Query 034231
Match_columns 100
No_of_seqs 52 out of 54
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 11:12:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034231.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034231hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13856 Gifsy-2: ATP-binding 92.5 0.32 6.9E-06 32.5 4.7 32 38-74 62-93 (95)
2 PF08207 EFP_N: Elongation fac 85.6 1.9 4E-05 26.9 4.0 23 43-65 5-27 (58)
3 PRK10377 PTS system glucitol/s 83.6 1.8 3.9E-05 31.1 3.7 24 38-61 47-70 (120)
4 PF05954 Phage_GPD: Phage late 82.1 1.6 3.5E-05 32.3 3.0 24 43-66 259-289 (292)
5 TIGR00849 gutA PTS system, glu 82.0 2.3 5E-05 30.6 3.7 24 38-61 47-70 (121)
6 COG3731 SrlB Phosphotransferas 76.0 3.8 8.3E-05 30.3 3.4 25 37-61 46-70 (123)
7 PF03829 PTSIIA_gutA: PTS syst 74.7 3.8 8.3E-05 29.2 3.0 24 38-61 47-70 (117)
8 PF13785 DUF4178: Domain of un 73.0 8.8 0.00019 26.2 4.5 35 43-80 1-35 (140)
9 PF08308 PEGA: PEGA domain; I 63.5 3.8 8.2E-05 25.2 1.0 55 37-92 4-66 (71)
10 cd04487 RecJ_OBF2_like RecJ_OB 62.4 15 0.00033 23.7 3.7 33 39-81 40-72 (73)
11 PF08750 CNP1: CNP1-like famil 53.1 5.4 0.00012 29.4 0.4 45 35-90 11-57 (139)
12 PRK03999 translation initiatio 52.3 33 0.00072 24.6 4.4 23 42-64 10-32 (129)
13 TIGR03361 VI_Rhs_Vgr type VI s 49.2 29 0.00063 29.0 4.2 26 41-66 287-319 (513)
14 PF11213 DUF3006: Protein of u 48.5 22 0.00049 22.7 2.8 28 32-59 23-51 (71)
15 PRK11507 ribosome-associated p 48.2 22 0.00049 23.7 2.8 17 43-59 53-69 (70)
16 PF13275 S4_2: S4 domain; PDB: 47.1 19 0.00041 23.4 2.3 16 43-58 49-64 (65)
17 PHA02561 D tail protein; Provi 45.5 43 0.00093 26.4 4.4 33 41-74 300-339 (351)
18 TIGR02178 yeiP elongation fact 44.2 38 0.00083 26.0 3.8 24 43-66 5-28 (186)
19 COG0231 Efp Translation elonga 42.3 44 0.00095 24.1 3.7 30 42-71 8-37 (131)
20 TIGR00037 eIF_5A translation i 41.5 44 0.00096 24.0 3.6 22 43-64 12-33 (130)
21 COG5402 Uncharacterized conser 41.1 39 0.00084 26.7 3.5 24 37-60 142-167 (194)
22 PF08816 Ivy: Inhibitor of ver 40.2 26 0.00056 25.2 2.3 18 45-62 34-51 (118)
23 PRK04542 elongation factor P; 39.8 49 0.0011 25.5 3.8 24 43-66 7-30 (189)
24 cd06219 DHOD_e_trans_like1 FAD 38.8 1E+02 0.0023 23.0 5.4 50 42-96 26-75 (248)
25 PF00924 MS_channel: Mechanose 37.5 33 0.00073 24.5 2.5 30 38-67 56-85 (206)
26 TIGR03817 DECH_helic helicase/ 37.2 65 0.0014 29.0 4.7 43 19-62 481-526 (742)
27 PRK14578 elongation factor P; 37.1 57 0.0012 25.0 3.8 27 43-69 7-33 (187)
28 smart00643 C345C Netrin C-term 37.0 33 0.0007 22.9 2.2 40 40-79 55-97 (114)
29 PRK00529 elongation factor P; 36.6 63 0.0014 24.3 3.9 23 42-64 6-28 (186)
30 PF01592 NifU_N: NifU-like N t 35.4 17 0.00036 25.3 0.7 21 31-51 13-40 (126)
31 PF06949 DUF1292: Protein of u 35.3 41 0.00089 21.4 2.4 15 48-62 13-27 (76)
32 PF10844 DUF2577: Protein of u 34.9 73 0.0016 21.6 3.7 25 37-61 71-99 (100)
33 PRK11325 scaffold protein; Pro 34.8 27 0.00058 24.6 1.6 11 41-51 33-43 (127)
34 PRK11354 kil FtsZ inhibitor pr 34.7 1.5E+02 0.0032 20.2 5.2 19 43-61 16-34 (73)
35 PF13785 DUF4178: Domain of un 34.6 82 0.0018 21.4 4.0 26 40-65 66-91 (140)
36 TIGR00038 efp translation elon 34.5 70 0.0015 24.0 3.9 22 43-64 6-27 (184)
37 KOG1755 Profilin [Cytoskeleton 34.0 51 0.0011 24.3 3.0 42 29-70 41-83 (128)
38 PF12218 End_N_terminal: N ter 31.6 34 0.00073 23.0 1.6 34 44-77 21-54 (67)
39 cd04466 S1_YloQ_GTPase S1_YloQ 31.1 80 0.0017 18.8 3.1 12 41-52 36-47 (68)
40 PF02911 Formyl_trans_C: Formy 30.8 89 0.0019 19.8 3.5 45 43-87 27-76 (100)
41 PRK15094 magnesium/cobalt effl 30.4 62 0.0014 25.6 3.2 26 39-64 247-272 (292)
42 cd03583 NTR_complement_C3 NTR/ 28.8 58 0.0013 23.9 2.6 27 36-62 69-96 (149)
43 PLN03107 eukaryotic translatio 27.1 1E+02 0.0022 23.0 3.7 24 41-64 24-47 (159)
44 cd03581 NTR_Sfrp3_like NTR dom 26.7 96 0.0021 21.5 3.3 47 33-82 44-90 (111)
45 PF00278 Orn_DAP_Arg_deC: Pyri 26.4 57 0.0012 21.3 2.0 18 36-53 76-93 (116)
46 PRK09993 C-lysozyme inhibitor; 26.4 57 0.0012 24.9 2.2 21 42-62 61-81 (153)
47 PRK13767 ATP-dependent helicas 25.6 1.7E+02 0.0037 26.8 5.5 48 22-84 521-570 (876)
48 PF05393 Hum_adeno_E3A: Human 25.6 21 0.00046 25.3 -0.2 32 4-41 53-84 (94)
49 TIGR01999 iscU FeS cluster ass 25.5 49 0.0011 23.1 1.6 11 41-51 31-41 (124)
50 PTZ00414 10 kDa heat shock pro 25.3 86 0.0019 22.0 2.8 18 44-61 74-91 (100)
51 cd06664 IscU_like Iron-sulfur 25.3 52 0.0011 22.3 1.7 12 41-52 29-40 (123)
52 PF14427 Pput2613-deam: Pput_2 25.0 47 0.001 24.5 1.5 33 21-54 35-74 (118)
53 TIGR01646 vgr_GE Rhs element V 24.8 1E+02 0.0022 25.6 3.6 30 35-65 274-310 (483)
54 COG3364 Zn-ribbon containing p 24.7 44 0.00095 24.4 1.3 24 67-90 67-98 (112)
55 COG2871 NqrF Na+-transporting 23.8 90 0.0019 27.0 3.2 30 21-53 227-264 (410)
56 cd07890 CYTH-like_AC_IV-like A 23.1 67 0.0014 22.8 2.0 20 35-54 117-136 (169)
57 smart00675 DM11 Domains in hyp 23.1 1.2E+02 0.0026 22.8 3.4 42 32-82 45-86 (164)
58 PRK11573 hypothetical protein; 22.6 92 0.002 26.0 3.0 26 39-64 369-394 (413)
59 PRK14533 groES co-chaperonin G 21.7 1.3E+02 0.0028 20.5 3.1 18 44-61 65-82 (91)
60 PRK10334 mechanosensitive chan 21.6 1.9E+02 0.0042 23.0 4.5 30 38-67 125-154 (286)
61 COG0223 Fmt Methionyl-tRNA for 21.6 1.3E+02 0.0027 24.9 3.5 22 42-63 229-250 (307)
62 TIGR03419 NifU_clost FeS clust 20.7 71 0.0015 22.2 1.7 12 41-52 28-39 (121)
63 TIGR03520 GldE gliding motilit 20.5 1E+02 0.0022 25.5 2.9 27 38-64 372-398 (408)
64 PRK12426 elongation factor P; 20.2 2.4E+02 0.0051 21.7 4.6 30 43-72 7-36 (185)
65 smart00676 DM10 Domains in hyp 20.2 3E+02 0.0065 18.9 5.1 30 31-60 50-91 (104)
No 1
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=92.55 E-value=0.32 Score=32.53 Aligned_cols=32 Identities=31% Similarity=0.659 Sum_probs=21.1
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEEEEEEEEecceEEe
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAVTHRYQLRKGKYEP 74 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l 74 (100)
.+++ |++|+.|+++|++|+|.. ++...|.|++
T Consensus 62 d~~~-P~~gd~v~~dG~~y~V~~----~~~~~G~~~I 93 (95)
T PF13856_consen 62 DYPK-PRRGDRVVIDGESYTVTR----FQEEDGMYVI 93 (95)
T ss_dssp S------TT-EEEETTEEEEEEE----EEEETTEEEE
T ss_pred CCCC-CCCCCEEEECCeEEEEeE----EecCCCEEEE
Confidence 3555 999999999999999974 5566687765
No 2
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=85.59 E-value=1.9 Score=26.86 Aligned_cols=23 Identities=26% Similarity=0.510 Sum_probs=19.4
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEE
Q 034231 43 LQCGESVTIEGQAYTISAVTHRY 65 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrY 65 (100)
..+|..|+++|+-|.|++..|.=
T Consensus 5 lr~G~~i~~~g~~~~V~~~~~~k 27 (58)
T PF08207_consen 5 LRKGMVIEIDGEPYVVLDFQHVK 27 (58)
T ss_dssp --TTSEEEETTEEEEEEEEEEEC
T ss_pred ccCCCEEEECCEEEEEEEEEEEC
Confidence 46899999999999999998864
No 3
>PRK10377 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional
Probab=83.64 E-value=1.8 Score=31.12 Aligned_cols=24 Identities=25% Similarity=0.335 Sum_probs=21.3
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEE
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAV 61 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~r 61 (100)
.++...++|+.+.++++.|.|..+
T Consensus 47 ~~~~~i~~Gd~l~i~~~~Y~ItaV 70 (120)
T PRK10377 47 ELKGALQPGLQFELGQHRYPVTAV 70 (120)
T ss_pred cccCccCCCCEEEECCEEEEEEEE
Confidence 456778999999999999999876
No 4
>PF05954 Phage_GPD: Phage late control gene D protein (GPD); PDB: 2P5Z_X 3D37_A 1WRU_A 3CDD_E.
