Query psy15304
Match_columns 96
No_of_seqs 172 out of 916
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 17:38:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15304.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15304hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2241|consensus 100.0 2.3E-36 5E-41 227.4 8.4 94 1-96 160-255 (255)
2 PLN02610 probable methionyl-tR 99.9 9.8E-27 2.1E-31 196.7 10.3 94 1-96 706-801 (801)
3 PRK10089 tRNA-binding protein; 99.0 1.8E-10 3.9E-15 77.5 3.2 35 1-35 77-112 (112)
4 TIGR02222 chap_CsaA export-rel 99.0 2E-10 4.4E-15 76.8 3.3 35 1-35 72-107 (107)
5 cd02798 tRNA_bind_CsaA tRNA-bi 99.0 4.2E-10 9.2E-15 75.1 3.2 34 1-34 73-107 (107)
6 cd02800 tRNA_bind_EcMetRS_like 98.8 3.9E-09 8.4E-14 69.7 3.5 34 1-34 71-104 (105)
7 cd02799 tRNA_bind_EMAP-II_like 98.8 4.8E-09 1E-13 69.3 3.4 35 1-35 69-105 (105)
8 TIGR00399 metG_C_term methiony 98.8 4.4E-09 9.5E-14 73.2 3.4 35 1-35 102-137 (137)
9 PF01588 tRNA_bind: Putative t 98.4 1.4E-07 3E-12 61.4 2.5 33 1-33 61-95 (95)
10 cd02153 tRNA_bindingDomain The 98.2 1.1E-06 2.5E-11 57.0 3.1 34 1-34 62-99 (99)
11 PRK12267 methionyl-tRNA synthe 98.0 4.7E-06 1E-10 69.5 3.3 35 1-35 614-648 (648)
12 COG0073 ARC1 EMAP domain [Gene 97.9 7E-06 1.5E-10 56.0 2.6 34 1-34 86-123 (123)
13 PRK00133 metG methionyl-tRNA s 97.7 3.7E-05 8E-10 64.6 3.4 33 2-35 640-673 (673)
14 cd02796 tRNA_bind_bactPheRS tR 97.6 1.8E-05 3.9E-10 51.7 0.8 33 1-33 66-102 (103)
15 TIGR00472 pheT_bact phenylalan 88.9 0.14 3.1E-06 44.1 0.4 34 1-34 111-148 (798)
16 TIGR02306 RNA_lig_DRB0094 RNA 83.1 0.45 9.8E-06 37.7 0.5 15 1-15 82-96 (341)
17 PRK00629 pheT phenylalanyl-tRN 82.6 0.52 1.1E-05 40.7 0.7 32 1-34 109-146 (791)
18 cd03702 IF2_mtIF2_II This fami 48.4 49 0.0011 21.4 4.4 43 2-44 24-72 (95)
19 PRK14533 groES co-chaperonin G 48.2 28 0.00061 22.5 3.2 17 26-42 52-68 (91)
20 PF07542 ATP12: ATP12 chaperon 47.1 14 0.00031 25.1 1.7 37 51-89 1-37 (122)
21 PF10670 DUF4198: Domain of un 43.9 21 0.00045 24.9 2.3 54 19-72 136-198 (215)
22 PHA02142 putative RNA ligase 36.8 14 0.0003 29.8 0.4 12 1-12 89-100 (366)
23 PF02874 ATP-synt_ab_N: ATP sy 36.4 49 0.0011 19.2 2.8 20 19-38 50-69 (69)
24 PTZ00414 10 kDa heat shock pro 36.0 54 0.0012 21.7 3.1 19 25-43 60-78 (100)
25 PF13511 DUF4124: Domain of un 34.8 23 0.0005 20.3 1.1 16 62-77 18-33 (60)
26 cd03701 IF2_IF5B_II IF2_IF5B_I 32.9 95 0.0021 19.8 3.9 44 2-45 24-73 (95)
27 PF00166 Cpn10: Chaperonin 10 25.6 1E+02 0.0022 19.6 3.0 18 25-42 55-72 (93)
28 COG2517 Predicted RNA-binding 22.9 40 0.00087 25.2 0.8 14 2-15 177-190 (219)
29 PF04022 Staphylcoagulse: Stap 22.9 50 0.0011 16.9 0.9 17 56-72 10-26 (27)
30 PF01568 Molydop_binding: Moly 22.9 1.1E+02 0.0024 19.0 2.9 40 2-41 42-82 (110)
31 PF10382 DUF2439: Protein of u 22.1 1.1E+02 0.0023 19.2 2.6 11 45-55 10-20 (83)
32 PF13567 DUF4131: Domain of un 21.7 1.1E+02 0.0024 19.6 2.8 22 28-49 129-150 (176)
33 COG4787 FlgF Flagellar basal b 21.4 85 0.0019 24.1 2.3 28 60-89 104-131 (251)
34 PF14460 Prok-E2_D: Prokaryoti 20.8 1.8E+02 0.0039 20.5 3.8 23 52-76 91-113 (175)
35 PF09356 Phage_BR0599: Phage c 20.8 2.3E+02 0.0049 17.6 3.9 26 17-42 29-56 (80)
No 1
>KOG2241|consensus
Probab=100.00 E-value=2.3e-36 Score=227.38 Aligned_cols=94 Identities=55% Similarity=0.932 Sum_probs=91.2
Q ss_pred CCcccccceEEEEeCCCc--EEEEcCCCCCCCCcEEEecCCCCCCCCCCCccchhhhhhCCCcEECCCeeEEECCeEEEE
Q psy15304 1 MRGVTSEAMVMCASTPDK--VEILAPPSAAKPGDLIQVEGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTV 78 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~~--v~ll~p~~~~~~G~rv~~~g~~~~p~~~l~~Kkk~we~v~~~l~t~~~g~a~~~~~~l~~ 78 (96)
