Query 046045
Match_columns 119
No_of_seqs 118 out of 177
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 08:11:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046045.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046045hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04690 YABBY: YABBY protein; 100.0 5E-56 1.1E-60 343.0 8.1 119 1-119 24-159 (170)
2 PF09011 HMG_box_2: HMG-box do 97.8 5E-05 1.1E-09 49.7 4.7 40 79-118 1-41 (73)
3 cd01390 HMGB-UBF_HMG-box HMGB- 96.9 0.002 4.3E-08 40.0 4.5 35 84-118 3-37 (66)
4 cd01388 SOX-TCF_HMG-box SOX-TC 96.9 0.0022 4.7E-08 41.8 4.5 34 84-117 4-37 (72)
5 PF00505 HMG_box: HMG (high mo 96.9 0.0027 5.9E-08 39.8 4.7 36 83-118 2-37 (69)
6 cd00084 HMG-box High Mobility 96.7 0.0041 8.8E-08 38.1 4.7 36 83-118 2-37 (66)
7 smart00398 HMG high mobility g 96.5 0.0072 1.6E-07 37.4 4.8 35 83-117 3-37 (70)
8 cd01389 MATA_HMG-box MATA_HMG- 96.4 0.0085 1.9E-07 39.4 4.8 35 83-117 3-37 (77)
9 PTZ00199 high mobility group p 96.1 0.016 3.5E-07 40.2 5.3 33 76-108 17-49 (94)
10 KOG0381 HMG box-containing pro 94.1 0.11 2.5E-06 34.7 4.5 36 81-116 22-57 (96)
11 PF06244 DUF1014: Protein of u 92.0 0.17 3.6E-06 37.9 3.1 36 74-111 67-102 (122)
12 KOG3223 Uncharacterized conser 84.2 0.33 7.2E-06 39.8 0.1 35 75-111 160-194 (221)
13 PF10122 Mu-like_Com: Mu-like 82.0 0.42 9E-06 31.4 -0.1 14 12-25 3-16 (51)
14 PF11331 DUF3133: Protein of u 80.9 0.94 2E-05 28.9 1.3 18 11-28 29-46 (46)
15 PF13719 zinc_ribbon_5: zinc-r 70.2 2.4 5.3E-05 25.1 1.0 15 11-25 23-37 (37)
16 KOG4684 Uncharacterized conser 60.0 4.1 8.9E-05 34.3 0.8 17 11-27 168-184 (275)
17 PF13717 zinc_ribbon_4: zinc-r 56.3 6.7 0.00015 23.2 1.1 14 10-23 22-35 (36)
18 TIGR02098 MJ0042_CXXC MJ0042 f 53.8 6.8 0.00015 22.5 0.9 15 11-25 23-37 (38)
19 PF03811 Zn_Tnp_IS1: InsA N-te 51.7 11 0.00025 22.6 1.6 17 9-25 1-17 (36)
20 COG4416 Com Mu-like prophage p 50.3 3.8 8.3E-05 27.7 -0.7 13 11-23 2-14 (60)
21 PF04420 CHD5: CHD5-like prote 49.3 11 0.00023 28.6 1.5 36 84-119 36-71 (161)
22 PF05047 L51_S25_CI-B8: Mitoch 48.8 16 0.00034 22.3 2.0 19 90-108 2-20 (52)
23 KOG4520 Predicted coiled-coil 47.4 23 0.00049 29.4 3.2 29 90-118 62-106 (238)
24 PF01020 Ribosomal_L40e: Ribos 44.2 8.2 0.00018 25.5 0.2 9 15-23 38-46 (52)
25 PF05180 zf-DNL: DNL zinc fing 42.8 13 0.00029 25.2 1.0 13 10-22 26-38 (66)
26 PF12876 Cellulase-like: Sugar 41.5 43 0.00093 22.3 3.4 31 78-108 29-59 (88)
27 TIGR02147 Fsuc_second hypothet 40.2 28 0.00061 28.7 2.8 25 88-112 9-33 (271)
28 PF13408 Zn_ribbon_recom: Reco 40.0 13 0.00028 22.4 0.6 13 13-25 5-17 (58)
29 PRK14983 aldehyde decarbonylas 36.8 31 0.00068 28.7 2.5 31 87-119 34-73 (231)
30 PF09788 Tmemb_55A: Transmembr 36.4 20 0.00044 30.2 1.4 18 10-27 154-171 (256)
31 COG4357 Zinc finger domain con 35.9 9.5 0.00021 28.3 -0.5 20 7-26 56-75 (105)
32 PF14722 KRAP_IP3R_bind: Ki-ra 35.7 43 0.00093 26.5 3.0 27 89-115 71-97 (160)
33 PTZ00322 6-phosphofructo-2-kin 34.6 34 0.00073 31.0 2.6 31 74-104 19-51 (664)
34 KOG0493 Transcription factor E 32.2 25 0.00054 30.5 1.3 21 80-105 246-266 (342)
35 PF10963 DUF2765: Protein of u 29.6 84 0.0018 22.1 3.4 10 85-94 15-24 (83)
36 PF15227 zf-C3HC4_4: zinc fing 28.7 30 0.00066 20.7 0.9 12 7-18 7-18 (42)
37 TIGR01053 LSD1 zinc finger dom 28.4 32 0.0007 20.0 1.0 14 14-27 2-15 (31)
38 PF10159 MMtag: Kinase phospho 28.3 43 0.00093 23.6 1.7 13 92-104 57-69 (78)
39 TIGR02064 dsrA sulfite reducta 28.1 22 0.00047 31.0 0.3 9 14-22 275-283 (402)
40 KOG2846 Predicted membrane pro 27.5 1.9E+02 0.0041 25.3 5.8 14 9-22 238-251 (328)
41 KOG4253 Tryptophan-rich basic 27.5 53 0.0011 26.4 2.3 31 89-119 45-75 (175)
42 PF15545 Toxin_67: Putative to 27.2 61 0.0013 22.6 2.3 20 85-104 7-26 (70)
43 KOG0976 Rho/Rac1-interacting s 26.2 53 0.0011 32.7 2.5 37 77-118 473-522 (1265)
44 KOG3378 Globins and related he 26.1 40 0.00086 29.7 1.5 28 85-113 353-380 (385)
45 PF11266 DUF3066: Protein of u 26.1 42 0.00091 27.7 1.6 30 88-119 25-63 (219)
46 PF05164 ZapA: Cell division p 26.0 96 0.0021 20.1 3.0 27 91-117 28-54 (89)
47 PF02150 RNA_POL_M_15KD: RNA p 25.7 28 0.0006 20.5 0.3 11 15-25 3-13 (35)
48 PF14916 CCDC92: Coiled-coil d 25.7 40 0.00087 22.6 1.2 21 94-114 27-47 (60)
49 PF08785 Ku_PK_bind: Ku C term 24.0 47 0.001 23.8 1.4 15 86-100 63-77 (120)
50 PF05495 zf-CHY: CHY zinc fing 22.1 39 0.00084 22.4 0.6 15 13-27 41-55 (71)
51 COG5570 Uncharacterized small 21.3 60 0.0013 21.8 1.3 13 91-103 43-55 (57)
52 KOG4135 Predicted phosphogluco 21.0 63 0.0014 26.1 1.6 26 79-106 19-45 (185)
53 TIGR03114 cas_csf1 CRISPR-asso 20.5 28 0.00061 28.5 -0.4 15 13-27 32-46 (202)
54 cd03409 Chelatase_Class_II Cla 20.3 59 0.0013 21.2 1.1 24 85-108 11-34 (101)
55 KOG1404 Alanine-glyoxylate ami 20.1 53 0.0011 29.7 1.1 14 8-21 56-69 (442)
56 PF12107 VEK-30: Plasminogen ( 20.1 83 0.0018 16.6 1.4 10 95-104 3-12 (17)
No 1
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=100.00 E-value=5e-56 Score=342.99 Aligned_cols=119 Identities=57% Similarity=0.811 Sum_probs=88.7