Probab=82.06 E-value=1.6 Score=32.31 Aligned_cols=24 Identities=38% Similarity=0.696 Sum_probs=21.5
Q ss_pred CCCCCeEEEcC-------eEEEEEEEEEEEE
Q 034231 43 LQCGESVTIEG-------QAYTISAVTHRYQ 66 (100)
Q Consensus 43 pqpG~~le~eg-------~sY~Vl~rrHrYq 66 (100)
..||..|++.| ..|+|.+++|++.
T Consensus 259 l~~G~~v~l~~~~~~~~~g~y~I~~V~h~~~ 289 (292)
T PF05954_consen 259 LRPGRRVTLSGHPGGEFDGEYLITEVEHSFS 289 (292)
T ss_dssp B-TTEEEEEEETTTTCEEEEEEEEEEEEEEE
T ss_pred ECcCCEEEEcCCcCccCCCcEEEEEEEEEEE
Confidence 69999999999 7899999999987
No 5
>TIGR00849 gutA PTS system, glucitol/sorbitol-specific IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria.The system in E.Coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.
Probab=81.96 E-value=2.3 Score=30.65 Aligned_cols=24 Identities=33% Similarity=0.462 Sum_probs=20.6
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEE
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAV 61 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~r 61 (100)
.+....++|+.+.++++.|.|..+
T Consensus 47 ~~~~~i~~Gd~l~i~~~~Y~ItaV 70 (121)
T TIGR00849 47 EVKGTLKPGQVFMIGGIAYPVTAV 70 (121)
T ss_pred cccCCcCCCCEEEECCEEEEEEEE
Confidence 345568999999999999999876
No 6
>COG3731 SrlB Phosphotransferase system sorbitol-specific component IIA [Carbohydrate transport and metabolism]
Probab=76.04 E-value=3.8 Score=30.26 Aligned_cols=25 Identities=36% Similarity=0.580 Sum_probs=21.8
Q ss_pred EEcCCCCCCCCeEEEcCeEEEEEEE
Q 034231 37 RCFPPNLQCGESVTIEGQAYTISAV 61 (100)
Q Consensus 37 ~~Lp~~pqpG~~le~eg~sY~Vl~r 61 (100)
-.+..+.|||+.++++++.|.|..+
T Consensus 46 ~e~~~~l~~G~~l~lg~~~y~ItaV 70 (123)
T COG3731 46 GELQEALQPGDRLTLGGHCYPITAV 70 (123)
T ss_pred CcccccCCCCCEEEECCceEEEEEe
Confidence 3466778999999999999999986
No 7
>PF03829 PTSIIA_gutA: PTS system glucitol/sorbitol-specific IIA component; InterPro: IPR004716 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria. The system in Escherichia coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2F9H_A.
Probab=74.72 E-value=3.8 Score=29.22 Aligned_cols=24 Identities=38% Similarity=0.643 Sum_probs=17.0
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEE
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAV 61 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~r 61 (100)
.+...+++|+.+.++++.|.|..+
T Consensus 47 ~~~~~i~~Gd~l~i~~~~y~ItaV 70 (117)
T PF03829_consen 47 ELKGDIKPGDTLIIGGQEYTITAV 70 (117)
T ss_dssp GGG----TT-EEEETTEEEEEEEE
T ss_pred cccCCcCCCCEEEECCeEEEEEEE
Confidence 466779999999999999999876
No 8
>PF13785 DUF4178: Domain of unknown function (DUF4178)
Probab=73.02 E-value=8.8 Score=26.24 Aligned_cols=35 Identities=29% Similarity=0.259 Sum_probs=25.5
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEE
Q 034231 43 LQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLD 80 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~ 80 (100)
.++|+.+.++|+.|+|..+-. | +.+.|.=.+--|+
T Consensus 1 L~~G~~~~~~g~~~~ViG~~~-~--~~~~~~W~E~~L~ 35 (140)
T PF13785_consen 1 LQLGDIGRIDGKDYTVIGRIQ-Y--DYEGGFWTEYLLY 35 (140)
T ss_pred CCCCCEEEECCeEEEEEEEEE-E--ECCCCeeEEEEEE
Confidence 478999999999999988654 4 4555555554444
No 9
>PF08308 PEGA: PEGA domain; InterPro: IPR013229 This domain is found in both archaea and bacteria and has similarity to S-layer (surface layer) proteins. It is named after the characteristic PEGA sequence motif found in this domain. The secondary structure of this domain is predicted to be beta-strands.
Probab=63.50 E-value=3.8 Score=25.21 Aligned_cols=55 Identities=22% Similarity=0.319 Sum_probs=36.6
Q ss_pred EEcCCCCCCCCeEEEcCeE-------EE-EEEEEEEEEEecceEEecceeEEEeecchhhHHHH
Q 034231 37 RCFPPNLQCGESVTIEGQA-------YT-ISAVTHRYQLRKGKYEPSEKRLDVLSSSRYILNLY 92 (100)
Q Consensus 37 ~~Lp~~pqpG~~le~eg~s-------Y~-Vl~rrHrYqLr~GrY~l~~i~L~Vq~~~Ry~~n~~ 92 (100)
+.+..+|. |..|.++|+. .. +..-.|+..++...|+.....+.|.+....-+|..
T Consensus 4 l~V~s~p~-gA~V~vdg~~~G~tp~~~~~l~~G~~~v~v~~~Gy~~~~~~v~v~~~~~~~v~~~ 66 (71)
T PF08308_consen 4 LRVTSNPS-GAEVYVDGKYIGTTPLTLKDLPPGEHTVTVEKPGYEPYTKTVTVKPGETTTVNVT 66 (71)
T ss_pred EEEEEECC-CCEEEECCEEeccCcceeeecCCccEEEEEEECCCeeEEEEEEECCCCEEEEEEE
Confidence 33333433 5666666632 22 44678999999999999999999997665555443
No 10
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=62.40 E-value=15 Score=23.67 Aligned_cols=33 Identities=24% Similarity=0.520 Sum_probs=25.8
Q ss_pred cCCCCCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEEE
Q 034231 39 FPPNLQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLDV 81 (100)
Q Consensus 39 Lp~~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~V 81 (100)
+...|.+|+.|++.|. |. +.+|+|++.-..+.|
T Consensus 40 ~~~~l~~Gd~V~v~G~---v~-------~~~G~~ql~v~~i~~ 72 (73)
T cd04487 40 AYPEVEVGDIVRVTGE---VE-------PRDGQLQIEVESLEV 72 (73)
T ss_pred CcCCCCCCCEEEEEEE---Ee-------cCCeEEEEEEeeEEE
Confidence 6677999999999998 22 278999987666665
No 11
>PF08750 CNP1: CNP1-like family; InterPro: IPR014861 This group of proteins are likely to be lipoproteins. CNP1 (cryptic neisserial protein) has been expressed in Escherichia coli and shown to be localised periplasmicly [].