|||++||||||||+++++ ||+|.||.++.||+||+|+||+++|+++||||||+||++|+||+|+++|+|+|||.+|++
T Consensus 160 mRgv~S~gMvlcaSs~d~~~VE~l~pP~gs~pGdRv~fegfegePd~~LnPKKKiwE~iqpdl~t~~~~va~yKg~~~~~ 239 (255)
T KOG2241|consen 160 MRGVKSQGMVLCASSPDKSVVEPLAPPAGSKPGDRVTFEGFEGEPDKELNPKKKIWEKIQPDLKTNEEGVATYKGAPFET 239 (255)
T ss_pred ccccccceeEEecCCcccceeeeccCCCCCCCCCeeeecCCCCCcchhcChhhhhHHHhCCCcccccceEEEecCCceec
Confidence 899999999999998886 999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccceEEeeecCCeeeC
Q psy15304 79 ENVEGFVTSQSLANVNIK 96 (96)
Q Consensus 79 ~~~~g~~~~~~l~~~~ik 96 (96)
+. |.|+++||+|++||
T Consensus 240 ~~--G~~~a~ti~n~~Ik 255 (255)
T KOG2241|consen 240 KK--GVCTAQTISNGGIK 255 (255)
T ss_pred cC--ceEEEeeccCCCCC
Confidence 73 99999999999997
No 2
>PLN02610 probable methionyl-tRNA synthetase
Probab=99.94 E-value=9.8e-27 Score=196.72 Aligned_cols=94 Identities=46% Similarity=0.743 Sum_probs=89.3
Q ss_pred CCcccccceEEEEeCCC--cEEEEcCCCCCCCCcEEEecCCCCCCCCCCCccchhhhhhCCCcEECCCeeEEECCeEEEE
Q psy15304 1 MRGVTSEAMVMCASTPD--KVEILAPPSAAKPGDLIQVEGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTV 78 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~--~v~ll~p~~~~~~G~rv~~~g~~~~p~~~l~~Kkk~we~v~~~l~t~~~g~a~~~~~~l~~ 78 (96)
|||++||||||||++++ .++|+.||+++++|+||+|+|++++|++++|||+|+||+||++|+|+++|+|+|+|.+|++
T Consensus 706 lrGv~S~GMll~a~~~~~~~~~ll~~~~~~~~G~~v~~~~~~~~p~~~~~~k~k~~~~~~~~l~~~~~~~~~~~~~~~~~ 785 (801)
T PLN02610 706 MRGIKSQAMVLAASNSDHTKVELVEPPESAAVGERVTFPGFEGEPDDVLNPKKKVWETLQPDLHTNSELVACYKDVPFTT 785 (801)
T ss_pred cCCcccceeEEecccCCCCceEEEeCCCCCCCCCEEEeCCCCCCcccccCcccchHHHhCCCCEECCceEEEECCEEEEe
Confidence 79999999999998654 4999999999999999999999999999999999999999999999999999999999998
Q ss_pred ecccceEEeeecCCeeeC
Q psy15304 79 ENVEGFVTSQSLANVNIK 96 (96)
Q Consensus 79 ~~~~g~~~~~~l~~~~ik 96 (96)
+. |+|++++|+||.||
T Consensus 786 ~~--g~~~~~~~~~~~i~ 801 (801)
T PLN02610 786 SA--GVCKVASIANGSIR 801 (801)
T ss_pred cC--CCeEcccCCCCEeC
Confidence 75 99999999999996
No 3
>PRK10089 tRNA-binding protein; Provisional
Probab=99.03 E-value=1.8e-10 Score=77.49 Aligned_cols=35 Identities=26% Similarity=0.397 Sum_probs=31.8
Q ss_pred CCcccccceEEEEeCCC-cEEEEcCCCCCCCCcEEE
Q psy15304 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLIQ 35 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~-~v~ll~p~~~~~~G~rv~ 35 (96)
|||++||||||||++++ +++|+.|+.++++|+||.
T Consensus 77 ~~G~~S~gmil~~~~~~~~~~l~~p~~~~~~G~~i~ 112 (112)
T PRK10089 77 IAGFMSEVLVLGFEDEDGEVVLLTPDRPVPNGVKLV 112 (112)
T ss_pred ecCccccEEEEEEEcCCCeEEEecCCCCCCCcCCcC
Confidence 78999999999999766 599999999999999984
No 4
>TIGR02222 chap_CsaA export-related chaperone CsaA. This model describes Bacillus subtilis CsaA, an export-related chaperone that interacts with the Sec system, and related proteins from a number of other bacteria and archaea. The crystal structure is known for the homodimer from Thermus thermophilus.
Probab=99.02 E-value=2e-10 Score=76.79 Aligned_cols=35 Identities=26% Similarity=0.416 Sum_probs=31.9
Q ss_pred CCcccccceEEEEeCCC-cEEEEcCCCCCCCCcEEE
Q psy15304 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLIQ 35 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~-~v~ll~p~~~~~~G~rv~ 35 (96)
|||++||||||||++++ ++.|+.|+.++++|+||+
T Consensus 72 ~~G~~S~gMil~~~~~~~~~~l~~~~~~~~~G~~v~ 107 (107)
T TIGR02222 72 IAGFLSEVLVLGVIDEQGRVVLLQPDRPVPNGTKIA 107 (107)
T ss_pred eCCccccEEEEEEECCCCeEEEecCCCCCCCcCCcC
Confidence 78999999999998765 599999999999999984
No 5
>cd02798 tRNA_bind_CsaA tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain.