Q ss_pred CCcCcCCCcceeeeecCCCccCccccCCCCCCCCCc-cch--h-h---h-hhhcccccccC-----CCCCCCCC----CC
Q 046045 1 VGIPCKRLLDTVTVKCGHCSNLSFLSTRPPPQGPSQ-MSL--R-F---Q-EKQSFCNDFKL-----GNASSSSS----ST 63 (119)
Q Consensus 1 VsVPcssl~~~VTVRCGHCtnLlsVnm~~~lq~~~~-~~~--~-~---~-~~~~~~~~~~~-----~~~sssss----~~ 63 (119)
|||||+|||+|||||||||+|||||||++++|.+.. ..+ . + . +.+........ +.++++.+ ..
T Consensus 24 VsVP~ssL~~~VTVRCGHCtNLLSVNm~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (170)
T PF04690_consen 24 VSVPCSSLLKTVTVRCGHCTNLLSVNMRALLQPLPSQDHLQHSLLPPQSQELQFQPENFGSNSSSSSSSSSSSSSSSMSF 103 (170)
T ss_pred EecchhhhhhhhceeccCccceeeeeccccccCCCcccchhccccccccccccccccccccccccCCCccccccccccCc
Confidence 899999999999999999999999999988765432 110 0 0 0 00000011111 11111111 13
Q ss_pred CCCCCCCCCCCCCCCCCcCCCCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHhhC
Q 046045 64 SSEPLSPKAPFVVKPPEKKHRLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAAKN 119 (119)
Q Consensus 64 ~~~~~~p~~p~v~kPPEKRQRvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aaKN 119 (119)
+.+++.|+++.++||||||||+|||||+||||||||||++||||+|||||++||||
T Consensus 104 ~~~~~~pr~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAkn 159 (170)
T PF04690_consen 104 SEEEEIPRAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKN 159 (170)
T ss_pred cccccccccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Confidence 45667888888999999999999999999999999999999999999999999998
No 2
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=97.78 E-value=5e-05 Score=49.73 Aligned_cols=40 Identities=38% Similarity=0.577 Sum_probs=32.7
Q ss_pred CCcCCCCchhhhHHHHHHHHHHHHh-CCCCCHHHHHHHHhh
Q 046045 79 PEKKHRLPSAYNRFMKEEIQRIKAA-NPEIPHREAFSTAAK 118 (119)
Q Consensus 79 PEKRQRvpsayn~fmK~ei~riK~~-~p~i~hkEaF~~aaK 118 (119)
|.|-.|.+|||+.||++.+.+++.. .+.+.++|++..++.
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~ 41 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISE 41 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHH
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHH
Confidence 5677899999999999999999999 888999999998863
No 3
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=96.94 E-value=0.002 Score=40.01 Aligned_cols=35 Identities=29% Similarity=0.366 Sum_probs=31.3
Q ss_pred CCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHhh
Q 046045 84 RLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAAK 118 (119)
Q Consensus 84 Rvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aaK 118 (119)
|-+|||..||++....+++.+|+++..|....+++
T Consensus 3 rp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~ 37 (66)
T cd01390 3 RPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGE 37 (66)
T ss_pred CCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHH
Confidence 56899999999999999999999999988877653
No 4
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=96.88 E-value=0.0022 Score=41.81 Aligned_cols=34 Identities=18% Similarity=0.179 Sum_probs=30.7
Q ss_pred CCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHh
Q 046045 84 RLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAA 117 (119)
Q Consensus 84 Rvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aa 117 (119)
|-++||..|+++.-.+|++++|+++..|.-+.++
T Consensus 4 rP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~ 37 (72)
T cd01388 4 RPMNAFMLFSKRHRRKVLQEYPLKENRAISKILG 37 (72)
T ss_pred CCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
Confidence 6789999999999999999999999999876654
No 5
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=96.86 E-value=0.0027 Score=39.83 Aligned_cols=36 Identities=31% Similarity=0.540 Sum_probs=30.5
Q ss_pred CCCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHhh
Q 046045 83 HRLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAAK 118 (119)
Q Consensus 83 QRvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aaK 118 (119)
.|-++||..|+++....||+.+|+++..|.-..+++
T Consensus 2 krP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~ 37 (69)
T PF00505_consen 2 KRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQ 37 (69)
T ss_dssp SSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHH
Confidence 367899999999999999999999999998877764
No 6
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=96.73 E-value=0.0041 Score=38.13 Aligned_cols=36 Identities=31% Similarity=0.337 Sum_probs=31.7
Q ss_pred CCCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHhh
Q 046045 83 HRLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAAK 118 (119)
Q Consensus 83 QRvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aaK 118 (119)
.|-+++|..|++++...+++.+|+++..|....+++
T Consensus 2 krp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~ 37 (66)
T cd00084 2 KRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGE 37 (66)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHH
Confidence 356899999999999999999999999988877654
No 7
>smart00398 HMG high mobility group.
