Query psy6472
Match_columns 72
No_of_seqs 65 out of 67
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 19:00:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6472.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6472hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05008 V-SNARE: Vesicle tran 85.7 5.4 0.00012 23.5 6.2 45 14-58 7-51 (79)
2 PRK04778 septation ring format 72.7 21 0.00045 28.8 7.0 48 4-51 170-217 (569)
3 PF08614 ATG16: Autophagy prot 69.4 20 0.00044 24.8 5.6 52 5-61 101-152 (194)
4 PF04728 LPP: Lipoprotein leuc 67.2 19 0.00041 21.5 4.4 28 33-60 4-31 (56)
5 PF10152 DUF2360: Predicted co 65.6 5.5 0.00012 27.1 2.1 16 2-17 17-32 (148)
6 PRK04778 septation ring format 64.8 38 0.00083 27.3 7.0 57 4-60 77-133 (569)
7 PRK14070 exodeoxyribonuclease 61.4 8 0.00017 23.7 2.1 27 2-28 33-59 (69)
8 PF03980 Nnf1: Nnf1 ; InterPr 59.9 41 0.00088 21.1 7.4 58 3-60 31-108 (109)
9 PF06160 EzrA: Septation ring 58.3 61 0.0013 26.2 7.2 56 5-60 74-129 (560)
10 PRK13182 racA polar chromosome 56.3 36 0.00077 23.9 5.0 46 6-51 99-144 (175)
11 PF09036 Bcr-Abl_Oligo: Bcr-Ab 53.7 28 0.0006 22.2 3.7 34 23-56 17-50 (79)
12 PRK10803 tol-pal system protei 51.9 92 0.002 22.8 7.1 52 3-59 37-88 (263)
13 PRK14064 exodeoxyribonuclease 51.0 12 0.00025 23.1 1.6 16 2-17 44-59 (75)
14 PF06160 EzrA: Septation ring 48.8 67 0.0015 26.0 6.0 48 4-51 166-213 (560)
15 PF14966 DNA_repr_REX1B: DNA r 48.2 70 0.0015 20.4 6.1 52 8-59 45-97 (97)
16 PF11471 Sugarporin_N: Maltopo 45.2 62 0.0013 19.1 4.1 24 28-51 28-51 (60)
17 PF14917 CCDC74_C: Coiled coil 44.8 20 0.00043 24.8 2.1 13 41-53 16-28 (130)
18 PF04336 DUF479: Protein of un 42.8 85 0.0018 19.8 5.7 46 9-56 59-104 (106)
19 PF08334 T2SG: Type II secreti 41.7 83 0.0018 19.5 4.6 28 33-65 10-37 (108)
20 PF07352 Phage_Mu_Gam: Bacteri 41.3 1.1E+02 0.0023 20.4 5.3 45 4-52 15-59 (149)
21 TIGR02132 phaR_Bmeg polyhydrox 39.3 1.5E+02 0.0033 21.6 6.3 50 4-53 84-135 (189)
22 COG1722 XseB Exonuclease VII s 39.2 27 0.00058 21.9 1.9 16 3-18 49-64 (81)
23 KOG1666|consensus 38.7 1.6E+02 0.0036 21.9 6.6 52 6-57 10-61 (220)
24 KOG4807|consensus 34.3 1.5E+02 0.0032 24.7 5.9 51 10-60 474-533 (593)
25 PF07304 SRA1: Steroid recepto 34.0 78 0.0017 21.6 3.8 26 46-71 89-114 (157)
26 PRK14063 exodeoxyribonuclease 33.6 36 0.00079 20.9 1.9 16 2-17 43-58 (76)
27 TIGR01280 xseB exodeoxyribonuc 32.8 30 0.00065 20.7 1.4 16 2-17 39-54 (67)
28 PRK00888 ftsB cell division pr 32.2 1.4E+02 0.003 19.1 4.6 33 29-61 31-63 (105)
29 KOG2685|consensus 31.3 1.2E+02 0.0026 24.7 4.8 34 36-72 383-418 (421)
30 PF10779 XhlA: Haemolysin XhlA 31.2 1.2E+02 0.0025 17.9 6.6 19 4-22 4-22 (71)
31 PF05377 FlaC_arch: Flagella a 30.4 1.2E+02 0.0027 17.9 5.3 40 8-52 2-41 (55)
32 PF07342 DUF1474: Protein of u 30.3 47 0.001 22.0 2.1 13 48-60 5-17 (100)
33 PF03938 OmpH: Outer membrane 29.8 1.6E+02 0.0034 19.0 7.0 52 5-56 49-100 (158)
34 PRK14066 exodeoxyribonuclease 29.5 33 0.00072 21.1 1.2 17 2-18 42-58 (75)
35 PF04642 DUF601: Protein of un 28.4 61 0.0013 25.2 2.7 42 16-57 234-277 (311)
36 PF02609 Exonuc_VII_S: Exonucl 28.2 35 0.00076 19.2 1.1 15 2-16 37-51 (53)
37 PF07334 IFP_35_N: Interferon- 27.3 1.2E+02 0.0026 19.0 3.5 27 34-60 9-35 (76)
38 COG3657 Uncharacterized protei 27.0 63 0.0014 21.4 2.2 28 10-37 23-50 (100)
39 PRK14068 exodeoxyribonuclease 27.0 39 0.00085 20.9 1.2 17 2-18 44-60 (76)
40 PF14448 Nuc_N: Nuclease N ter 25.7 85 0.0018 19.0 2.5 19 8-26 36-54 (60)
41 PF08172 CASP_C: CASP C termin 25.4 1.7E+02 0.0038 21.6 4.6 29 32-60 93-121 (248)
42 PF06320 GCN5L1: GCN5-like pro 25.0 1.4E+02 0.003 19.7 3.7 27 28-54 88-114 (121)
43 KOG4496|consensus 24.8 89 0.0019 22.6 2.8 20 3-22 45-64 (194)
44 PRK00977 exodeoxyribonuclease 24.1 48 0.001 20.5 1.2 16 2-17 48-63 (80)
45 COG4477 EzrA Negative regulato 24.0 3E+02 0.0065 23.3 6.1 45 3-47 168-212 (570)
46 PF10226 DUF2216: Uncharacteri 24.0 2E+02 0.0043 21.1 4.5 31 30-60 106-136 (195)
47 PF09823 DUF2357: Domain of un 23.8 74 0.0016 22.0 2.3 50 5-60 177-227 (248)
48 KOG2417|consensus 23.8 1.3E+02 0.0028 24.6 3.9 34 28-61 245-278 (462)
49 PRK06771 hypothetical protein; 23.3 97 0.0021 20.2 2.6 19 6-24 19-37 (93)
50 cd07639 BAR_ACAP1 The Bin/Amph 23.2 1.7E+02 0.0036 21.1 4.0 29 33-61 3-31 (200)
51 PF08919 F_actin_bind: F-actin 23.1 1.9E+02 0.0042 19.0 4.1 44 10-56 66-109 (110)
52 COG1382 GimC Prefoldin, chaper 22.4 2.5E+02 0.0055 18.9 5.4 20 36-55 95-114 (119)
53 PRK11637 AmiB activator; Provi 22.2 3.7E+02 0.008 20.7 7.5 17 38-54 102-118 (428)
54 PF10798 YmgB: Biofilm develop 22.1 98 0.0021 18.3 2.3 23 21-46 14-36 (61)
55 KOG0810|consensus 22.0 1.9E+02 0.0041 22.0 4.3 39 23-61 190-231 (297)
56 PF07851 TMPIT: TMPIT-like pro 21.7 2.3E+02 0.0051 22.1 4.8 36 17-52 53-88 (330)
57 PRK13729 conjugal transfer pil 21.2 4.4E+02 0.0096 21.7 6.4 48 8-60 71-118 (475)
58 PF10146 zf-C4H2: Zinc finger- 21.1 3.4E+02 0.0074 19.8 5.9 19 36-54 57-75 (230)
59 PF10805 DUF2730: Protein of u 20.7 2.4E+02 0.0052 17.9 7.3 54 5-58 41-98 (106)
60 COG4477 EzrA Negative regulato 20.5 3.6E+02 0.0078 22.9 5.9 40 21-60 93-132 (570)
61 PRK14069 exodeoxyribonuclease 20.4 86 0.0019 20.3 1.9 17 2-18 46-62 (95)
