Query 030194
Match_columns 181
No_of_seqs 14 out of 16
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 10:00:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030194.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030194hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12819 flgG flagellar basal 55.6 13 0.00029 31.5 3.2 40 39-82 153-192 (257)
2 PRK12818 flgG flagellar basal 46.4 41 0.00089 28.7 4.7 22 60-81 172-193 (256)
3 PF08208 RNA_polI_A34: DNA-dir 44.6 43 0.00094 27.0 4.4 48 24-71 39-95 (198)
4 KOG2131 Uncharacterized conser 44.2 11 0.00024 35.8 1.1 29 37-66 271-299 (427)
5 PRK12694 flgG flagellar basal 43.7 28 0.00061 29.6 3.3 22 61-82 172-193 (260)
6 TIGR02490 flgF flagellar basal 41.8 40 0.00087 24.1 3.4 21 61-81 26-46 (89)
7 PRK12691 flgG flagellar basal 41.5 31 0.00068 29.2 3.3 22 61-82 172-193 (262)
8 PRK12693 flgG flagellar basal 41.3 31 0.00066 29.1 3.2 22 61-82 172-193 (261)
9 TIGR02488 flgG_G_neg flagellar 40.9 33 0.00072 29.0 3.4 22 61-82 170-191 (259)
10 PRK12692 flgG flagellar basal 40.4 34 0.00073 29.3 3.4 22 61-82 172-193 (262)
11 COG3338 Cah Carbonic anhydrase 38.9 35 0.00076 30.6 3.3 36 4-42 85-120 (250)
12 PRK12636 flgG flagellar basal 35.6 41 0.00089 28.6 3.1 22 61-82 173-194 (263)
13 PRK12817 flgG flagellar basal 32.2 54 0.0012 27.9 3.3 21 61-81 176-196 (260)
14 PF04225 OapA: Opacity-associa 32.0 33 0.00072 24.9 1.7 19 5-23 45-63 (85)
15 TIGR03506 FlgEFG_subfam fagell 31.9 51 0.0011 27.3 3.1 21 61-81 160-180 (231)
16 PRK12689 flgF flagellar basal 30.0 62 0.0013 27.7 3.3 20 62-81 167-186 (253)
17 PF08661 Rep_fac-A_3: Replicat 29.6 64 0.0014 23.8 3.0 29 1-29 13-46 (109)
18 PTZ00363 rab-GDP dissociation 28.3 1.2E+02 0.0026 27.9 5.1 22 52-73 293-314 (443)
19 TIGR02489 flgE_epsilon flagell 28.0 72 0.0016 31.9 3.8 40 39-82 610-650 (719)
20 PRK12816 flgG flagellar basal 25.6 82 0.0018 27.0 3.3 22 61-82 174-195 (264)
21 KOG0537 Cytochrome b5 [Energy 25.5 33 0.00071 26.9 0.8 23 26-48 26-49 (124)
22 PF13103 TonB_2: TonB C termin 24.2 55 0.0012 22.1 1.6 21 8-28 29-51 (85)
23 PF12392 DUF3656: Collagenase 22.1 1.4E+02 0.0031 22.1 3.7 43 5-48 34-100 (122)
24 PF09936 Methyltrn_RNA_4: SAM- 22.0 45 0.00097 28.6 1.0 12 61-72 5-16 (185)
25 PF02373 JmjC: JmjC domain, hy 20.3 50 0.0011 22.9 0.8 14 37-50 84-97 (114)
26 PRK12690 flgF flagellar basal 20.2 1.2E+02 0.0026 25.8 3.3 21 61-81 155-175 (238)
No 1
>PRK12819 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=55.55 E-value=13 Score=31.52 Aligned_cols=40 Identities=5% Similarity=0.148 Sum_probs=26.3
Q ss_pred CCCceEEecCCCCCcccceeeeeEEeeecCCchhhhccCCcccc
Q 030194 39 EPDEMVFLNYPSEPKIVGKISRRVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 39 ~pDatVfl~S~se~kivGKISRRVslV~YPeP~Elek~~~~~~~ 82 (181)
++|-+|+.-... ..||+| +|.||.+|+|..|++..-+-.+
T Consensus 153 ~~dG~I~~~~~~--~~vg~l--~l~~v~~~~~~~L~~~g~~lf~ 192 (257)
T PRK12819 153 QADGTLYDAVTQ--NNIARL--QTKTVSAEQNDRLVQRENKSFT 192 (257)
T ss_pred cCCCEEEEEeCC--ceEEEE--EEEEeCCCCHHHCeECCCCeEe
Confidence 356666552111 247777 6677999999999996655443
No 2
>PRK12818 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=46.44 E-value=41 Score=28.67 Aligned_cols=22 Identities=0% Similarity=0.230 Sum_probs=17.3
Q ss_pred eeEEeeecCCchhhhccCCccc
Q 030194 60 RRVSLVHYPEPKEVEELNPDKI 81 (181)
Q Consensus 60 RRVslV~YPeP~Elek~~~~~~ 81 (181)
-++.||.+++|..|++...+-.