Probab=96.52 E-value=0.0072 Score=37.41 Aligned_cols=35 Identities=31% Similarity=0.426 Sum_probs=30.8
Q ss_pred CCCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHh
Q 046045 83 HRLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAA 117 (119)
Q Consensus 83 QRvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aa 117 (119)
.|-+++|..|+++....+++.+|+++..|....++
T Consensus 3 krp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~ 37 (70)
T smart00398 3 KRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLG 37 (70)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHH
Confidence 45789999999999999999999999888776654
No 8
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=96.39 E-value=0.0085 Score=39.35 Aligned_cols=35 Identities=17% Similarity=0.308 Sum_probs=31.1
Q ss_pred CCCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHh
Q 046045 83 HRLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAA 117 (119)
Q Consensus 83 QRvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aa 117 (119)
.|-++||-.|+++....|+++||++++.|--..++
T Consensus 3 kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g 37 (77)
T cd01389 3 PRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIG 37 (77)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
Confidence 47799999999999999999999999998766554
No 9
>PTZ00199 high mobility group protein; Provisional
Probab=96.14 E-value=0.016 Score=40.18 Aligned_cols=33 Identities=42% Similarity=0.522 Sum_probs=28.4
Q ss_pred CCCCCcCCCCchhhhHHHHHHHHHHHHhCCCCC
Q 046045 76 VKPPEKKHRLPSAYNRFMKEEIQRIKAANPEIP 108 (119)
Q Consensus 76 ~kPPEKRQRvpsayn~fmK~ei~riK~~~p~i~ 108 (119)
.+.|.+-.|-+|||..|+++.-..|+++||+++
T Consensus 17 ~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~ 49 (94)
T PTZ00199 17 KKDPNAPKRALSAYMFFAKEKRAEIIAENPELA 49 (94)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCc
Confidence 345666668899999999999999999999986
No 10
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=94.13 E-value=0.11 Score=34.72 Aligned_cols=36 Identities=31% Similarity=0.343 Sum_probs=30.5
Q ss_pred cCCCCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHH
Q 046045 81 KKHRLPSAYNRFMKEEIQRIKAANPEIPHREAFSTA 116 (119)
Q Consensus 81 KRQRvpsayn~fmK~ei~riK~~~p~i~hkEaF~~a 116 (119)
.-+|-+|||..|+.+.-.+||++||+++..|.=+.+
T Consensus 22 ~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~ 57 (96)
T KOG0381|consen 22 APKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKAL 57 (96)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence 456778899999999999999999999998865443
No 11
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=92.04 E-value=0.17 Score=37.93 Aligned_cols=36 Identities=22% Similarity=0.485 Sum_probs=31.3
Q ss_pred CCCCCCCcCCCCchhhhHHHHHHHHHHHHhCCCCCHHH
Q 046045 74 FVVKPPEKKHRLPSAYNRFMKEEIQRIKAANPEIPHRE 111 (119)
Q Consensus 74 ~v~kPPEKRQRvpsayn~fmK~ei~riK~~~p~i~hkE 111 (119)
.+-|.||||- --||..|--.+|.+||++||++.+-+
T Consensus 67 ~~drHPErR~--KAAy~afeE~~Lp~lK~E~PgLrlsQ 102 (122)
T PF06244_consen 67 PIDRHPERRM--KAAYKAFEERRLPELKEENPGLRLSQ 102 (122)
T ss_pred CCCCCcchhH--HHHHHHHHHHHhHHHHhhCCCchHHH
Confidence 3678999986 46999999999999999999998743
No 12
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.19 E-value=0.33 Score=39.79 Aligned_cols=35 Identities=29% Similarity=0.541 Sum_probs=30.9
Q ss_pred CCCCCCcCCCCchhhhHHHHHHHHHHHHhCCCCCHHH
Q 046045 75 VVKPPEKKHRLPSAYNRFMKEEIQRIKAANPEIPHRE 111 (119)
Q Consensus 75 v~kPPEKRQRvpsayn~fmK~ei~riK~~~p~i~hkE 111 (119)
.-|-||||-| -||--|=..+|-|||.++|+++|-+
T Consensus 160 ddrHPEkRmr--AA~~afEe~~LPrLK~e~P~lrlsQ 194 (221)
T KOG3223|consen 160 DDRHPEKRMR--AAFKAFEEARLPRLKKENPGLRLSQ 194 (221)
T ss_pred cccChHHHHH--HHHHHHHHhhchhhhhcCCCccHHH
Confidence 3488999877 4999999999999999999999854
No 13
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=81.98 E-value=0.42 Score=31.38 Aligned_cols=14 Identities=36% Similarity=0.923 Sum_probs=11.5
Q ss_pred eeeecCCCccCccc
Q 046045 12 VTVKCGHCSNLSFL 25 (119)
Q Consensus 12 VTVRCGHCtnLlsV 25 (119)
=.+|||||.-||.-
T Consensus 3 ~eiRC~~CnklLa~ 16 (51)
T PF10122_consen 3 KEIRCGHCNKLLAK 16 (51)
T ss_pred cceeccchhHHHhh
Confidence 36899999999854
No 14
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=80.88 E-value=0.94 Score=28.95 Aligned_cols=18 Identities=28% Similarity=0.628 Sum_probs=15.0
Q ss_pred eeeeecCCCccCccccCC
Q 046045 11 TVTVKCGHCSNLSFLSTR 28 (119)
Q Consensus 11 ~VTVRCGHCtnLlsVnm~ 28 (119)
.-.+|||.|..++++.++
T Consensus 29 ~~klrCGaCs~vl~~s~~ 46 (46)
T PF11331_consen 29 QQKLRCGACSEVLSFSLP 46 (46)
T ss_pred eeEEeCCCCceeEEEecC
Confidence 568999999999988653
No 15
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=70.18 E-value=2.4 Score=25.06 Aligned_cols=15 Identities=20% Similarity=0.541 Sum_probs=12.0
Q ss_pred eeeeecCCCccCccc
Q 046045 11 TVTVKCGHCSNLSFL 25 (119)
Q Consensus 11 ~VTVRCGHCtnLlsV 25 (119)
...|||++|.+.+.|
T Consensus 23 ~~~vrC~~C~~~f~v 37 (37)
T PF13719_consen 23 GRKVRCPKCGHVFRV 37 (37)
T ss_pred CcEEECCCCCcEeeC
Confidence 568999999987643
No 16
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=60.02 E-value=4.1 Score=34.29 Aligned_cols=17 Identities=41% Similarity=0.901 Sum_probs=13.2
Q ss_pred eeeeecCCCccCccccC
Q 046045 11 TVTVKCGHCSNLSFLST 27 (119)
Q Consensus 11 ~VTVRCGHCtnLlsVnm 27 (119)
.+-|+||||.+..--|.