No 1
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=85.69 E-value=5.4 Score=23.53 Aligned_cols=45 Identities=27% Similarity=0.386 Sum_probs=32.9
Q ss_pred HHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 14 RINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTL 58 (72)
Q Consensus 14 ~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~L 58 (72)
-|..-+.++.....-+-...+..++.+|.+++++|.+|=..|+-+
T Consensus 7 ~i~~~l~~~~~~~~~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~ 51 (79)
T PF05008_consen 7 EIKSKLERIKNLSGEQRKSLIREIERDLDEAEELLKQMELEVRSL 51 (79)
T ss_dssp HHHHHHHHGGGS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHHhhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 344444455554445788889999999999999999998877643
No 2
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=72.66 E-value=21 Score=28.78 Aligned_cols=48 Identities=21% Similarity=0.329 Sum_probs=42.1
Q ss_pred hhhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHH
Q psy6472 4 VDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTL 51 (72)
Q Consensus 4 ceekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~l 51 (72)
-|.+|..++.....=...-++|-|.+|...+..++.++..++..|..+
T Consensus 170 le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~l~~~~~~i 217 (569)
T PRK04778 170 LEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAALEQIMEEI 217 (569)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367888888888888888899999999999999999999999888765
No 3
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=69.36 E-value=20 Score=24.81 Aligned_cols=52 Identities=25% Similarity=0.440 Sum_probs=32.8
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy6472 5 DGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLREG 61 (72)
Q Consensus 5 eekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkdg 61 (72)
..+|...+..+..+.++|.. .+.++..++..+...+..|+.....+++|+|.
T Consensus 101 ~~~l~~l~~~~~~~~~~l~~-----l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE 152 (194)
T PF08614_consen 101 NDELQELEKELSEKERRLAE-----LEAELAQLEEKIKDLEEELKEKNKANEILQDE 152 (194)
T ss_dssp -------------HHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchhhhhHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667777777777776 66778888888889999999999999988885
No 4
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=67.16 E-value=19 Score=21.48 Aligned_cols=28 Identities=32% Similarity=0.555 Sum_probs=19.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 33 NVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 33 ~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
-++.+..|++.+-+-|.+|-+||..|+.
T Consensus 4 kid~Ls~dVq~L~~kvdqLs~dv~~lr~ 31 (56)
T PF04728_consen 4 KIDQLSSDVQTLNSKVDQLSSDVNALRA 31 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777777777777777777763
No 5
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=65.57 E-value=5.5 Score=27.06 Aligned_cols=16 Identities=19% Similarity=0.518 Sum_probs=14.3
Q ss_pred cchhhHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINE 17 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~ 17 (72)
..||+||..++.+||.
T Consensus 17 ~~cE~kL~~~e~~Lq~ 32 (148)
T PF10152_consen 17 SVCEEKLSDMEQRLQR 32 (148)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4799999999999987
No 6
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=64.77 E-value=38 Score=27.27 Aligned_cols=57 Identities=28% Similarity=0.423 Sum_probs=47.6
Q ss_pred hhhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 4 VDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 4 ceekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
+..++..++..|-+-...+++.+=..+.+.+..++..|+.+|+-|..+...++.|+.
T Consensus 77 ~~~~~~~ie~~l~~ae~~~~~~~f~~a~~~~~~~~~~l~~~e~~~~~i~~~l~~l~~ 133 (569)
T PRK04778 77 VTNSLPDIEEQLFEAEELNDKFRFRKAKHEINEIESLLDLIEEDIEQILEELQELLE 133 (569)
T ss_pred HHhhhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566667777776677888888899999999999999999999999999998875
No 7
>PRK14070 exodeoxyribonuclease VII small subunit; Provisional
Probab=61.38 E-value=8 Score=23.69 Aligned_cols=27 Identities=11% Similarity=0.142 Sum_probs=19.4
Q ss_pred cchhhHHHHHHHHHHHHHHHhhcCCcc
Q psy6472 2 KRVDGRLEELESRINEEARRLDRLHPL 28 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~d~rrle~g~p~ 28 (72)
+.|..+|+.|+..|+.-+...+...|+
T Consensus 33 k~C~~~L~~aE~kI~~l~~e~~~~~~~ 59 (69)
T PRK14070 33 RKCKEILQQNRLKIIDVMKELEGEIDA 59 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccccc
Confidence 568888888888888766655555444
No 8
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=59.92 E-value=41 Score=21.11 Aligned_cols=58 Identities=28% Similarity=0.358 Sum_probs=41.1
Q ss_pred chhhHHHHHHHHHHHHHHHhhcCCc--------ch------------hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 3 RVDGRLEELESRINEEARRLDRLHP--------LD------------AKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 3 ~ceekL~~~~~~lq~d~rrle~g~p--------~q------------~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
....||+.++..+.+--.|-.+|.. +. -+...+.+..-|++.+.-...++..|+.+|.