T Consensus 172 g~l~lv~~~~p~~L~~~g~~lf 193 (256)
T PRK12818 172 YKFNVADFNDYNSLKKIGDNLY 193 (256)
T ss_pred EEEEEEecCChHHCeecCCCcc
Confidence 3578999999999999665444
No 3
>PF08208 RNA_polI_A34: DNA-directed RNA polymerase I subunit RPA34.5; InterPro: IPR013240 This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription [].; PDB: 3NFG_N.
Probab=44.60 E-value=43 Score=26.98 Aligned_cols=48 Identities=15% Similarity=0.241 Sum_probs=27.3
Q ss_pred CCCCceeeeeeec---cCCCCceEEecCCCCCc-c--cceeeeeEEee---ecCCch
Q 030194 24 DSSGKAYDIVSND---FQEPDEMVFLNYPSEPK-I--VGKISRRVSLV---HYPEPK 71 (181)
Q Consensus 24 ~SsGk~YdlvSfa---aQ~pDatVfl~S~se~k-i--vGKISRRVslV---~YPeP~ 71 (181)
.-+|..|.|..-. ...-..+||||+..... . -=.|.|-+.|. ..|...
T Consensus 39 ~~~~~~Y~i~~~~~~~~~~~~~~lL~p~~~~~~~~~~~~~~~~~~~I~e~~~ip~~~ 95 (198)
T PF08208_consen 39 KHKGKDYQISEDSINQEESSSISLLLPSKKGGGYLVASKPFDRFLHISEIVQIPQID 95 (198)
T ss_dssp EETTEEEEEEEGGGSGS--TTEEEEEE-SSSTTEEESB---SEEEEEEE--------
T ss_pred eeCCceEEEEecccCccccCCeEEEeEcCCCCceeccCCCcceEEEEEEecCCCCcc
Confidence 5679999999876 45778899999966654 2 34677777765 555555
No 4
>KOG2131 consensus Uncharacterized conserved protein, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=44.24 E-value=11 Score=35.79 Aligned_cols=29 Identities=34% Similarity=0.464 Sum_probs=23.7
Q ss_pred cCCCCceEEecCCCCCcccceeeeeEEeee
Q 030194 37 FQEPDEMVFLNYPSEPKIVGKISRRVSLVH 66 (181)
Q Consensus 37 aQ~pDatVfl~S~se~kivGKISRRVslV~ 66 (181)
.|+|.+|||+||+=-- -|=+|...+||-|
T Consensus 271 ~Qepge~VFvPsGW~h-QV~NL~dTISINH 299 (427)
T KOG2131|consen 271 FQEPGETVFVPSGWHH-QVLNLGDTISINH 299 (427)
T ss_pred hccCCceeeccCcccc-ccccccceeeecc
Confidence 6999999999996443 3778888888876
No 5
>PRK12694 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=43.72 E-value=28 Score=29.59 Aligned_cols=22 Identities=9% Similarity=0.288 Sum_probs=17.3
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
++.||.|++|..|++...+-.+
T Consensus 172 ~l~lv~~~~~~~L~~~G~~lf~ 193 (260)
T PRK12694 172 QLQLATFINPAGLQAKGENLFA 193 (260)
T ss_pred eeEEEecCChHhCeEcCCCceE
Confidence 4679999999999997655443
No 6
>TIGR02490 flgF flagellar basal-body rod protein FlgF. Members of this protein are FlgF, one of several homologous flagellar basal-body rod proteins in bacteria.
