Query psy1922
Match_columns 159
No_of_seqs 205 out of 345
Neff 4.0
Searched_HMMs 46136
Date Fri Aug 16 19:44:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1922.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1922hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2576|consensus 100.0 8.8E-36 1.9E-40 267.4 6.4 93 66-159 237-331 (500)
2 PF03155 Alg6_Alg8: ALG6, ALG8 99.7 3.3E-19 7E-24 162.0 2.8 60 72-159 245-304 (469)
3 KOG1268|consensus 98.9 1.3E-10 2.7E-15 108.5 -0.1 61 24-96 28-90 (670)
4 COG0449 GlmS Glucosamine 6-pho 98.1 1E-06 2.3E-11 83.1 2.5 55 23-97 22-78 (597)
5 PLN02981 glucosamine:fructose- 97.2 0.00026 5.7E-09 67.0 3.3 64 24-97 28-98 (680)
6 PTZ00394 glucosamine-fructose- 97.1 0.00035 7.6E-09 66.3 3.4 66 24-96 28-108 (670)
7 KOG1268|consensus 96.6 0.00091 2E-08 63.5 1.5 32 2-33 38-69 (670)
8 PRK08525 amidophosphoribosyltr 92.7 0.073 1.6E-06 48.5 2.3 51 25-97 23-77 (445)
9 PRK06388 amidophosphoribosyltr 92.1 0.097 2.1E-06 48.4 2.3 49 28-98 46-95 (474)
10 cd01907 GlxB Glutamine amidotr 92.0 0.089 1.9E-06 44.1 1.8 53 28-98 30-90 (249)
11 PTZ00295 glucosamine-fructose- 90.1 0.23 5E-06 46.7 2.7 54 25-97 46-107 (640)
12 KOG2575|consensus 89.5 0.14 3.1E-06 47.8 0.8 35 72-108 280-314 (510)
13 PRK08341 amidophosphoribosyltr 85.0 0.48 1E-05 43.5 1.6 49 28-97 30-78 (442)
14 PRK00331 glucosamine--fructose 82.7 0.88 1.9E-05 42.2 2.3 51 28-98 28-78 (604)
15 PRK07272 amidophosphoribosyltr 81.2 0.75 1.6E-05 42.8 1.3 51 28-97 38-88 (484)
16 PRK07349 amidophosphoribosyltr 80.9 1.1 2.3E-05 42.0 2.1 49 28-96 61-109 (500)
17 TIGR01135 glmS glucosamine--fr 79.6 1.5 3.3E-05 40.7 2.7 50 28-97 27-76 (607)
18 cd00714 GFAT Glutamine amidotr 76.2 3.5 7.6E-05 33.5 3.6 27 31-59 30-56 (215)
19 PRK05793 amidophosphoribosyltr 73.2 2.7 5.9E-05 38.8 2.5 27 28-56 43-69 (469)
20 PRK07847 amidophosphoribosyltr 73.1 2.3 5E-05 39.9 2.1 50 28-98 51-101 (510)
21 PTZ00394 glucosamine-fructose- 72.8 3.4 7.4E-05 39.7 3.1 30 2-31 38-80 (670)
22 PRK09123 amidophosphoribosyltr 71.8 3 6.5E-05 38.7 2.4 31 28-60 48-78 (479)
23 PRK06781 amidophosphoribosyltr 71.8 2.5 5.3E-05 39.2 1.9 49 28-97 38-87 (471)
24 PF08496 Peptidase_S49_N: Pept 69.4 2.5 5.5E-05 33.9 1.3 47 42-94 98-149 (155)
25 PRK07631 amidophosphoribosyltr 68.1 2.7 5.9E-05 39.1 1.4 50 28-97 38-87 (475)
26 TIGR03442 conserved hypothetic 63.2 7.6 0.00017 32.8 3.1 36 42-97 56-94 (251)
27 COG0449 GlmS Glucosamine 6-pho 63.0 6.4 0.00014 38.0 2.8 26 2-29 33-58 (597)
28 cd01908 YafJ Glutamine amidotr 54.6 6.6 0.00014 32.7 1.2 50 31-98 43-93 (257)
29 PLN02981 glucosamine:fructose- 52.4 14 0.0003 35.6 3.1 30 2-31 38-70 (680)
30 cd00715 GPATase_N Glutamine am 45.8 15 0.00032 30.5 1.9 50 29-98 28-77 (252)
31 PF13522 GATase_6: Glutamine a 34.8 19 0.00042 27.1 1.0 15 82-97 10-24 (133)
32 PF00310 GATase_2: Glutamine a 34.7 25 0.00053 31.7 1.7 43 41-98 166-208 (361)
33 TIGR01134 purF amidophosphorib 32.8 41 0.00089 30.8 2.9 48 30-97 30-77 (442)
34 COG0597 LspA Lipoprotein signa 32.6 21 0.00045 29.0 0.9 41 71-111 106-146 (167)
35 PF11508 DUF3218: Protein of u 29.3 33 0.00072 29.1 1.5 30 75-107 166-195 (213)
36 PF03474 DMA: DMRTA motif; In 28.7 19 0.00041 23.2 0.0 12 76-87 6-17 (39)
37 KOG0375|consensus 27.7 23 0.00049 33.3 0.4 23 90-112 343-370 (517)
38 PF15476 SAP25: Histone deacet 26.4 22 0.00047 30.0 0.0 26 83-112 30-56 (204)
39 PF06067 DUF932: Domain of unk 25.9 1.2E+02 0.0026 25.0 4.2 50 65-115 141-212 (239)
40 PF00673 Ribosomal_L5_C: ribos 25.6 56 0.0012 23.9 2.1 17 100-116 12-28 (95)
No 1
>KOG2576|consensus
Probab=100.00 E-value=8.8e-36 Score=267.45 Aligned_cols=93 Identities=49% Similarity=0.790 Sum_probs=87.0