T Consensus 31 ~v~~kLneLd~Li~eA~~r~~~~~~~~~~~~~~l~P~~~i~a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r~ 108 (109)
T PF03980_consen 31 DVVEKLNELDKLIEEAKERKNSGEREKPVWRHSLTPEEDIRAHLAPYKKKEREQLNARLQELEEENEALAEEIQEQRK 108 (109)
T ss_pred hHHHHHHHHHHHHHHHHHhHhccccCCCCCCCCCChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3467999999999988777775432 11 2334556667788888888888888877764
No 9
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=58.29 E-value=61 Score=26.19 Aligned_cols=56 Identities=25% Similarity=0.415 Sum_probs=46.8
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 5 DGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 5 eekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
..++..++..|-+-..-+++.+-..+.+.+..++..|..+|.-|..+...+..|.+
T Consensus 74 ~~~~~~ie~~L~~ae~~~~~~rf~ka~~~i~~~~~~l~~~e~~i~~i~~~l~~L~~ 129 (560)
T PF06160_consen 74 TKQLPEIEEQLFEAEEYADKYRFKKAKQAIKEIEEQLDEIEEDIKEILDELDELLE 129 (560)
T ss_pred HHhhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666777666666888999999999999999999999999999999988875
No 10
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=56.31 E-value=36 Score=23.94 Aligned_cols=46 Identities=22% Similarity=0.413 Sum_probs=32.4
Q ss_pred hHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHH
Q psy6472 6 GRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTL 51 (72)
Q Consensus 6 ekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~l 51 (72)
+++..++..+..=+--+.|=+=+||-++++++-..|.++|..|..+
T Consensus 99 ~ri~eLe~~l~~kad~vvsYqll~hr~e~ee~~~~l~~le~~~~~~ 144 (175)
T PRK13182 99 RRLDELERQLQQKADDVVSYQLLQHRREMEEMLERLQKLEARLKKL 144 (175)
T ss_pred HHHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444556666889999999999999999999883
No 11
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=53.74 E-value=28 Score=22.20 Aligned_cols=34 Identities=24% Similarity=0.364 Sum_probs=22.9
Q ss_pred hcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 23 DRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQ 56 (72)
Q Consensus 23 e~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq 56 (72)
++-.|+-.=+-|..+|++|..|-+.||.|-..|.
T Consensus 17 ~~~~p~m~l~svgd~e~eLerCK~sirrLeqevn 50 (79)
T PF09036_consen 17 DSEPPVMELRSVGDIEQELERCKASIRRLEQEVN 50 (79)
T ss_dssp TS-------SSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCcHHHHHHhccHHHHHHHHHHHHHHHHHHHH
Confidence 3445555556677899999999999999988864
No 12
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=51.91 E-value=92 Score=22.78 Aligned_cols=52 Identities=13% Similarity=0.169 Sum_probs=29.6
Q ss_pred chhhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 3 RVDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLR 59 (72)
Q Consensus 3 ~ceekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lk 59 (72)
..+.+++.++..+....+- .++-..-++.+.+|++.+-+.|..+..+++.++
T Consensus 37 ~~~~r~~~le~~~~~~~~~-----~~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~ 88 (263)
T PRK10803 37 SVEDRVTQLERISNAHSQL-----LTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVV 88 (263)
T ss_pred chHHHHHHHHHHHHhhhHH-----HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3455555555444433221 133455666777777777777777777766655
No 13
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=50.95 E-value=12 Score=23.10 Aligned_cols=16 Identities=25% Similarity=0.443 Sum_probs=9.5
Q ss_pred cchhhHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINE 17 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~ 17 (72)
+.|..+|+.++.+|+.
T Consensus 44 k~c~~~L~~ae~kv~~ 59 (75)
T PRK14064 44 KLCQDKLQSAEKRMAK 59 (75)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3466666666666554
No 14
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=48.79 E-value=67 Score=25.96 Aligned_cols=48 Identities=19% Similarity=0.313 Sum_probs=41.3
Q ss_pred hhhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHH
Q psy6472 4 VDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTL 51 (72)
Q Consensus 4 ceekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~l 51 (72)
-|.+|..++.....=....++|-|++|...+..++.++..++..|..+
T Consensus 166 Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~I 213 (560)
T PF06160_consen 166 LEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDI 213 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467888888888888888899999999999999999999998877654
No 15
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=48.22 E-value=70 Score=20.36 Aligned_cols=52 Identities=17% Similarity=0.210 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHhhcCCc-chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 8 LEELESRINEEARRLDRLHP-LDAKHNVDVLEHDLRQAEENINTLFSDVQTLR 59 (72)
Q Consensus 8 L~~~~~~lq~d~rrle~g~p-~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lk 59 (72)
+|..=+.+..++..+++.-. .-...+++.+.++|++.|--==+|...+|+||
T Consensus 45 iT~~f~~~S~ei~~ie~~L~~~~~~~~la~~i~~lQ~~Ek~KL~lT~~lQ~lk 97 (97)
T PF14966_consen 45 ITQEFSAISKEILAIEAELRDEHERPDLAELIRELQEQEKEKLELTAKLQVLK 97 (97)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 55555666777777775332 33456777888999999988888888888886
No 16
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=45.24 E-value=62 Score=19.14 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=11.5
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHH
Q psy6472 28 LDAKHNVDVLEHDLRQAEENINTL 51 (72)
Q Consensus 28 ~q~~~~v~~~e~dL~~~E~~Ir~l 51 (72)
.-.|..++.+|..|+.+|.-.+.-
T Consensus 28 ltiEqRLa~LE~rL~~ae~ra~~a 51 (60)
T PF11471_consen 28 LTIEQRLAALEQRLQAAEQRAQAA 51 (60)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555555555444433
No 17
>PF14917 CCDC74_C: Coiled coil protein 74, C terminal
Probab=44.76 E-value=20 Score=24.76 Aligned_cols=13 Identities=38% Similarity=0.524 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHH
Q psy6472 41 LRQAEENINTLFS 53 (72)
Q Consensus 41 L~~~E~~Ir~lf~ 53 (72)
|++||-.||+|.+
T Consensus 16 lqqCe~iIrqL~n 28 (130)
T PF14917_consen 16 LQQCEVIIRQLWN 28 (130)
T ss_pred HHHHHHHHHHHHH
Confidence 7899999999986
No 18
>PF04336 DUF479: Protein of unknown function, DUF479; InterPro: IPR007431 This entry contains the Escherichia coli gene yajB, now renamed acpH, which encodes an ACP hydrolase. AcpH converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP []. A mutant E. coli strain having a total deletion of the acpH grows normally, showing that phosphodiesterase activity is not essential for growth, although it is required for turnover of the ACP prosthetic group in vivo. AcpH is found only in Gram-negative organisms suggesting that it plays a role in some aspect of lipid metabolism that is unique to these organisms. The most obvious of which is biosynthesis of lipid A. Because AcpH is a hydrolase, it could possibly be an editing enzyme that intercepts acyl-ACPs that would give an inappropriate lipid A structure if used as acyl donors []. ; GO: 0008770 [acyl-carrier-protein] phosphodiesterase activity, 0006633 fatty acid biosynthetic process
Probab=42.79 E-value=85 Score=19.76 Aligned_cols=46 Identities=30% Similarity=0.536 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 9 EELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQ 56 (72)
Q Consensus 9 ~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq 56 (72)
+-++..|+.-++|+..+.|+ ...++.++..-.++|..-..+|-|++
T Consensus 59 egi~~al~~m~~R~~~~~~l--~~a~~~l~~~y~~le~~F~~FfpdL~ 104 (106)
T PF04336_consen 59 EGIERALQRMSRRLRRPNPL--AGAIEELEEHYAELEQDFLEFFPDLQ 104 (106)
T ss_pred HHHHHHHHHHHhccCchhhH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777777888776654 66677888889999999999999886
No 19
>PF08334 T2SG: Type II secretion system (T2SS), protein G; InterPro: IPR013545 The general secretion pathway, or type II pullulanase-like machinery, is responsible for the transport of proteins from the periplasm across the outer membrane in Gram-negative bacteria [, ]. This entry includes protein G (e.g. P45773 from SWISSPROT, Q00514 from SWISSPROT) involved in this pathway. The PulG protein (P15746 from SWISSPROT) is thought to be anchored in the inner membrane with its C terminus directed towards the periplasm []. Together with other members of the secretion machinery, it is thought to assemble into a pilus-like structure that may function as a dynamic mechanism to push secreted proteins out of the cell. The polypeptide is organised into a long N-terminal alpha-helix followed by a loop region that separates it from a C-terminal anti-parallel beta-sheet []. ; PDB: 1T92_A 3G20_B 3GN9_B 2KEP_A 3FU1_B.