T Consensus 168 gcRV~CgHC~~tFLfnt 184 (275)
T KOG4684|consen 168 GCRVKCGHCNETFLFNT 184 (275)
T ss_pred ceEEEecCccceeehhh
Confidence 48899999999764444
No 17
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=56.26 E-value=6.7 Score=23.17 Aligned_cols=14 Identities=21% Similarity=0.672 Sum_probs=11.2
Q ss_pred ceeeeecCCCccCc
Q 046045 10 DTVTVKCGHCSNLS 23 (119)
Q Consensus 10 ~~VTVRCGHCtnLl 23 (119)
+.+.|||+.|.+++
T Consensus 22 ~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 22 KGRKVRCSKCGHVF 35 (36)
T ss_pred CCcEEECCCCCCEe
Confidence 35789999998865
No 18
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=53.80 E-value=6.8 Score=22.51 Aligned_cols=15 Identities=27% Similarity=0.800 Sum_probs=11.5
Q ss_pred eeeeecCCCccCccc
Q 046045 11 TVTVKCGHCSNLSFL 25 (119)
Q Consensus 11 ~VTVRCGHCtnLlsV 25 (119)
...|+|++|.+.+.+
T Consensus 23 ~~~v~C~~C~~~~~~ 37 (38)
T TIGR02098 23 GGKVRCGKCGHVWYA 37 (38)
T ss_pred CCEEECCCCCCEEEe
Confidence 346999999987654
No 19
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=51.74 E-value=11 Score=22.58 Aligned_cols=17 Identities=18% Similarity=0.555 Sum_probs=14.2
Q ss_pred cceeeeecCCCccCccc
Q 046045 9 LDTVTVKCGHCSNLSFL 25 (119)
Q Consensus 9 ~~~VTVRCGHCtnLlsV 25 (119)
|.+|+|.|-+|.+-.+|
T Consensus 1 Ma~i~v~CP~C~s~~~v 17 (36)
T PF03811_consen 1 MAKIDVHCPRCQSTEGV 17 (36)
T ss_pred CCcEeeeCCCCCCCCcc
Confidence 46899999999987755
No 20
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=50.29 E-value=3.8 Score=27.68 Aligned_cols=13 Identities=31% Similarity=0.869 Sum_probs=11.2
Q ss_pred eeeeecCCCccCc
Q 046045 11 TVTVKCGHCSNLS 23 (119)
Q Consensus 11 ~VTVRCGHCtnLl 23 (119)
+-|.||.||+-||
T Consensus 2 ~~tiRC~~CnKlL 14 (60)
T COG4416 2 MQTIRCAKCNKLL 14 (60)
T ss_pred ceeeehHHHhHHH
Confidence 4589999999987
No 21
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=49.29 E-value=11 Score=28.60 Aligned_cols=36 Identities=25% Similarity=0.286 Sum_probs=30.5
Q ss_pred CCchhhhHHHHHHHHHHHHhCCCCCHHHHHHHHhhC
Q 046045 84 RLPSAYNRFMKEEIQRIKAANPEIPHREAFSTAAKN 119 (119)
Q Consensus 84 Rvpsayn~fmK~ei~riK~~~p~i~hkEaF~~aaKN 119 (119)
...+.-.+=++.||+.+|++.-.|+..+-|-..||+
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl 71 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNAISAQDEFAKWAKL 71 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 356677788999999999999999999999999984
No 22
>PF05047 L51_S25_CI-B8: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain ; InterPro: IPR007741 Proteins containing this domain are located in the mitochondrion and include ribosomal protein L51, and S25. This domain is also found in mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) 1.6.5.3 from EC. It is not known whether all members of this family form part of the NADH-ubiquinone oxidoreductase and whether they are also all ribosomal proteins.; PDB: 1S3A_A.
Probab=48.82 E-value=16 Score=22.26 Aligned_cols=19 Identities=26% Similarity=0.635 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHhCCCCC
Q 046045 90 NRFMKEEIQRIKAANPEIP 108 (119)
Q Consensus 90 n~fmK~ei~riK~~~p~i~ 108 (119)
..|+++-+..||..||++.
T Consensus 2 R~F~~~~lp~l~~~NP~v~ 20 (52)
T PF05047_consen 2 RDFLKNNLPTLKYHNPQVQ 20 (52)
T ss_dssp HHHHHHTHHHHHHHSTT--
T ss_pred HhHHHHhHHHHHHHCCCcE
Confidence 3699999999999999973
No 23
>KOG4520 consensus Predicted coiled-coil protein [General function prediction only]
Probab=47.43 E-value=23 Score=29.44 Aligned_cols=29 Identities=38% Similarity=0.394 Sum_probs=21.0
Q ss_pred hHHHHHHHHHHHHhC----------------CCCCHHHHHHHHhh
Q 046045 90 NRFMKEEIQRIKAAN----------------PEIPHREAFSTAAK 118 (119)
Q Consensus 90 n~fmK~ei~riK~~~----------------p~i~hkEaF~~aaK 118 (119)
---|||||++||+.. |.---|+-|+.|||
T Consensus 62 ~~~~keEi~~vkE~E~~al~eALGl~k~stqP~gL~k~~fse~~k 106 (238)
T KOG4520|consen 62 KEKYKEEILEVKEREQRALAEALGLPKSSTQPSGLLKLTFSEAAK 106 (238)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhCCCccccCCcchhHHHHHHHHh
Confidence 345899999999874 33335777877776
No 24
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=44.17 E-value=8.2 Score=25.48 Aligned_cols=9 Identities=67% Similarity=1.328 Sum_probs=5.5
Q ss_pred ecCCCccCc
Q 046045 15 KCGHCSNLS 23 (119)
Q Consensus 15 RCGHCtnLl 23 (119)
+|||+++|-
T Consensus 38 kCGhsn~LR 46 (52)
T PF01020_consen 38 KCGHSNNLR 46 (52)
T ss_dssp SCTS-S-EE
T ss_pred cCCCCcccC
Confidence 499999874
No 25
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=42.76 E-value=13 Score=25.23 Aligned_cols=13 Identities=38% Similarity=0.756 Sum_probs=8.6
Q ss_pred ceeeeecCCCccC
Q 046045 10 DTVTVKCGHCSNL 22 (119)
Q Consensus 10 ~~VTVRCGHCtnL 22 (119)
-+|-|||+.|.|.
