 ~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~~ 129 (130)
|+|.+|++++++++||+|||+|||+|||+|+||+||+++.+++.++++++
T Consensus 115 ~~D~~G~~~~~~a~G~lA~~iQHEiDHLnGvlf~D~l~~~k~~~~~~~~~ 164 (168)
T COG0242 115 YLDRNGKPQELEAEGLLARCIQHEIDHLNGVLFIDRLSPLKRDRLKKKLK 164 (168)
T ss_pred EEcCCCCEEEEEEcCceeEEeEeeccccCcEEeeeecChhhhhhHHHHHH
Confidence 99999999999999999999999999999999999999988888877754
No 2
>PRK12846 peptide deformylase; Reviewed
Probab=100.00 E-value=1.3e-53 Score=320.57 Aligned_cols=127 Identities=36% Similarity=0.666 Sum_probs=117.2
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA 80 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~~ 80 (130)
|++||++++|+||||||||+++|+||++.... ...+.+||||+|++.|++....+|||||+||+++.|+||.+|+|+|
T Consensus 36 M~~tm~~~~gvGLAApQVG~~~ri~vi~~~~~--~~~~~vliNP~I~~~s~~~~~~~EGCLS~Pg~~~~V~R~~~I~v~~ 113 (165)
T PRK12846 36 MFETMRAADGVGLAAPQIGVSLRVVVIDLGDD--RVPPTVLINPEITELSPEEEVGWEGCLSVPGLRGEVERPARVRVRA 113 (165)
T ss_pred HHHHHHhCCCcEEeccccCCceeEEEEEccCC--CCcceEEECCEEEcCCCCEeccCCCCCccCCcceeecCcceEEEEE
Confidence 78999999999999999999999999997532 2346899999999999888778999999999999999999999999
Q ss_pred EcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHhc
Q 032961 81 RDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLE 129 (130)
Q Consensus 81 ~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~~ 129 (130)
+|++|++++.+++||+|||||||+|||+|+||+||+++..+..+.++++
T Consensus 114 ~d~~G~~~~~~~~g~~Ar~~QHEiDHL~G~lf~Drl~~~~~~~~~~~~~ 162 (165)
T PRK12846 114 QDRDGKPIEIEAEGFLARVLQHEIDHLDGILYTDRLSRLKRERALKKVE 162 (165)
T ss_pred ECCCCCEEEEEEeCHHHhHHhHHhHhcCCEeehhhCCHHHhHHHHHHhh
Confidence 9999999999999999999999999999999999999988887766653
No 3
>TIGR00079 pept_deformyl peptide deformylase. Peptide deformylase (EC 3.5.1.88), also called polypeptide deformylase, is a metalloenzyme that uses water to release formate from the N-terminal formyl-L-methionine of bacterial and chloroplast peptides. This enzyme should not be confused with formylmethionine deformylase (EC 3.5.1.31) which is active on free N-formyl methionine and has been reported from rat intestine.
Probab=100.00 E-value=3.3e-53 Score=317.38 Aligned_cols=128 Identities=41% Similarity=0.693 Sum_probs=117.8
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA 80 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~~ 80 (130)
|++||++++|+||||||||+++|+||++.+... ...+.+||||+|++.|++....+|||||+||+++.|+||.+|+|+|
T Consensus 33 M~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~-~~~~~v~iNP~I~~~s~~~~~~~EGCLS~Pg~~~~V~R~~~I~v~y 111 (161)
T TIGR00079 33 MIETMYAEEGIGLAAPQVGIWKRMFVIHLEDDD-KEDPLVLINPKIIETSGEKSGLEEGCLSVPGVYGYVPRPEKVKIRG 111 (161)
T ss_pred HHHHHHhCCCeEEehhhcCcceeEEEEEccCCc-CccceEEECCeeccCCCcEeccCcCCCccCCccceecChhheEEEE
Confidence 889999999999999999999999999975432 1236899999999999887777899999999999999999999999
Q ss_pred EcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHhc
Q 032961 81 RDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLE 129 (130)
Q Consensus 81 ~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~~ 129 (130)
+|++|++++.+++||+|||+|||+|||+|+||+||+++..+..+.+++.
T Consensus 112 ~d~~G~~~~~~~~G~~Ar~iQHEiDHL~G~l~~D~l~~~~~~~~~~~~~ 160 (161)
T TIGR00079 112 FDRFGKPFTIEASGLLARCIQHEMDHLNGVLFVDRISPLKPEKEKKELK 160 (161)
T ss_pred ECCCCCEEEEEEeCHHHhHHhHHhHhcCCEeeeeecChhhhhHHHHhhh
Confidence 9999999999999999999999999999999999999998888887763
No 4
>PRK14597 peptide deformylase; Provisional
Probab=100.00 E-value=2.7e-53 Score=319.20 Aligned_cols=123 Identities=41% Similarity=0.705 Sum_probs=114.1
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA 80 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~~ 80 (130)
|++||++++|+||||||||+++|+||++.. .++.+||||+|++.|++....+|||||+||+++.|+||.+|+|+|
T Consensus 32 M~~tm~~~~GvGLAApQIGv~~ri~vi~~~-----~~~~v~INP~I~~~s~~~~~~~EGCLS~Pg~~~~V~R~~~I~v~~ 106 (166)
T PRK14597 32 MIETMYHYDGVGLAAPQVGISLRFFVMDDG-----SGPKVVINPEIIEKSEEKEIAEEGCLSFPEIFEDVERSKWVKVRY 106 (166)
T ss_pred HHHHHHhCCCcEEehhhcCCceeEEEEEcC-----CCceEEECCeeccCCCCcccCCCCCCccCCCceEecCCCEEEEEE
Confidence 789999999999999999999999999963 236799999999999987778999999999999999999999999
Q ss_pred EcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHh
Q 032961 81 RDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQL 128 (130)
Q Consensus 81 ~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~ 128 (130)
+|++|++++.+++||+|||+|||+|||+|+||+||+++..+..+.+++
T Consensus 107 ~d~~G~~~~~~~~G~~Ar~iQHEiDHL~G~lfiDrl~~~~~~~~~~~~ 154 (166)
T PRK14597 107 QDERGEVVEELLEGYAARIFQHEYDHLNGVLFIDRLPPAKRLLLRKKL 154 (166)
T ss_pred ECCCCCEEEEEEeCHHHHHHHHHhHhhCCEeehhccChhHHHHHHHHH
Confidence 999999999999999999999999999999999999988777665543
No 5
>PRK00150 def peptide deformylase; Reviewed
Probab=100.00 E-value=1.2e-52 Score=315.42 Aligned_cols=127 Identities=43% Similarity=0.777 Sum_probs=115.4
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEe-eCeeeccccCCCeeeecCCCceEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMI-PYEEGCLSFPGIHADVERPESVKID 79 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~-~~~EgClS~pg~~~~V~R~~~I~v~ 79 (130)
|++||++++|+||||||||+++|+||++..+. +..+.+||||+|++.|.+.. ..+|||||+||+++.|+||.+|+|+