Probab=41.80 E-value=40 Score=24.10 Aligned_cols=21 Identities=19% Similarity=0.488 Sum_probs=16.7
Q ss_pred eEEeeecCCchhhhccCCccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKI 81 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~ 81 (181)
++.||+|++|+.|++..-+-.
T Consensus 26 ~l~l~~f~~~~~L~~~g~~~~ 46 (89)
T TIGR02490 26 RLGLVNFDNPNQLQREGDGLF 46 (89)
T ss_pred EEEEEecCCHHHceEcCCCeE
Confidence 478999999999998655444
No 7
>PRK12691 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=41.54 E-value=31 Score=29.18 Aligned_cols=22 Identities=14% Similarity=0.439 Sum_probs=17.3
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
++.||.|++|..|++..-+-.+
T Consensus 172 ~l~lv~~~~~~~L~~~g~~lf~ 193 (262)
T PRK12691 172 QITLARFTNEAGLEAIGDNLFR 193 (262)
T ss_pred eeEEEecCChHHCeECCCCeEE
Confidence 4579999999999987655543
No 8
>PRK12693 flgG flagellar basal body rod protein FlgG; Provisional
Probab=41.32 E-value=31 Score=29.08 Aligned_cols=22 Identities=14% Similarity=0.392 Sum_probs=17.0
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
++.||.|++|..|++..-+-.+
T Consensus 172 ~l~~~~~~~~~~L~~~g~~lf~ 193 (261)
T PRK12693 172 QITLTDFINPAGLESIGENLYL 193 (261)
T ss_pred ceeEEecCChHHceECCCceEE
Confidence 3679999999999996655443
No 9
>TIGR02488 flgG_G_neg flagellar basal-body rod protein FlgG, Gram-negative bacteria. This family consists of the FlgG protein of the flagellar apparatus in the Proteobacteria and spirochetes.
Probab=40.95 E-value=33 Score=28.99 Aligned_cols=22 Identities=18% Similarity=0.495 Sum_probs=17.3
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
|+.||.|++|++|++..-+-.+
T Consensus 170 ~l~lv~~~~~~~L~~~g~~lf~ 191 (259)
T TIGR02488 170 QITLATFINPAGLEAVGENLFR 191 (259)
T ss_pred eEEEEecCCHHHCeEcCCCcEE
Confidence 4679999999999996655443
No 10
>PRK12692 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=40.45 E-value=34 Score=29.33 Aligned_cols=22 Identities=18% Similarity=0.389 Sum_probs=17.0
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
++.||.+++|..|++..-+-.+
T Consensus 172 ~l~lv~~~~~~~L~~~g~~lf~ 193 (262)
T PRK12692 172 QLTLANFANESGLEPLGNGLYR 193 (262)
T ss_pred eEEEEecCChHHCeEcCCccEe
Confidence 4669999999999986655443
No 11
>COG3338 Cah Carbonic anhydrase [Inorganic ion transport and metabolism]
Probab=38.85 E-value=35 Score=30.60 Aligned_cols=36 Identities=22% Similarity=0.516 Sum_probs=27.8
Q ss_pred CCCceeEEEecCCCccccccCCCCceeeeeeeccCCCCc
Q 030194 4 FDGKELSLELRGNGRLGSFEDSSGKAYDIVSNDFQEPDE 42 (181)
Q Consensus 4 f~g~elsl~l~~DG~lgsfe~SsGk~YdlvSfaaQ~pDa 42 (181)
+||.+|.+....++++=.| +||.|+||.|.+--|-+
T Consensus 85 nnghTiqv~~~~~~n~l~~---~gk~y~L~qfHFH~PsE 120 (250)
T COG3338 85 NNGHTIQVNFEPGSNHLRY---DGKTYQLVQFHFHAPSE 120 (250)
T ss_pred ecCcEEEEeccCCCcceee---cCcEEEEEEEEecCchH
Confidence 5788888888876555543 69999999999876643
No 12
>PRK12636 flgG flagellar basal body rod protein FlgG; Provisional
Probab=35.56 E-value=41 Score=28.63 Aligned_cols=22 Identities=18% Similarity=0.480 Sum_probs=17.9
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
++.||.|++|.+|++...+-.+
T Consensus 173 ~l~lv~f~~~~~L~~~g~~lf~ 194 (263)
T PRK12636 173 QIGLATFANPDGLEKAGDNLYR 194 (263)
T ss_pred EEEEEecCChHhCeEcCCceEE
Confidence 6789999999999997665544
No 13
>PRK12817 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=32.23 E-value=54 Score=27.89 Aligned_cols=21 Identities=0% Similarity=0.064 Sum_probs=16.8
Q ss_pred eEEeeecCCchhhhccCCccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKI 81 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~ 81 (181)
++.||.+++|..|++..-+-.