T Consensus 26 GvViv~C~gC~~~ 38 (66)
T PF05180_consen 26 GVVIVQCPGCKNR 38 (66)
T ss_dssp SEEEEE-TTS--E
T ss_pred CeEEEECCCCcce
Confidence 3799999999986
No 26
>PF12876 Cellulase-like: Sugar-binding cellulase-like; InterPro: IPR024778 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This entry represents a family of putative cellulase enzymes.; PDB: 3GYC_B.
Probab=41.49 E-value=43 Score=22.32 Aligned_cols=31 Identities=32% Similarity=0.582 Sum_probs=22.8
Q ss_pred CCCcCCCCchhhhHHHHHHHHHHHHhCCCCC
Q 046045 78 PPEKKHRLPSAYNRFMKEEIQRIKAANPEIP 108 (119)
Q Consensus 78 PPEKRQRvpsayn~fmK~ei~riK~~~p~i~ 108 (119)
|.+..+....+|-.||++=++.||+.+|+.+
T Consensus 29 ~~~~~~~~~~~~~~~l~~~~~~iR~~dP~~p 59 (88)
T PF12876_consen 29 PAEWGDPKAEAYAEWLKEAFRWIRAVDPSQP 59 (88)
T ss_dssp TT-TT-TTSHHHHHHHHHHHHHHHTT-TTS-
T ss_pred cccccchhHHHHHHHHHHHHHHHHHhCCCCc
Confidence 3345555788999999999999999999753
No 27
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=40.18 E-value=28 Score=28.72 Aligned_cols=25 Identities=16% Similarity=0.433 Sum_probs=23.3
Q ss_pred hhhHHHHHHHHHHHHhCCCCCHHHH
Q 046045 88 AYNRFMKEEIQRIKAANPEIPHREA 112 (119)
Q Consensus 88 ayn~fmK~ei~riK~~~p~i~hkEa 112 (119)
.|..||++...+-|+.+|.++.|+-
T Consensus 9 dYR~fl~d~ye~rk~~~p~fS~R~f 33 (271)
T TIGR02147 9 DYRKYLRDYYEERKKTDPAFSWRFF 33 (271)
T ss_pred hHHHHHHHHHHHHhccCcCcCHHHH
Confidence 5999999999999999999999874
No 28
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=39.96 E-value=13 Score=22.37 Aligned_cols=13 Identities=31% Similarity=0.825 Sum_probs=10.6
Q ss_pred eeecCCCccCccc
Q 046045 13 TVKCGHCSNLSFL 25 (119)
Q Consensus 13 TVRCGHCtnLlsV 25 (119)
.++||+|..-+..
T Consensus 5 ~l~C~~CG~~m~~ 17 (58)
T PF13408_consen 5 LLRCGHCGSKMTR 17 (58)
T ss_pred cEEcccCCcEeEE
Confidence 4799999987766
No 29
>PRK14983 aldehyde decarbonylase; Provisional
Probab=36.82 E-value=31 Score=28.66 Aligned_cols=31 Identities=26% Similarity=0.627 Sum_probs=25.0
Q ss_pred hhhhHHH---------HHHHHHHHHhCCCCCHHHHHHHHhhC
Q 046045 87 SAYNRFM---------KEEIQRIKAANPEIPHREAFSTAAKN 119 (119)
Q Consensus 87 sayn~fm---------K~ei~riK~~~p~i~hkEaF~~aaKN 119 (119)
-||..|| ++|+.||-.- +..|+-.|.++.||
T Consensus 34 eA~dNyi~la~llP~~~dEL~rLakM--E~rH~kgF~aCGrN 73 (231)
T PRK14983 34 EAHDNYISLATLLPEHAEELTRLAKM--EMRHKKGFTACGRN 73 (231)
T ss_pred HHHHhHHHHHHHCcccHHHHHHHHHH--HHHHHhHHHHHccc
Confidence 4666776 4899999766 46899999999998
No 30
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=36.40 E-value=20 Score=30.15 Aligned_cols=18 Identities=44% Similarity=0.881 Sum_probs=13.3
Q ss_pred ceeeeecCCCccCccccC
Q 046045 10 DTVTVKCGHCSNLSFLST 27 (119)
Q Consensus 10 ~~VTVRCGHCtnLlsVnm 27 (119)
...-|.||||.+-...|.
T Consensus 154 ~~~rv~CghC~~~Fl~~~ 171 (256)
T PF09788_consen 154 GSCRVICGHCSNTFLFNT 171 (256)
T ss_pred CceeEECCCCCCcEeccC
Confidence 356789999998765553
No 31
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=35.95 E-value=9.5 Score=28.34 Aligned_cols=20 Identities=20% Similarity=0.496 Sum_probs=16.3
Q ss_pred CCcceeeeecCCCccCcccc
Q 046045 7 RLLDTVTVKCGHCSNLSFLS 26 (119)
Q Consensus 7 sl~~~VTVRCGHCtnLlsVn 26 (119)
..++.-.|-||+|-++|+++
T Consensus 56 ~~~~~~~iiCGvC~~~LT~~ 75 (105)
T COG4357 56 QEFNPKAIICGVCRKLLTRA 75 (105)
T ss_pred hhcCCccEEhhhhhhhhhHH
Confidence 45667779999999999876
No 32
>PF14722 KRAP_IP3R_bind: Ki-ras-induced actin-interacting protein-IP3R-interacting domain
Probab=35.68 E-value=43 Score=26.51 Aligned_cols=27 Identities=22% Similarity=0.459 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHhCCCCCHHHHHHH
Q 046045 89 YNRFMKEEIQRIKAANPEIPHREAFST 115 (119)
Q Consensus 89 yn~fmK~ei~riK~~~p~i~hkEaF~~ 115 (119)
...|++.++|||..+||+..---+|.+
T Consensus 71 ~~~FL~aQ~qrm~~E~p~~~l~~RFRQ 97 (160)
T PF14722_consen 71 IRVFLEAQKQRMDIENPNLALASRFRQ 97 (160)
T ss_pred HHHHHHHHHHHHHhhCccHHHHHHHHH
Confidence 467999999999999999655555543
No 33
>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional
Probab=34.63 E-value=34 Score=31.04 Aligned_cols=31 Identities=29% Similarity=0.476 Sum_probs=26.3
Q ss_pred CCCCCCCcCCCCchhhhH--HHHHHHHHHHHhC
Q 046045 74 FVVKPPEKKHRLPSAYNR--FMKEEIQRIKAAN 104 (119)
Q Consensus 74 ~v~kPPEKRQRvpsayn~--fmK~ei~riK~~~ 104 (119)
+.-+.+.+|.++|.+|++ .+.+||++|+..-
T Consensus 19 ~~~~~~~~~~~~~~~~~r~~~~~~eia~i~~~l 51 (664)
T PTZ00322 19 FGTEGSRKRRAKPISFERMAAIQEEIARIDTHL 51 (664)
T ss_pred cCCCcccccccchhHHHHHHHHHhHHHHHHHHH
Confidence 566788999999999998 8889999888653
No 34
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=32.20 E-value=25 Score=30.52 Aligned_cols=21 Identities=43% Similarity=0.601 Sum_probs=16.3
Q ss_pred CcCCCCchhhhHHHHHHHHHHHHhCC
Q 046045 80 EKKHRLPSAYNRFMKEEIQRIKAANP 105 (119)
Q Consensus 80 EKRQRvpsayn~fmK~ei~riK~~~p 105 (119)
|||-|+ -|--|+|||||+++-
T Consensus 246 eKRPRT-----AFtaeQL~RLK~EF~ 266 (342)
T KOG0493|consen 246 EKRPRT-----AFTAEQLQRLKAEFQ 266 (342)
T ss_pred hcCccc-----cccHHHHHHHHHHHh
Confidence 566664 478899999999863
No 35
>PF10963 DUF2765: Protein of unknown function (DUF2765); InterPro: IPR024406 This family of proteins with no known function is found in phages and suspected prophages.