Probab=41.70 E-value=83 Score=19.53 Aligned_cols=28 Identities=29% Similarity=0.570 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q psy6472 33 NVDVLEHDLRQAEENINTLFSDVQTLREGRYPQ 65 (72)
Q Consensus 33 ~v~~~e~dL~~~E~~Ir~lf~DVq~LkdgrypQ 65 (72)
.+.....||..++..|...+.| -|+||.
T Consensus 10 k~~~a~~~l~~i~~Ale~Y~~d-----~G~yP~ 37 (108)
T PF08334_consen 10 KEARAKADLRTIKTALEMYYLD-----NGRYPS 37 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-----HSS---
T ss_pred HHHHHHHHHHHHHHHHHHHHHh-----hCCCcC
Confidence 3445567888888888888864 499998
No 20
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=41.27 E-value=1.1e+02 Score=20.40 Aligned_cols=45 Identities=13% Similarity=0.245 Sum_probs=23.7
Q ss_pred hhhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHH
Q psy6472 4 VDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLF 52 (72)
Q Consensus 4 ceekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf 52 (72)
+..++..+++..++.+.++.. .++...+.+...+..+++.|+..+
T Consensus 15 l~~~~~~i~~~~~~~I~~i~~----~~~~~~~~l~~~i~~l~~~l~~y~ 59 (149)
T PF07352_consen 15 LQREIARIEAEANDEIARIKE----WYEAEIAPLQNRIEYLEGLLQAYA 59 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH----HHHHHCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666666655554 233344445555555555555444
No 21
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=39.26 E-value=1.5e+02 Score=21.64 Aligned_cols=50 Identities=12% Similarity=0.385 Sum_probs=34.1
Q ss_pred hhhHHHHHHHHHHHHHHHhh--cCCcchhhhhHHHHHHHHHHHHHHHHHHHH
Q psy6472 4 VDGRLEELESRINEEARRLD--RLHPLDAKHNVDVLEHDLRQAEENINTLFS 53 (72)
Q Consensus 4 ceekL~~~~~~lq~d~rrle--~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~ 53 (72)
.|+|++.++-.+.+-.--+. --...+-+..|..+++||..+|.-.-.+..
T Consensus 84 lE~kvD~lee~fdd~~d~l~~q~eq~~~~~~~v~~~~q~~~~l~~K~D~~L~ 135 (189)
T TIGR02132 84 LEEKVDLIEEFFDDKFDELEAQQEQAPALKKDVTKLKQDIKSLDKKLDKILE 135 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCchHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 57889988888877322222 123445678899999999988876665543
No 22
>COG1722 XseB Exonuclease VII small subunit [DNA replication, recombination, and repair]
Probab=39.21 E-value=27 Score=21.91 Aligned_cols=16 Identities=19% Similarity=0.424 Sum_probs=8.0
Q ss_pred chhhHHHHHHHHHHHH
Q psy6472 3 RVDGRLEELESRINEE 18 (72)
Q Consensus 3 ~ceekL~~~~~~lq~d 18 (72)
.|..+|..|+.+++..
T Consensus 49 ~c~~~L~~Ae~~v~~l 64 (81)
T COG1722 49 ECQEKLQQAEQRVEKL 64 (81)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4555555555555443
No 23
>KOG1666|consensus
Probab=38.75 E-value=1.6e+02 Score=21.91 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 6 GRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQT 57 (72)
Q Consensus 6 ekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~ 57 (72)
.+-..+-.-|..-+.|+-+.++-+.+..+..++..|.+++.+|.+|=-.|-.
T Consensus 10 qqy~~l~a~it~k~~~~~~~~~~ekk~~l~~i~~~leEa~ell~qMdlEvr~ 61 (220)
T KOG1666|consen 10 QQYRELSAEITKKIGRALSLPGSEKKQLLSEIDSKLEEANELLDQMDLEVRE 61 (220)
T ss_pred HHHHHHHHHHHHhHHHHhcCCchHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 3444555667777788888887788888889999999999999998666544
No 24
>KOG4807|consensus
Probab=34.30 E-value=1.5e+02 Score=24.69 Aligned_cols=51 Identities=31% Similarity=0.424 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHhhc---------CCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 10 ELESRINEEARRLDR---------LHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 10 ~~~~~lq~d~rrle~---------g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
.+-|||-+++.||-. |.|....+..=++|-=|+--|+-|+.|-..|+-|||
T Consensus 474 ELnnRLaaEItrLRtlltgdGgGtGsplaqgkdayELEVLLRVKEsEiQYLKqEissLkD 533 (593)
T KOG4807|consen 474 ELNNRLAAEITRLRTLLTGDGGGTGSPLAQGKDAYELEVLLRVKESEIQYLKQEISSLKD 533 (593)
T ss_pred HHhhHHHHHHHHHHHHhccCCCCCCCccccCcchhhHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 345888899888864 678877776666666699999999999999998877
No 25
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=33.97 E-value=78 Score=21.63 Aligned_cols=26 Identities=23% Similarity=0.447 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHhCCCCCcccccc
Q psy6472 46 ENINTLFSDVQTLREGRYPQASDLHI 71 (72)
Q Consensus 46 ~~Ir~lf~DVq~LkdgrypQa~ql~~ 71 (72)
..++.|+.=++.|+++.|..|.++|.