Q ss_pred ccCc--chhhhhhhhcccccccccceeecccCChhHHHHHHHHHHHHHHhhhhcccccCCcccccccccccceeeeCCCC
Q psy1922 66 ELNV--EESSATHVLGRLFPFDDRGLVHAYWAPNFWAFYNTADKAAVVLGKRFHLISSNVTNTMTRGLVENSQHVVLPSI 143 (159)
Q Consensus 66 ~l~~--~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~WAlY~~~Dkvl~~~~~~l~~~~~~~~~s~t~GLV~~~~f~vLP~I 143 (159)
+... ..+||||++||||||+ ||||||||||||||||||+||+++.+.+++++...-+.+++|+|||||.+|+|||+|
T Consensus 237 s~gPf~~~~qlpqvlSRLFPfs-RGLtHAYWAPNFWALYnf~Dk~l~~vl~kl~~~~~~~~as~tsGLVq~~~hsVLp~i 315 (500)
T KOG2576|consen 237 SFGPFIYVQQLPQVLSRLFPFS-RGLTHAYWAPNFWALYNFADKVLAVVLLKLKYGINFPTASYTSGLVQDSSHSVLPQI 315 (500)
T ss_pred HhccHHHHHHhHHHHHHhCCcc-cccchhhccchHHHHHHHHHHHHHHHHHHccccccCCccccCCccccCcceeeccCC
Confidence 4555 7899999999999999 999999999999999999999999999999987655568999999999999999999
Q ss_pred ChHHHHHHHHHHhhcC
Q psy1922 144 EPCTCFLLTLLGILAF 159 (159)
Q Consensus 144 tP~~t~~ltll~~~p~ 159 (159)
||..||.+|+++|+|+
T Consensus 316 tp~~TF~l~ll~~~p~ 331 (500)
T KOG2576|consen 316 TPLATFALTLLLILPF 331 (500)
T ss_pred CchHHHHHHHHHHHHH
Confidence 9999999999999984
No 2
>PF03155 Alg6_Alg8: ALG6, ALG8 glycosyltransferase family; InterPro: IPR004856 N-linked (asparagine-linked) glycosylation of proteins is mediated by a highly conserved pathway in eukaryotes, in which a lipid (dolichol phosphate)-linked oligosaccharide is assembled at the endoplasmic reticulum membrane prior to the transfer of the oligosaccharide moiety to the target asparagine residues. This oligosaccharide is composed of Glc(3)Man(9)GlcNAc(2). The addition of the three glucose residues is the final series of steps in the synthesis of the oligosaccharide precursor. Alg6 transfers the first glucose residue, and Alg8 transfers the second one []. In the human alg6 gene, a C-T transition, which causes Ala333 to be replaced with Val, has been identified as the cause of a congenital disorder of glycosylation, designated as type Ic OMIM:603147 []. ; GO: 0016758 transferase activity, transferring hexosyl groups, 0005789 endoplasmic reticulum membrane
Probab=99.75 E-value=3.3e-19 Score=162.03 Aligned_cols=60 Identities=50% Similarity=0.924 Sum_probs=56.2
Q ss_pred hhhhhhhcccccccccceeecccCChhHHHHHHHHHHHHHHhhhhcccccCCcccccccccccceeeeCCCCChHHHHHH
Q psy1922 72 SSATHVLGRLFPFDDRGLVHAYWAPNFWAFYNTADKAAVVLGKRFHLISSNVTNTMTRGLVENSQHVVLPSIEPCTCFLL 151 (159)
Q Consensus 72 ~ql~Q~lsRLfp~~~rGl~Ha~WApN~WAlY~~~Dkvl~~~~~~l~~~~~~~~~s~t~GLV~~~~f~vLP~ItP~~t~~l 151 (159)
+|++|+++|||||+ |||+|+||| ||||+||++||++..+.+ |+++|.+|+++
T Consensus 245 ~~l~Qvl~RlFPF~-RGL~hdy~A-NfW~~~~~~~K~~~~~~~--------------------------p~i~~~~~~~~ 296 (469)
T PF03155_consen 245 GQLQQVLSRLFPFK-RGLFHDYWA-NFWCLYNFVDKVLNLFLP--------------------------PQITPLLTLIL 296 (469)
T ss_pred hhHHHHHHHhCccc-cchHHHHHH-HHHHHHHHHHHHHHhcCC--------------------------cchhhHHHHHH
Confidence 89999999999999 999999999 999999999999887632 99999999999
Q ss_pred HHHHhhcC
Q psy1922 152 TLLGILAF 159 (159)
Q Consensus 152 tll~~~p~ 159 (159)
|+++++|.
T Consensus 297 Tl~~~lP~ 304 (469)
T PF03155_consen 297 TLLAILPS 304 (469)
T ss_pred HHHHHHHH
Confidence 99999983
No 3
>KOG1268|consensus
Probab=98.94 E-value=1.3e-10 Score=108.54 Aligned_cols=61 Identities=36% Similarity=0.573 Sum_probs=57.0
Q ss_pred cchH--HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCC
Q psy1922 24 SALE--DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAP 96 (159)
Q Consensus 24 kaLE--e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WAp 96 (159)
++|| .|.++|+|||+++..++.++|+.|||++|+++|+++ ++|.+.. |-+| +||+|||||.