T Consensus 35 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~--~~~~~v~iNP~I~~~s~~~~~~~~EGCLS~pg~~~~V~R~~~I~v~ 112 (165)
T PRK00150 35 MFETMYAAPGVGLAAPQVGVSKRIIVIDVEDK--EGEPLVLINPEIISESSEEYLTYEEGCLSVPGVYGEVPRPERVTVK 112 (165)
T ss_pred HHHHHHhCCCcEEEhhhcCcceeEEEEEccCC--CCceeEEECCEEecCCCCeeccCCCCCCccCCeeeEecCcceeEEE
Confidence 78999999999999999999999999997432 22578999999999886655 4899999999999999999999999
Q ss_pred EEcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHhc
Q 032961 80 ARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLE 129 (130)
Q Consensus 80 ~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~~ 129 (130)
|+|++|++++.+++||+|||+|||+|||+|+||+||+++..+..+.++++
T Consensus 113 ~~d~~G~~~~~~~~g~~Ar~~QHE~DHL~G~l~~Drl~~~~~~~~~~~~~ 162 (165)
T PRK00150 113 ALDRDGKPFELEADGLLARCIQHEIDHLNGVLFIDRLSPLKRFRIKKKLK 162 (165)
T ss_pred EECCCCCEEEEEEeCHhhhHHhHHhHhhCCEEeeeecChhHHHHHHHHhh
Confidence 99999999999999999999999999999999999999988877766653
No 6
>PRK14598 peptide deformylase; Provisional
Probab=100.00 E-value=8.8e-53 Score=321.58 Aligned_cols=127 Identities=39% Similarity=0.679 Sum_probs=115.2
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCC--CCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGER--GEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKI 78 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~--~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v 78 (130)
|++||++++|+||||||||+++|+||++..... ....+.+||||+|++.|+. ...+|||||+||+++.|+||.+|+|
T Consensus 34 M~~tm~~~~GvGLAApQVG~~~Ri~vid~~~~~~~~~~~~~v~INP~I~~~s~~-~~~~EGCLSvPg~~~~V~R~~~I~v 112 (187)
T PRK14598 34 MFESMYNASGIGLAAPQVGRSLRLLVVDVSCMKEYEDEKPMVVINPHILAVKGY-NAMEEGCLSVPGVQGDVVRPSSITL 112 (187)
T ss_pred HHHHHHhCCCeEEehhhcCCceeEEEEEcccccccccccceEEECCeeccCCCc-ccCCCCCccCCCcceEEeccCEEEE
Confidence 899999999999999999999999999975322 1224679999999998875 4589999999999999999999999
Q ss_pred EEEcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHh
Q 032961 79 DARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQL 128 (130)
Q Consensus 79 ~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~ 128 (130)
+|+|++|++++.+++||+|||||||+|||+|+||+||+++..+..+.+++
T Consensus 113 ~~~d~~G~~~~~~~~G~~Ar~iQHEiDHL~G~LfiDrl~~~~~~~~~~~~ 162 (187)
T PRK14598 113 KYRDEHFEERTEEFSGMMARVLQHEIDHLDGTLFVDRMQKRDRRKIQKEL 162 (187)
T ss_pred EEECCCCCEEEEEEecHhhhHHhHhhhccCCEEEEEecChhhhHHHHHHH
Confidence 99999999999999999999999999999999999999998888877765
No 7
>PRK14595 peptide deformylase; Provisional
Probab=100.00 E-value=9.8e-53 Score=315.11 Aligned_cols=118 Identities=30% Similarity=0.500 Sum_probs=110.2
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA 80 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~~ 80 (130)
|++|||+++|+||||||||+++|+||++... .++.+||||+|++.|++....+|||||+||+++.|+||.+|+|+|
T Consensus 35 M~~tm~~~~gvGLAApQVG~~~ri~vi~~~~----~~~~vlINP~I~~~s~~~~~~~EGCLSvPg~~~~V~R~~~I~v~~ 110 (162)
T PRK14595 35 LEDTMYAQEAAALCAPQIGQSLQVAIIDMEM----EGLLQLVNPKIISQSNETITDLEGSITLPDVYGEVTRSKMIVVES 110 (162)
T ss_pred HHHHHhhCCCcEEechhcCCceeEEEEEccC----CCceEEECCeeecCCCCEeeCCcCCccCCCcceEecCCCEEEEEE
Confidence 7899999999999999999999999998742 236899999999999998778999999999999999999999999
Q ss_pred EcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHH
Q 032961 81 RDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLD 122 (130)
Q Consensus 81 ~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~ 122 (130)
+|++|++++++++||+|||+|||+|||+|+||+||+++...+
T Consensus 111 ~D~~G~~~~~~~~g~~Ar~~QHEiDHL~G~lf~Drl~~~~~~ 152 (162)
T PRK14595 111 YDVNGNKVELTAYDDVARMILHIIDQMNGIPFTERADRILTD 152 (162)
T ss_pred ECCCCCEEEEEEeCHHHHHHHHHhHccCCEEEeeecCccccc
Confidence 999999999999999999999999999999999999766544
No 8
>PF01327 Pep_deformylase: Polypeptide deformylase; InterPro: IPR023635 Peptide deformylase (PDF) is an essential metalloenzyme required for the removal of the formyl group at the N terminus of nascent polypeptide chains in eubacteria: 3.5.1.88 from EC []. The enzyme acts as a monomer and binds a single zinc ion, catalysing the reaction:: N-formyl-L-methionine + H2O = formate + methionyl peptide Catalytic efficiency strongly depends on the identity of the bound metal []. The structure of these enzymes is known [, ]. PDF, a member of the zinc metalloproteases family, comprises an active core domain of 147 residues and a C-terminal tail of 21 residue. The 3D fold of the catalytic core has been determined by X-ray crystallography and NMR. Overall, the structure contains a series of anti-parallel beta- strands that surround two perpendicular alpha-helices. The C-terminal helix contains the characteristic HEXXH motif of metalloenzymes, which is crucial for activity. The helical arrangement, and the way the histidine residues bind the zinc ion, is reminiscent of other metalloproteases, such as thermolysin or metzincins. However, the arrangement of secondary and tertiary structures of PDF, and the positioning of its third zinc ligand (a cysteine residue), are quite different. These discrepancies, together with notable biochemical differences, suggest that PDF constitutes a new class of zinc-metalloproteases. [].; PDB: 2OS1_A 2OS0_A 1LME_B 3QU1_A 1N5N_B 1S17_B 1LRY_A 1IX1_A 1WS1_A 1WS0_A ....