T Consensus 89 ~v~~~L~~L~~aL~~~d~~~A~~Ih~ 114 (157)
T PF07304_consen 89 PVVDKLHQLAQALQARDYDAADEIHV 114 (157)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 35667788899999999999998764
No 26
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=33.65 E-value=36 Score=20.90 Aligned_cols=16 Identities=19% Similarity=0.401 Sum_probs=11.2
Q ss_pred cchhhHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINE 17 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~ 17 (72)
+.|..+|+.++.+|+.
T Consensus 43 k~C~~~L~~aE~ki~~ 58 (76)
T PRK14063 43 KLCDEKLKNVQEQMAV 58 (76)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4577777777777764
No 27
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=32.82 E-value=30 Score=20.71 Aligned_cols=16 Identities=25% Similarity=0.611 Sum_probs=13.0
Q ss_pred cchhhHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINE 17 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~ 17 (72)
+.|..+|+.++.+++.
T Consensus 39 k~c~~~L~~ae~kv~~ 54 (67)
T TIGR01280 39 RRCEKKLAQAEQRVRK 54 (67)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5688888888888776
No 28
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=32.18 E-value=1.4e+02 Score=19.12 Aligned_cols=33 Identities=15% Similarity=0.356 Sum_probs=26.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy6472 29 DAKHNVDVLEHDLRQAEENINTLFSDVQTLREG 61 (72)
Q Consensus 29 q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkdg 61 (72)
+-.+.++..+.++.+.+.-...|..+|.-|+++
T Consensus 31 ~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~ 63 (105)
T PRK00888 31 RVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG 63 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 345667777888888888888888888888886
No 29
>KOG2685|consensus
Probab=31.33 E-value=1.2e+02 Score=24.68 Aligned_cols=34 Identities=32% Similarity=0.450 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh--CCCCCccccccC
Q psy6472 36 VLEHDLRQAEENINTLFSDVQTLRE--GRYPQASDLHIF 72 (72)
Q Consensus 36 ~~e~dL~~~E~~Ir~lf~DVq~Lkd--grypQa~ql~~~ 72 (72)
.++.||.-+.+ .||.|-+.+.. -.||-+.++..|
T Consensus 383 rLe~di~~k~n---sL~ID~ekcm~mR~~yP~~~~l~g~ 418 (421)
T KOG2685|consen 383 RLERDIAIKAN---SLFIDREKCMLMRKSYPNADQLSGF 418 (421)
T ss_pred HHHHHHHHhhc---chhccHHHHHHHHhcCCCchhcccc
Confidence 45555655554 57888877655 569999988765
No 30
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=31.25 E-value=1.2e+02 Score=17.93 Aligned_cols=19 Identities=16% Similarity=0.625 Sum_probs=12.2
Q ss_pred hhhHHHHHHHHHHHHHHHh
Q psy6472 4 VDGRLEELESRINEEARRL 22 (72)
Q Consensus 4 ceekL~~~~~~lq~d~rrl 22 (72)
-.+||+.+++++.+-..|+
T Consensus 4 i~e~l~~ie~~l~~~~~~i 22 (71)
T PF10779_consen 4 IKEKLNRIETKLDNHEERI 22 (71)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3577788887777644444
No 31
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=30.35 E-value=1.2e+02 Score=17.90 Aligned_cols=40 Identities=20% Similarity=0.444 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHH
Q psy6472 8 LEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLF 52 (72)
Q Consensus 8 L~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf 52 (72)
++.+++.+..=..-+++ .+++...+-.++.+.+..|+.+.
T Consensus 2 i~elEn~~~~~~~~i~t-----vk~en~~i~~~ve~i~envk~ll 41 (55)
T PF05377_consen 2 IDELENELPRIESSINT-----VKKENEEISESVEKIEENVKDLL 41 (55)
T ss_pred HHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455544443333333 44555666666666666665543
No 32
>PF07342 DUF1474: Protein of unknown function (DUF1474); InterPro: IPR009942 This entry is represented by Bacteriophage PT1028, Orf16. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial proteins of around 100 residues in length. Members of this family seem to be found exclusively in Staphylococcus aureus. The function of this family is unknown.
Probab=30.34 E-value=47 Score=22.04 Aligned_cols=13 Identities=46% Similarity=0.843 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHh
Q psy6472 48 INTLFSDVQTLRE 60 (72)
Q Consensus 48 Ir~lf~DVq~Lkd 60 (72)
|++||.|+.+||+
T Consensus 5 iknL~~DievlKe 17 (100)
T PF07342_consen 5 IKNLMSDIEVLKE 17 (100)
T ss_pred HHHHHHHHHHHHH
Confidence 7889999999986
No 33
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=29.82 E-value=1.6e+02 Score=19.03 Aligned_cols=52 Identities=12% Similarity=0.230 Sum_probs=32.4
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 5 DGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQ 56 (72)
Q Consensus 5 eekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq 56 (72)
..+|......++.....+.+..+.-........+.+|+..+.-++.+.+..+
T Consensus 49 ~~~l~~~~~el~~~~~~l~~~~~~ls~~~~~~~~~~l~~~~~~l~~~~~~~~ 100 (158)
T PF03938_consen 49 QKELQAKQKELQKLQQKLQSQKATLSEEERQKRQQELQQKEQELQQFQQQAQ 100 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS----SSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777788888888888875554555555666667666666666655544
No 34
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.47 E-value=33 Score=21.09 Aligned_cols=17 Identities=24% Similarity=0.296 Sum_probs=14.0
Q ss_pred cchhhHHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINEE 18 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~d 18 (72)
+.|..+|+.|+.+|+.=
T Consensus 42 k~C~~~L~~ae~kv~~l 58 (75)
T PRK14066 42 AFCSKKLDEAERRVEVL 58 (75)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 57999999999888764
No 35
>PF04642 DUF601: Protein of unknown function, DUF601; InterPro: IPR006736 This family consists of several uncharacterised plant proteins which share a conserved region.