Probab=98.97 E-value=4.2e-10 Score=75.06 Aligned_cols=34 Identities=29% Similarity=0.474 Sum_probs=31.1
Q ss_pred CCcccccceEEEEeCC-CcEEEEcCCCCCCCCcEE
Q psy15304 1 MRGVTSEAMVMCASTP-DKVEILAPPSAAKPGDLI 34 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~-~~v~ll~p~~~~~~G~rv 34 (96)
|||++||||||||+++ +.++++.|+.++++|+||
T Consensus 73 ~~G~~S~gm~l~~~~~~~~~~~~~~~~~~~~G~~i 107 (107)
T cd02798 73 IAGVLSEVLVLGADDEGGEVVLLVPDREVPNGAKV 107 (107)
T ss_pred ecceeccEEEEEEEcCCCcEEEecCCCCCCCcCCC
Confidence 7899999999999876 469999999999999986
No 6
>cd02800 tRNA_bind_EcMetRS_like tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine transfer RNAs (tRNAmet). AaTrbp111 is structure-specific molecular chaperone recognizing the L-shape of the tRNA fold. AaTrbp111 plays a role in nuclear trafficking of tRNAs. The functional unit of EcMetRs and AaTrbp111 is a homodimer, this domain acts as the dimerization domain.
Probab=98.81 E-value=3.9e-09 Score=69.68 Aligned_cols=34 Identities=32% Similarity=0.698 Sum_probs=31.7
Q ss_pred CCcccccceEEEEeCCCcEEEEcCCCCCCCCcEE
Q psy15304 1 MRGVTSEAMVMCASTPDKVEILAPPSAAKPGDLI 34 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~~v~ll~p~~~~~~G~rv 34 (96)
|||+.|+|||||+.+++.++|+.||.++++|+||
T Consensus 71 ~~Gv~S~GMl~s~~~~~~~~l~~~~~~~~~G~~i 104 (105)
T cd02800 71 LRGVESQGMILAAEDGGKLKLLTPDEEVEPGSRV 104 (105)
T ss_pred CCCeEeceEEEEecCCCeEEEEeCCCCCCCcCCc
Confidence 6899999999999887779999999999999997
No 7
>cd02799 tRNA_bind_EMAP-II_like tRNA-binding-domain-containing EMAP2-like proteins. This family contains a diverse fraction of tRNA binding proteins, including Caenorhabditis elegans methionyl-tRNA synthetase (CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS), Saccharomyces cerevisiae Arc1p, human p43 and EMAP2. CeMetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multiple activities during apoptosis, angiogenesis and inflammation and participates in malignant transformation. A EMAP-II-like cytokine also is released from hTyrRS upon cleavage. The active cytokine heptapeptide locates to this domain.
Probab=98.79 E-value=4.8e-09 Score=69.32 Aligned_cols=35 Identities=60% Similarity=1.065 Sum_probs=31.5
Q ss_pred CCcccccceEEEEeCCC--cEEEEcCCCCCCCCcEEE
Q psy15304 1 MRGVTSEAMVMCASTPD--KVEILAPPSAAKPGDLIQ 35 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~--~v~ll~p~~~~~~G~rv~ 35 (96)
|||+.||||+||+.+.+ ++.++.|+.++++|++|+
T Consensus 69 ~~G~~S~GMll~~~~~~~~~~~~~~~~~~~~~G~~i~ 105 (105)
T cd02799 69 MRGVKSQGMVLCASNADHEKVELLEPPEGAKPGERVT 105 (105)
T ss_pred ECCeeeceEEEEeccCCCCcEEEEECCCCCCCCCEeC
Confidence 68999999999998764 599999999999999983
No 8
>TIGR00399 metG_C_term methionyl-tRNA synthetase C-terminal region/beta chain. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model describes a region of the methionyl-tRNA synthetase that is present at the C-terminus of MetG in some species (E. coli, B. subtilis, Thermotoga maritima, Methanobacterium thermoautotrophicum), and as a separate beta chain in Aquifex aeolicus. It is absent in a number of other species (e.g. Mycoplasma genitalium, Mycobacterium tuberculosis), while Pyrococcus horikoshii has both a full length MetG and a second protein homologous to the beta chain only. Proteins hit by this model should called methionyl-tRNA synthetase beta chain if and only if the model metG hits a separate protein not also hit by this model.
Probab=98.79 E-value=4.4e-09 Score=73.16 Aligned_cols=35 Identities=31% Similarity=0.507 Sum_probs=32.1
Q ss_pred CCcccccceEEEEeCCC-cEEEEcCCCCCCCCcEEE
Q psy15304 1 MRGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLIQ 35 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~-~v~ll~p~~~~~~G~rv~ 35 (96)
|||+.|||||||+.+++ .++|+.|+.++++|+||.
T Consensus 102 ~~Gv~S~GMlls~~~~~~~~~l~~~~~~~~~G~~i~ 137 (137)
T TIGR00399 102 LFGVKSEGMILAAEDDGKVLFLLSPDQEAIAGERIK 137 (137)
T ss_pred CCCeEeccEEEEEecCCCeEEEecCCCCCCCcCCcC
Confidence 78999999999999876 699999999999999983
No 9
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases []. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme []. This domain may perform a common function in tRNA aminoacylation [].; GO: 0000049 tRNA binding; PDB: 3BU2_C 1PYB_A 2Q2I_A 2Q2H_A 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 2CWP_A ....