Probab=29.60 E-value=84 Score=22.14 Aligned_cols=10 Identities=40% Similarity=1.095 Sum_probs=6.7
Q ss_pred CchhhhHHHH
Q 046045 85 LPSAYNRFMK 94 (119)
Q Consensus 85 vpsayn~fmK 94 (119)
.+.+||+|+.
T Consensus 15 t~~~yn~yiN 24 (83)
T PF10963_consen 15 TPTAYNKYIN 24 (83)
T ss_pred CHHHHHHHHH
Confidence 4567777764
No 36
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=28.74 E-value=30 Score=20.68 Aligned_cols=12 Identities=42% Similarity=0.908 Sum_probs=8.2
Q ss_pred CCcceeeeecCC
Q 046045 7 RLLDTVTVKCGH 18 (119)
Q Consensus 7 sl~~~VTVRCGH 18 (119)
-|.+-||..|||
T Consensus 7 ~~~~Pv~l~CGH 18 (42)
T PF15227_consen 7 LFKDPVSLPCGH 18 (42)
T ss_dssp B-SSEEE-SSSS
T ss_pred hhCCccccCCcC
Confidence 356789999998
No 37
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=28.40 E-value=32 Score=20.04 Aligned_cols=14 Identities=36% Similarity=0.807 Sum_probs=11.2
Q ss_pred eecCCCccCccccC
Q 046045 14 VKCGHCSNLSFLST 27 (119)
Q Consensus 14 VRCGHCtnLlsVnm 27 (119)
+.||+|..+|..--
T Consensus 2 ~~C~~C~t~L~yP~ 15 (31)
T TIGR01053 2 VVCGGCRTLLMYPR 15 (31)
T ss_pred cCcCCCCcEeecCC
Confidence 68999999987643
No 38
>PF10159 MMtag: Kinase phosphorylation protein; InterPro: IPR019315 This entry represents a glycine-rich domain that is the most highly conserved region of a family of proteins that, in vertebrates, are associated with tumours in multiple myelomas. The region may contain phosphorylation sites for several protein kinases, as well as N-myristoylation sites and nuclear localisation signals, so it might act as a signal molecule in the nucleus [].
Probab=28.31 E-value=43 Score=23.64 Aligned_cols=13 Identities=62% Similarity=0.654 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHhC
Q 046045 92 FMKEEIQRIKAAN 104 (119)
Q Consensus 92 fmK~ei~riK~~~ 104 (119)
=.++||+|||+..
T Consensus 57 ~~~eE~~~iK~~E 69 (78)
T PF10159_consen 57 ERKEEIRRIKEAE 69 (78)
T ss_pred hHHHHHHHHHHHH
Confidence 5799999999875
No 39
>TIGR02064 dsrA sulfite reductase, dissimilatory-type alpha subunit. This model describes the alpha subunit of sulfite reductase.
Probab=28.13 E-value=22 Score=31.05 Aligned_cols=9 Identities=56% Similarity=1.165 Sum_probs=7.8
Q ss_pred eecCCCccC
Q 046045 14 VKCGHCSNL 22 (119)
Q Consensus 14 VRCGHCtnL 22 (119)
||||||-|.
T Consensus 275 ~~Cm~Ci~~ 283 (402)
T TIGR02064 275 VRCMHCINK 283 (402)
T ss_pred CcCcccccc
Confidence 799999885
No 40
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=27.50 E-value=1.9e+02 Score=25.26 Aligned_cols=14 Identities=36% Similarity=0.980 Sum_probs=12.2
Q ss_pred cceeeeecCCCccC
Q 046045 9 LDTVTVKCGHCSNL 22 (119)
Q Consensus 9 ~~~VTVRCGHCtnL 22 (119)
|.-+|-||-||.-|
T Consensus 238 ~~yi~F~C~~Cn~L 251 (328)
T KOG2846|consen 238 YEYITFRCPHCNAL 251 (328)
T ss_pred cCceEEECcccccc
Confidence 67799999999986
No 41
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=27.46 E-value=53 Score=26.36 Aligned_cols=31 Identities=19% Similarity=0.188 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHHhCCCCCHHHHHHHHhhC
Q 046045 89 YNRFMKEEIQRIKAANPEIPHREAFSTAAKN 119 (119)
Q Consensus 89 yn~fmK~ei~riK~~~p~i~hkEaF~~aaKN 119 (119)
=+.=|++||+.+|+++-.++-.+-|-.-|||
T Consensus 45 k~~q~~~ei~dmKqelnavs~qD~fAkwaRl 75 (175)
T KOG4253|consen 45 KESQKVAEIQDMKQELNAVSMQDNFAKWARL 75 (175)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence 3667899999999999999999999877764
No 42
>PF15545 Toxin_67: Putative toxin 67
Probab=27.21 E-value=61 Score=22.60 Aligned_cols=20 Identities=40% Similarity=0.577 Sum_probs=17.8
Q ss_pred CchhhhHHHHHHHHHHHHhC
Q 046045 85 LPSAYNRFMKEEIQRIKAAN 104 (119)
Q Consensus 85 vpsayn~fmK~ei~riK~~~ 104 (119)
+|+.-..++|.||.+|+...