Probab=100.00 E-value=1.6e-52 Score=311.68 Aligned_cols=121 Identities=40% Similarity=0.749 Sum_probs=108.4
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCce--eEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGE--EIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKI 78 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~--~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v 78 (130)
|++||++.+|+||||||||+++|+||++......... ..+||||+|+..|.++...||||||+||+++.|+||.+|+|
T Consensus 34 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~~~v~INP~I~~~s~~~~~~~EgClS~p~~~~~V~R~~~I~v 113 (156)
T PF01327_consen 34 MFETMYAANGVGLAAPQIGIPKRIFVIDIPDEKPEPSEPETVLINPKITSSSEETVEDWEGCLSVPGIRGKVERPKKITV 113 (156)
T ss_dssp HHHHHHHTTBSEEEGGGGTS-BSEEEEEEETTSSSESEEEEEEEEEEEEESSEEEEEEEEEETTSTTEEEEEEEESEEEE
T ss_pred HHHHHHHhccceEehhhcCchheEEEEecCcccccCCccceEEECCEEecccCCcCccccCCCccCCccccCCCcceEEE
Confidence 7899999999999999999999999999765433222 25999999999999999999999999999999999999999
Q ss_pred EEEcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHH
Q 032961 79 DARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVL 121 (130)
Q Consensus 79 ~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~ 121 (130)
+|+|++|++++.+++||.|||+|||+|||+|+||+||+++++|
T Consensus 114 ~~~d~~G~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~r 156 (156)
T PF01327_consen 114 RYYDLDGKPIELEAEGFLARCIQHEIDHLNGILFIDRLSPKKR 156 (156)
T ss_dssp EEEETTS-EEEEEEEHHHHHHHHHHHHHHTT--GGGGSSHHHH
T ss_pred EEECCCCeEEEEEEccccEEeeeehhhhhCCEehhhccCccCC
Confidence 9999999999999999999999999999999999999999875
No 9
>PRK14596 peptide deformylase; Provisional
Probab=100.00 E-value=1.1e-51 Score=318.06 Aligned_cols=127 Identities=37% Similarity=0.689 Sum_probs=110.7
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEec-CCCCC-C-----------ceeEEEEcceEEeeCCcEeeCeeeccccCCCe
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNP-VGERG-E-----------GEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIH 67 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~-~~~~~-~-----------~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~ 67 (130)
|++|||+++||||||||||+++|+||++. ..... . ..+.+||||+|++.|+. ...+|||||+||++
T Consensus 34 M~eTM~~~~GvGLAApQIGv~~Ri~Vid~~~~~~~~~~~~~~~~~~~~~~~~vlINP~I~~~s~~-~~~~EGCLSvPg~~ 112 (199)
T PRK14596 34 MLETMFEARGVGLAAPQIGLSVRLFVAVEYADDEEEEEGEEAPLRSRVLREYVMVNPVITYRKGD-QSGQEGCLSIPGLY 112 (199)
T ss_pred HHHHHHhCCCcEEehhhcCCceeEEEEEeccCccccccccccccccccccceEEECCEEecCCCc-ccCCcCcccccCcc
Confidence 89999999999999999999999999973 21110 0 02579999999987776 46899999999998
Q ss_pred e-eecCCCceEEEEEcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHHh
Q 032961 68 A-DVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQL 128 (130)
Q Consensus 68 ~-~V~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~~ 128 (130)
+ .|+||.+|+|+|+|++|++++++++||+|||||||+|||+|+||+||+++..+..+.+++
T Consensus 113 ~~~V~R~~~I~v~~~D~~G~~~~~~~~G~~Ar~iQHEiDHL~GiLfiDrl~~~~~~~~~~~~ 174 (199)
T PRK14596 113 EEGVPRARQVRVEYQDLDGQKRTLEAEGYLARVFQHEIDHLDGILFFDRLPKAKREAFLEAH 174 (199)
T ss_pred ceeeeccCEEEEEEECCCCCEEEEEEeChhhhhhhhhhhhcCCEeehhcCCHHHHHHHHHHH
Confidence 5 799999999999999999999999999999999999999999999999988777665543
No 10
>cd00487 Pep_deformylase Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II) as the catalytic metal ion, which can be replaced with a nickel or cobalt ion with no loss of activity. There are two types of peptide deformylases, types I and II, which differ in structure only in the outer surface of the domain. Because these enzymes are essential only in prokaryotes (although eukaryotic gene sequences have been found), they are a target for a new class of antibacterial agents.