Probab=53.07 E-value=5.4 Score=29.37 Aligned_cols=45 Identities=20% Similarity=0.183 Sum_probs=31.3
Q ss_pred eeEEcCCCCCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEEEeecc--hhhHH
Q 034231 35 GIRCFPPNLQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLDVLSSS--RYILN 90 (100)
Q Consensus 35 G~~~Lp~~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~Vq~~~--Ry~~n 90 (100)
....||+.|+.+++++++=.. -...+|.+|..+|.|-+.+ ||+|+
T Consensus 11 ~~~~LPp~P~~~~l~~f~v~~-----------~~~~~f~ID~~Sisvg~DgvVRY~lv 57 (139)
T PF08750_consen 11 AEVPLPPAPQDANLLPFDVSP-----------TSPLKFFIDPKSISVGPDGVVRYTLV 57 (139)
T ss_pred cccCCCCCCCcCCccEEECCC-----------CCCceEEEchhheEECCCCcEEEEEE
Confidence 345789999999998876411 1345777887777777766 77654
No 12
>PRK03999 translation initiation factor IF-5A; Provisional
Probab=52.27 E-value=33 Score=24.55 Aligned_cols=23 Identities=26% Similarity=0.502 Sum_probs=20.5
Q ss_pred CCCCCCeEEEcCeEEEEEEEEEE
Q 034231 42 NLQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 42 ~pqpG~~le~eg~sY~Vl~rrHr 64 (100)
...+|+.|+++|.-|.|++..|.
T Consensus 10 ~lrkG~~i~~~g~p~~V~~~~~~ 32 (129)
T PRK03999 10 ELKEGSYVVIDGEPCKIVEISKS 32 (129)
T ss_pred HccCCCEEEECCEEEEEEEEEee
Confidence 45789999999999999999875
No 13
>TIGR03361 VI_Rhs_Vgr type VI secretion system Vgr family protein. Members of this protein family belong to the Rhs element Vgr protein family (see TIGR01646), but furthermore all are found in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often found far the type VI secretion locus.
Probab=49.15 E-value=29 Score=29.00 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=22.6
Q ss_pred CCCCCCCeEEEcCe-------EEEEEEEEEEEE
Q 034231 41 PNLQCGESVTIEGQ-------AYTISAVTHRYQ 66 (100)
Q Consensus 41 ~~pqpG~~le~eg~-------sY~Vl~rrHrYq 66 (100)
+..+||.+|++.|. .|+|.+++|...
T Consensus 287 ~~l~~G~~~~l~~~~~~~~~g~ylVt~v~H~~~ 319 (513)
T TIGR03361 287 RRLAPGYLFTLSGHPRAALNREYLVVSVHHHGR 319 (513)
T ss_pred CeEcCCCEEEeCCCCCcccCCCEEEEEEEEEEE
Confidence 45889999999874 599999999995
No 14
>PF11213 DUF3006: Protein of unknown function (DUF3006); InterPro: IPR021377 This family of proteins has no known function.
Probab=48.53 E-value=22 Score=22.73 Aligned_cols=28 Identities=18% Similarity=0.221 Sum_probs=22.3
Q ss_pred ceeeeEEcCCCCCCCCeEEE-cCeEEEEE
Q 034231 32 KCLGIRCFPPNLQCGESVTI-EGQAYTIS 59 (100)
Q Consensus 32 r~LG~~~Lp~~pqpG~~le~-eg~sY~Vl 59 (100)
-.+-.-.||..-+.|++|.+ ++.+|.+.
T Consensus 23 ~~vp~~~LP~~~keGDvl~i~~~~~~~~d 51 (71)
T PF11213_consen 23 IDVPRSRLPEGAKEGDVLEIGEDGSIEID 51 (71)
T ss_pred EEEEHHHCCCCCCcccEEEECCCceEEEC
Confidence 34556679999999999999 77777764
No 15
>PRK11507 ribosome-associated protein; Provisional
Probab=48.24 E-value=22 Score=23.65 Aligned_cols=17 Identities=18% Similarity=0.538 Sum_probs=15.4
Q ss_pred CCCCCeEEEcCeEEEEE
Q 034231 43 LQCGESVTIEGQAYTIS 59 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl 59 (100)
..||+.|+++|+.|.|.
T Consensus 53 l~~GD~V~~~g~~~~v~ 69 (70)
T PRK11507 53 IVAGQTVSFAGHSVQVV 69 (70)
T ss_pred CCCCCEEEECCEEEEEe
Confidence 68999999999999875
No 16
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=47.11 E-value=19 Score=23.44 Aligned_cols=16 Identities=38% Similarity=0.827 Sum_probs=13.3
Q ss_pred CCCCCeEEEcCeEEEE
Q 034231 43 LQCGESVTIEGQAYTI 58 (100)
Q Consensus 43 pqpG~~le~eg~sY~V 58 (100)
..||+.|++++..|.|
T Consensus 49 l~~GD~V~~~~~~~~V 64 (65)
T PF13275_consen 49 LRPGDVVEIDGEEYRV 64 (65)
T ss_dssp --SSEEEEETTEEEEE
T ss_pred CCCCCEEEECCEEEEE
Confidence 6799999999999987
No 17
>PHA02561 D tail protein; Provisional
Probab=45.48 E-value=43 Score=26.44 Aligned_cols=33 Identities=27% Similarity=0.424 Sum_probs=25.5
Q ss_pred CCCCCCCeEEEc-------CeEEEEEEEEEEEEEecceEEe
Q 034231 41 PNLQCGESVTIE-------GQAYTISAVTHRYQLRKGKYEP 74 (100)
Q Consensus 41 ~~pqpG~~le~e-------g~sY~Vl~rrHrYqLr~GrY~l 74 (100)
+...||..|++. +..|+|.+++|+|.-.+| |.-
T Consensus 300 ~~l~aG~~v~l~g~~~~~~~g~y~V~sv~H~~~~~~g-y~t 339 (351)
T PHA02561 300 ADLAPELPVEVSGFKPEIDEGEWSIDKVTHRLNRGGG-YTT 339 (351)
T ss_pred cceecCceEEEEecCccccCCeEEEEEEEEEEeCCCC-EEE
Confidence 557999999996 467999999999864444 543
No 18
>TIGR02178 yeiP elongation factor P-like protein YeiP. This model represents the family of Escherichia coli protein YeiP, a close homolog of elongation factor P (TIGR00038) and probably itself a translation factor. Member of this family are found only in some Gammaproteobacteria, including E. coli and Vibrio cholerae.
Probab=44.16 E-value=38 Score=26.01 Aligned_cols=24 Identities=17% Similarity=0.315 Sum_probs=21.0
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEEE
Q 034231 43 LQCGESVTIEGQAYTISAVTHRYQ 66 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrYq 66 (100)
..+|..|+++|+-|.|++..|.=.
T Consensus 5 lk~G~~i~~dg~~~~V~~~~~~kp 28 (186)
T TIGR02178 5 MKKGSIVEYNGKTLLIKDIQRSSP 28 (186)
T ss_pred ccCCCEEEECCEEEEEEEEEEECC
Confidence 568999999999999999998533
No 19
>COG0231 Efp Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Probab=42.33 E-value=44 Score=24.11 Aligned_cols=30 Identities=23% Similarity=0.484 Sum_probs=24.0
Q ss_pred CCCCCCeEEEcCeEEEEEEEEEEEEEecce
Q 034231 42 NLQCGESVTIEGQAYTISAVTHRYQLRKGK 71 (100)
Q Consensus 42 ~pqpG~~le~eg~sY~Vl~rrHrYqLr~Gr 71 (100)
...+|.+|.++|..|.|++..|-=.=|+|.
T Consensus 8 ~lr~G~~i~~dg~~~~V~~~~~~KpGKg~a 37 (131)
T COG0231 8 ELRKGLYIVIDGEPYVVVEISHVKPGKGGA 37 (131)
T ss_pred HccCCCEEEECCeEEEEEEEEEccCCCCCc
Confidence 357899999999999999998864444444
No 20
>TIGR00037 eIF_5A translation initiation factor eIF-5A. Observed in eukaryotes and archaea.
Probab=41.47 E-value=44 Score=23.95 Aligned_cols=22 Identities=27% Similarity=0.520 Sum_probs=20.2
Q ss_pred CCCCCeEEEcCeEEEEEEEEEE
Q 034231 43 LQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHr 64 (100)
..+|.+|+++|.-|.|++..|.
T Consensus 12 irkG~~i~~~g~p~~V~e~~~~ 33 (130)
T TIGR00037 12 LRVGGYVVIDGRPCKIVDISTS 33 (130)
T ss_pred ccCCCEEEECCEEEEEEEEEec
Confidence 5689999999999999999886
No 21
>COG5402 Uncharacterized conserved protein [Function unknown]
Probab=41.08 E-value=39 Score=26.72 Aligned_cols=24 Identities=17% Similarity=0.332 Sum_probs=18.4
Q ss_pred EEcCCCCCCCCeEEEcCeE--EEEEE
Q 034231 37 RCFPPNLQCGESVTIEGQA--YTISA 60 (100)
Q Consensus 37 ~~Lp~~pqpG~~le~eg~s--Y~Vl~ 60 (100)
+.+.+.+|||+|+-++|.- ++||.