Probab=98.43 E-value=1.4e-07 Score=61.35 Aligned_cols=33 Identities=42% Similarity=0.659 Sum_probs=27.4
Q ss_pred CCcccccceEEEEeC-C-CcEEEEcCCCCCCCCcE
Q psy15304 1 MRGVTSEAMVMCAST-P-DKVEILAPPSAAKPGDL 33 (96)
Q Consensus 1 mrGv~S~gMlL~a~~-~-~~v~ll~p~~~~~~G~r 33 (96)
|||+.||||||++++ . +...++.+|+++++|++
T Consensus 61 i~Gv~SeGMlls~~e~~~~~~~ll~~~~~~~~G~~ 95 (95)
T PF01588_consen 61 IRGVESEGMLLSASELGDGSVGLLVLPDDAPPGED 95 (95)
T ss_dssp ETTEEEESEE-EEECSTSSEEEEEEESSTS-TTSB
T ss_pred EEeccCCEEEEEeeccCCCCEEEEECCCCCCCCCC
Confidence 689999999999996 3 46999999999999985
No 10
>cd02153 tRNA_bindingDomain The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-tRNA synthetase(hTyrRS), Saccharomyces cerevisiae Arc1p, Thermus thermophilus CsaA, Aquifex aeolicus Trbp111, human p43 and human EMAP-II. PheRS, MetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. The molecular chaperones Trbp111 and CsaA also contain this domain. CsaA has export related activities; Trbp111 is structure-specific recognizing the L-shape of the tRNA fold. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multi
Probab=98.22 E-value=1.1e-06 Score=56.98 Aligned_cols=34 Identities=44% Similarity=0.608 Sum_probs=29.3
Q ss_pred CCcccccceEEEEeCC----CcEEEEcCCCCCCCCcEE
Q psy15304 1 MRGVTSEAMVMCASTP----DKVEILAPPSAAKPGDLI 34 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~----~~v~ll~p~~~~~~G~rv 34 (96)
|||+.|+|||+|+... ++..++.++.++++|++|
T Consensus 62 ~~g~~S~GMl~s~~~~g~~~~~~~i~~~~~~~~~G~~~ 99 (99)
T cd02153 62 LRGVESEGMLLSAEELGLEEGSVGILELPEDAPVGDRI 99 (99)
T ss_pred CCCeecccEEeeccccCCCCCceEEEECCCCCCCCCcC
Confidence 6899999999999874 358899999889999875
No 11
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=97.99 E-value=4.7e-06 Score=69.49 Aligned_cols=35 Identities=20% Similarity=0.391 Sum_probs=31.0
Q ss_pred CCcccccceEEEEeCCCcEEEEcCCCCCCCCcEEE
Q psy15304 1 MRGVTSEAMVMCASTPDKVEILAPPSAAKPGDLIQ 35 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~~v~ll~p~~~~~~G~rv~ 35 (96)
||||+|||||||+.+++.+.++.++.++++|++|+
T Consensus 614 ~~Gv~S~gMl~s~~~~~~~~l~~~~~~~~~G~~~~ 648 (648)
T PRK12267 614 LMGEESQGMILAAEDDGKLTLLTVDKEVPNGSKVK 648 (648)
T ss_pred cCCcccceEEEEeccCCeEEEEeCCCCCCCcCCCC
Confidence 68999999999998755688999999999999874
No 12
>COG0073 ARC1 EMAP domain [General function prediction only]
Probab=97.92 E-value=7e-06 Score=55.96 Aligned_cols=34 Identities=35% Similarity=0.563 Sum_probs=29.2
Q ss_pred CCcccccceEEEEeCCC----cEEEEcCCCCCCCCcEE
Q psy15304 1 MRGVTSEAMVMCASTPD----KVEILAPPSAAKPGDLI 34 (96)
Q Consensus 1 mrGv~S~gMlL~a~~~~----~v~ll~p~~~~~~G~rv 34 (96)
|||++|+|||+++.+.+ +..++.+++++++|+++
T Consensus 86 lrG~~S~GMics~~e~~~~~~~~~il~~~~~~~~g~~~ 123 (123)
T COG0073 86 LRGVESEGMLLSAEELGLSDENVGILTLDEGVPPGTKV 123 (123)
T ss_pred ecCcccceEEEEcccCCCccccceEEeCCCCCCCCCCC
Confidence 68999999999998764 48899999999998763
No 13
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=97.66 E-value=3.7e-05 Score=64.60 Aligned_cols=33 Identities=39% Similarity=0.581 Sum_probs=28.8
Q ss_pred CcccccceEEEEeCCC-cEEEEcCCCCCCCCcEEE
Q psy15304 2 RGVTSEAMVMCASTPD-KVEILAPPSAAKPGDLIQ 35 (96)
Q Consensus 2 rGv~S~gMlL~a~~~~-~v~ll~p~~~~~~G~rv~ 35 (96)
||+ |||||||+.+++ .+.++.++.++++|++|+
T Consensus 640 ~Gv-S~gMl~~~~~~~~~i~~l~~~~~~~~G~~~~ 673 (673)
T PRK00133 640 FGV-SEGMVLAAGPGGGDLFLLEPDEGAKPGMRVK 673 (673)
T ss_pred CCc-cceeEEEeecCCCcEEEecCCCCCCCCCcCC
Confidence 899 999999998654 599999888899999874
No 14
>cd02796 tRNA_bind_bactPheRS tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate the 2'OH of the terminal ribose of tRNA they belong functionally to class 1 aaRSs. This domain has general tRNA binding properties and is believed to direct tRNAphe to the active site of the enzyme.
Probab=97.63 E-value=1.8e-05 Score=51.72 Aligned_cols=33 Identities=36% Similarity=0.472 Sum_probs=25.7
Q ss_pred CCcccccceEEEEeC----CCcEEEEcCCCCCCCCcE
Q psy15304 1 MRGVTSEAMVMCAST----PDKVEILAPPSAAKPGDL 33 (96)
Q Consensus 1 mrGv~S~gMlL~a~~----~~~v~ll~p~~~~~~G~r 33 (96)
|||++|||||+++.. +++..++..|+++++|+.
T Consensus 66 ~~G~~S~GMl~s~~elg~~~~~~gi~~l~~~~~~G~~ 102 (103)
T cd02796 66 LRGVESEGMLCSAKELGLGEDSDGIIELPEDAPVGTD 102 (103)
T ss_pred eCCcccchhCcchhHcCCCCCCCeEEECCCCCCCCCC
Confidence 689999999987753 234577888888888874
No 15
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from Bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the amino end, however.