Probab=100.00 E-value=1.6e-50 Score=296.93 Aligned_cols=112 Identities=40% Similarity=0.726 Sum_probs=104.8
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEEE
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA 80 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~~ 80 (130)
|++||++++|+||||||||+++|+||++.+.......+.+||||+|++.|++....+|||||+||+++.|+||.+|+|+|
T Consensus 30 m~~tm~~~~gvGLAApQIG~~~ri~vv~~~~~~~~~~~~v~INP~I~~~s~~~~~~~EgCLS~pg~~~~V~R~~~I~v~~ 109 (141)
T cd00487 30 MFETMYAAPGVGLAAPQIGVSKRIFVIDVPDEENKEPPLVLINPEIIESSGETEYGEEGCLSVPGYRGEVERPKKVTVRY 109 (141)
T ss_pred HHHHHHhCCCcEEEhhhcCCceeEEEEEcccccccccceEEECCeEeccCCCEeeCCcCCcCcCCcceEecCcCEEEEEE
Confidence 78999999999999999999999999998653233457899999999999998777999999999999999999999999
Q ss_pred EcCCCCEEEEEEeccceehHhhhhhhhCCcee
Q 032961 81 RDINGARFSVSLSDLPARVFQHEFDHLQGILF 112 (130)
Q Consensus 81 ~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~ 112 (130)
+|++|++++.+++||.|||+|||+|||+|+||
T Consensus 110 ~d~~G~~~~~~~~g~~Ar~~QHEiDHL~G~l~ 141 (141)
T cd00487 110 LDEDGNPIELEAEGFLARCIQHEIDHLNGILF 141 (141)
T ss_pred ECCCCCEEEEEEeCHhhhhHhHHhHhhCCEEC
Confidence 99999999999999999999999999999997
No 11
>PRK09218 peptide deformylase; Validated
Probab=100.00 E-value=1.9e-47 Score=279.43 Aligned_cols=105 Identities=28% Similarity=0.502 Sum_probs=97.3
Q ss_pred ChHhhhcC--CCeEEeccccCccceEEEEecCCCCCCceeEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEE
Q 032961 1 MFDVMYKT--DGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKI 78 (130)
Q Consensus 1 m~~tm~~~--~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v 78 (130)
|++||+++ +|+||||||||+++|+||++.. ..+.+||||+|++.|++. ..+|||||+||+. .|+||.+|+|
T Consensus 30 M~~tm~~~~~~gvGLAApQIGv~~ri~vi~~~-----~~~~vlINP~I~~~s~~~-~~~EGCLS~P~~~-~V~R~~~I~v 102 (136)
T PRK09218 30 LQDTLLANRDECVGMAANMIGVQKRIIIFSLG-----FVPVVMFNPVIVSKSGPY-ETEEGCLSLTGER-PTKRYEEITV 102 (136)
T ss_pred HHHHHHhcCCCCEEEEHHHCCcCceEEEEECC-----CCcEEEECCEEecCCCce-eCCccceecCCCc-cccCcceeEE
Confidence 89999998 5899999999999999999873 146899999999988775 5789999999997 8999999999
Q ss_pred EEEcCCCCEEEEEEeccceehHhhhhhhhCCcee
Q 032961 79 DARDINGARFSVSLSDLPARVFQHEFDHLQGILF 112 (130)
Q Consensus 79 ~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~ 112 (130)
+|+|++|++++.+++||+|||+|||+|||+|+|+
T Consensus 103 ~~~d~~G~~~~~~~~g~~Ar~iQHEiDHL~G~L~ 136 (136)
T PRK09218 103 KYLDRNWREQTQTFTGFTAQIIQHELDHCEGILI 136 (136)
T ss_pred EEECCCCCEEEEEEeChhhhhhhhHhhccCCEEC
Confidence 9999999999999999999999999999999985
No 12
>KOG3137 consensus Peptide deformylase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-43 Score=272.63 Aligned_cols=127 Identities=64% Similarity=1.106 Sum_probs=117.2
Q ss_pred ChHhhhcCCCeEEeccccCccceEEEEecCCC-------C-------CCceeEEEEcceEEeeCCcEeeCeeeccccCCC
Q 032961 1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGE-------R-------GEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGI 66 (130)
Q Consensus 1 m~~tm~~~~gvGLAApQIG~~~ri~vi~~~~~-------~-------~~~~~~v~iNP~I~~~s~~~~~~~EgClS~pg~ 66 (130)
|+++|+..+||||||||||+|.|++|+++..+ . ...+..||+||++-.+|+..+.+.|||||+||+
T Consensus 113 m~~VMr~~~gVGLsAPQvGvp~q~~vle~~~alcrecP~~~ra~rqmepf~l~V~VNP~lk~~s~klv~F~EGClSv~Gf 192 (267)
T KOG3137|consen 113 MFDVMRKTDGVGLSAPQVGVPVQLMVLEPAGALCRECPEPGRAERQMEPFKLIVLVNPKLKKYSDKLVPFDEGCLSVPGF 192 (267)
T ss_pred HHHHHHhCCCccccCcccCCceEEEEecChHHHHhcCCChhhhHhhccCCCeEEEecchHhhhcccccccccccccccch
Confidence 89999999999999999999999999997641 1 123568999999999999999999999999999
Q ss_pred eeeecCCCceEEEEEcCCCCEEEEEEeccceehHhhhhhhhCCceeeecCCHHHHHHHHHH
Q 032961 67 HADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQ 127 (130)
Q Consensus 67 ~~~V~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~~Dr~~~~~~~~~~~~ 127 (130)
++.|+||..|.|.++|.+|+.+++.++||.||+||||+|||+|.||+|+|++.....+...
T Consensus 193 ~A~V~R~q~V~i~g~D~~Ger~~~~aSgw~ARI~QHE~DHL~G~Lf~DkM~~rtf~~V~~~ 253 (267)
T KOG3137|consen 193 YAEVVRPQSVKIDGRDITGERFSISASGWPARIFQHEYDHLEGVLFFDKMTDRTFDSVREE 253 (267)
T ss_pred hhcccccceEEEeeecCCCCEEEEecccchHHHHHhHhhhhcceeeeeecccHhHhHHHHh
Confidence 9999999999999999999999999999999999999999999999999999988876544
No 13
>COG4740 Predicted metalloprotease [General function prediction only]
Probab=98.39 E-value=2.6e-07 Score=68.60 Aligned_cols=71 Identities=23% Similarity=0.357 Sum_probs=56.2
Q ss_pred eEEEEcceEEeeCCcEeeCeeeccccCCCeeeecCCCceEEEEE-------cCCCC--------EEEEEEeccceehHhh
Q 032961 38 EIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDAR-------DINGA--------RFSVSLSDLPARVFQH 102 (130)
Q Consensus 38 ~~v~iNP~I~~~s~~~~~~~EgClS~pg~~~~V~R~~~I~v~~~-------d~~g~--------~~~~~~~g~~Ar~~QH 102 (130)
.+.|+||+|++..+. ....|.|.+-.-. ..|.||.+++|+.. |.--. +.++.++|..|.-+.|
T Consensus 75 ~YLflNPeIi~~EGt-~~RlEKCG~r~eR-elv~RPyR~~vr~d~~l~a~vdPg~~~IRvreL~k~~lrl~G~pAy~~aH 152 (176)
T COG4740 75 LYLFLNPEIIRAEGT-LTRLEKCGRRRER-ELVKRPYRLEVRHDGGLIARVDPGRRRIRVRELDKGTLRLEGIPAYNLAH 152 (176)
T ss_pred eeeeeChhheeccce-EEehhhhcchHHH-HHhcCCeEEEEecCceEEEEECCccceEEEEecCCCeEEEecCccchhHH
Confidence 579999999986555 6789999987653 57899999998864 32222 2358899999999999
Q ss_pred hhhhhCCc
Q 032961 103 EFDHLQGI 110 (130)
Q Consensus 103 EiDHL~G~ 110 (130)
|+.||+|-
T Consensus 153 EleHLeg~ 160 (176)
T COG4740 153 ELEHLEGD 160 (176)
T ss_pred HHHHhhcC
Confidence 99999983
No 14
>PHA02858 EIF2a-like PKR inhibitor; Provisional
Probab=57.01 E-value=12 Score=25.47 Aligned_cols=53 Identities=17% Similarity=0.330 Sum_probs=34.3
Q ss_pred eeccccCCCeeeecCCCceEEEEEcCCCCEEEEEEeccceehHhhhhhhhCCcee-eecCCHHHHHHHHHH
Q 032961 58 EGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILF-FERMTDDVLDSIREQ 127 (130)
Q Consensus 58 EgClS~pg~~~~V~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~-~Dr~~~~~~~~~~~~ 127 (130)
-=|-++|..-..+. . .....+.-|.+--.|+| ++|.+. .-.++.+.-+++.|.