Probab=28.39 E-value=61 Score=25.16 Aligned_cols=42 Identities=10% Similarity=0.069 Sum_probs=30.3
Q ss_pred HHHHHHhhcCCcchhhhh--HHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 16 NEEARRLDRLHPLDAKHN--VDVLEHDLRQAEENINTLFSDVQT 57 (72)
Q Consensus 16 q~d~rrle~g~p~q~~~~--v~~~e~dL~~~E~~Ir~lf~DVq~ 57 (72)
.+=+++|++|||.=.+.+ -...-.||..||+-|+-|=..-+.
T Consensus 234 ~DLsaKLe~gknaY~~~ieke~q~raeL~acEEkl~kmeE~Qa~ 277 (311)
T PF04642_consen 234 IDLSAKLEPGKNAYLAAIEKENQARAELNACEEKLKKMEEEQAE 277 (311)
T ss_pred HHHHHhhcCCcchHHHHHhhHHHHHHHHHHHHHHHhcccHHHHH
Confidence 345789999999755432 235678999999999988665444
No 36
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=28.21 E-value=35 Score=19.16 Aligned_cols=15 Identities=47% Similarity=0.714 Sum_probs=10.9
Q ss_pred cchhhHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRIN 16 (72)
Q Consensus 2 ~~ceekL~~~~~~lq 16 (72)
+.|.++|+.++..++
T Consensus 37 ~~c~~~L~~~e~~i~ 51 (53)
T PF02609_consen 37 KKCQERLEEAEQKIE 51 (53)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 457888888777765
No 37
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=27.27 E-value=1.2e+02 Score=19.02 Aligned_cols=27 Identities=11% Similarity=0.197 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 34 VDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 34 v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
-+.+.++|+++|+-++.+..+-|+.+|
T Consensus 9 n~~Lk~eiqkle~ELq~~~~~~qIk~d 35 (76)
T PF07334_consen 9 NARLKEEIQKLEAELQQNKREFQIKED 35 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhccC
Confidence 356788899999999999999999876
No 38
>COG3657 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.02 E-value=63 Score=21.44 Aligned_cols=28 Identities=18% Similarity=0.052 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHhhcCCcchhhhhHHHH
Q psy6472 10 ELESRINEEARRLDRLHPLDAKHNVDVL 37 (72)
Q Consensus 10 ~~~~~lq~d~rrle~g~p~q~~~~v~~~ 37 (72)
.|++.|.+-..||..|.|.++++-=+++
T Consensus 23 ~Aka~I~~Rl~rl~~GN~GD~kpvgeGV 50 (100)
T COG3657 23 RAKAKIAARLDRLALGNFGDVKPVGEGV 50 (100)
T ss_pred HHHHHHHHHHHHHhcCCCcCccccccch
Confidence 5778999999999999999999855544
No 39
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=26.95 E-value=39 Score=20.86 Aligned_cols=17 Identities=24% Similarity=0.403 Sum_probs=13.9
Q ss_pred cchhhHHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINEE 18 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~d 18 (72)
+.|..+|+.++.+|+.=
T Consensus 44 k~C~~~L~~ae~kv~~l 60 (76)
T PRK14068 44 AACDTTLKNAEKKVNDL 60 (76)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 57999999999888763
No 40
>PF14448 Nuc_N: Nuclease N terminal
Probab=25.71 E-value=85 Score=18.96 Aligned_cols=19 Identities=11% Similarity=0.109 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHhhcCC
Q psy6472 8 LEELESRINEEARRLDRLH 26 (72)
Q Consensus 8 L~~~~~~lq~d~rrle~g~ 26 (72)
-+--++.||+-+++||||-
T Consensus 36 HdaSKasiQsrIsnlEsgg 54 (60)
T PF14448_consen 36 HDASKASIQSRISNLESGG 54 (60)
T ss_pred hhhhHHHHHHHHhhhhccC
Confidence 3445688999999999974
No 41
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=25.39 E-value=1.7e+02 Score=21.56 Aligned_cols=29 Identities=31% Similarity=0.537 Sum_probs=24.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 32 HNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 32 ~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
.-+.++|.++++....|..+-++|..||.
T Consensus 93 ~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~ 121 (248)
T PF08172_consen 93 QRNAELEEELRKQQQTISSLRREVESLRA 121 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678899999999999999999988875
No 42
>PF06320 GCN5L1: GCN5-like protein 1 (GCN5L1); InterPro: IPR009395 This family consists of several eukaryotic GCN5-like protein 1 (GCN5L1) sequences. The function of this family is unknown [,].
Probab=25.04 E-value=1.4e+02 Score=19.69 Aligned_cols=27 Identities=26% Similarity=0.468 Sum_probs=22.0
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy6472 28 LDAKHNVDVLEHDLRQAEENINTLFSD 54 (72)
Q Consensus 28 ~q~~~~v~~~e~dL~~~E~~Ir~lf~D 54 (72)
.+.+.-+..+|+|+..+++.|+.....
T Consensus 88 GDveNWa~~iE~Dl~~i~~~L~~v~~~ 114 (121)
T PF06320_consen 88 GDVENWAEMIERDLRVIEETLRYVYEG 114 (121)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 346777788999999999999987654
No 43
>KOG4496|consensus
Probab=24.76 E-value=89 Score=22.63 Aligned_cols=20 Identities=30% Similarity=0.564 Sum_probs=16.0
Q ss_pred chhhHHHHHHHHHHHHHHHh
Q psy6472 3 RVDGRLEELESRINEEARRL 22 (72)
Q Consensus 3 ~ceekL~~~~~~lq~d~rrl 22 (72)
.||++|..++-+|+.--|.|
T Consensus 45 ~cEd~Lad~elridq~d~kL 64 (194)
T KOG4496|consen 45 KCEDILADAELRIDQADRKL 64 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 59999999999998755544
No 44
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=24.12 E-value=48 Score=20.49 Aligned_cols=16 Identities=19% Similarity=0.555 Sum_probs=12.6
Q ss_pred cchhhHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINE 17 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~ 17 (72)
+.|..+|+.++.+|+.
T Consensus 48 k~C~~~L~~ae~ki~~ 63 (80)
T PRK00977 48 RQCQKKLQQAEQRVEK 63 (80)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4688888888888776
No 45
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=24.00 E-value=3e+02 Score=23.30 Aligned_cols=45 Identities=11% Similarity=0.188 Sum_probs=36.7
Q ss_pred chhhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHH
Q psy6472 3 RVDGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEEN 47 (72)
Q Consensus 3 ~ceekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~ 47 (72)
..|.||+.++..++.=..+=++|-|++|...++..+..+-.++..