T Consensus 176 ~l~lv~~~~~~~L~~~g~~lf 196 (260)
T PRK12817 176 KINIYNAVGNDAFISIGDNLY 196 (260)
T ss_pred EEEEEeccChHHceecCCceE
Confidence 578999999999998665444
No 14
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=31.96 E-value=33 Score=24.94 Aligned_cols=19 Identities=26% Similarity=0.611 Sum_probs=13.9
Q ss_pred CCceeEEEecCCCcccccc
Q 030194 5 DGKELSLELRGNGRLGSFE 23 (181)
Q Consensus 5 ~g~elsl~l~~DG~lgsfe 23 (181)
-|++|.+.++.||.|..+.
T Consensus 45 pGq~l~f~~d~~g~L~~L~ 63 (85)
T PF04225_consen 45 PGQTLEFQLDEDGQLTALR 63 (85)
T ss_dssp TT-EEEEEE-TTS-EEEEE
T ss_pred CCCEEEEEECCCCCEEEEE
Confidence 4999999999999998765
No 15
>TIGR03506 FlgEFG_subfam fagellar hook-basal body proteins. This model encompasses three closely related flagellar proteins usually denoted FlgE, FlgF and FlgG. The names have often been mis-assigned, however. Three equivalog models, TIGR02489, TIGR02490 and TIGR00488, respectively, separate the individual forms into three genome-context consistent groups. The major differences between these genes are architectural, with variable central sections between relatively conserved N- and C-terminal domains. More distantly related are two other flagellar apparatus familis, FlgC (TIGR01395) which consists of little else but the N-and C-terminal domains and FlgK (TIGR02492) with a substantial but different central domain.
Probab=31.89 E-value=51 Score=27.34 Aligned_cols=21 Identities=14% Similarity=0.488 Sum_probs=17.1
Q ss_pred eEEeeecCCchhhhccCCccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKI 81 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~ 81 (181)
++.||.+++|+.|++..-+-.
T Consensus 160 ~l~l~~~~~~~~L~~~g~~lf 180 (231)
T TIGR03506 160 QIALANFPNPDGLRKEGGNLY 180 (231)
T ss_pred eEeEEecCCHHHceEcCCceE
Confidence 688999999999998665443
No 16
>PRK12689 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=29.96 E-value=62 Score=27.67 Aligned_cols=20 Identities=15% Similarity=0.428 Sum_probs=16.0
Q ss_pred EEeeecCCchhhhccCCccc
Q 030194 62 VSLVHYPEPKEVEELNPDKI 81 (181)
Q Consensus 62 VslV~YPeP~Elek~~~~~~ 81 (181)
+.||.+++|.+|++..-+-.
T Consensus 167 i~lv~~~~~~~L~~~g~~lf 186 (253)
T PRK12689 167 LRLVTFANPQALKKEGANLY 186 (253)
T ss_pred EEEEecCChHHCeEcCCCcE
Confidence 57999999999999665443
No 17
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=29.63 E-value=64 Score=23.81 Aligned_cols=29 Identities=21% Similarity=0.464 Sum_probs=18.0
Q ss_pred CCCCCCceeEE-----EecCCCccccccCCCCce
Q 030194 1 MPDFDGKELSL-----ELRGNGRLGSFEDSSGKA 29 (181)
Q Consensus 1 l~Df~g~elsl-----~l~~DG~lgsfe~SsGk~ 29 (181)
|+.|.|+.+.| .++.+|....++.++|+.