T Consensus 8 afcy~~P~v~dvv~-----~-----------Vv~i~d~~~YV~LleY~-iegmIl~~selsr~rirsi~kl 61 (86)
T PHA02858 8 AFCYVFPNINEVTK-----G-----------IVFVKDNIFYVKLIDYG-LEALIVNYVNVNADRAEKLKKK 61 (86)
T ss_pred EEEEecCCCCeEEE-----E-----------EEEEeccEEEEEEecCc-cceEEecHHHHhHHHHHhhhhh
Confidence 35999999854442 2 34556677888889999 888865 444555554454443
No 15
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=50.63 E-value=31 Score=22.30 Aligned_cols=32 Identities=19% Similarity=0.364 Sum_probs=25.4
Q ss_pred CCCceEEEEEcCCCCEEEEEEeccceehHhhh
Q 032961 72 RPESVKIDARDINGARFSVSLSDLPARVFQHE 103 (130)
Q Consensus 72 R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHE 103 (130)
+....+|+..|.+|+++++.++.-.-.+++.|
T Consensus 52 ~~g~yev~~~~~dG~~~ev~vD~~tG~V~~~k 83 (83)
T PF13670_consen 52 DDGCYEVEARDKDGKKVEVYVDPATGEVVKEK 83 (83)
T ss_pred CCCEEEEEEEECCCCEEEEEEcCCCCeEeecC
Confidence 44457888999999999999998777766543
No 16
>cd03074 PDI_b'_Calsequestrin_C Protein Disulfide Isomerase (PDIb') family, Calsequestrin subfamily, C-terminal TRX-fold domain; Calsequestrin is the major calcium storage protein in the sarcoplasmic reticulum (SR) of skeletal and cardiac muscle. It stores calcium ions in sufficient quantities (up to 20 mM) to allow repetitive contractions and is essential to maintain movement, respiration and heart beat. A missense mutation in human cardiac calsequestrin is associated with catecholamine-induced polymorphic ventricular tachycardia (CPVT), a rare disease characterized by seizures or sudden death in response to physiologic or emotional stress. Calsequestrin is a highly acidic protein with up to 50 calcium binding sites formed simply by the clustering of two or more acidic residues. The monomer contains three redox inactive TRX-fold domains. Calsequestrin is condensed as a linear polymer in the SR lumen and is membrane-anchored through binding with intra-membrane proteins triadin, junctin
Probab=46.84 E-value=7.7 Score=27.82 Aligned_cols=24 Identities=42% Similarity=0.455 Sum_probs=17.1
Q ss_pred hHhhhcCCCeEEeccccCccceEEEEecCC
Q 032961 2 FDVMYKTDGIGLSAPQVGINVQLMVFNPVG 31 (130)
Q Consensus 2 ~~tm~~~~gvGLAApQIG~~~ri~vi~~~~ 31 (130)
.+-..+.-++-|+.|||| |+|.+.
T Consensus 69 v~yWektF~IDl~~PqIG------VV~vtd 92 (120)
T cd03074 69 VPYWEKTFGIDLFRPQIG------VVNVTD 92 (120)
T ss_pred hHHHHhhcCcccCCCcee------eEeccc
Confidence 344455678999999999 566554
No 17
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=46.39 E-value=16 Score=23.19 Aligned_cols=30 Identities=13% Similarity=0.183 Sum_probs=24.8
Q ss_pred CceEEEEEcCCCCEEEEEEeccceehHhhh
Q 032961 74 ESVKIDARDINGARFSVSLSDLPARVFQHE 103 (130)
Q Consensus 74 ~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHE 103 (130)
..+.++|.|.+|..+.+.-+.-+..++++-
T Consensus 39 ~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~ 68 (81)
T smart00666 39 QSFTLKYQDEDGDLVSLTSDEDLEEAIEEY 68 (81)
T ss_pred CCeEEEEECCCCCEEEecCHHHHHHHHHHH
Confidence 678999999999999888887777776653
No 18
>smart00435 TOPEUc DNA Topoisomerase I (eukaryota). DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras
Probab=32.29 E-value=83 Score=27.07 Aligned_cols=71 Identities=17% Similarity=0.249 Sum_probs=51.9
Q ss_pred eeeccccCCCeeeecCCCceEEEEEcCCCCEEEEE--EeccceehHhhhhhh-hCCceeeecCCHHHHHHHHHH
Q 032961 57 EEGCLSFPGIHADVERPESVKIDARDINGARFSVS--LSDLPARVFQHEFDH-LQGILFFERMTDDVLDSIREQ 127 (130)
Q Consensus 57 ~EgClS~pg~~~~V~R~~~I~v~~~d~~g~~~~~~--~~g~~Ar~~QHEiDH-L~G~l~~Dr~~~~~~~~~~~~ 127 (130)
.=||.|+----..+..+..|++.|.-.+|..+..+ .+--+++.++-=.|. +-|--.+|++++...+...++
T Consensus 141 T~Gl~TLR~eHV~l~~~~~v~fdF~GKdgir~~~~v~vd~~l~k~L~~~~~~k~pg~~LF~~l~s~~lN~yLke 214 (391)
T smart00435 141 TVGCCSLRVEHVTLKPPNKVIFDFLGKDSIRYYNEVEVDKQVFKNLKIFMKPKKPGDDLFDRLNTSKLNKHLKE 214 (391)
T ss_pred CEeecccchhheEecCCCEEEEEEeCCCCcEEEEEEecCHHHHHHHHHHhcCCCChHHHHhhCCHHHHHHHHHH
Confidence 44899987765666667999999999999999555 455677777666652 556655688988888765544
No 19
>PF04986 Y2_Tnp: Putative transposase; InterPro: IPR007069 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases IS1294 and IS801 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=31.55 E-value=50 Score=24.83 Aligned_cols=45 Identities=18% Similarity=0.177 Sum_probs=28.9
Q ss_pred eeccccCCCeeeecCCCceEEEEEcCC-CCEEEE--EEeccceehHhhhh
Q 032961 58 EGCLSFPGIHADVERPESVKIDARDIN-GARFSV--SLSDLPARVFQHEF 104 (130)
Q Consensus 58 EgClS~pg~~~~V~R~~~I~v~~~d~~-g~~~~~--~~~g~~Ar~~QHEi 104 (130)
-+++|-.-+... . -..|+.+|.|.. ++.... +...|.+|++||=.