T Consensus 7 q~~~vRGwiknEi~~i~~~~ 26 (70)
T PF15545_consen 7 QPSWVRGWIKNEINRIKTGR 26 (70)
T ss_pred chHHHHHHHHHHHHHHHhCc
Confidence 68889999999999999865
No 43
>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]
Probab=26.19 E-value=53 Score=32.68 Aligned_cols=37 Identities=35% Similarity=0.525 Sum_probs=27.0
Q ss_pred CCCCcCCCCchhhhH-------------HHHHHHHHHHHhCCCCCHHHHHHHHhh
Q 046045 77 KPPEKKHRLPSAYNR-------------FMKEEIQRIKAANPEIPHREAFSTAAK 118 (119)
Q Consensus 77 kPPEKRQRvpsayn~-------------fmK~ei~riK~~~p~i~hkEaF~~aaK 118 (119)
--|||+..||--||. |||||||... |.-|++.+.+|+
T Consensus 473 ~sle~qrKVeqe~emlKaen~rqakkiefmkEeiQeth-----ldyR~els~lA~ 522 (1265)
T KOG0976|consen 473 DSLEKQRKVEQEYEMLKAENERQAKKIEFMKEEIQETH-----LDYRSELSELAH 522 (1265)
T ss_pred hChhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhh
Confidence 368999999999985 9999999764 334555555553
No 44
>KOG3378 consensus Globins and related hemoproteins [Energy production and conversion]
Probab=26.15 E-value=40 Score=29.70 Aligned_cols=28 Identities=32% Similarity=0.617 Sum_probs=22.5
Q ss_pred CchhhhHHHHHHHHHHHHhCCCCCHHHHH
Q 046045 85 LPSAYNRFMKEEIQRIKAANPEIPHREAF 113 (119)
Q Consensus 85 vpsayn~fmK~ei~riK~~~p~i~hkEaF 113 (119)
-|.+|-+|||.|+.+|-- .||+-|-|-|
T Consensus 353 G~~~~M~~~~~~L~~L~~-~~~~v~~E~F 380 (385)
T KOG3378|consen 353 GPNNYMRFVKQELVKLGV-EPNKVQSEFF 380 (385)
T ss_pred CcHHHHHHHHHHHHHhcC-Cccceecccc
Confidence 478999999999998854 5788887766
No 45
>PF11266 DUF3066: Protein of unknown function (DUF3066); InterPro: IPR022612 This cyanobacterial family of fatty aldehyde decarbonylases acts on mainly C16 and C18 substrates to form hydrocarbons and carbon monoxide []. Note that the corresponding EC number (4.1.99.5 from EC) dating from 1989 refers to a nonorthologous Pisum sativum enzyme that acts on C18 and longer chains and attaches the overly narrow narrow name octadecanal decarbonylase. ; PDB: 2OC5_A.
Probab=26.10 E-value=42 Score=27.70 Aligned_cols=30 Identities=27% Similarity=0.582 Sum_probs=23.9
Q ss_pred hhhHHH---------HHHHHHHHHhCCCCCHHHHHHHHhhC
Q 046045 88 AYNRFM---------KEEIQRIKAANPEIPHREAFSTAAKN 119 (119)
Q Consensus 88 ayn~fm---------K~ei~riK~~~p~i~hkEaF~~aaKN 119 (119)
||..|+ ++|+.||-.- +..|+-.|.++.||
T Consensus 25 A~~Nyi~la~llP~~~deL~rLakM--E~rH~kgF~aCGrN 63 (219)
T PF11266_consen 25 AHDNYISLAELLPDQKDELIRLAKM--ENRHKKGFQACGRN 63 (219)
T ss_dssp HHHHHHHHHHH-GGGHHHHHHHHHH--HHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHCcccHHHHHHHHHH--HHHHHhHHHHhccC
Confidence 666676 4899998765 45799999999887
No 46
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=26.01 E-value=96 Score=20.06 Aligned_cols=27 Identities=26% Similarity=0.388 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHh
Q 046045 91 RFMKEEIQRIKAANPEIPHREAFSTAA 117 (119)
Q Consensus 91 ~fmK~ei~riK~~~p~i~hkEaF~~aa 117 (119)
.++.+.|..++..+|.++-..+...||
T Consensus 28 ~~i~~~i~~~~~~~~~~~~~~~~vlaa 54 (89)
T PF05164_consen 28 ELINEKINEIKKKYPKLSPERLAVLAA 54 (89)
T ss_dssp HHHHHHHHHHCTTCCTSSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence 578899999999999999988888776
No 47
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=25.70 E-value=28 Score=20.50 Aligned_cols=11 Identities=36% Similarity=0.830 Sum_probs=9.0
Q ss_pred ecCCCccCccc
Q 046045 15 KCGHCSNLSFL 25 (119)
Q Consensus 15 RCGHCtnLlsV 25 (119)
-|..|.|||.+
T Consensus 3 FCp~C~nlL~p 13 (35)
T PF02150_consen 3 FCPECGNLLYP 13 (35)
T ss_dssp BETTTTSBEEE
T ss_pred eCCCCCccceE
Confidence 48899999865
No 48
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=25.66 E-value=40 Score=22.60 Aligned_cols=21 Identities=19% Similarity=0.436 Sum_probs=17.1
Q ss_pred HHHHHHHHHhCCCCCHHHHHH
Q 046045 94 KEEIQRIKAANPEIPHREAFS 114 (119)
Q Consensus 94 K~ei~riK~~~p~i~hkEaF~ 114 (119)
-+||.||+..+-|++.+=+|.