T Consensus 13 L~~~~gk~VrivGkv~~~~~~g~~~~l~~~d~~~ 46 (109)
T PF08661_consen 13 LSQFVGKTVRIVGKVESVDPDGGSATLSTSDGGQ 46 (109)
T ss_dssp GGGGTTSEEEEEEEEEEE-TTSSEEEEE-TTS-E
T ss_pred HHhhCCCeEEEEEEEeeEcCCCCEEEEEcCCCCE
Confidence 45678888776 355667777777777763
No 18
>PTZ00363 rab-GDP dissociation inhibitor; Provisional
Probab=28.31 E-value=1.2e+02 Score=27.92 Aligned_cols=22 Identities=32% Similarity=0.517 Sum_probs=18.3
Q ss_pred CcccceeeeeEEeeecCCchhh
Q 030194 52 PKIVGKISRRVSLVHYPEPKEV 73 (181)
Q Consensus 52 ~kivGKISRRVslV~YPeP~El 73 (181)
.+.+|+|.|.|||+.=|-|+-.
T Consensus 293 ~~~~~~v~R~i~i~~~pi~~~~ 314 (443)
T PTZ00363 293 VKKVGKVIRCICILNHPIPNTN 314 (443)
T ss_pred cccccEEEEEEEEEcccccccC
Confidence 3469999999999998887743
No 19
>TIGR02489 flgE_epsilon flagellar hook protein FlgE, epsilon proteobacterial. Members of this family are flagellar hook proteins, designated FlgE, as found in the epsilon subdivision of the Proteobacteria (Helicobacter, Wolinella, and Campylobacter). These proteins differ significantly in architecture from proteins designated FlgE in other lineages; the N-terminal and C-terminal domains are homologous, but members of this family only contain a large central domain that is surface-exposed and variable between strains.
Probab=28.04 E-value=72 Score=31.91 Aligned_cols=40 Identities=3% Similarity=0.184 Sum_probs=25.4
Q ss_pred CCCceEEecCC-CCCcccceeeeeEEeeecCCchhhhccCCcccc
Q 030194 39 EPDEMVFLNYP-SEPKIVGKISRRVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 39 ~pDatVfl~S~-se~kivGKISRRVslV~YPeP~Elek~~~~~~~ 82 (181)
++|-+|+.... .+..+|| +|+||+|++|++|++..-.-.+
T Consensus 610 d~dG~I~g~ysNG~~~~lg----qIala~F~np~gL~~~G~nl~~ 650 (719)
T TIGR02489 610 DSNGNLLGEFSNGKTFALA----QVAMASFANNSGLQAEGGNLFS 650 (719)
T ss_pred CCCCEEEEEEeCCceEEEE----EEEEEecCChHHheEcCCceEE
Confidence 45666653221 2333455 5789999999999997654443
No 20
>PRK12816 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=25.61 E-value=82 Score=27.04 Aligned_cols=22 Identities=9% Similarity=0.415 Sum_probs=17.1
Q ss_pred eEEeeecCCchhhhccCCcccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKIR 82 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~~ 82 (181)
++.||.|++|..|++..-+-.+
T Consensus 174 ~l~lv~~~~~~~L~~~g~~lf~ 195 (264)
T PRK12816 174 QIELYRFVNPAGLSAIGKNLFK 195 (264)
T ss_pred eEEEEeccChHHceEcCCCcEE
Confidence 4679999999999986655443
No 21
>KOG0537 consensus Cytochrome b5 [Energy production and conversion]
Probab=25.55 E-value=33 Score=26.89 Aligned_cols=23 Identities=39% Similarity=0.580 Sum_probs=17.9
Q ss_pred CCceeeeeeeccCCCCc-eEEecC
Q 030194 26 SGKAYDIVSNDFQEPDE-MVFLNY 48 (181)
Q Consensus 26 sGk~YdlvSfaaQ~pDa-tVfl~S 48 (181)
.|++||+-.|.-.-|+- .|++-.
T Consensus 26 ~gkVYDvT~Fl~eHPGG~~vLl~~ 49 (124)
T KOG0537|consen 26 HGKVYDVTSFLDEHPGGEDVLLEY 49 (124)
T ss_pred CCEEEeccchhhhCCChHHHHHHH
Confidence 58999999999988875 455444
No 22
>PF13103 TonB_2: TonB C terminal; PDB: 1LR0_A.