T Consensus 116 R~~is~~Ri~~~-~-~~~V~f~y~d~~~~~~~~~~l~~~efi~r~l~Hvp 163 (183)
T PF04986_consen 116 RPAISNSRIVSY-D-DGTVTFRYKDHRTKKTKTLTLSAEEFIRRLLQHVP 163 (183)
T ss_pred hccccccceEEe-c-cceeEEEEEcCCCCcEEEEEechHHHHHHHHhhcC
Confidence 345555554332 2 677899999875 444444 44559999999943
No 20
>PF04237 YjbR: YjbR; InterPro: IPR007351 This is a family of uncharacterised proteins.; PDB: 3H9X_D 2KFP_A 2FKI_A 2A1V_A.
Probab=30.22 E-value=61 Score=21.08 Aligned_cols=13 Identities=46% Similarity=0.997 Sum_probs=9.2
Q ss_pred ccccCCCeeeecC
Q 032961 60 CLSFPGIHADVER 72 (130)
Q Consensus 60 ClS~pg~~~~V~R 72 (130)
|||+||......-
T Consensus 1 clslp~~~e~~~~ 13 (92)
T PF04237_consen 1 CLSLPGVEEDYPW 13 (92)
T ss_dssp HTTSTTEEEEECT
T ss_pred CCCCCCcEEECCC
Confidence 8999997655433
No 21
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=28.81 E-value=55 Score=22.12 Aligned_cols=32 Identities=9% Similarity=0.071 Sum_probs=25.9
Q ss_pred cCCCceEEEEEcCCCCEEEEEEeccceehHhh
Q 032961 71 ERPESVKIDARDINGARFSVSLSDLPARVFQH 102 (130)
Q Consensus 71 ~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QH 102 (130)
.+...+.++|.|.+|..+.++-+.-+.-|+|.
T Consensus 41 ~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 41 SPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred CCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 34568899999999999999888877666664
No 22
>PF11730 DUF3297: Protein of unknown function (DUF3297); InterPro: IPR021724 This family is expressed in Proteobacteria and Actinobacteria. The function is not known.
Probab=28.63 E-value=94 Score=20.34 Aligned_cols=38 Identities=21% Similarity=0.256 Sum_probs=26.7
Q ss_pred CcEeeCeeeccccCCCeeeecCCCceEEEEEcCCCCEEEEEEecc
Q 032961 51 NKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDL 95 (130)
Q Consensus 51 ~~~~~~~EgClS~pg~~~~V~R~~~I~v~~~d~~g~~~~~~~~g~ 95 (130)
.+...-.|-|.|--.++..+. .+.|..|++..+++.|-
T Consensus 29 ~Er~nVeEYciSEGWvrv~~g-------ka~DR~G~Pl~iklkG~ 66 (71)
T PF11730_consen 29 KERTNVEEYCISEGWVRVAAG-------KALDRRGNPLTIKLKGT 66 (71)
T ss_pred eEcccceeEeccCCEEEeecC-------cccccCCCeeEEEEcce
Confidence 344456788998655443332 35799999999999984
No 23
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=28.06 E-value=54 Score=21.95 Aligned_cols=22 Identities=18% Similarity=0.123 Sum_probs=19.0
Q ss_pred ceEEEEEcCCCCEEEEEEeccc
Q 032961 75 SVKIDARDINGARFSVSLSDLP 96 (130)
Q Consensus 75 ~I~v~~~d~~g~~~~~~~~g~~ 96 (130)
.+.++|.|.+|+++.++-+.-+
T Consensus 39 ~f~lKYlDde~e~v~lssd~eL 60 (81)
T cd06396 39 DIQIKYVDEENEEVSVNSQGEY 60 (81)
T ss_pred cceeEEEcCCCCEEEEEchhhH
Confidence 8999999999999998876543
No 24
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=27.12 E-value=66 Score=21.62 Aligned_cols=29 Identities=17% Similarity=0.122 Sum_probs=22.1
Q ss_pred cCCCceEEEEEcCCCCEEEEEEeccceeh
Q 032961 71 ERPESVKIDARDINGARFSVSLSDLPARV 99 (130)
Q Consensus 71 ~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~ 99 (130)
+-...+.|+|.|.+|.-++++-+--++-.
T Consensus 39 ~~~~~flIKYkD~dGDlVTIts~~dL~~A 67 (81)
T cd06401 39 GSSDDVLIKYKDEDGDLITIFDSSDLSFA 67 (81)
T ss_pred CCcccEEEEEECCCCCEEEeccHHHHHHH
Confidence 33468999999999999998876544433
No 25
>COG2916 Hns DNA-binding protein H-NS [General function prediction only]
Probab=27.06 E-value=27 Score=25.47 Aligned_cols=38 Identities=16% Similarity=0.101 Sum_probs=32.5
Q ss_pred CCceEEEEEcCCCCEEEEEEeccceehHhhhhhhhCCcee
Q 032961 73 PESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILF 112 (130)
Q Consensus 73 ~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHEiDHL~G~l~ 112 (130)
+..+.+.|+|.+|+..+++..|=.-+.++-.+|- |+-.