T Consensus 28 qRLEYRGYDSaGiaId~~~~~s~~~~k~~GkVkaL~e~i~~q--~~~l~~~---------f~sH-~gIAHTRWAT 90 (670)
T KOG1268|consen 28 QRLEYRGYDSAGIAIDGDELESLLIYKQTGKVSSLKEEINNQ--NLNLDEK---------FISH-CGIAHTRWAT 90 (670)
T ss_pred HHhhccCCCCCceeecCCcccchhhhcccCceeehhHHHhhc--Cccccee---------eeee-eeeeeeehhh
Confidence 6788 899999999999988899999999999999999998 7888888 9999 9999999995
No 4
>COG0449 GlmS Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]
Probab=98.14 E-value=1e-06 Score=83.06 Aligned_cols=55 Identities=25% Similarity=0.378 Sum_probs=43.1
Q ss_pred ccchH--HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 23 VSALE--DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 23 VkaLE--e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
.+.|| .|+++|+|+.++ +++.++|++|||++|++..... + ++.+ .||.|||||+-
T Consensus 22 L~rLEYRGYDSaGiav~~~--~~l~~~k~~Gkv~~l~~~~~~~----~-------------~~~~-~gIgHTRWATH 78 (597)
T COG0449 22 LKRLEYRGYDSAGIAVVGD--GSLNVRKQVGKISNLEELLNKE----P-------------LIGG-VGIAHTRWATH 78 (597)
T ss_pred HHHHHccCCCcccEEEEeC--CeEEEEEccCCHHHHHhhhccc----c-------------cCCc-eeeeeccccCC
Confidence 35677 899999999876 7899999999999994332211 0 5677 99999999974
No 5
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=97.20 E-value=0.00026 Score=67.05 Aligned_cols=64 Identities=23% Similarity=0.460 Sum_probs=44.8
Q ss_pred cchH--HHHhhcccccCCCCc---cEEEEEeccchHHHHHHHHHHh--hccCcchhhhhhhhcccccccccceeecccCC
Q psy1922 24 SALE--DEIQTRIALDAADGV---DIAIVKKSGKVSALEDEIQTRL--KELNVEESSATHVLGRLFPFDDRGLVHAYWAP 96 (159)
Q Consensus 24 kaLE--e~iqAGIaiDg~~~~---~i~i~K~~GKV~~L~~~i~~~~--~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WAp 96 (159)
.+|| .+.++|+|+..+... .+.++|..|||+.|++++.... .+++.+. -|+.+ .||.|+|||.
T Consensus 28 ~~Lq~RG~dsaGia~~~~~~~~~~~~~~~k~~G~~~~l~~~~~~~~~~~~l~~~~---------~~~g~-~~IGH~R~at 97 (680)
T PLN02981 28 RRLEYRGYDSAGIAIDNDPSLESSSPLVFREEGKIESLVRSVYEEVAETDLNLDL---------VFENH-AGIAHTRWAT 97 (680)
T ss_pred HHHhcCCcccceEEEEcCCcccccceEEEEcCCCHHHHHHHHhhhcccccccccc---------CCCCc-EEEEEccccc
Confidence 4566 889999999643211 3889999999999999886310 1222111 16777 9999999997
Q ss_pred h
Q psy1922 97 N 97 (159)
Q Consensus 97 N 97 (159)
+
T Consensus 98 ~ 98 (680)
T PLN02981 98 H 98 (680)
T ss_pred C
Confidence 5
No 6
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=97.12 E-value=0.00035 Score=66.28 Aligned_cols=66 Identities=20% Similarity=0.325 Sum_probs=43.6
Q ss_pred cchH--HHHhhcccccCC------C-------CccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccc
Q psy1922 24 SALE--DEIQTRIALDAA------D-------GVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRG 88 (159)
Q Consensus 24 kaLE--e~iqAGIaiDg~------~-------~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rG 88 (159)
.+|| .+.++|+|++.+ + ++.+.++|..|+|+.|++.+... ..+. .+++.-+ -++.+ .|
T Consensus 28 ~~Le~RG~dsaGia~~~~~~~~~~~~~~~~~~~~~~~~~k~~G~v~~l~~~~~~~-~~~~----~~~~~~~-~~~g~-~~ 100 (670)
T PTZ00394 28 QKVEYRGYDSAGLAIDANIGSEKEDGTAASAPTPRPCVVRSVGNISQLREKVFSE-AVAA----TLPPMDA-TTSHH-VG 100 (670)
T ss_pred HHHhccCcccceEEEecCcccccccccccccCCCcEEEEECCccHHHHHHHHhcc-hhhh----hcccccc-CCCCC-EE
Confidence 4566 889999999621 1 24599999999999999877432 0111 1111101 25677 99
Q ss_pred eeecccCC
Q psy1922 89 LVHAYWAP 96 (159)
Q Consensus 89 l~Ha~WAp 96 (159)
|.|+|||.