Probab=24.17 E-value=55 Score=22.15 Aligned_cols=21 Identities=24% Similarity=0.431 Sum_probs=12.7
Q ss_pred eeEEEecCCCccc--cccCCCCc
Q 030194 8 ELSLELRGNGRLG--SFEDSSGK 28 (181)
Q Consensus 8 elsl~l~~DG~lg--sfe~SsGk 28 (181)
+|.|.|+.||.+- .+..+||-
T Consensus 29 ~V~i~i~~dG~v~~~~i~~sSG~ 51 (85)
T PF13103_consen 29 TVRITIDPDGRVISVRIVKSSGN 51 (85)
T ss_dssp EEEEEE-TTSBEEEEEEEE--S-
T ss_pred EEEEEECCCCCEEEEEEecCCCC
Confidence 5789999999983 44555554
No 23
>PF12392 DUF3656: Collagenase ; InterPro: IPR020988 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This domain is found in a number of proteins belonging to the MEROPS peptidase family U32. Peptidase family U32 contains endopeptidases, including collagenase, from bacteria.
Probab=22.09 E-value=1.4e+02 Score=22.10 Aligned_cols=43 Identities=21% Similarity=0.370 Sum_probs=30.8
Q ss_pred CCceeEEEec-CCCccccccCCC-----------------------CceeeeeeeccCCCCceEEecC
Q 030194 5 DGKELSLELR-GNGRLGSFEDSS-----------------------GKAYDIVSNDFQEPDEMVFLNY 48 (181)
Q Consensus 5 ~g~elsl~l~-~DG~lgsfe~Ss-----------------------Gk~YdlvSfaaQ~pDatVfl~S 48 (181)
.|+.+.|++. .||.-...+... |-.|++..+... -|..+|||-
T Consensus 34 ~g~p~~l~~~d~~~~~v~~~~~~~~e~A~~~p~~~e~i~~ql~KlG~T~F~~~~i~i~-~~~~lFlP~ 100 (122)
T PF12392_consen 34 KGEPLKLTLSDEDGNSVEVTSEIVPEPAKKRPLDEERIRKQLSKLGNTPFELENIEID-LDEGLFLPI 100 (122)
T ss_pred cCCCEEEEEEECCCcEEEEEecCCchhhCCCccCHHHHHHHHHhhCCCcEEEEEEEEE-cCCCEEEEH
Confidence 3677777777 777666544322 557888888887 788899985
No 24
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=22.02 E-value=45 Score=28.62 Aligned_cols=12 Identities=42% Similarity=0.783 Sum_probs=7.5
Q ss_pred eEEeeecCCchh
Q 030194 61 RVSLVHYPEPKE 72 (181)
Q Consensus 61 RVslV~YPeP~E 72 (181)
-|+|||||--+.
T Consensus 5 yiaLvHyPV~nk 16 (185)
T PF09936_consen 5 YIALVHYPVYNK 16 (185)
T ss_dssp EEEEE-SSEE-T
T ss_pred EEEEeecccccC
Confidence 379999996543
No 25
>PF02373 JmjC: JmjC domain, hydroxylase; InterPro: IPR013129 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with jmjN (see IPR003349 from INTERPRO) and belongs to the Cupin superfamily [].; PDB: 2YU2_A 2YU1_A 3AVR_A 3AVS_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=20.25 E-value=50 Score=22.92 Aligned_cols=14 Identities=36% Similarity=0.610 Sum_probs=9.8
Q ss_pred cCCCCceEEecCCC
Q 030194 37 FQEPDEMVFLNYPS 50 (181)
Q Consensus 37 aQ~pDatVfl~S~s 50 (181)
-|+|.++||+|.+.
T Consensus 84 ~Q~~Ge~V~i~pg~ 97 (114)
T PF02373_consen 84 VQKPGEFVFIPPGA 97 (114)
T ss_dssp EEETT-EEEE-TT-
T ss_pred eECCCCEEEECCCc
Confidence 59999999999864
No 26
>PRK12690 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=20.20 E-value=1.2e+02 Score=25.81 Aligned_cols=21 Identities=10% Similarity=0.252 Sum_probs=16.7
Q ss_pred eEEeeecCCchhhhccCCccc
Q 030194 61 RVSLVHYPEPKEVEELNPDKI 81 (181)
Q Consensus 61 RVslV~YPeP~Elek~~~~~~ 81 (181)
++.||.+++|.+|++..-+-.
T Consensus 155 ~l~lv~~~~~~~L~~~g~~lf 175 (238)
T PRK12690 155 QIGLYQPTDPLGLRREGGTRF 175 (238)
T ss_pred eEEEEecCCHHHCeECCCCcE
Confidence 467999999999999665444
Done!