T Consensus 168 ~lEk~Le~i~~~l~qf~~lt~~Gd~ieA~evl~~~ee~~~~L~~~ 212 (570)
T COG4477 168 ELEKKLENIEEELSQFVELTSSGDYIEAREVLEEAEEHMIALRSI 212 (570)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHH
Confidence 357899999999998888889999999998888777766665554
No 46
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=23.97 E-value=2e+02 Score=21.13 Aligned_cols=31 Identities=19% Similarity=0.391 Sum_probs=27.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 30 AKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 30 ~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
...+|..|..-|.++|.-...+..+-..||+
T Consensus 106 mr~eV~~Y~~KL~eLE~kq~~L~rEN~eLKE 136 (195)
T PF10226_consen 106 MRQEVAQYQQKLKELEDKQEELIRENLELKE 136 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3468999999999999999999999988886
No 47
>PF09823 DUF2357: Domain of unknown function (DUF2357); InterPro: IPR018633 This entry was previously the N-terminal portion of DUF524 (IPR007505 from INTERPRO) before it was split into two. This domain has no known function. It is predicted to adopt an all beta secondary structure pattern followed by mainly alpha-helical structures [].
Probab=23.84 E-value=74 Score=21.97 Aligned_cols=50 Identities=26% Similarity=0.458 Sum_probs=26.2
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHH-HHHHHHHHHh
Q psy6472 5 DGRLEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINT-LFSDVQTLRE 60 (72)
Q Consensus 5 eekL~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~-lf~DVq~Lkd 60 (72)
..+|..+...|....++.++.. ...++..+ ...++..++. +|.+|-.|+-
T Consensus 177 ~~~l~~l~~~l~~~~~~~~~~~---~~~~~~~~---~~~l~~~l~~~~f~~Vg~~~~ 227 (248)
T PF09823_consen 177 EKRLERLKKRLEEKQRRSETQR---FLKELEEM---QRELERLLSHPFFREVGELDG 227 (248)
T ss_pred HHHHHHHHHHHhhhcccchHHH---HHHHHHHH---HHHHHHHHcCcHhhhhcccCC
Confidence 3444444444444333322211 44445555 5566666665 7888877764
No 48
>KOG2417|consensus
Probab=23.76 E-value=1.3e+02 Score=24.56 Aligned_cols=34 Identities=21% Similarity=0.346 Sum_probs=29.2
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy6472 28 LDAKHNVDVLEHDLRQAEENINTLFSDVQTLREG 61 (72)
Q Consensus 28 ~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkdg 61 (72)
.+.+..+..++++...+|++-|++|-++-.||..
T Consensus 245 ~~~~~~i~~lq~EV~~LEeLsrqLFLE~~eLr~~ 278 (462)
T KOG2417|consen 245 NTLSSDIKLLQQEVEPLEELSRQLFLELVELRQM 278 (462)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556678889999999999999999999888864
No 49
>PRK06771 hypothetical protein; Provisional
Probab=23.32 E-value=97 Score=20.18 Aligned_cols=19 Identities=16% Similarity=0.520 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHhhc
Q psy6472 6 GRLEELESRINEEARRLDR 24 (72)
Q Consensus 6 ekL~~~~~~lq~d~rrle~ 24 (72)
+||+.++.+.+++.+|+|+
T Consensus 19 ~~l~~~~~~~~~~~k~ie~ 37 (93)
T PRK06771 19 EKLTKIEKKTDARLKRMED 37 (93)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5788888888888888876
No 50
>cd07639 BAR_ACAP1 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP1 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1), also called centaurin beta-1, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP1 also participates in the cargo sorting and recycling of the transferrin receptor and integrin beta1. It may also play a role in innate immune responses. ACAP1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=23.18 E-value=1.7e+02 Score=21.12 Aligned_cols=29 Identities=17% Similarity=0.316 Sum_probs=23.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy6472 33 NVDVLEHDLRQAEENINTLFSDVQTLREG 61 (72)
Q Consensus 33 ~v~~~e~dL~~~E~~Ir~lf~DVq~Lkdg 61 (72)
.++..|.|+.++|.-|.-|..++..+.+.
T Consensus 3 ~i~~~E~~~~~le~~l~kl~K~~k~~~~a 31 (200)
T cd07639 3 AIEEVEAEVSELETRLEKLVKLGSGMLEG 31 (200)
T ss_pred hHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678888999999999999888887773
No 51
>PF08919 F_actin_bind: F-actin binding; InterPro: IPR015015 The F-actin binding domain forms a compact bundle of four antiparallel alpha-helices, which are arranged in a left-handed topology. Binding of F-actin to the F-actin binding domain may result in cytoplasmic retention and subcellular distribution of the protein, as well as possible inhibition of protein function []. ; GO: 0004715 non-membrane spanning protein tyrosine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1ZZP_A 2KK1_A.
Probab=23.08 E-value=1.9e+02 Score=19.03 Aligned_cols=44 Identities=20% Similarity=0.240 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 10 ELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQ 56 (72)
Q Consensus 10 ~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq 56 (72)
++-++|+.-.+.|-.-++.-.-. +-++++.+..+.|+++-+.||
T Consensus 66 EllsrLE~~~rqLr~~~s~~~~~---~~~~l~~~l~~~ikeI~~~Vq 109 (110)
T PF08919_consen 66 ELLSRLESQSRQLRSCGSSNSSP---ENQRLVSDLQNTIKEISNIVQ 109 (110)
T ss_dssp HHHHHHHHHHHHHCHSSSSSSST---T--THHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHhccCCCCCc---ccHHHHHHHHHHHHHHHHHhc
Confidence 45577777777776644443333 334558888888888887775
No 52
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=22.42 E-value=2.5e+02 Score=18.87 Aligned_cols=20 Identities=20% Similarity=0.378 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy6472 36 VLEHDLRQAEENINTLFSDV 55 (72)
Q Consensus 36 ~~e~dL~~~E~~Ir~lf~DV 55 (72)
.+...+.++.+.|+.+|++-
T Consensus 95 ~l~e~l~eLq~~i~~~l~~~ 114 (119)
T COG1382 95 KLQERLEELQSEIQKALGDA 114 (119)
T ss_pred HHHHHHHHHHHHHHHHhhcc
Confidence 44555888899999888763
No 53
>PRK11637 AmiB activator; Provisional
Probab=22.24 E-value=3.7e+02 Score=20.66 Aligned_cols=17 Identities=12% Similarity=0.241 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy6472 38 EHDLRQAEENINTLFSD 54 (72)
Q Consensus 38 e~dL~~~E~~Ir~lf~D 54 (72)
+.++...+.-|..+-.+
T Consensus 102 ~~ei~~l~~eI~~~q~~ 118 (428)
T PRK11637 102 NKQIDELNASIAKLEQQ 118 (428)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 54
>PF10798 YmgB: Biofilm development protein YmgB/AriR; InterPro: IPR024753 YmgB is part of the three gene cluster ymgABC which has a role in biofilm development and stability. YmgB represses biofilm formation in rich medium containing glucose, decreases cellular motility and also protects the cell from acid, which indicates that YmgB has an important function in acid-resistance []. YmgB binds as a dimer to genes which are important for biofilm formation via a ligand. Due to its important function in acid resistance it is also known as AriR (regulator of acid resistance influenced by indole) [].; GO: 0042710 biofilm formation, 0071229 cellular response to acid; PDB: 2OXL_B.