T Consensus 101 igH~R~at 108 (670)
T PTZ00394 101 IAHTRWAT 108 (670)
T ss_pred EEEeecee
Confidence 99999985
No 7
>KOG1268|consensus
Probab=96.59 E-value=0.00091 Score=63.52 Aligned_cols=32 Identities=41% Similarity=0.662 Sum_probs=30.4
Q ss_pred ceeeeecCCCCcEEEEeccCcccchHHHHhhc
Q psy1922 2 CGIALDAADGVDIAIVKKSGKVSALEDEIQTR 33 (159)
Q Consensus 2 aGia~Dg~~~~~i~likk~GKVkaLEe~iqAG 33 (159)
||+||||.+..++.++|+.||||+|+|++..+
T Consensus 38 aGiaId~~~~~s~~~~k~~GkVkaL~e~i~~q 69 (670)
T KOG1268|consen 38 AGIAIDGDELESLLIYKQTGKVSSLKEEINNQ 69 (670)
T ss_pred CceeecCCcccchhhhcccCceeehhHHHhhc
Confidence 89999999988899999999999999999987
No 8
>PRK08525 amidophosphoribosyltransferase; Provisional
Probab=92.72 E-value=0.073 Score=48.53 Aligned_cols=51 Identities=20% Similarity=0.382 Sum_probs=37.0
Q ss_pred chH--HHHhhcccccCCCCccEEEEEeccchHHH--HHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 25 ALE--DEIQTRIALDAADGVDIAIVKKSGKVSAL--EDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 25 aLE--e~iqAGIaiDg~~~~~i~i~K~~GKV~~L--~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
+|+ .+.++|+++.. ++.+..+|..|+|+.+ ++.+. . ++.+ .||.|+|||.+
T Consensus 23 ~LqhRG~DsaGia~~~--~~~~~~~k~~G~v~~~f~~~~~~----------~---------~~g~-~~iGH~R~at~ 77 (445)
T PRK08525 23 AMQHRGQEASGISVSN--GKKIKTIKGRGLVTQVFNEDNLK----------T---------LKGE-IAIGHNRYSTA 77 (445)
T ss_pred HhhCcCcccceEEEEe--CCEEEEEEcCcchhhccchhhhh----------c---------cCCc-EEEeecccccC
Confidence 455 67888988843 3468999999999988 43321 1 4556 89999999955
No 9
>PRK06388 amidophosphoribosyltransferase; Provisional
Probab=92.08 E-value=0.097 Score=48.43 Aligned_cols=49 Identities=16% Similarity=0.150 Sum_probs=34.4
Q ss_pred HHHhhcccc-cCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 28 DEIQTRIAL-DAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 28 e~iqAGIai-Dg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
...++|+++ |+ +++.++|..|+|+.+.++..+ . ++.+ .||.|+|||.+=
T Consensus 46 GqdsaGIa~~d~---~~i~~~K~~Glv~~vf~~~~~---------~---------l~G~-~gIGH~RyaT~G 95 (474)
T PRK06388 46 GQESAGMAVFDG---RKIHLKKGMGLVTDVFNPATD---------P---------IKGI-VGVGHTRYSTAG 95 (474)
T ss_pred CcCcceEEEEcC---CEEEEEecCcchHHHhhhhhh---------c---------CCCc-EEEeeeeeeecC
Confidence 566778776 42 458999999999987654211 1 4566 899999998654
No 10
>cd01907 GlxB Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases including glucosamine-fructose 6-phosphate synthase (GLMS or GFAT), glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase), asparagine synthetase B (AsnB), beta lactam synthetase (beta-LS) and glutamate synthase (GltS). The GlxB fold is also somewhat similar to the Ntn (N-terminal nucleophile) hydrolase fold of the proteasomal alpha and beta subunits.
Probab=92.01 E-value=0.089 Score=44.07 Aligned_cols=53 Identities=19% Similarity=0.189 Sum_probs=36.8
Q ss_pred HH-HhhcccccCCC-------CccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 28 DE-IQTRIALDAAD-------GVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 28 e~-iqAGIaiDg~~-------~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
.+ ..+|+++..++ ..++.++|..|+|..+.+.. ++ .. ++.+ .+|.|+|||.|=
T Consensus 30 G~~dsaGia~~~~~~~~~~s~~~~~~~~K~~G~~~~v~~~~-----~~---~~---------~~~~-~~igH~R~aT~g 90 (249)
T cd01907 30 GPGDGAGFALYGDPDAFVYSSGKDMEVFKGVGYPEDIARRY-----DL---EE---------YKGY-HWIAHTRQPTNS 90 (249)
T ss_pred CCCCCceEEEEcCCCeEEEecCCCeEEEeeccCHHHHHhhc-----Cc---hh---------eEEE-EEEEEEeccCCC
Confidence 45 77888875431 34689999999999886532 11 11 5666 899999998753
No 11
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=90.06 E-value=0.23 Score=46.70 Aligned_cols=54 Identities=17% Similarity=0.285 Sum_probs=33.3
Q ss_pred chH--HHHhhcccccCCCCccEEEEEeccc------hHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCC
Q psy1922 25 ALE--DEIQTRIALDAADGVDIAIVKKSGK------VSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAP 96 (159)
Q Consensus 25 aLE--e~iqAGIaiDg~~~~~i~i~K~~GK------V~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WAp 96 (159)
+|| .+.++|+++-.+ ++.+.+.|..|+ ++.|++.+.+ .. .+.+ .||.|+|||.
T Consensus 46 ~L~hRG~ds~Gia~~~~-~~~~~~~k~~g~g~v~~~~~~~~~~~~~--------~~---------~~~~-~~igH~R~at 106 (640)
T PTZ00295 46 ILQNRGYDSCGISTISS-GGELKTTKYASDGTTSDSIEILKEKLLD--------SH---------KNST-IGIAHTRWAT 106 (640)
T ss_pred HHHhcCCCeeEEEEEeC-CCcEEEEEeCCCCchHHHHHHHHHHhhc--------CC---------CCCc-EEEEEecccc
Confidence 455 667888888322 235888897776 4444333211 01 3556 8999999986
Q ss_pred h
Q psy1922 97 N 97 (159)
Q Consensus 97 N 97 (159)
.
T Consensus 107 ~ 107 (640)
T PTZ00295 107 H 107 (640)
T ss_pred C
Confidence 5
No 12
>KOG2575|consensus
Probab=89.46 E-value=0.14 Score=47.85 Aligned_cols=35 Identities=46% Similarity=0.759 Sum_probs=29.1
Q ss_pred hhhhhhhcccccccccceeecccCChhHHHHHHHHHH
Q psy1922 72 SSATHVLGRLFPFDDRGLVHAYWAPNFWAFYNTADKA 108 (159)
Q Consensus 72 ~ql~Q~lsRLfp~~~rGl~Ha~WApN~WAlY~~~Dkv 108 (159)
++..|++.|||||. |||---+= .|||--.|+.=|.