T Consensus 142 I~vsp~a~pgnWl~~~g~g~f~lVlt 167 (194)
T COG5402 142 ITVSPDAQPGNWLPVRGEGNFILVLT 167 (194)
T ss_pred EEECCCCCCCceeEecCCccEEEEEE
Confidence 5677889999999998854 55553
No 22
>PF08816 Ivy: Inhibitor of vertebrate lysozyme (Ivy); InterPro: IPR014453 C-type lysozyme enzymes, such as hen egg white lysozyme (HEWL), provide anti-bacterial activity by cleaving peptidoglycan in Gram-positive bacterial cell walls. In humans, C-type lysozyme is found in all secretions, including tears and saliva. Certain Gram-positive bacteria can produce proteins with anti-lysozyme activity known as Inhibitor of Vertebrate Lysozyme (IVY), which act as virulence factors [, ]. IVY proteins have a 3-layer alpha(2)/beta(5)/alpha(2) topology, and contain a protruding 5-residue loop that is essential for their inhibitory effect [].; GO: 0043086 negative regulation of catalytic activity, 0042597 periplasmic space; PDB: 1GPQ_A 1XS0_A 1UUZ_B.
Probab=40.20 E-value=26 Score=25.18 Aligned_cols=18 Identities=33% Similarity=0.552 Sum_probs=16.6
Q ss_pred CCCeEEEcCeEEEEEEEE
Q 034231 45 CGESVTIEGQAYTISAVT 62 (100)
Q Consensus 45 pG~~le~eg~sY~Vl~rr 62 (100)
|+++|+++|+.|+|....
T Consensus 34 P~~~V~~~G~~Y~v~~~C 51 (118)
T PF08816_consen 34 PMEAVTIDGKPYLVGSAC 51 (118)
T ss_dssp EEEEEEETTEEEEEEEEE
T ss_pred CCeeEEECCEEEEEeccc
Confidence 899999999999998865
No 23
>PRK04542 elongation factor P; Provisional
Probab=39.78 E-value=49 Score=25.49 Aligned_cols=24 Identities=13% Similarity=0.282 Sum_probs=21.1
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEEE
Q 034231 43 LQCGESVTIEGQAYTISAVTHRYQ 66 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrYq 66 (100)
...|..|+++|+-|.|++..|.=.
T Consensus 7 ik~G~~i~~~g~~~~V~~~~h~kp 30 (189)
T PRK04542 7 IKKGMVVEYNGKLLLVKDIDRQSP 30 (189)
T ss_pred cCCCCEEEECCEEEEEEEEEEECC
Confidence 568999999999999999988644
No 24
>cd06219 DHOD_e_trans_like1 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD,
Probab=38.79 E-value=1e+02 Score=23.02 Aligned_cols=50 Identities=12% Similarity=0.042 Sum_probs=31.1
Q ss_pred CCCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEEEeecchhhHHHHHHHh
Q 034231 42 NLQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLDVLSSSRYILNLYLENL 96 (100)
Q Consensus 42 ~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~Vq~~~Ry~~n~~l~~l 96 (100)
..+||+++.+.-. .....|-|.+-+.--+-..+.+.|+..+.. ..+|+++
T Consensus 26 ~~~pGQf~~l~~~---~~~~~~pySi~s~~~~~~~~~~~vk~~G~~--t~~l~~l 75 (248)
T cd06219 26 KAKPGQFVIVRAD---EKGERIPLTIADWDPEKGTITIVVQVVGKS--TRELATL 75 (248)
T ss_pred cCCCCcEEEEEcC---CCCCccceEeEEEcCCCCEEEEEEEeCCch--HHHHHhc
Confidence 4689999988521 011245788776533345688999888763 4555554
No 25
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=37.50 E-value=33 Score=24.45 Aligned_cols=30 Identities=17% Similarity=0.300 Sum_probs=20.8
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEEEEEEEE
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAVTHRYQL 67 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~rrHrYqL 67 (100)
.++.+-..||||+++|....|.+..-+|--
T Consensus 56 ~~~~pf~vGD~I~i~~~~G~V~~I~l~~t~ 85 (206)
T PF00924_consen 56 LFERPFKVGDRIEIGGVEGRVEEIGLRSTR 85 (206)
T ss_dssp HCC-SS-TT-EEESSS-EEEEEEE-SSEEE
T ss_pred hccCCccCCCEEEEEEeehHHHhcCcceee
Confidence 356678999999999999999998877753
No 26
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=37.24 E-value=65 Score=28.95 Aligned_cols=43 Identities=19% Similarity=0.293 Sum_probs=35.0
Q ss_pred ccceEEEEeCCCCceeeeEEcCC---CCCCCCeEEEcCeEEEEEEEE
Q 034231 19 IHPYKVVEITPPPKCLGIRCFPP---NLQCGESVTIEGQAYTISAVT 62 (100)
Q Consensus 19 slp~EV~~~t~p~r~LG~~~Lp~---~pqpG~~le~eg~sY~Vl~rr 62 (100)
.-.|.|++ ....+.+|.+..+- ..+||..+-+.|++|.|.+..
T Consensus 481 ~~~~~v~~-~~~~~~ig~~d~~~a~~~~~~gavy~~~g~~y~v~~~d 526 (742)
T TIGR03817 481 GAPVAIVE-AETGRLLGTVDAGAAHSTVHPGAVYLHQGESYVVDELD 526 (742)
T ss_pred CCcEEEEE-CCCCeEEEEECHHHHHHHhCCCcEEEECCeEEEEEEEE
Confidence 44688888 66678899887654 489999999999999998764
No 27
>PRK14578 elongation factor P; Provisional
Probab=37.07 E-value=57 Score=25.02 Aligned_cols=27 Identities=15% Similarity=0.281 Sum_probs=22.4
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEEEEec
Q 034231 43 LQCGESVTIEGQAYTISAVTHRYQLRK 69 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrYqLr~ 69 (100)
..+|.+|+++|.-|.|++..|.=-=++
T Consensus 7 ik~G~~i~~dg~~~~V~~~~~~kpg~~ 33 (187)
T PRK14578 7 FKKGLVIQLDGAPCLLLDVTFQSPSAR 33 (187)
T ss_pred cCCCCEEEECCEEEEEEEEEEEcCCCC
Confidence 568999999999999999998754333
No 28
>smart00643 C345C Netrin C-terminal Domain.
Probab=36.98 E-value=33 Score=22.86 Aligned_cols=40 Identities=15% Similarity=0.433 Sum_probs=27.0
Q ss_pred CCCCCCCCeEEE-cCeEEEEEEEEEE-EEEe-cceEEecceeE
Q 034231 40 PPNLQCGESVTI-EGQAYTISAVTHR-YQLR-KGKYEPSEKRL 79 (100)
Q Consensus 40 p~~pqpG~~le~-eg~sY~Vl~rrHr-YqLr-~GrY~l~~i~L 79 (100)
.+..+|..-..+ .|++|+|+..... +... .|+|.++.-++
T Consensus 55 ~~~~~C~cp~~l~~g~~YLImG~~~~~~~~~~~~~~~l~~~s~ 97 (114)
T smart00643 55 ISRASCRCPLLLKKGKSYLIMGKSGDLWDVKGRGQYVLGKNSW 97 (114)
T ss_pred eeccccCCccccCCCCEEEEecCCCCccccCCccEEEeCCCeE
Confidence 344778777655 7999999997532 3334 47788876443
No 29
>PRK00529 elongation factor P; Validated
Probab=36.56 E-value=63 Score=24.27 Aligned_cols=23 Identities=26% Similarity=0.563 Sum_probs=20.5
Q ss_pred CCCCCCeEEEcCeEEEEEEEEEE
Q 034231 42 NLQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 42 ~pqpG~~le~eg~sY~Vl~rrHr 64 (100)
...+|+.|.++|+-|.|++..|.
T Consensus 6 ~ik~G~~I~~~g~~~~V~~~~~~ 28 (186)
T PRK00529 6 DLRKGLVIEIDGEPYVVLEFEHV 28 (186)
T ss_pred hcCCCCEEEECCEEEEEEEEEEe
Confidence 35789999999999999998885
No 30
>PF01592 NifU_N: NifU-like N terminal domain; InterPro: IPR002871 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the N-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal and a C-terminal domain (IPR001075 from INTERPRO) []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 3LVL_A 4EB5_C 4EB7_C 1WFZ_A 2Z7E_C 2AZH_A 1XJS_A 1Q48_A 1R9P_A 2KQK_A ....
Probab=35.40 E-value=17 Score=25.29 Aligned_cols=21 Identities=29% Similarity=0.517 Sum_probs=14.0
Q ss_pred CceeeeEEcCC-------CCCCCCeEEE
Q 034231 31 PKCLGIRCFPP-------NLQCGESVTI 51 (100)
Q Consensus 31 ~r~LG~~~Lp~-------~pqpG~~le~ 51 (100)
|+..|.+.-++ ||.||++|++
T Consensus 13 P~~~g~l~~~~~~~~~~~n~~CGD~i~i 40 (126)
T PF01592_consen 13 PRNYGKLEDADAGTGEAGNPSCGDEIRI 40 (126)
T ss_dssp TSSBSSSTTTSSEEEEEEETTTTEEEEE
T ss_pred CCCCCCCCCCCcceeeecCCCCCCEEEE
Confidence 45555554444 6899999875
No 31
>PF06949 DUF1292: Protein of unknown function (DUF1292); InterPro: IPR009711 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.