T Consensus 27 H~EIe~Lq~~~~dL~~kL~m~ 47 (60)
T PF14916_consen 27 HAEIERLQKRNKDLTFKLIMK 47 (60)
T ss_pred HHHHHHHHHhccccceeeeec
Confidence 479999999999988775554
No 49
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=24.01 E-value=47 Score=23.79 Aligned_cols=15 Identities=27% Similarity=0.782 Sum_probs=10.7
Q ss_pred chhhhHHHHHHHHHH
Q 046045 86 PSAYNRFMKEEIQRI 100 (119)
Q Consensus 86 psayn~fmK~ei~ri 100 (119)
|..||.||++==..+
T Consensus 63 p~~yN~Fl~~LK~~~ 77 (120)
T PF08785_consen 63 PDEYNDFLRKLKKKL 77 (120)
T ss_dssp CHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 889999987533333
No 50
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=22.15 E-value=39 Score=22.40 Aligned_cols=15 Identities=27% Similarity=0.631 Sum_probs=10.7
Q ss_pred eeecCCCccCccccC
Q 046045 13 TVKCGHCSNLSFLST 27 (119)
Q Consensus 13 TVRCGHCtnLlsVnm 27 (119)
.|.||.|...++++-
T Consensus 41 ~v~Cg~C~~~~~~~~ 55 (71)
T PF05495_consen 41 RVICGKCRTEQPIDE 55 (71)
T ss_dssp EEEETTT--EEES-S
T ss_pred CeECCCCCCccChhh
Confidence 899999999998864
No 51
>COG5570 Uncharacterized small protein [Function unknown]
Probab=21.29 E-value=60 Score=21.80 Aligned_cols=13 Identities=46% Similarity=0.626 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHh
Q 046045 91 RFMKEEIQRIKAA 103 (119)
Q Consensus 91 ~fmK~ei~riK~~ 103 (119)
.-+|+||.+||+.
T Consensus 43 L~lKeeIEkLka~ 55 (57)
T COG5570 43 LRLKEEIEKLKAQ 55 (57)
T ss_pred HHHHHHHHHHhcc
Confidence 4589999999975
No 52
>KOG4135 consensus Predicted phosphoglucosamine acetyltransferase [Carbohydrate transport and metabolism]
Probab=21.03 E-value=63 Score=26.06 Aligned_cols=26 Identities=42% Similarity=0.781 Sum_probs=18.6
Q ss_pred CCcCCCCchhhhHHHH-HHHHHHHHhCCC
Q 046045 79 PEKKHRLPSAYNRFMK-EEIQRIKAANPE 106 (119)
Q Consensus 79 PEKRQRvpsayn~fmK-~ei~riK~~~p~ 106 (119)
=|++| || -|-.||| ||||||-+..|=
T Consensus 19 Ye~~H-V~-kYHeWMknEelr~LT~SE~L 45 (185)
T KOG4135|consen 19 YEPCH-VP-KYHEWMKNEELRRLTASEPL 45 (185)
T ss_pred ccccc-hh-HHHhHhhhHHHHHhhcCCCc
Confidence 34443 33 4888998 789999988873
No 53
>TIGR03114 cas_csf1 CRISPR-associated protein, Csf1 family. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf1 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies closest to the repeats.
Probab=20.46 E-value=28 Score=28.45 Aligned_cols=15 Identities=33% Similarity=0.738 Sum_probs=11.8
Q ss_pred eeecCCCccCccccC
Q 046045 13 TVKCGHCSNLSFLST 27 (119)
Q Consensus 13 TVRCGHCtnLlsVnm 27 (119)
+--||||+-|+|-.|
T Consensus 32 ~~vCG~C~al~skd~ 46 (202)
T TIGR03114 32 GMVCGHCTALMSKDM 46 (202)
T ss_pred CeeecccHHHhhHHH
Confidence 457999999988554
No 54
>cd03409 Chelatase_Class_II Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the cobaltochelatases, CbiK and CbiX. HemH and SirB are involved in heme and siroheme biosynthesis, respectively, while the cobaltochelatases are associated with cobalamin biosynthesis. Excluded from this family are the ATP-dependent heterotrimeric chelatases (class I) and the multifunctional homodimeric enzymes with dehydrogenase and chelatase activities (class III).
Probab=20.25 E-value=59 Score=21.17 Aligned_cols=24 Identities=13% Similarity=0.452 Sum_probs=19.4
Q ss_pred CchhhhHHHHHHHHHHHHhCCCCC
Q 046045 85 LPSAYNRFMKEEIQRIKAANPEIP 108 (119)
Q Consensus 85 vpsayn~fmK~ei~riK~~~p~i~ 108 (119)
.||.||..+.+-.++|++..|+..
T Consensus 11 ~~s~~~~~~~~~~~~l~~~~~~~~ 34 (101)
T cd03409 11 YKDPYKKDIEAQAHNLAESLPDFP 34 (101)
T ss_pred CCccHHHHHHHHHHHHHHHCCCCC
Confidence 347899999999999998877543
No 55
>KOG1404 consensus Alanine-glyoxylate aminotransferase AGT2 [Amino acid transport and metabolism]
Probab=20.08 E-value=53 Score=29.71 Aligned_cols=14 Identities=43% Similarity=0.667 Sum_probs=11.0
Q ss_pred CcceeeeecCCCcc
Q 046045 8 LLDTVTVKCGHCSN 21 (119)
Q Consensus 8 l~~~VTVRCGHCtn 21 (119)
+--+|||-||||--
T Consensus 56 f~Gi~tvslGHchP 69 (442)
T KOG1404|consen 56 FGGIVTVSLGHCHP 69 (442)
T ss_pred hCCeEEEEcCCCCh
Confidence 34589999999963
No 56
>PF12107 VEK-30: Plasminogen (Pg) ligand in fibrinolytic pathway; InterPro: IPR021965 Pg is an important mediator of angiostatin production in the fibrinolytic pathway. Pg is made up of five subunit kringle molecules (Pg-K1 to Pg-K5), of which the first three make the protein angiostatin. VEK-30 is a domain of the group A streptococcal protein PAM. It binds to Pg-K2 of angiostatin and activates the molecule to mediate its anti-angiogenic effects. VEK-30 binds to angiostatin via a C-terminal lysine with argininyl and glutamyl side chain residues known as a 'through space isostere' [].; PDB: 2KJ4_B 2DOI_B 2DOH_C 1I5K_D.
Probab=20.07 E-value=83 Score=16.58 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=8.1
Q ss_pred HHHHHHHHhC
Q 046045 95 EEIQRIKAAN 104 (119)
Q Consensus 95 ~ei~riK~~~ 104 (119)
.|++|||.+.
T Consensus 3 aeLerLkner 12 (17)
T PF12107_consen 3 AELERLKNER 12 (17)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHhc
Confidence 5899999863
Done!