Probab=88.86 E-value=0.14 Score=44.10 Aligned_cols=34 Identities=29% Similarity=0.351 Sum_probs=21.5
Q ss_pred CCcccccceEEEEeC----CCcEEEEcCCCCCCCCcEE
Q psy15304 1 MRGVTSEAMVMCAST----PDKVEILAPPSAAKPGDLI 34 (96)
Q Consensus 1 mrGv~S~gMlL~a~~----~~~v~ll~p~~~~~~G~rv 34 (96)
|||++|+||++++.. ++.--++..+.+.++|+.+
T Consensus 111 ~~Gv~S~GMlcs~~elg~~~~~~gi~~l~~~~~~G~~~ 148 (798)
T TIGR00472 111 LRGVESEGMLCSEDELGLDEKSDGIIVLDEDAPLGTDI 148 (798)
T ss_pred cCCeeechhcccHhHcCCCCCCCCEEEcCCCCCCCccH
Confidence 689999999765542 1112233345667888766
No 16
>TIGR02306 RNA_lig_DRB0094 RNA ligase, DRB0094 family. The member of this family from Deinococcus radiodurans, a species that withstands and recovers from extensive radiation or dessication damage, is an apparent RNA ligase. It repairs RNA stand breaks in nicked DNA:RNA and RNA:RNA but not DNA:DNA duplexes. It has adenylyltransferase activity associated with the C-terminal domain. Related proteins also in this family are found in Streptomyces avermitilis MA-4680 and in bacteriophage 44RR2.8t. The phage example is unsurprising since one mechanism of host cell defense against phage is cleavage and inactivation of certain tRNA molecules. A fungal sequence from Neurospora crassa scores between trusted and noise cutofffs and may be similar in function.
Probab=83.12 E-value=0.45 Score=37.75 Aligned_cols=15 Identities=20% Similarity=0.443 Sum_probs=13.2
Q ss_pred CCcccccceEEEEeC
Q psy15304 1 MRGVTSEAMVMCAST 15 (96)
Q Consensus 1 mrGv~S~gMlL~a~~ 15 (96)
+||+.||||++....
T Consensus 82 lRG~~SqGMlcs~~~ 96 (341)
T TIGR02306 82 LRGEISQGIALPTGA 96 (341)
T ss_pred eccEEEccEEechhh
Confidence 689999999998765
No 17
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=82.63 E-value=0.52 Score=40.72 Aligned_cols=32 Identities=41% Similarity=0.490 Sum_probs=19.6
Q ss_pred CCcccccceEEEEeC------CCcEEEEcCCCCCCCCcEE
Q psy15304 1 MRGVTSEAMVMCAST------PDKVEILAPPSAAKPGDLI 34 (96)
Q Consensus 1 mrGv~S~gMlL~a~~------~~~v~ll~p~~~~~~G~rv 34 (96)
|||++|+||++++.. .+.+-+| |+++++|+.+
T Consensus 109 ~~Gv~S~GMlcs~~ELGl~~~~~GI~~L--~~~~~~G~~~ 146 (791)
T PRK00629 109 LRGVESEGMLCSASELGLSDDHDGIIEL--PEDAPVGTDA 146 (791)
T ss_pred cCCeEEchhcccHhHcCCCcCCCCeEEC--CCCCCCCccH
Confidence 689999999755432 1234333 3456677655
No 18
>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.
Probab=48.41 E-value=49 Score=21.37 Aligned_cols=43 Identities=23% Similarity=0.326 Sum_probs=28.6
Q ss_pred CcccccceEEEE-eCCCcEEEEcCCCC-----CCCCcEEEecCCCCCCC
Q psy15304 2 RGVTSEAMVMCA-STPDKVEILAPPSA-----AKPGDLIQVEGYTRNPD 44 (96)
Q Consensus 2 rGv~S~gMlL~a-~~~~~v~ll~p~~~-----~~~G~rv~~~g~~~~p~ 44 (96)
+|....|+.+-+ ....+|.-+.-+.+ +.||+.|.+-|+..-|.
T Consensus 24 ~GtL~~Gd~iv~G~~~gkVr~l~d~~g~~v~~a~Ps~~V~I~G~~~~P~ 72 (95)
T cd03702 24 NGTLKVGDVLVAGTTYGKVRAMFDENGKRVKEAGPSTPVEILGLKGVPQ 72 (95)
T ss_pred cCeEeCCCEEEEcccccEEEEEECCCCCCCCEECCCCcEEEcCCCCCCC
Confidence 366777776544 44457776654433 57899999888887664
No 19
>PRK14533 groES co-chaperonin GroES; Provisional
Probab=48.24 E-value=28 Score=22.52 Aligned_cols=17 Identities=24% Similarity=0.296 Sum_probs=12.7
Q ss_pred CCCCCCcEEEecCCCCC
Q psy15304 26 SAAKPGDLIQVEGYTRN 42 (96)
Q Consensus 26 ~~~~~G~rv~~~g~~~~ 42 (96)
..+++|++|.|..|.+.
T Consensus 52 ~~Vk~GD~Vl~~~y~g~ 68 (91)
T PRK14533 52 FDIKVGDKVIFSKYAGT 68 (91)
T ss_pred ccccCCCEEEEccCCCe
Confidence 34788888888877764
No 20
>PF07542 ATP12: ATP12 chaperone protein; InterPro: IPR011419 This entry represents a group of ATPase F1F0-assembly proteins, including ATP12 and ATPAF2 (ATP synthase mitochondrial F1 complex assembly factor 2). These proteins are essential for the assembly of the mitochondrial F1-F0 complex. Mitochondrial F1-ATPase is an oligomeric enzyme composed of five distinct subunit polypeptides. The alpha and beta subunits make up the bulk of protein mass of F1. In Saccharomyces cerevisiae both subunits are synthesised as precursors with N-terminal targeting signals that are removed upon translocation of the proteins to the matrix compartment []. These proteins include examples from eukaryotes and bacteria and may have chaperone activity, being involved in F1 ATPase complex assembly. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0043461 proton-transporting ATP synthase complex assembly; PDB: 2R6I_B 2ZD2_B 2P4X_B 2R31_A.