Probab=35.25 E-value=41 Score=21.39 Aligned_cols=15 Identities=13% Similarity=0.459 Sum_probs=12.8
Q ss_pred eEEEcCeEEEEEEEE
Q 034231 48 SVTIEGQAYTISAVT 62 (100)
Q Consensus 48 ~le~eg~sY~Vl~rr 62 (100)
.++++|++|+|+.-.
T Consensus 13 ~f~~~~~~Y~~l~~~ 27 (76)
T PF06949_consen 13 EFEVDGKEYIVLVPV 27 (76)
T ss_pred EEEECCeEEEEEEec
Confidence 688999999999864
No 32
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=34.92 E-value=73 Score=21.57 Aligned_cols=25 Identities=28% Similarity=0.507 Sum_probs=19.4
Q ss_pred EEcCCCCCCCCeEEE----cCeEEEEEEE
Q 034231 37 RCFPPNLQCGESVTI----EGQAYTISAV 61 (100)
Q Consensus 37 ~~Lp~~pqpG~~le~----eg~sY~Vl~r 61 (100)
+.+.+....|++|-+ +||.|+|+-|
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlDk 99 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLDK 99 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEEe
Confidence 556667889999876 7888988865
No 33
>PRK11325 scaffold protein; Provisional
Probab=34.79 E-value=27 Score=24.59 Aligned_cols=11 Identities=18% Similarity=0.604 Sum_probs=9.2
Q ss_pred CCCCCCCeEEE
Q 034231 41 PNLQCGESVTI 51 (100)
Q Consensus 41 ~~pqpG~~le~ 51 (100)
-||.||+.|++
T Consensus 33 ~np~CGD~i~l 43 (127)
T PRK11325 33 GAPACGDVMKL 43 (127)
T ss_pred cCCCCccEEEE
Confidence 47889999876
No 34
>PRK11354 kil FtsZ inhibitor protein; Reviewed
Probab=34.71 E-value=1.5e+02 Score=20.22 Aligned_cols=19 Identities=37% Similarity=0.476 Sum_probs=17.5
Q ss_pred CCCCCeEEEcCeEEEEEEE
Q 034231 43 LQCGESVTIEGQAYTISAV 61 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~r 61 (100)
..||..|-++|++|..+..
T Consensus 16 V~PG~~v~~~grty~ASAN 34 (73)
T PRK11354 16 VTPGDYVLHEGRTYIASAN 34 (73)
T ss_pred cCCceEEEEcCcEEEEEec
Confidence 6899999999999999876
No 35
>PF13785 DUF4178: Domain of unknown function (DUF4178)
Probab=34.64 E-value=82 Score=21.40 Aligned_cols=26 Identities=27% Similarity=0.455 Sum_probs=22.3
Q ss_pred CCCCCCCCeEEEcCeEEEEEEEEEEE
Q 034231 40 PPNLQCGESVTIEGQAYTISAVTHRY 65 (100)
Q Consensus 40 p~~pqpG~~le~eg~sY~Vl~rrHrY 65 (100)
..+..||+.++++|+.|.+.+...-.
T Consensus 66 ~~~~~~~~~~~~~g~~y~~~e~~~a~ 91 (140)
T PF13785_consen 66 DDNLPPGDTVTYDGKRYRLDESGTAR 91 (140)
T ss_pred ccccCCCCEEEECCeEEEEEEeEEEE
Confidence 56778999999999999999886655
No 36
>TIGR00038 efp translation elongation factor P. function: involved in peptide bond synthesis. stimulate efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase (by similarity). The trusted cutoff of this model is set high enough to exclude members of TIGR02178, an EFP-like protein of certain Gammaproteobacteria.
Probab=34.49 E-value=70 Score=24.02 Aligned_cols=22 Identities=23% Similarity=0.537 Sum_probs=20.1
Q ss_pred CCCCCeEEEcCeEEEEEEEEEE
Q 034231 43 LQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHr 64 (100)
..+|+.|.++|+-|.|++..|.
T Consensus 6 ik~G~~I~~~g~~~~V~~~~~~ 27 (184)
T TIGR00038 6 LRKGLVIELDGEPYVVLEFEHV 27 (184)
T ss_pred ccCCCEEEECCEEEEEEEEEEe
Confidence 5789999999999999999884
No 37
>KOG1755 consensus Profilin [Cytoskeleton]
Probab=34.03 E-value=51 Score=24.35 Aligned_cols=42 Identities=21% Similarity=0.271 Sum_probs=29.3
Q ss_pred CCCceeeeEEc-CCCCCCCCeEEEcCeEEEEEEEEEEEEEecc
Q 034231 29 PPPKCLGIRCF-PPNLQCGESVTIEGQAYTISAVTHRYQLRKG 70 (100)
Q Consensus 29 ~p~r~LG~~~L-p~~pqpG~~le~eg~sY~Vl~rrHrYqLr~G 70 (100)
|.+...+..-+ +++-.+++=++++|+.|+|.+-.-++.++++
T Consensus 41 ~~e~~~~v~~F~d~~~~~~~Gl~L~Gqkylv~~ge~~~~~~gk 83 (128)
T KOG1755|consen 41 PSEIPAIVAGFKDPGGLAGTGLTLGGQKYLVVRGEEGRVIRGK 83 (128)
T ss_pred HHHHHHHHhcccCcccccccceeecccEEEEEecccceEEecc
Confidence 33333333334 4556789999999999999998876666554
No 38
>PF12218 End_N_terminal: N terminal extension of bacteriophage endosialidase; InterPro: IPR024429 This entry represents the N-terminal extension domain of endosialidases which is approximately 70 amino acids in length. The two N-terminal domains (this domain and the beta propeller) assemble in the compact 'cap' whereas the C-terminal domain forms an extended tail-like structure. The very N-terminal part of the 'cap' region (residues 246 to 312) holds the only alpha-helix of the protein and is presumably the residual part of the deleted N-terminal head-binding domain [].; PDB: 3JU4_A 3GVL_A 3GVK_B 3GVJ_A 1V0E_B 1V0F_E.
Probab=31.55 E-value=34 Score=23.00 Aligned_cols=34 Identities=12% Similarity=0.317 Sum_probs=21.4
Q ss_pred CCCCeEEEcCeEEEEEEEEEEEEEecceEEecce
Q 034231 44 QCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEK 77 (100)
Q Consensus 44 qpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i 77 (100)
-+|.-|+-.|.+|.|+..--.=+++++||--.+|
T Consensus 21 ~~g~~IDg~GlTykVs~lPd~srf~N~rF~~eri 54 (67)
T PF12218_consen 21 PVGRKIDGAGLTYKVSSLPDISRFKNARFVYERI 54 (67)
T ss_dssp -TTS-EE-TT-EEEESS---GGGEES-EEEE-SS
T ss_pred CCCeEEecCCceEEEeeCccHHhhccceEEEeec
Confidence 4799999999999999998888888888865544
No 39
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=31.08 E-value=80 Score=18.79 Aligned_cols=12 Identities=25% Similarity=0.354 Sum_probs=9.9
Q ss_pred CCCCCCCeEEEc
Q 034231 41 PNLQCGESVTIE 52 (100)
Q Consensus 41 ~~pqpG~~le~e 52 (100)
..|-.||||.++
T Consensus 36 ~~~~VGD~V~~~ 47 (68)
T cd04466 36 NPPAVGDRVEFE 47 (68)
T ss_pred CCCCCCcEEEEE
Confidence 458999999875
No 40
>PF02911 Formyl_trans_C: Formyl transferase, C-terminal domain; InterPro: IPR005793 Methionyl-tRNA formyltransferase (2.1.2.9 from EC) transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. This family also includes formyltetrahydrofolate dehydrogenases, which produce formate from formyl-tetrahydrofolate. These enzymes contain an N-terminal domain in common with other formyl transferase enzymes (IPR002376 from INTERPRO). The C-terminal domain has an open beta-barrel fold [].; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 3RFO_D 1Z7E_C 2BLN_A 1YRW_A 1FMT_A 2FMT_B 3Q0I_A 3R8X_A 3TQQ_A 2BW0_A ....