T Consensus 85 ~rpa~~~~~~~n~eg~TWTGrGR~P~wI~kAl~~--gKs~ 122 (128)
T COG2916 85 ARPAKYKYYDENGEGKTWTGRGRTPAWIGKALDE--GKSL 122 (128)
T ss_pred CCCCCCCeecCCCCCCcccCCCCCcHHHHHHHHc--cCcc
Confidence 4556889999999999999999999999999987 6543
No 26
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=27.02 E-value=54 Score=21.66 Aligned_cols=27 Identities=4% Similarity=-0.039 Sum_probs=21.9
Q ss_pred CceEEEEEcCCCCEEEEEEeccceehH
Q 032961 74 ESVKIDARDINGARFSVSLSDLPARVF 100 (130)
Q Consensus 74 ~~I~v~~~d~~g~~~~~~~~g~~Ar~~ 100 (130)
..+.++|.|.+|+++.++-+.-+.-|+
T Consensus 39 ~~f~LkY~Ddegd~v~ltsd~DL~eai 65 (82)
T cd06407 39 SAFDLKYLDDDEEWVLLTCDADLEECI 65 (82)
T ss_pred CeeEEEEECCCCCeEEeecHHHHHHHH
Confidence 689999999999999998876554443
No 27
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=25.82 E-value=85 Score=21.17 Aligned_cols=32 Identities=6% Similarity=-0.106 Sum_probs=26.9
Q ss_pred cCCCceEEEEEcCCCCEEEEEEeccceehHhh
Q 032961 71 ERPESVKIDARDINGARFSVSLSDLPARVFQH 102 (130)
Q Consensus 71 ~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QH 102 (130)
.+.....+.|.|-+|+++.++-+.-+.-|+.+
T Consensus 39 ~~~~~~~L~YlDDEgD~VllT~D~DL~e~v~i 70 (86)
T cd06409 39 FETHLYALSYVDDEGDIVLITSDSDLVAAVLV 70 (86)
T ss_pred ccCCcccEEEEcCCCCEEEEeccchHHHHHHH
Confidence 34678899999999999999999977777665
No 28
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=25.47 E-value=56 Score=20.45 Aligned_cols=29 Identities=17% Similarity=0.202 Sum_probs=23.4
Q ss_pred CceEEEEEcCCCCEEEEEEeccceehHhh
Q 032961 74 ESVKIDARDINGARFSVSLSDLPARVFQH 102 (130)
Q Consensus 74 ~~I~v~~~d~~g~~~~~~~~g~~Ar~~QH 102 (130)
..+.+.|.|.+|..+.+.-+.-+..++++
T Consensus 39 ~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~ 67 (81)
T cd05992 39 VSFKLKYPDEDGDLVTISSDEDLEEAIEE 67 (81)
T ss_pred CcEEEEeeCCCCCEEEeCCHHHHHHHHHH
Confidence 68899999999999988887666555555
No 29
>COG2941 CAT5 Ubiquinone biosynthesis protein COQ7 [Coenzyme metabolism]
Probab=25.33 E-value=29 Score=27.09 Aligned_cols=11 Identities=36% Similarity=0.610 Sum_probs=9.2
Q ss_pred ehHhhhhhhhC
Q 032961 98 RVFQHEFDHLQ 108 (130)
Q Consensus 98 r~~QHEiDHL~ 108 (130)
-+.+||+|||+
T Consensus 78 em~d~E~~HL~ 88 (204)
T COG2941 78 EMADEEIDHLA 88 (204)
T ss_pred HHHHHHHHHHH
Confidence 46789999996
No 30
>PF06486 DUF1093: Protein of unknown function (DUF1093); InterPro: IPR006542 These are a family of small (about 115 amino acids) uncharacterised proteins with N-terminal signal sequences, found exclusively in Gram-positive organisms. Most genomes that have any members of this family have at least two members.; PDB: 3NPP_B 2K5Q_A 2K5W_A.
Probab=25.18 E-value=92 Score=19.88 Aligned_cols=22 Identities=9% Similarity=0.182 Sum_probs=15.9
Q ss_pred CceEEEEEcCCCCEEEEEEecc
Q 032961 74 ESVKIDARDINGARFSVSLSDL 95 (130)
Q Consensus 74 ~~I~v~~~d~~g~~~~~~~~g~ 95 (130)
..=.+.++|.+|+..++++...
T Consensus 28 Y~Y~l~~yd~~G~~k~l~f~~~ 49 (78)
T PF06486_consen 28 YEYTLKGYDEDGKEKTLTFTAS 49 (78)
T ss_dssp EEEEEEEEETT--EEEEEEEES
T ss_pred EEEEEEEECCCCCEEEEEEEec
Confidence 3457889999999999988764
No 31
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=24.98 E-value=1.2e+02 Score=17.33 Aligned_cols=22 Identities=14% Similarity=0.105 Sum_probs=17.8
Q ss_pred ceEEE-EEcCCCCEEEEEEeccc
Q 032961 75 SVKID-ARDINGARFSVSLSDLP 96 (130)
Q Consensus 75 ~I~v~-~~d~~g~~~~~~~~g~~ 96 (130)
.+.|. |.|.+|+.+...-.||.
T Consensus 3 ~~~v~g~~~~~Gkrk~~~k~GF~ 25 (46)
T PF14657_consen 3 YYRVYGYDDETGKRKQKTKRGFK 25 (46)
T ss_pred EEEEEEEECCCCCEEEEEcCCCC
Confidence 35664 78889999999999985
No 32
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=24.81 E-value=1.1e+02 Score=20.73 Aligned_cols=27 Identities=11% Similarity=0.102 Sum_probs=21.2
Q ss_pred CceEEEEEcCCCCEEEEEEeccceehH
Q 032961 74 ESVKIDARDINGARFSVSLSDLPARVF 100 (130)
Q Consensus 74 ~~I~v~~~d~~g~~~~~~~~g~~Ar~~ 100 (130)
..+++.|.|.+|..++++-+.-+...+
T Consensus 46 ~~ftlky~DeeGDlvtIssdeEL~~A~ 72 (87)
T cd06402 46 KNFQLFWKDEEGDLVAFSSDEELVMAL 72 (87)
T ss_pred CcEEEEEECCCCCEEeecCHHHHHHHH
Confidence 688999999999999987665544333
No 33
>cd00659 Topo_IB_C DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of replication, transcription, and recombination. Unlike Topo IA enzymes, Topo IB enzymes do not require a single-stranded region of DNA or metal ions for their function. The type IB family of DNA topoisomerases includes eukaryotic nuclear topoisomerase I, topoisomerases of poxviruses and bacterial versions of Topo IB. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their C-terminal catalytic domain and the overall reaction mechanism with tyrosine recombinases. The C-terminal catalytic domain in topoisomerases is linked to a divergent N-terminal domain that shows no sequence or structure similarity to the N-terminal domains of tyrosine recombinases.