Probab=47.15 E-value=14 Score=25.08 Aligned_cols=37 Identities=14% Similarity=0.218 Sum_probs=20.2
Q ss_pred chhhhhhCCCcEECCCeeEEECCeEEEEecccceEEeee
Q psy15304 51 KKIFETVAPDLKTNDSNQATYKGKVWTVENVEGFVTSQS 89 (96)
Q Consensus 51 kk~we~v~~~l~t~~~g~a~~~~~~l~~~~~~g~~~~~~ 89 (96)
|++|+.+... ..++.-.+..+|+++.|.++ .++..++
T Consensus 1 KRFyk~v~v~-~~~~g~~V~LDgR~lkTP~~-~~l~vps 37 (122)
T PF07542_consen 1 KRFYKEVSVE-ENDGGFQVLLDGRPLKTPAG-NPLVVPS 37 (122)
T ss_dssp B---S-EEEE-EETTSEEEEETTEE-BETTS-EB--BSS
T ss_pred CCCcceeeEE-ecCCCEEEEeCCCCCCCCCC-CeeEcCc
Confidence 5678775544 34444678889999999864 6776665
No 21
>PF10670 DUF4198: Domain of unknown function (DUF4198)
Probab=43.87 E-value=21 Score=24.92 Aligned_cols=54 Identities=26% Similarity=0.356 Sum_probs=31.9
Q ss_pred EEEE--cCCCCCCCCcEEEecC-CCCCCCCC--CC-ccchhhhhh---CCCcEECCCeeEEEC
Q psy15304 19 VEIL--APPSAAKPGDLIQVEG-YTRNPDPV--LN-PKKKIFETV---APDLKTNDSNQATYK 72 (96)
Q Consensus 19 v~ll--~p~~~~~~G~rv~~~g-~~~~p~~~--l~-~Kkk~we~v---~~~l~t~~~g~a~~~ 72 (96)
+|++ .-|..+..|+.+.|.= |++.|-+. +. --...|.+. ...++||++|++.|.
T Consensus 136 lEIvPl~~P~~l~~g~~~~~~vl~~GkPl~~a~V~~~~~~~~~~~~~~~~~~~TD~~G~~~~~ 198 (215)
T PF10670_consen 136 LEIVPLTNPYKLKAGDPLPFQVLFDGKPLAGAEVEAFSPGGWYDVEHEAKTLKTDANGRATFT 198 (215)
T ss_pred EEEEECcCcccccCCCEEEEEEEECCeEcccEEEEEEECCCccccccceEEEEECCCCEEEEe
Confidence 5554 3455578999887753 45555431 10 012223221 356999999999987
No 22
>PHA02142 putative RNA ligase
Probab=36.84 E-value=14 Score=29.83 Aligned_cols=12 Identities=25% Similarity=0.520 Sum_probs=10.8
Q ss_pred CCcccccceEEE
Q psy15304 1 MRGVTSEAMVMC 12 (96)
Q Consensus 1 mrGv~S~gMlL~ 12 (96)
|||..||||+|=
T Consensus 89 lRG~iSQGl~lp 100 (366)
T PHA02142 89 LRGQISQGIALP 100 (366)
T ss_pred EeeEEeeeEEec
Confidence 589999999887
No 23
>PF02874 ATP-synt_ab_N: ATP synthase alpha/beta family, beta-barrel domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR004100 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the N-terminal domain, which forms a closed beta-barrel with Greek-key topology. ; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015992 proton transport, 0046034 ATP metabolic process, 0016469 proton-transporting two-sector ATPase complex; PDB: 1W0K_A 1H8H_B 2WSS_A 1EFR_A 2JIZ_H 1E1Q_A 2V7Q_B 1E79_B 1E1R_C 2XND_C ....
Probab=36.35 E-value=49 Score=19.20 Aligned_cols=20 Identities=10% Similarity=0.395 Sum_probs=16.1
Q ss_pred EEEEcCCCCCCCCcEEEecC
Q psy15304 19 VEILAPPSAAKPGDLIQVEG 38 (96)
Q Consensus 19 v~ll~p~~~~~~G~rv~~~g 38 (96)
+.++....+..+|++|++-|
T Consensus 50 ~~~~~~t~Gl~~G~~V~~tG 69 (69)
T PF02874_consen 50 LQVFGSTDGLSRGTEVRFTG 69 (69)
T ss_dssp EEESSSGTTSBTTCEEEEEE
T ss_pred EEEecCCCCCCCCCEEEcCc
Confidence 67778888888999998754
No 24
>PTZ00414 10 kDa heat shock protein; Provisional
Probab=35.97 E-value=54 Score=21.69 Aligned_cols=19 Identities=16% Similarity=0.333 Sum_probs=14.4
Q ss_pred CCCCCCCcEEEecCCCCCC
Q psy15304 25 PSAAKPGDLIQVEGYTRNP 43 (96)
Q Consensus 25 ~~~~~~G~rv~~~g~~~~p 43 (96)
|..+++|++|.|..|.+..
T Consensus 60 ~~~Vk~GD~Vl~~~y~Gte 78 (100)
T PTZ00414 60 TPTVKVGDTVLLPEFGGSS 78 (100)
T ss_pred cceecCCCEEEEcCCCCcE
Confidence 3458889999998887753
No 25
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=34.77 E-value=23 Score=20.27 Aligned_cols=16 Identities=6% Similarity=0.053 Sum_probs=13.1
Q ss_pred EECCCeeEEECCeEEE
Q psy15304 62 KTNDSNQATYKGKVWT 77 (96)
Q Consensus 62 ~t~~~g~a~~~~~~l~ 77 (96)
-+|++|.+.|-+.|-.