T Consensus 280 ~~~~qvl~RlFPf~-RGlfEDKV-ANfWCt~n~~~K~ 314 (510)
T KOG2575|consen 280 DTALQVLHRLFPFA-RGLFEDKV-ANFWCTFNVFLKI 314 (510)
T ss_pred chHHHHHHHhCchh-cchhhhhh-hhhhhhhhhhhhh
Confidence 58999999999999 99987764 5999988865443
No 13
>PRK08341 amidophosphoribosyltransferase; Provisional
Probab=85.01 E-value=0.48 Score=43.49 Aligned_cols=49 Identities=18% Similarity=0.154 Sum_probs=34.3
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
...++|+|+.. + .+.++|..|.|+.+.++. +++ . ++.+ .||.|+|||.+
T Consensus 30 G~dsaGIa~~~--~-~~~~~K~~Glv~~vf~~~-----~~~---~---------l~g~-~~IGH~R~sT~ 78 (442)
T PRK08341 30 GQEGAGISVWR--H-RIRTVKGHGLVSEVFKGG-----SLS---R---------LKSN-LAIGHVRYSTS 78 (442)
T ss_pred CcccceEEEEC--C-cEEEEecCCchhhhhccc-----ccc---c---------CCCC-EEEEEeecccc
Confidence 55788888853 2 289999999998886542 111 1 4556 89999999954
No 14
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=82.68 E-value=0.88 Score=42.22 Aligned_cols=51 Identities=25% Similarity=0.349 Sum_probs=33.6
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
....+|+++-. ++.+.++|..|+|+.+.+... ++ . +..+ .+|.|+|||.+=
T Consensus 28 G~d~~Gi~~~~--~~~~~~~k~~g~~~~~~~~~~-----~~---~---------~~g~-~~igH~R~at~g 78 (604)
T PRK00331 28 GYDSAGIAVLD--DGGLEVRKAVGKVANLEAKLE-----EE---P---------LPGT-TGIGHTRWATHG 78 (604)
T ss_pred CcCcceEEEEe--CCEEEEEECCcCHHHHHhhhc-----cc---c---------CCCc-EEEEEEecCCCC
Confidence 44556666643 256889999999988866431 11 1 3555 789999997653
No 15
>PRK07272 amidophosphoribosyltransferase; Provisional
Probab=81.24 E-value=0.75 Score=42.79 Aligned_cols=51 Identities=12% Similarity=0.114 Sum_probs=35.4
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
...++|+++.. +..+...|..|+|+.+.+++.. ++ . ++.+ .||.|+||+.+
T Consensus 38 GqdsaGIa~~d--~~~i~~~K~~Glv~~vf~~~~~----l~---~---------l~G~-~~IGH~RysT~ 88 (484)
T PRK07272 38 GQEGAGIVSND--NGKLKGHRDLGLLSEVFKDPAD----LD---K---------LTGQ-AAIGHVRYATA 88 (484)
T ss_pred CCccceEEEEe--CCeeEEEecCCcccchhcchhh----Hh---c---------CCCc-EEEEEeecccc
Confidence 56678887732 3458999999999988665321 11 1 4556 89999999865
No 16
>PRK07349 amidophosphoribosyltransferase; Provisional
Probab=80.85 E-value=1.1 Score=42.03 Aligned_cols=49 Identities=27% Similarity=0.296 Sum_probs=32.2
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCC
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAP 96 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WAp 96 (159)
...++|+++-. +.++.+.|..|+|+.+=++ . .++ . ++.+ .||.|+|||.
T Consensus 61 GqdsaGIa~~~--~~~~~~~K~~Glv~~vf~~---~--~l~---~---------l~G~-i~IGHvRysT 109 (500)
T PRK07349 61 GQESAGIATFE--GDKVHLHKDMGLVSQVFDE---D--ILE---E---------LPGD-LAVGHTRYST 109 (500)
T ss_pred CcCcceEEEEe--CCEEEEEecCcchhhhcch---h--hhh---c---------CCCC-EEEEEeeccc
Confidence 55667877632 3468899999999876221 0 110 1 4556 8999999984
No 17
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=79.62 E-value=1.5 Score=40.73 Aligned_cols=50 Identities=24% Similarity=0.338 Sum_probs=33.1
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
....+|+++.. ++.+.++|..|+|..+.+... ++ . ...+ .||.|+|||.+
T Consensus 27 G~ds~Gi~~~~--~~~~~~~k~~g~~~~~~~~~~-----~~---~---------~~~~-~~igH~R~at~ 76 (607)
T TIGR01135 27 GYDSAGIAVVD--EGKLFVRKAVGKVQELANKLG-----EK---P---------LPGG-VGIGHTRWATH 76 (607)
T ss_pred CcccceEEEEe--CCEEEEEECCcCHHHHHhhhh-----cc---c---------CCcc-EEEEEeeccCC
Confidence 45566776632 245899999999998866431 11 1 3445 78999998765
No 18
>cd00714 GFAT Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. In humans, GFAT catalyzes the first and rate-limiting step of hexosamine metabolism, the conversion of D-fructose-6P (Fru6P) into D-glucosamine-6P using L-glutamine as a nitrogen source. The end product of this pathway, UDP-N-acetyl glucosamine, is a major building block of the bacterial peptidoglycan and fungal chitin.