Probab=22.73 E-value=2.8e+02 Score=21.68 Aligned_cols=69 Identities=19% Similarity=0.318 Sum_probs=49.6
Q ss_pred eeccccCCCeeeecCCCceEEEEEcCCCCEEEEEEec--cceehHhhhhhhhCCc-eee----ecCCHHHHHHHHHH
Q 032961 58 EGCLSFPGIHADVERPESVKIDARDINGARFSVSLSD--LPARVFQHEFDHLQGI-LFF----ERMTDDVLDSIREQ 127 (130)
Q Consensus 58 EgClS~pg~~~~V~R~~~I~v~~~d~~g~~~~~~~~g--~~Ar~~QHEiDHL~G~-l~~----Dr~~~~~~~~~~~~ 127 (130)
=||.|+-.--..+ ++..|.+.|...+|..+..+++. -++++++-=.|-+-|- ||. +.+++...+...++
T Consensus 69 ~GltTLr~~Hv~~-~~~~i~f~F~GK~g~~~~~~v~d~~~l~~~l~~~~~k~pg~~LF~y~~~~~v~s~~vN~yl~e 144 (218)
T cd00659 69 VGLCTLRKEHVTL-KPNVVRFDFLGKDSIRYENEVEVEPRLFKNLRKFLDKLPGDDLFQYLQVDRLNSSKLNAYLRE 144 (218)
T ss_pred EeecccchhheeE-eCCEEEEEEECCCCcEEEEEECChHHHHHHHHHHHHcCCcHHhhccCCCCcCCHHHHHHHHHH
Confidence 3888876654554 45899999999999999999999 7888887666634565 442 56676666654443
No 34
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=22.58 E-value=60 Score=23.78 Aligned_cols=42 Identities=17% Similarity=0.344 Sum_probs=30.3
Q ss_pred EEEcc-eEEeeCCcEeeCeeeccccC-CCeeeecCCCceEEEEE
Q 032961 40 VLVNP-RVNKYSNKMIPYEEGCLSFP-GIHADVERPESVKIDAR 81 (130)
Q Consensus 40 v~iNP-~I~~~s~~~~~~~EgClS~p-g~~~~V~R~~~I~v~~~ 81 (130)
-.||| .|++.++.....|-|||.+- |..+.+.+=....+.|-
T Consensus 60 ~~~~PGDIirLt~Gy~Si~qg~LtL~~GK~Ge~~KiGef~~vf~ 103 (134)
T KOG3416|consen 60 CLIQPGDIIRLTGGYASIFQGCLTLYVGKGGEVQKIGEFCMVFS 103 (134)
T ss_pred cccCCccEEEecccchhhhcCceEEEecCCceEeEeeeeEEeee
Confidence 45677 68888888888888898863 67777777666665554
No 35
>smart00204 TGFB Transforming growth factor-beta (TGF-beta) family. Family members are active as disulphide-linked homo- or heterodimers. TGFB is a multifunctional peptide that controls proliferation, differentiation, and other functions in many cell types.
Probab=22.45 E-value=1.4e+02 Score=20.23 Aligned_cols=34 Identities=9% Similarity=0.039 Sum_probs=26.4
Q ss_pred CCCeeeecCCCceEEEEEcCCCCEEEEEEeccce
Q 032961 64 PGIHADVERPESVKIDARDINGARFSVSLSDLPA 97 (130)
Q Consensus 64 pg~~~~V~R~~~I~v~~~d~~g~~~~~~~~g~~A 97 (130)
|+.-..-.+...+.+.|+|.+|+-+..++.++.+
T Consensus 63 ~~pCC~P~~~~~l~~ly~~~~~~i~~~~~~~Mvv 96 (102)
T smart00204 63 PKPCCVPTKLSPLSMLYYDDDGNVVLRNYPNMVV 96 (102)
T ss_pred CCCCccCceEecEEEEEEeCCCcEEEEEcCCCEE
Confidence 3333456688899999999999988888877665
No 36
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=22.20 E-value=73 Score=29.31 Aligned_cols=23 Identities=26% Similarity=0.410 Sum_probs=15.7
Q ss_pred eEEEEecCCCCCCceeEEEEcce
Q 032961 23 QLMVFNPVGERGEGEEIVLVNPR 45 (130)
Q Consensus 23 ri~vi~~~~~~~~~~~~v~iNP~ 45 (130)
|=|||.++........+||+||+
T Consensus 353 rpFvikPtsSplmkPLLVFVNPK 375 (1004)
T KOG0782|consen 353 RPFVIKPTSSPLMKPLLVFVNPK 375 (1004)
T ss_pred CceEEccCCCCCCCceEEEecCC
Confidence 45788776544344567999995
No 37
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=21.63 E-value=59 Score=26.78 Aligned_cols=47 Identities=17% Similarity=0.169 Sum_probs=35.3
Q ss_pred CeeeccccCCCeeeecCCCceEEEEEcCCCCEEEEEEeccceehHhhh
Q 032961 56 YEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHE 103 (130)
Q Consensus 56 ~~EgClS~pg~~~~V~R~~~I~v~~~d~~g~~~~~~~~g~~Ar~~QHE 103 (130)
-.|-|.|-||++...-+...-.|...|-.|+.. .+.--..+..++|+
T Consensus 260 ~~~~~~St~gvr~dl~~r~~~~v~itDFFg~vr-~~~~~~~~~~~~~~ 306 (309)
T KOG1349|consen 260 PKRLLGSTPGVRTDLYQRDPKDVLITDFFGSVR-IELHTSEEIKLDDE 306 (309)
T ss_pred ChhhhcCCcCcccccccCCcccceeeeecccce-eEeccchhhcccCc
Confidence 458899999999888888888999999999776 55544444444443
No 38
>TIGR01655 yxeA_fam conserved hypothetical protein TIGR01655. This model represents a family of small (about 115 amino acids) uncharacterized proteins with N-terminal signal sequences, found exclusively in Gram-positive organisms. Most genomes that have any members of this family have at least two members.
Probab=20.90 E-value=1.4e+02 Score=20.74 Aligned_cols=21 Identities=29% Similarity=0.385 Sum_probs=18.1
Q ss_pred CceEEEEEcCCCCEEEEEEec
Q 032961 74 ESVKIDARDINGARFSVSLSD 94 (130)
Q Consensus 74 ~~I~v~~~d~~g~~~~~~~~g 94 (130)
..=++.++|.+|+..++++..
T Consensus 55 y~Y~~~~yd~~G~~k~i~f~~ 75 (114)
T TIGR01655 55 YEYKLDAYDSSGKKHKVKFMA 75 (114)
T ss_pred EEEEEEEECCCCCEEEEEEEc
Confidence 566899999999999999864
No 39
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=20.85 E-value=54 Score=20.68 Aligned_cols=29 Identities=14% Similarity=0.252 Sum_probs=21.9
Q ss_pred CCceEEEEEcCCCCEEEEEEeccceehHh
Q 032961 73 PESVKIDARDINGARFSVSLSDLPARVFQ 101 (130)
Q Consensus 73 ~~~I~v~~~d~~g~~~~~~~~g~~Ar~~Q 101 (130)
...+.+.|.|.+|..+.+.-+.-+..+++
T Consensus 39 ~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~ 67 (84)
T PF00564_consen 39 DEDFQLKYKDEDGDLVTISSDEDLQEAIE 67 (84)
T ss_dssp TSSEEEEEEETTSSEEEESSHHHHHHHHH
T ss_pred CccEEEEeeCCCCCEEEeCCHHHHHHHHH
Confidence 47899999999999888776654444444
Done!