T Consensus 18 ~~D~~G~v~ysd~P~~ 33 (60)
T PF13511_consen 18 WVDENGVVHYSDTPPP 33 (60)
T ss_pred EECCCCCEEECccCCC
Confidence 3589999999999753
No 26
>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.
Probab=32.87 E-value=95 Score=19.78 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=27.1
Q ss_pred CcccccceEEEEe-CCCcEEEEcC-----CCCCCCCcEEEecCCCCCCCC
Q psy15304 2 RGVTSEAMVMCAS-TPDKVEILAP-----PSAAKPGDLIQVEGYTRNPDP 45 (96)
Q Consensus 2 rGv~S~gMlL~a~-~~~~v~ll~p-----~~~~~~G~rv~~~g~~~~p~~ 45 (96)
+|....|+.+.+. ...++..+.- -..+.|++.|.+-|+...|.+
T Consensus 24 ~GtL~~Gd~iv~G~~~GkVr~~~d~~g~~v~~a~Ps~~v~i~g~~~~p~a 73 (95)
T cd03701 24 NGTLKKGDVIVAGGTYGKIRTMVDENGKALLEAGPSTPVEILGLKDVPKA 73 (95)
T ss_pred cCeEecCCEEEECCccceEEEEECCCCCCccccCCCCCEEEeeecCCccC
Confidence 3666777755554 3346555433 233678888888888776653
No 27
>PF00166 Cpn10: Chaperonin 10 Kd subunit; InterPro: IPR020818 The chaperonins are `helper' molecules required for correct folding and subsequent assembly of some proteins []. These are required for normal cell growth [], and are stress-induced, acting to stabilise or protect disassembled polypeptides under heat-shock conditions. Type I chaperonins present in eubacteria, mitochondria and chloroplasts require the concerted action of 2 proteins, chaperonin 60 (cpn60) and chaperonin 10 (cpn10) []. The 10 kDa chaperonin (cpn10 - or groES in bacteria) exists as a ring-shaped oligomer of between six to eight identical subunits, while the 60 kDa chaperonin (cpn60 - or groEL in bacteria) forms a structure comprising 2 stacked rings, each ring containing 7 identical subunits []. These ring structures assemble by self-stimulation in the presence of Mg2+-ATP. The central cavity of the cylindrical cpn60 tetradecamer provides as isolated environment for protein folding whilst cpn-10 binds to cpn-60 and synchronizes the release of the folded protein in an Mg2+-ATP dependent manner []. The binding of cpn10 to cpn60 inhibits the weak ATPase activity of cpn60. Escherichia coli GroES has also been shown to bind ATP cooperatively, and with an affinity comparable to that of GroEL []. Each GroEL subunit contains three structurally distinct domains: an apical, an intermediate and an equatorial domain. The apical domain contains the binding sites for both GroES and the unfolded protein substrate. The equatorial domain contains the ATP-binding site and most of the oligomeric contacts. The intermediate domain links the apical and equatorial domains and transfers allosteric information between them. The GroEL oligomer is a tetradecamer, cylindrically shaped, that is organised in two heptameric rings stacked back to back. Each GroEL ring contains a central cavity, known as the `Anfinsen cage', that provides an isolated environment for protein folding. The identical 10 kDa subunits of GroES form a dome-like heptameric oligomer in solution. ATP binding to GroES may be important in charging the seven subunits of the interacting GroEL ring with ATP, to facilitate cooperative ATP binding and hydrolysis for substrate protein release.; GO: 0006457 protein folding, 0005737 cytoplasm; PDB: 1PF9_Q 1AON_P 1SX4_T 1SVT_R 2C7D_P 1PCQ_O 2C7C_Q 1GRU_Q 1WNR_F 1P3H_I ....
Probab=25.58 E-value=1e+02 Score=19.56 Aligned_cols=18 Identities=28% Similarity=0.455 Sum_probs=13.1
Q ss_pred CCCCCCCcEEEecCCCCC
Q psy15304 25 PSAAKPGDLIQVEGYTRN 42 (96)
Q Consensus 25 ~~~~~~G~rv~~~g~~~~ 42 (96)
|.++++|++|.|..|.+.
T Consensus 55 ~~~vk~GD~Vl~~~~~g~ 72 (93)
T PF00166_consen 55 PMDVKVGDKVLFPKYAGT 72 (93)
T ss_dssp ETSS-TTSEEEEETTTSE
T ss_pred eeeeeeccEEeccccCce
Confidence 456888999999887743
No 28
>COG2517 Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only]
Probab=22.89 E-value=40 Score=25.23 Aligned_cols=14 Identities=43% Similarity=0.496 Sum_probs=11.9
Q ss_pred CcccccceEEEEeC
Q psy15304 2 RGVTSEAMVMCAST 15 (96)
Q Consensus 2 rGv~S~gMlL~a~~ 15 (96)
.|+.|+||.|-+.+
T Consensus 177 ~gvvSeGMFlg~~d 190 (219)
T COG2517 177 FGVVSEGMFLGAKD 190 (219)
T ss_pred ccccccceeecccc
Confidence 58999999998854
No 29
>PF04022 Staphylcoagulse: Staphylocoagulase repeat; InterPro: IPR001443 Staphylocoagulase is an extracellular protein produced by several strains of Staphylococcus aureus and which specifically forms a complex with prothrombin [, ]. This complex named staphylothrombin can clot fibrinogen without any proteolytic cleavage of prothrombin. The C terminus of staphylocoagulase contains the tandem repeat which does not seem to be required for the procoagulant activity.
Probab=22.87 E-value=50 Score=16.88 Aligned_cols=17 Identities=29% Similarity=0.395 Sum_probs=12.5
Q ss_pred hhCCCcEECCCeeEEEC
Q psy15304 56 TVAPDLKTNDSNQATYK 72 (96)
Q Consensus 56 ~v~~~l~t~~~g~a~~~ 72 (96)
.=+-...|+.||.+.|.