Probab=76.23 E-value=3.5 Score=33.54 Aligned_cols=27 Identities=33% Similarity=0.478 Sum_probs=18.4
Q ss_pred hhcccccCCCCccEEEEEeccchHHHHHH
Q psy1922 31 QTRIALDAADGVDIAIVKKSGKVSALEDE 59 (159)
Q Consensus 31 qAGIaiDg~~~~~i~i~K~~GKV~~L~~~ 59 (159)
.+|++++. +..+.++|..|.|+...++
T Consensus 30 ~~Gi~~~~--~~~~~~~k~~g~~~~~~~~ 56 (215)
T cd00714 30 SAGIAVIG--DGSLEVVKAVGKVANLEEK 56 (215)
T ss_pred cceEEEEe--CCEEEEEEcCccHHHHHHH
Confidence 34555553 3567889999988877654
No 19
>PRK05793 amidophosphoribosyltransferase; Provisional
Probab=73.24 E-value=2.7 Score=38.76 Aligned_cols=27 Identities=30% Similarity=0.369 Sum_probs=19.5
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHH
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSAL 56 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L 56 (159)
...++|+++-. +..+.++|..|+|+.+
T Consensus 43 G~dsaGIa~~~--~~~~~~~k~~G~v~~~ 69 (469)
T PRK05793 43 GQESAGIAVSD--GEKIKVHKGMGLVSEV 69 (469)
T ss_pred CCCcceEEEEe--CCEEEEEecccccccc
Confidence 45678887632 3458889999999865
No 20
>PRK07847 amidophosphoribosyltransferase; Provisional
Probab=73.12 E-value=2.3 Score=39.91 Aligned_cols=50 Identities=28% Similarity=0.309 Sum_probs=33.5
Q ss_pred HHHhhcccc-cCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 28 DEIQTRIAL-DAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 28 e~iqAGIai-Dg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
...++|+++ | +.++.++|..|+|+.+.++- ++ . . ++.+ .||.|+||+.+=
T Consensus 51 GqdsaGIa~~d---~~~i~~~K~~Glv~~vf~d~-----~l--~-~---------l~G~-i~IGHvR~sT~G 101 (510)
T PRK07847 51 GQEAAGIAVSD---GSQILVFKDLGLVSQVFDEQ-----TL--A-S---------LQGH-VAIGHCRYSTTG 101 (510)
T ss_pred CcCcccEEEEe---CCEEEEEecCccHHHhhchh-----hh--h-h---------cCCc-EEEEeccCCcCC
Confidence 566778777 4 34589999999998775421 11 1 1 4566 788888888743
No 21
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=72.76 E-value=3.4 Score=39.66 Aligned_cols=30 Identities=27% Similarity=0.520 Sum_probs=23.3
Q ss_pred ceeeeecC-----------C--CCcEEEEeccCcccchHHHHh
Q psy1922 2 CGIALDAA-----------D--GVDIAIVKKSGKVSALEDEIQ 31 (159)
Q Consensus 2 aGia~Dg~-----------~--~~~i~likk~GKVkaLEe~iq 31 (159)
||||+++. + +..|.++|+.|||+.|++.++
T Consensus 38 aGia~~~~~~~~~~~~~~~~~~~~~~~~~k~~G~v~~l~~~~~ 80 (670)
T PTZ00394 38 AGLAIDANIGSEKEDGTAASAPTPRPCVVRSVGNISQLREKVF 80 (670)
T ss_pred ceEEEecCcccccccccccccCCCcEEEEECCccHHHHHHHHh
Confidence 89999621 1 134999999999999998773
No 22
>PRK09123 amidophosphoribosyltransferase; Provisional
Probab=71.83 E-value=3 Score=38.73 Aligned_cols=31 Identities=13% Similarity=0.053 Sum_probs=21.9
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHH
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEI 60 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i 60 (159)
...++|+++-. +..+...|..|+|+.+.+++
T Consensus 48 G~dsaGia~~~--~~~~~~~k~~Glv~~vf~~~ 78 (479)
T PRK09123 48 GQEAAGIVSFD--GERFHSERRMGLVGDHFTDA 78 (479)
T ss_pred CccCCEEEEEE--CCEEEEEecCcchhhhhhhh
Confidence 55667777621 23688899999999887653
No 23
>PRK06781 amidophosphoribosyltransferase; Provisional
Probab=71.75 E-value=2.5 Score=39.24 Aligned_cols=49 Identities=20% Similarity=0.219 Sum_probs=33.1
Q ss_pred HHHhhcccc-cCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 28 DEIQTRIAL-DAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 28 e~iqAGIai-Dg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
...++|+++ | +..+...|..|.|+.+.++ . .++ . ++.+ .||.|+|||.+
T Consensus 38 G~dsaGia~~d---~~~~~~~k~~GlV~~vf~~---~--~l~---~---------l~g~-~~IGHvRyaT~ 87 (471)
T PRK06781 38 GQEGAGIVVNN---GEKIVGHKGLGLISEVFSR---G--ELE---G---------LNGK-SAIGHVRYATA 87 (471)
T ss_pred CcCcceEEEEe---CCEEEEEecCcchhhhcch---h--hHh---c---------CCCC-EEEEEeEcccC
Confidence 556678775 4 3358889999999877543 1 121 1 5666 89999999644
No 24
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=69.41 E-value=2.5 Score=33.95 Aligned_cols=47 Identities=32% Similarity=0.456 Sum_probs=33.5
Q ss_pred ccEEEEEecc-----chHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeeccc
Q psy1922 42 VDIAIVKKSG-----KVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYW 94 (159)
Q Consensus 42 ~~i~i~K~~G-----KV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~W 94 (159)
..++++.=.| -|++||+||..- |.+.... .+++-||=... |+.|.|=
T Consensus 98 ~r~~VldF~Gdi~A~~v~~LReeisai---l~~a~~~-DeV~~rLES~G--G~Vh~YG 149 (155)
T PF08496_consen 98 PRLFVLDFKGDIKASEVESLREEISAI---LSVATPE-DEVLVRLESPG--GMVHGYG 149 (155)
T ss_pred CeEEEEecCCCccHHHHHHHHHHHHHH---HHhCCCC-CeEEEEEecCC--ceeeccc
Confidence 3455544444 377899999875 4444444 78999998888 9999983
No 25
>PRK07631 amidophosphoribosyltransferase; Provisional
Probab=68.11 E-value=2.7 Score=39.06 Aligned_cols=50 Identities=18% Similarity=0.228 Sum_probs=32.3
Q ss_pred HHHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 28 DEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 28 e~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
...++|+++-. +..+...|..|.|+.+.++ . .++ . ++.+ .||.|+|||.+
T Consensus 38 G~dsaGia~~~--~~~~~~~k~~Glv~~vf~~---~--~l~---~---------l~G~-~gIGH~RysT~ 87 (475)
T PRK07631 38 GQEGAGIVVTD--GGKLSAHKGLGLVTEVFQN---G--ELD---A---------LKGK-AAIGHVRYATA 87 (475)
T ss_pred CcccCeEEEEc--CCEEEEEEcccccchhhch---h--hhh---c---------cCCC-EEEEEeecccc
Confidence 55667877521 3358889999999876442 1 121 1 4556 88999999654
No 26
>TIGR03442 conserved hypothetical protein TIGR03442. Members of this strictly bacterial protein family show similarity to class II glutamine amidotransferases (see Pfam family pfam00310). They are distinguished by appearing in a genome context with, and usually adjacent to or between, members of families TIGR03438 (an uncharacterized methyltransferase) and TIGR03440 (an uncharacterized protein).