Probab=30.78 E-value=89 Score=19.83 Aligned_cols=45 Identities=16% Similarity=-0.003 Sum_probs=29.0
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEEEEe----cc-eEEecceeEEEeecchh
Q 034231 43 LQCGESVTIEGQAYTISAVTHRYQLR----KG-KYEPSEKRLDVLSSSRY 87 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrYqLr----~G-rY~l~~i~L~Vq~~~Ry 87 (100)
|.||-|.+++|+...|.+.+--=.-. -| -...++-.|.|+...-+
T Consensus 27 p~pga~~~~~~~~i~i~~~~~~~~~~~~~~pG~i~~~~~~~l~V~~~dg~ 76 (100)
T PF02911_consen 27 PYPGAFTTFNGKRIKILKAEPLEDDSSSNPPGTIVYIDKNGLLVACGDGA 76 (100)
T ss_dssp TTT-EEEEETTEEEEEEEEEEEETTSSSSSTTBEEEEETTEEEEETSBSE
T ss_pred CCCCEEEeeCCeEEEEEeeeecccccccccCceEEEEcCCEEEEEECCcE
Confidence 88999999999999888876442222 34 23344446777665443
No 41
>PRK15094 magnesium/cobalt efflux protein CorC; Provisional
Probab=30.44 E-value=62 Score=25.63 Aligned_cols=26 Identities=23% Similarity=0.464 Sum_probs=22.2
Q ss_pred cCCCCCCCCeEEEcCeEEEEEEEEEE
Q 034231 39 FPPNLQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 39 Lp~~pqpG~~le~eg~sY~Vl~rrHr 64 (100)
|...|.+|+.|+++|-.|.|++..-+
T Consensus 247 l~~iP~~Gd~i~~~~~~f~V~~~~~~ 272 (292)
T PRK15094 247 FGHLPARGETIDIDGYQFKVAMADSR 272 (292)
T ss_pred hCcCCCCCCEEEECCEEEEEEEccCC
Confidence 44569999999999999999987655
No 42
>cd03583 NTR_complement_C3 NTR/C345C domain, complement C3 subfamily; The NTR domain found in complement C3 is also known as the C345C domain because it occurs at the C-terminus of complement C3, C4 and C5. Complement C3 plays a pivotal role in the activation of the complement systems, as all pathways (classical, alternative, and lectin) result in the processing of C3 by C3 convertase. The larger fragment, activated C3b, contains the NTR/C345C domain and binds covalently, via a reactive thioester, to cell surface carbohydrates including components of bacterial cell walls and immune aggregates. The smaller cleavage product, C3a, acts independently as a diffusible signal to mediate local inflammatory processes. The structure of C3 shows that the NTR/C345C domain is located in an exposed position relative to the rest of the molecule. The function of the domain in complement C3 is poorly understood.
Probab=28.80 E-value=58 Score=23.87 Aligned_cols=27 Identities=30% Similarity=0.660 Sum_probs=22.6
Q ss_pred eEEcCCCCCCCCeEEE-cCeEEEEEEEE
Q 034231 36 IRCFPPNLQCGESVTI-EGQAYTISAVT 62 (100)
Q Consensus 36 ~~~Lp~~pqpG~~le~-eg~sY~Vl~rr 62 (100)
.+.|=.-++|-+.+.+ +|++|+|+...
T Consensus 69 ~r~F~~r~sCr~~l~l~~gk~YLIMG~~ 96 (149)
T cd03583 69 TRTFISHPKCREALNLKEGKDYLIMGLS 96 (149)
T ss_pred eEEEEecCCCcchhccCCCCEEEEEeCC
Confidence 4447777999888888 99999999887
No 43
>PLN03107 eukaryotic translation initiation factor 5A; Provisional
Probab=27.09 E-value=1e+02 Score=23.01 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=21.6
Q ss_pred CCCCCCCeEEEcCeEEEEEEEEEE
Q 034231 41 PNLQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 41 ~~pqpG~~le~eg~sY~Vl~rrHr 64 (100)
....+|.+|.++|.-|.|++..|.
T Consensus 24 ~~lKkG~~I~~~g~pc~V~e~~~~ 47 (159)
T PLN03107 24 GTIRKGGYIVIKGRPCKVVEVSTS 47 (159)
T ss_pred HhccCCCEEEECCEEEEEEEEEec
Confidence 457899999999999999999886
No 44
>cd03581 NTR_Sfrp3_like NTR domain, Secreted frizzled-related protein (Sfrp) 3-like subfamily; composed of proteins similar to human Sfrp3 and Sfrp4. Sfrps are soluble proteins containing an NTR domain C-terminal to a cysteine-rich Frizzled domain. They show diverse functions and are thought to work in Wnt signaling indirectly, as modulators or antagonists by binding Wnt ligands, and directly, via the Wnt receptor, Frizzled. They participate in regulating the patterning along the anteroposterior axis in vertebrates. Human Sfrp3 may suppress the growth and invasiveness of androgen-independent prostate cancer cells.
Probab=26.74 E-value=96 Score=21.53 Aligned_cols=47 Identities=13% Similarity=0.044 Sum_probs=34.5
Q ss_pred eeeeEEcCCCCCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEEEe
Q 034231 33 CLGIRCFPPNLQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLDVL 82 (100)
Q Consensus 33 ~LG~~~Lp~~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~Vq 82 (100)
.=|.+.|=.+.+|-.-....|++|+||..... ..++|-+++-++--+
T Consensus 44 ~~~~~~l~~~~~C~cp~l~~gk~YLImG~~~~---~~~~~~ld~~S~Ve~ 90 (111)
T cd03581 44 PRDTVTLYTNSGCLCPPLTPNEEYIIMGYEDE---ERSRLLLVEGSLAEK 90 (111)
T ss_pred CCceEEEEEcCCCCCccccCCCEEEEEecCCC---CcceEEeCCceEEEE
Confidence 34566666778898888889999999999744 247788877666543
No 45
>PF00278 Orn_DAP_Arg_deC: Pyridoxal-dependent decarboxylase, C-terminal sheet domain; InterPro: IPR022643 These enzymes are collectively known as group IV decarboxylases []. Pyridoxal-dependent decarboxylases acting on ornithine, lysine, arginine and related substrates can be classified into two different families on the basis of sequence similarities [, ]. Members of this family while most probably evolutionary related, do not share extensive regions of sequence similarities. The proteins contain a conserved lysine residue which is known, in mouse ODC [], to be the site of attachment of the pyridoxal-phosphate group. The proteins also contain a stretch of three consecutive glycine residues and has been proposed to be part of a substrate- binding region []. This entry represents the C-terminal region of the Orn/DAP/Arg decarboxylases.; GO: 0003824 catalytic activity; PDB: 1TWI_B 1TUF_A 3MT1_A 3N2B_C 2O0T_A 1HKW_A 1HKV_A 3VAB_A 3N2O_A 7ODC_A ....
Probab=26.42 E-value=57 Score=21.26 Aligned_cols=18 Identities=22% Similarity=0.403 Sum_probs=15.0
Q ss_pred eEEcCCCCCCCCeEEEcC
Q 034231 36 IRCFPPNLQCGESVTIEG 53 (100)
Q Consensus 36 ~~~Lp~~pqpG~~le~eg 53 (100)
...||..+++|+||.+++
T Consensus 76 ~~~lP~~l~~GD~l~f~~ 93 (116)
T PF00278_consen 76 DVMLPKELEVGDWLVFEN 93 (116)
T ss_dssp EEEEESTTTTT-EEEESS
T ss_pred eccCCCCCCCCCEEEEec
Confidence 678888999999999986
No 46
>PRK09993 C-lysozyme inhibitor; Provisional
Probab=26.36 E-value=57 Score=24.87 Aligned_cols=21 Identities=14% Similarity=0.347 Sum_probs=17.4
Q ss_pred CCCCCCeEEEcCeEEEEEEEE
Q 034231 42 NLQCGESVTIEGQAYTISAVT 62 (100)
Q Consensus 42 ~pqpG~~le~eg~sY~Vl~rr 62 (100)
+.-|.+.|+++|++|.|....
T Consensus 61 tssP~~~V~~~G~~YlVg~~C 81 (153)
T PRK09993 61 TYSPAQTVTLGDETYQVMSAC 81 (153)
T ss_pred CCCchhheeeCCceEEEeccc
Confidence 456799999999999998643
No 47
>PRK13767 ATP-dependent helicase; Provisional
Probab=25.63 E-value=1.7e+02 Score=26.79 Aligned_cols=48 Identities=19% Similarity=0.236 Sum_probs=35.6
Q ss_pred eEEEEeCCCCceeeeEE--cCCCCCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEEEeec
Q 034231 22 YKVVEITPPPKCLGIRC--FPPNLQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLDVLSS 84 (100)
Q Consensus 22 ~EV~~~t~p~r~LG~~~--Lp~~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~Vq~~ 84 (100)
+.|+. ...+-+|.+. +-....||+.|.++|+.|.|... ++-.++|.++
T Consensus 521 ~~V~~--~~g~~iG~lde~f~~~l~~g~~f~l~g~~w~~~~~-------------~~~~v~V~~a 570 (876)
T PRK13767 521 CDVYT--EDGKYVGNLEEEFLERLEPGDVFVLGGRTYEFLYS-------------RGSKVYVDPA 570 (876)
T ss_pred EEEEe--cCCCEEEEechHHHccCCCCCEEEECCCEEEEEEE-------------eCCEEEEEEC
Confidence 44443 5778899998 44669999999999999987542 3356677666
No 48
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=25.59 E-value=21 Score=25.34 Aligned_cols=32 Identities=28% Similarity=0.441 Sum_probs=18.2
Q ss_pred eeeeeccccccCCCCccceEEEEeCCCCceeeeEEcCC
Q 034231 4 VVCRKKERDRDHKNNIHPYKVVEITPPPKCLGIRCFPP 41 (100)
Q Consensus 4 ~~~~~~~~~~~~~~~slp~EV~~~t~p~r~LG~~~Lp~ 41 (100)
|-|+||+|+|.- --=|+ +. -.|+.+|+|.++-
T Consensus 53 vCC~kRkrsRrP--IYrPv--I~--~~P~~~~~~~~~G 84 (94)
T PF05393_consen 53 VCCKKRKRSRRP--IYRPV--IG--LEPQNLQIHRDDG 84 (94)
T ss_pred HHHHHhhhccCC--ccccc--cc--cCCCcccccccCC
Confidence 347889988843 22222 11 2467777776654
No 49
>TIGR01999 iscU FeS cluster assembly scaffold IscU. This model represents IscU, a homolog of the N-terminal region of NifU, an Fe-S cluster assembly protein found mostly in nitrogen-fixing bacteria. IscU is considered part of the IscSUA-hscAB-fdx system of Fe-S assembly, whereas NifU is found in nitrogenase-containing (nitrogen-fixing) species. A NifU-type protein is also found in Helicobacter and Campylobacter. IscU and NifU are considered scaffold proteins on which Fe-S clusters are assembled before transfer to apoproteins. This model excludes true NifU proteins as in Klebsiella pneumoniae and Anabaena sp. as well as archaeal homologs. It includes largely proteobacterial and eukaryotic forms.