Probab=22.13 E-value=98 Score=18.34 Aligned_cols=23 Identities=17% Similarity=0.073 Sum_probs=15.7
Q ss_pred HhhcCCcchhhhhHHHHHHHHHHHHH
Q psy6472 21 RLDRLHPLDAKHNVDVLEHDLRQAEE 46 (72)
Q Consensus 21 rle~g~p~q~~~~v~~~e~dL~~~E~ 46 (72)
.+.+|.|+-+|+.+..+ +.++|.
T Consensus 14 ll~~g~~vsnKaII~~L---I~~LE~ 36 (61)
T PF10798_consen 14 LLASGGHVSNKAIILKL---IHRLES 36 (61)
T ss_dssp HHHTT---SHHHHHHHH---HHHHHT
T ss_pred HHHcCCCCCHHHHHHHH---HHHHhc
Confidence 47789999999999999 555553
No 55
>KOG0810|consensus
Probab=22.04 E-value=1.9e+02 Score=22.05 Aligned_cols=39 Identities=23% Similarity=0.378 Sum_probs=28.2
Q ss_pred hcCCcchhhhhHHHHHHHHHHHHHHHH---HHHHHHHHHHhC
Q psy6472 23 DRLHPLDAKHNVDVLEHDLRQAEENIN---TLFSDVQTLREG 61 (72)
Q Consensus 23 e~g~p~q~~~~v~~~e~dL~~~E~~Ir---~lf~DVq~Lkdg 61 (72)
++|..-++=.++..==.++.++|..|+ +||.|.++|-+.
T Consensus 190 ~~~~~~~~l~Eiq~Rh~~ik~LEksi~ELhqlFlDMa~LVe~ 231 (297)
T KOG0810|consen 190 DRGQAKQTLAEIQERHDEIKKLEKSIRELHQLFLDMAVLVES 231 (297)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555678888888876 689999998764
No 56
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=21.69 E-value=2.3e+02 Score=22.07 Aligned_cols=36 Identities=11% Similarity=0.255 Sum_probs=25.1
Q ss_pred HHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHH
Q psy6472 17 EEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLF 52 (72)
Q Consensus 17 ~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf 52 (72)
...+++..+.+.+....++.++.|+.+..+++..+=
T Consensus 53 ~sLk~~~~~~~~e~~~~i~~L~~~Ik~r~~~l~DmE 88 (330)
T PF07851_consen 53 KSLKRCKKSLSAEERELIEKLEEDIKERRCQLFDME 88 (330)
T ss_pred HHHHHhccCCChhHHHHHHHHHHHHHHHHhhHHHHH
Confidence 345556666667777888888888888877766543
No 57
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=21.24 E-value=4.4e+02 Score=21.72 Aligned_cols=48 Identities=19% Similarity=0.336 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 8 LEELESRINEEARRLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 8 L~~~~~~lq~d~rrle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
|+..+.+..+=.++|+.. ++++..+...+.+.|.-|..+-.+++.|++
T Consensus 71 LteqQ~kasELEKqLaaL-----rqElq~~saq~~dle~KIkeLEaE~~~Lk~ 118 (475)
T PRK13729 71 TTEMQVTAAQMQKQYEEI-----RRELDVLNKQRGDDQRRIEKLGQDNAALAE 118 (475)
T ss_pred HHHHHHHHHHHHHHHHHH-----HHHHHHHhhhhhhHHHHHHHHHHHHHHHHH
Confidence 333443333334444443 233333334444555555555555555543
No 58
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=21.07 E-value=3.4e+02 Score=19.85 Aligned_cols=19 Identities=21% Similarity=0.288 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy6472 36 VLEHDLRQAEENINTLFSD 54 (72)
Q Consensus 36 ~~e~dL~~~E~~Ir~lf~D 54 (72)
.+..|++.+|+.|++.-.+
T Consensus 57 qI~~DIn~lE~iIkqa~~e 75 (230)
T PF10146_consen 57 QINQDINTLENIIKQAESE 75 (230)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555555544443
No 59
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=20.65 E-value=2.4e+02 Score=17.92 Aligned_cols=54 Identities=19% Similarity=0.365 Sum_probs=29.8
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCcchh----hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6472 5 DGRLEELESRINEEARRLDRLHPLDA----KHNVDVLEHDLRQAEENINTLFSDVQTL 58 (72)
Q Consensus 5 eekL~~~~~~lq~d~rrle~g~p~q~----~~~v~~~e~dL~~~E~~Ir~lf~DVq~L 58 (72)
.++++..++|++.-..+++..+--+- +-.++++..++...++-|+.+-.=+..|
T Consensus 41 ~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL 98 (106)
T PF10805_consen 41 EERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL 98 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 34556667777777777777664332 2234455555555555555554433333
No 60
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=20.55 E-value=3.6e+02 Score=22.85 Aligned_cols=40 Identities=33% Similarity=0.498 Sum_probs=32.6
Q ss_pred HhhcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy6472 21 RLDRLHPLDAKHNVDVLEHDLRQAEENINTLFSDVQTLRE 60 (72)
Q Consensus 21 rle~g~p~q~~~~v~~~e~dL~~~E~~Ir~lf~DVq~Lkd 60 (72)
..++=+=..+.+.++-+++-|...|+.|.++..||+.|..
T Consensus 93 ~~dkfrF~kA~~~i~~ie~~l~~iE~~i~~il~~l~~Lv~ 132 (570)
T COG4477 93 LADKFRFNKAKHEIDDIEQQLTLIEEDIEQILEDLNELVE 132 (570)
T ss_pred hhhhhhhHHhhhhHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444557888889999999999999999999999864
No 61
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=20.37 E-value=86 Score=20.34 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=12.3
Q ss_pred cchhhHHHHHHHHHHHH
Q psy6472 2 KRVDGRLEELESRINEE 18 (72)
Q Consensus 2 ~~ceekL~~~~~~lq~d 18 (72)
+.|..+|+.|+.+|+.=
T Consensus 46 k~C~~~L~~AE~kV~~L 62 (95)
T PRK14069 46 KICSGILDDAEGKIEAL 62 (95)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46788888888777653
Done!