Probab=63.24 E-value=7.6 Score=32.80 Aligned_cols=36 Identities=6% Similarity=-0.129 Sum_probs=24.5
Q ss_pred ccEEEEEeccchHH---HHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 42 VDIAIVKKSGKVSA---LEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 42 ~~i~i~K~~GKV~~---L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
....++|+++.+.+ |++ +.+ .+..+ .+|+|.|||+.
T Consensus 56 ~~~~~~k~~~pa~~d~~l~~-l~~------------------~~~s~-~~i~HvR~AT~ 94 (251)
T TIGR03442 56 TVPFRYRSTQPIWNDINFAS-LAR------------------YVESG-CVLAAVRSATV 94 (251)
T ss_pred CCceEEeCCCccccChhHHH-HHh------------------hcccc-eEEEEeeeCCC
Confidence 46888999998764 322 111 15566 79999999975
No 27
>COG0449 GlmS Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]
Probab=62.98 E-value=6.4 Score=38.04 Aligned_cols=26 Identities=35% Similarity=0.506 Sum_probs=21.8
Q ss_pred ceeeeecCCCCcEEEEeccCcccchHHH
Q psy1922 2 CGIALDAADGVDIAIVKKSGKVSALEDE 29 (159)
Q Consensus 2 aGia~Dg~~~~~i~likk~GKVkaLEe~ 29 (159)
||||+.+. ..+.+.|..|||+.||+.
T Consensus 33 aGiav~~~--~~l~~~k~~Gkv~~l~~~ 58 (597)
T COG0449 33 AGIAVVGD--GSLNVRKQVGKISNLEEL 58 (597)
T ss_pred ccEEEEeC--CeEEEEEccCCHHHHHhh
Confidence 89999875 449999999999999543
No 28
>cd01908 YafJ Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II glutamine amidotransferases including lucosamine-fructose 6-phosphate synthase (GLMS or GFAT), glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase), asparagine synthetase B (AsnB), beta lactam synthetase (beta-LS) and glutamate synthase (GltS). The YafJ fold is also somwhat similar to the Ntn (N-terminal nucleophile) hydrolase fold of the proteasomal alpha and beta subunits.
Probab=54.56 E-value=6.6 Score=32.68 Aligned_cols=50 Identities=12% Similarity=-0.170 Sum_probs=29.9
Q ss_pred hhcccc-cCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 31 QTRIAL-DAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 31 qAGIai-Dg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
..|+++ ++ +...+.++|..|.+.+.+..... + +.++.+ .+|.|+|||+.=
T Consensus 43 gwGia~~~~-~~~~~~~~k~~~~~~~~~~~~~~----~------------~~~~~~-~~l~H~R~At~G 93 (257)
T cd01908 43 GWGIGWYEG-KGGRPFRYRSPLPAWSDINLESL----A------------RPIKSP-LVLAHVRAATVG 93 (257)
T ss_pred CcEEEEecC-CCCeeeeeCCCCCCcCCcchHHh----h------------cccccc-EEEEEEecCCCC
Confidence 445555 32 23468888888766554322110 0 125666 899999999765
No 29
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=52.41 E-value=14 Score=35.60 Aligned_cols=30 Identities=23% Similarity=0.484 Sum_probs=23.9
Q ss_pred ceeeeecCCCC---cEEEEeccCcccchHHHHh
Q psy1922 2 CGIALDAADGV---DIAIVKKSGKVSALEDEIQ 31 (159)
Q Consensus 2 aGia~Dg~~~~---~i~likk~GKVkaLEe~iq 31 (159)
||||+..++.. .+.++|..|||+.|+++++
T Consensus 38 aGia~~~~~~~~~~~~~~~k~~G~~~~l~~~~~ 70 (680)
T PLN02981 38 AGIAIDNDPSLESSSPLVFREEGKIESLVRSVY 70 (680)
T ss_pred ceEEEEcCCcccccceEEEEcCCCHHHHHHHHh
Confidence 89999542211 3899999999999999886
No 30
>cd00715 GPATase_N Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. GPATase catalyzes the first step in purine biosynthesis, an amide transfer from glutamine to PRPP, resulting in phosphoribosylamine, pyrophosphate and glutamate. GPATase crystalizes as a homotetramer, but can also exist as a homdimer.