Probab=25.48 E-value=49 Score=23.05 Aligned_cols=11 Identities=18% Similarity=0.604 Sum_probs=9.0
Q ss_pred CCCCCCCeEEE
Q 034231 41 PNLQCGESVTI 51 (100)
Q Consensus 41 ~~pqpG~~le~ 51 (100)
-||.||+.|++
T Consensus 31 ~np~CGD~i~l 41 (124)
T TIGR01999 31 GAPACGDVMKL 41 (124)
T ss_pred CCCCCccEEEE
Confidence 48899999875
No 50
>PTZ00414 10 kDa heat shock protein; Provisional
Probab=25.33 E-value=86 Score=22.01 Aligned_cols=18 Identities=28% Similarity=0.455 Sum_probs=13.8
Q ss_pred CCCCeEEEcCeEEEEEEE
Q 034231 44 QCGESVTIEGQAYTISAV 61 (100)
Q Consensus 44 qpG~~le~eg~sY~Vl~r 61 (100)
.-|..|+++|+.|+|++-
T Consensus 74 y~Gtevk~dg~ey~i~~e 91 (100)
T PTZ00414 74 FGGSSVKVEGEEFFLYNE 91 (100)
T ss_pred CCCcEEEECCEEEEEEEh
Confidence 446778889999998763
No 51
>cd06664 IscU_like Iron-sulfur cluster scaffold-like proteins. IscU_like and NifU_like proteins. IscU and NifU function as a scaffold for the assembly of [2Fe-2S] clusters before they are transferred to apo target proteins. They are highly conserved and play vital roles in the ISC and NIF systems of Fe-S protein maturation. NIF genes participate in nitrogen fixation in several isolated bacterial species. The NifU domain, however, is also found in bacteria that do not fix nitrogen, so it may have wider significance in the cell. Human IscU interacts with frataxin, the Friedreich ataxia gene product, and incorrectly spliced IscU has been shown to disrupt iron homeostasis in skeletal muscle and cause myopathy.
Probab=25.27 E-value=52 Score=22.29 Aligned_cols=12 Identities=33% Similarity=0.695 Sum_probs=9.6
Q ss_pred CCCCCCCeEEEc
Q 034231 41 PNLQCGESVTIE 52 (100)
Q Consensus 41 ~~pqpG~~le~e 52 (100)
.||.||+.|++.
T Consensus 29 ~n~~CGD~v~l~ 40 (123)
T cd06664 29 GNPLCGDEITLY 40 (123)
T ss_pred CCCCCCceEEEE
Confidence 478899998874
No 52
>PF14427 Pput2613-deam: Pput_2613-like deaminase
Probab=25.02 E-value=47 Score=24.46 Aligned_cols=33 Identities=24% Similarity=0.264 Sum_probs=24.2
Q ss_pred ceEEEEeCCCCceeeeE-------EcCCCCCCCCeEEEcCe
Q 034231 21 PYKVVEITPPPKCLGIR-------CFPPNLQCGESVTIEGQ 54 (100)
Q Consensus 21 p~EV~~~t~p~r~LG~~-------~Lp~~pqpG~~le~eg~ 54 (100)
+-|=.+ +=|+++|..| +|+++-+||+.+.|+|+
T Consensus 35 ~~e~~L-gFP~~slaTHTE~ri~~~l~~~~~~Gd~m~I~G~ 74 (118)
T PF14427_consen 35 EAERKL-GFPESSLATHTEARITRDLPLNQVPGDRMLIDGQ 74 (118)
T ss_pred CCcccc-CCchhhhhhhhHhHHHhhcCccccCCceEEEeee
Confidence 334444 5566666554 68999999999999996
No 53
>TIGR01646 vgr_GE Rhs element Vgr protein. This model represents the Vgr family of proteins, associated with some classes of Rhs elements. This model does not include a large octapeptide repeat region, VGXXXXXX, found in the Vgr of Rhs classes G and E.
Probab=24.83 E-value=1e+02 Score=25.57 Aligned_cols=30 Identities=23% Similarity=0.346 Sum_probs=23.0
Q ss_pred eeEEcCCCCCCCCeEEEcCe-------EEEEEEEEEEE
Q 034231 35 GIRCFPPNLQCGESVTIEGQ-------AYTISAVTHRY 65 (100)
Q Consensus 35 G~~~Lp~~pqpG~~le~eg~-------sY~Vl~rrHrY 65 (100)
|.-..+. ..||.+|++.|. .|+|.+++|+.
T Consensus 274 G~~~~~~-L~~G~~~~l~~~~~~~~~~~~~v~~v~h~~ 310 (483)
T TIGR01646 274 GEGNAAG-LAPGQLFVLSGHPRNDQNNGYLIVSAIHSI 310 (483)
T ss_pred EEeCCCe-ecCCCEEEecCCCCcccCCCEEEEEEEEEE
Confidence 4444333 889999999764 59999999994
No 54
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=24.75 E-value=44 Score=24.40 Aligned_cols=24 Identities=33% Similarity=0.581 Sum_probs=18.1
Q ss_pred EecceEEe--------cceeEEEeecchhhHH
Q 034231 67 LRKGKYEP--------SEKRLDVLSSSRYILN 90 (100)
Q Consensus 67 Lr~GrY~l--------~~i~L~Vq~~~Ry~~n 90 (100)
++-|.|++ ++|.+-+|+.+||++-
T Consensus 67 ~~pG~YeiNl~~Lld~~~iVval~EeG~Y~I~ 98 (112)
T COG3364 67 LRPGVYEINLESLLDRDEIVVALQEEGRYFIH 98 (112)
T ss_pred ecCceEEEehhhhccCCceEEEEccCCeEEEE
Confidence 45677764 5778889999999974
No 55
>COG2871 NqrF Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrF [Energy production and conversion]
Probab=23.82 E-value=90 Score=26.98 Aligned_cols=30 Identities=40% Similarity=0.539 Sum_probs=23.2
Q ss_pred ceEEEEeCCCCceeeeEEcC--------CCCCCCCeEEEcC
Q 034231 21 PYKVVEITPPPKCLGIRCFP--------PNLQCGESVTIEG 53 (100)
Q Consensus 21 p~EV~~~t~p~r~LG~~~Lp--------~~pqpG~~le~eg 53 (100)
-+.||.+|||++.= ..| |+..||+-|++-|
T Consensus 227 ~~NvRIAtPPp~~~---~~PpG~mSSyi~sLKpGDKvtisG 264 (410)
T COG2871 227 KLNVRIATPPPRNP---DAPPGQMSSYIWSLKPGDKVTISG 264 (410)
T ss_pred EEEEEeccCCCCCC---CCCccceeeeEEeecCCCeEEEec
Confidence 37899999999874 344 4578999998876
No 56
>cd07890 CYTH-like_AC_IV-like Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily. This subgroup contains class IV ACs and similar proteins. AC catalyzes the conversion of ATP to 3',5'-cyclic AMP (cAMP) and PPi. cAMP is a key signaling molecule which conveys a variety of signals in different cell types. In prokaryotes, cAMP is a catabolite derepression signal which triggers the expression of metabolic pathways including the lactose operon. Six non-homologous classes of ACs have been identified (I-VI). Class IV ACs are found in this group. In bacteria, the gene encoding Class IV AC has been designated cyaB and the protein as AC2. AC-IV occurs in addition to AC-I in bacterial pathogens such as Yersinia pestis (plague disease). The role of AC-IV is unknown but it has been speculated that it may be a factor in pathogenesis, perhaps providing cAMP for a secondary internal signaling function, or for secretion and uptake into host cells, where it may disrupt normal cel
Probab=23.14 E-value=67 Score=22.83 Aligned_cols=20 Identities=20% Similarity=-0.019 Sum_probs=17.7
Q ss_pred eeEEcCCCCCCCCeEEEcCe
Q 034231 35 GIRCFPPNLQCGESVTIEGQ 54 (100)
Q Consensus 35 G~~~Lp~~pqpG~~le~eg~ 54 (100)
+.++||+.+-.|.++|+|..