T Consensus 10 tnaynvtt~~dgtvsyg 26 (27)
T PF04022_consen 10 TNAYNVTTNQDGTVSYG 26 (27)
T ss_pred ccceeeEeccCceEecC
Confidence 33455788999999885
No 30
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=22.86 E-value=1.1e+02 Score=18.96 Aligned_cols=40 Identities=20% Similarity=0.343 Sum_probs=24.0
Q ss_pred CcccccceEEEEeCCCcEEE-EcCCCCCCCCcEEEecCCCC
Q psy15304 2 RGVTSEAMVMCASTPDKVEI-LAPPSAAKPGDLIQVEGYTR 41 (96)
Q Consensus 2 rGv~S~gMlL~a~~~~~v~l-l~p~~~~~~G~rv~~~g~~~ 41 (96)
+|++..-+|-..+..+.+++ +...+.+++|......|+..
T Consensus 42 ~Gi~~Gd~V~v~s~~G~v~~~v~~~~~v~~g~v~~~~~~~~ 82 (110)
T PF01568_consen 42 LGIKDGDWVRVSSPRGSVEVRVKVTDGVPPGVVFMPHGWGG 82 (110)
T ss_dssp CT--TTCEEEEEETTEEEEEEEEEETTS-TTEEEEESTHTT
T ss_pred hcCcCCCEEEEEeccceEeeeeEEecCCcCCEEEEeccccc
Confidence 46777777766666555433 34555688888888877765
No 31
>PF10382 DUF2439: Protein of unknown function (DUF2439); InterPro: IPR018838 This domain is found at the N-terminal of proteins implicated in telomere maintenance in Saccharomyces cerevisiae (Baker's yeast) [] and in meiotic chromosome segregation in Schizosaccharomyces pombe (Fission yeast) [].
Probab=22.06 E-value=1.1e+02 Score=19.25 Aligned_cols=11 Identities=18% Similarity=0.190 Sum_probs=8.0
Q ss_pred CCCCccchhhh
Q psy15304 45 PVLNPKKKIFE 55 (96)
Q Consensus 45 ~~l~~Kkk~we 55 (96)
.++..|.|.|.
T Consensus 10 ~q~~kK~K~W~ 20 (83)
T PF10382_consen 10 HQKTKKRKKWH 20 (83)
T ss_pred ccccccceeeE
Confidence 35566889997
No 32
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=21.66 E-value=1.1e+02 Score=19.60 Aligned_cols=22 Identities=41% Similarity=0.699 Sum_probs=16.5
Q ss_pred CCCCcEEEecCCCCCCCCCCCc
Q psy15304 28 AKPGDLIQVEGYTRNPDPVLNP 49 (96)
Q Consensus 28 ~~~G~rv~~~g~~~~p~~~l~~ 49 (96)
..+|+++.++|.-..|....||
T Consensus 129 l~~Gd~i~~~g~l~~~~~~~Np 150 (176)
T PF13567_consen 129 LQPGDRIRVRGKLKPPSGPTNP 150 (176)
T ss_pred cCCCCEEEEEEEEecCCCCCCC
Confidence 3699999999976666665554
No 33
>COG4787 FlgF Flagellar basal body rod protein [Cell motility and secretion]
Probab=21.39 E-value=85 Score=24.07 Aligned_cols=28 Identities=21% Similarity=0.299 Sum_probs=23.9
Q ss_pred CcEECCCeeEEECCeEEEEecccceEEeee
Q psy15304 60 DLKTNDSNQATYKGKVWTVENVEGFVTSQS 89 (96)
Q Consensus 60 ~l~t~~~g~a~~~~~~l~~~~~~g~~~~~~ 89 (96)
.|+++.+|.-+..|.|+.=.+ ||+++|.
T Consensus 104 ~~qI~a~g~lTiqg~pViG~g--gpI~vPp 131 (251)
T COG4787 104 NIQIDATGQLTIQGHPVIGEG--GPITVPP 131 (251)
T ss_pred ceEECcccceecCCCeeecCC--CccccCC
Confidence 489999999999999987554 9999884
No 34
>PF14460 Prok-E2_D: Prokaryotic E2 family D
Probab=20.81 E-value=1.8e+02 Score=20.53 Aligned_cols=23 Identities=4% Similarity=0.247 Sum_probs=17.6
Q ss_pred hhhhhhCCCcEECCCeeEEECCeEE
Q psy15304 52 KIFETVAPDLKTNDSNQATYKGKVW 76 (96)
Q Consensus 52 k~we~v~~~l~t~~~g~a~~~~~~l 76 (96)
+++.. |.+.|.++|.+|+.+..+
T Consensus 91 ~Ly~a--Pf~NV~~~g~vC~G~~~~ 113 (175)
T PF14460_consen 91 PLYHA--PFFNVYSNGSVCWGNNSL 113 (175)
T ss_pred eeEeC--CccccCCCCcEeeCCCcC
Confidence 44665 888888889999998543
No 35
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=20.77 E-value=2.3e+02 Score=17.64 Aligned_cols=26 Identities=15% Similarity=0.385 Sum_probs=19.5
Q ss_pred CcEEEEcCCC-CCCCCcEEEe-cCCCCC
Q psy15304 17 DKVEILAPPS-AAKPGDLIQV-EGYTRN 42 (96)
Q Consensus 17 ~~v~ll~p~~-~~~~G~rv~~-~g~~~~ 42 (96)
..++|..|.. ...+|+.|.+ .|-+..
T Consensus 29 ~~l~L~~p~~~~~~~G~~v~l~~GCDkt 56 (80)
T PF09356_consen 29 GTLTLWRPLPAGLAVGDTVTLYPGCDKT 56 (80)
T ss_pred CEEEEeccCcccCCCCCEEEEEeCCCCC
Confidence 4588888776 7889999987 566643
Done!