T Consensus 117 ~~v~lD~~~~lG~f~EiE~~ 136 (169)
T cd07890 117 TRVHLDRVEGLGDFVEIEVV 136 (169)
T ss_pred EEEEEEccCCCCceEEEEEE
Confidence 58899999999999999864
No 57
>smart00675 DM11 Domains in hypothetical proteins in Drosophila including 2 in CG15241 and CG9329.
Probab=23.10 E-value=1.2e+02 Score=22.82 Aligned_cols=42 Identities=10% Similarity=0.161 Sum_probs=33.2
Q ss_pred ceeeeEEcCCCCCCCCeEEEcCeEEEEEEEEEEEEEecceEEecceeEEEe
Q 034231 32 KCLGIRCFPPNLQCGESVTIEGQAYTISAVTHRYQLRKGKYEPSEKRLDVL 82 (100)
Q Consensus 32 r~LG~~~Lp~~pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY~l~~i~L~Vq 82 (100)
..=|.+..-|..|||+-|++..+. |++.+|..++--.++.++
T Consensus 45 ~vsGn~t~~wdi~P~DrI~~~~~~---------~~~eRG~W~PTv~s~~~~ 86 (164)
T smart00675 45 HISGNITVIWDVQPTDRISARVSV---------MHFERGTWQPTVFNMATP 86 (164)
T ss_pred EEeeeEEEEEecCCCCeEEEEEEE---------EEecCCeeeeeEEeeecc
Confidence 345888889999999999987765 467889999877776654
No 58
>PRK11573 hypothetical protein; Provisional
Probab=22.64 E-value=92 Score=25.98 Aligned_cols=26 Identities=19% Similarity=0.128 Sum_probs=22.2
Q ss_pred cCCCCCCCCeEEEcCeEEEEEEEEEE
Q 034231 39 FPPNLQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 39 Lp~~pqpG~~le~eg~sY~Vl~rrHr 64 (100)
|..-|.+|+.++++|-.|.|.+...|
T Consensus 369 lg~iP~~Ge~~~~~~~~f~V~~~~~~ 394 (413)
T PRK11573 369 LEEIPVAGTRVRIGEYDIDILDVQDN 394 (413)
T ss_pred hCcCCCCCCEEEECCEEEEEEEecCC
Confidence 44568999999999999999988755
No 59
>PRK14533 groES co-chaperonin GroES; Provisional
Probab=21.69 E-value=1.3e+02 Score=20.54 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=12.4
Q ss_pred CCCCeEEEcCeEEEEEEE
Q 034231 44 QCGESVTIEGQAYTISAV 61 (100)
Q Consensus 44 qpG~~le~eg~sY~Vl~r 61 (100)
.-|..|+++|+.|+|+.-
T Consensus 65 y~g~ev~~~~~~y~iv~e 82 (91)
T PRK14533 65 YAGTEIKIDDEDYIIIDV 82 (91)
T ss_pred CCCeEEEECCEEEEEEEh
Confidence 345567778888888753
No 60
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=21.60 E-value=1.9e+02 Score=22.98 Aligned_cols=30 Identities=23% Similarity=0.186 Sum_probs=25.7
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEEEEEEEE
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAVTHRYQL 67 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~rrHrYqL 67 (100)
.++.+-+.||||+++|..=.|.+..-|+.-
T Consensus 125 ~~~rpf~vGD~I~i~~~~G~V~~I~~r~T~ 154 (286)
T PRK10334 125 VMFRPFRAGEYVDLGGVAGTVLSVQIFSTT 154 (286)
T ss_pred HhcCCCCCCCEEEECCEEEEEEEEEeEEEE
Confidence 467788999999999999999988888754
No 61
>COG0223 Fmt Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]
Probab=21.57 E-value=1.3e+02 Score=24.94 Aligned_cols=22 Identities=18% Similarity=0.099 Sum_probs=19.5
Q ss_pred CCCCCCeEEEcCeEEEEEEEEE
Q 034231 42 NLQCGESVTIEGQAYTISAVTH 63 (100)
Q Consensus 42 ~pqpG~~le~eg~sY~Vl~rrH 63 (100)
+|.||-|.+++|+.+.|.+.+.
T Consensus 229 ~P~Pga~~~~~~~~iki~~a~~ 250 (307)
T COG0223 229 NPWPGAWTELGGKRIKIWEARV 250 (307)
T ss_pred CCCCceEEEECCeEEEEEEEEE
Confidence 4999999999999999988764
No 62
>TIGR03419 NifU_clost FeS cluster assembly scaffold protein NifU, Clostridium type. NifU and NifS form a pair of iron-sulfur (FeS) cluster biosynthesis proteins much simpler than the ISC and SUF systems. Members of this protein family are a distinct group of NifU-like proteins, found always to a NifS-like protein and restricted to species that lack a SUF system. Typically, NIF systems service a smaller number of FeS-containing proteins than do ISC or SUF. Members of this particular branch typically are found, almost half the time, near the mnmA gene, involved in the carboxymethylaminomethyl modification of U34 in some tRNAs (see GenProp0704). While other NifU proteins are associated with nitrogen fixation, this family is not.
Probab=20.68 E-value=71 Score=22.21 Aligned_cols=12 Identities=33% Similarity=0.617 Sum_probs=9.8
Q ss_pred CCCCCCCeEEEc
Q 034231 41 PNLQCGESVTIE 52 (100)
Q Consensus 41 ~~pqpG~~le~e 52 (100)
.||.||+.|++.
T Consensus 28 ~np~CGD~i~l~ 39 (121)
T TIGR03419 28 GNPKCGDIMKIF 39 (121)
T ss_pred CCCCCccEEEEE
Confidence 489999998874
No 63
>TIGR03520 GldE gliding motility-associated protein GldE. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldC is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. GldE was discovered because of its adjacency to GldD in F. johnsonii. Overexpression of GldE partially supresses the effects of a GldB point mutant suggesting that GldB and GldE interact. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility and in fact some do not appear to express the gliding phenotype.
Probab=20.52 E-value=1e+02 Score=25.53 Aligned_cols=27 Identities=26% Similarity=0.293 Sum_probs=22.3
Q ss_pred EcCCCCCCCCeEEEcCeEEEEEEEEEE
Q 034231 38 CFPPNLQCGESVTIEGQAYTISAVTHR 64 (100)
Q Consensus 38 ~Lp~~pqpG~~le~eg~sY~Vl~rrHr 64 (100)
+|..-|++|+.++++|-.|.|.+...+
T Consensus 372 ~l~~iP~~G~~~~~~~~~f~V~~~~~~ 398 (408)
T TIGR03520 372 ISGGFPKKGEKITFENFEFTIEAMDKK 398 (408)
T ss_pred HhCcCCCCCCEEEECCEEEEEEEccCC
Confidence 345569999999999999999987654
No 64
>PRK12426 elongation factor P; Provisional
Probab=20.19 E-value=2.4e+02 Score=21.71 Aligned_cols=30 Identities=13% Similarity=0.274 Sum_probs=23.7
Q ss_pred CCCCCeEEEcCeEEEEEEEEEEEEEecceE
Q 034231 43 LQCGESVTIEGQAYTISAVTHRYQLRKGKY 72 (100)
Q Consensus 43 pqpG~~le~eg~sY~Vl~rrHrYqLr~GrY 72 (100)
..+|..|+++|+-|.|++..|.=.=++|.+
T Consensus 7 ik~G~~i~~~g~~~~V~~~~h~kPGkg~A~ 36 (185)
T PRK12426 7 LSVGMFISTKDGLYKVVSVSKVTGPKGETF 36 (185)
T ss_pred cCCCCEEEECCEEEEEEEEEEecCCCCceE
Confidence 468999999999999999999654444433
No 65
>smart00676 DM10 Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases.
Probab=20.19 E-value=3e+02 Score=18.86 Aligned_cols=30 Identities=20% Similarity=0.412 Sum_probs=23.6
Q ss_pred CceeeeEEcCC------------CCCCCCeEEEcCeEEEEEE
Q 034231 31 PKCLGIRCFPP------------NLQCGESVTIEGQAYTISA 60 (100)
Q Consensus 31 ~r~LG~~~Lp~------------~pqpG~~le~eg~sY~Vl~ 60 (100)
+.-|-+..+|. ....|.+|.+-|..|.|..
T Consensus 50 g~fLkR~rvp~~~~~~~~~y~~~Dl~vG~~v~i~gr~f~I~d 91 (104)
T smart00676 50 GTFLRRQRVPKPPPDDPEYYHASDLNVGTTINVFGRQFRIYD 91 (104)
T ss_pred ccEeeeeEcCCCCccccCccCHHHcCCCCEEEEeCEEEEEEE
Confidence 55688888877 3567999999999988753
Done!