Probab=45.76 E-value=15 Score=30.52 Aligned_cols=50 Identities=22% Similarity=0.210 Sum_probs=27.5
Q ss_pred HHhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 29 EIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 29 ~iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
...+|++... +..+..+|..|.++..-+. .+.. . +..+ .+|.|+|||.+-
T Consensus 28 ~D~~Gi~~~d--~~~~~~~k~~g~~~~~~~~-------~~~~-~---------~~~~-~~lgH~R~at~g 77 (252)
T cd00715 28 QESAGIATSD--GKRFHTHKGMGLVSDVFDE-------EKLR-R---------LPGN-IAIGHVRYSTAG 77 (252)
T ss_pred cceeEEEEEe--CCEEEEEecCCcHHHhhcc-------cchh-h---------CCCc-EEEEEEEcccCC
Confidence 3456666542 3456778888876654211 1111 1 3444 677888777664
No 31
>PF13522 GATase_6: Glutamine amidotransferase domain
Probab=34.77 E-value=19 Score=27.09 Aligned_cols=15 Identities=20% Similarity=0.193 Sum_probs=11.8
Q ss_pred ccccccceeecccCCh
Q psy1922 82 FPFDDRGLVHAYWAPN 97 (159)
Q Consensus 82 fp~~~rGl~Ha~WApN 97 (159)
+..+ .+|.|+|||.+
T Consensus 10 ~~~~-~~lgH~R~AT~ 24 (133)
T PF13522_consen 10 LDGE-AALGHTRYATV 24 (133)
T ss_pred cCCC-EEEEEeecCCC
Confidence 4566 89999999864
No 32
>PF00310 GATase_2: Glutamine amidotransferases class-II; InterPro: IPR000583 A large group of biosynthetic enzymes are able to catalyse the removal of the ammonia group from glutamine and then to transfer this group to a substrate to form a new carbon-nitrogen group. This catalytic activity is known as glutamine amidotransferase (GATase) (2.4.2 from EC) []. The GATase domain exists either as a separate polypeptidic subunit or as part of a larger polypeptide fused in different ways to a synthase domain. On the basis of sequence similarities two classes of GATase domains have been identified [, ], class-I (also known as trpG-type) and class-II (also known as purF-type). Enzymes containing Class-II GATase domains include amido phosphoribosyltransferase (glutamine phosphoribosylpyrophosphate amidotransferase) (2.4.2.14 from EC), which catalyses the first step in purine biosynthesis (gene purF in bacteria, ADE4 in yeast); glucosamine--fructose-6-phosphate aminotransferase (2.6.1.16 from EC), which catalyses the formation of glucosamine 6-phosphate from fructose 6-phosphate and glutamine (gene glmS in Escherichia coli, nodM in Rhizobium, GFA1 in yeast); and asparagine synthetase (glutamine-hydrolizing) (6.3.5.4 from EC), which is responsible for the synthesis of asparagine from aspartate and glutamine. A cysteine is present at the N-terminal extremity of the mature form of all these enzymes. This domain is found in a number of cysteine peptidases belonging to MEROPS peptidase family C44 and their non-peptidase homologs. ; GO: 0008152 metabolic process; PDB: 1OFE_A 1LLW_A 1OFD_A 1LLZ_A 1LM1_A 1GPH_1 1AO0_D 3OOJ_E 1JXA_C 2J6H_B ....
Probab=34.71 E-value=25 Score=31.65 Aligned_cols=43 Identities=19% Similarity=0.258 Sum_probs=29.2
Q ss_pred CccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCChh
Q psy1922 41 GVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNF 98 (159)
Q Consensus 41 ~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN~ 98 (159)
..++.++|-.|....|.+.-. ++. ... |..+ .+|.|.||+.|=
T Consensus 166 S~~tivYKg~~~~~~l~~~y~----Dl~-~~~---------~~s~-~~i~H~RysTnt 208 (361)
T PF00310_consen 166 SSRTIVYKGMGTPEQLAEFYP----DLQ-DED---------FKSH-FAIGHQRYSTNT 208 (361)
T ss_dssp ESSEEEEEECC-GGGHHHHCC----GGG-CTT---------EEBS-EEEEEEEE-SSS
T ss_pred CcchhhhhhccCHHHHHHHHH----hhc-ccc---------ccce-EEEEEEecCCCC
Confidence 445789999999888866522 222 122 7888 999999999874
No 33
>TIGR01134 purF amidophosphoribosyltransferase. Alternate name: glutamine phosphoribosylpyrophosphate (PRPP) amidotransferase.
Probab=32.83 E-value=41 Score=30.80 Aligned_cols=48 Identities=29% Similarity=0.357 Sum_probs=27.8
Q ss_pred HhhcccccCCCCccEEEEEeccchHHHHHHHHHHhhccCcchhhhhhhhcccccccccceeecccCCh
Q psy1922 30 IQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPN 97 (159)
Q Consensus 30 iqAGIaiDg~~~~~i~i~K~~GKV~~L~~~i~~~~~~l~~~~~ql~Q~lsRLfp~~~rGl~Ha~WApN 97 (159)
..+|++... +..+..+|..|.|+..-++ . .+ .+ ++.+ .+|.|+||+.+
T Consensus 30 ds~Gia~~d--~~~~~~~k~~glv~~v~~~---~--~l-------~~-----l~g~-~~IgHvR~aT~ 77 (442)
T TIGR01134 30 EAAGIAVSD--GNKIRTHKGNGLVSDVFDE---R--HL-------ER-----LKGN-VGIGHVRYSTA 77 (442)
T ss_pred cceEEEEEe--CCEEEEEEcCCchhhhcch---h--hh-------hc-----ccCc-EEEEEEEecCC
Confidence 346666532 3457888999988765221 1 11 11 3444 68888888755
No 34
>COG0597 LspA Lipoprotein signal peptidase [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]
Probab=32.58 E-value=21 Score=29.00 Aligned_cols=41 Identities=17% Similarity=0.187 Sum_probs=35.5
Q ss_pred hhhhhhhhcccccccccceeecccCChhHHHHHHHHHHHHH
Q psy1922 71 ESSATHVLGRLFPFDDRGLVHAYWAPNFWAFYNTADKAAVV 111 (159)
Q Consensus 71 ~~ql~Q~lsRLfp~~~rGl~Ha~WApN~WAlY~~~Dkvl~~ 111 (159)
-|-+-.++.|++..+-.-.-|.+|-.+.|+.+|.+|-....
T Consensus 106 gGAlGN~iDR~~~g~VvDfi~~~~~~~~fpiFNlAD~~I~i 146 (167)
T COG0597 106 GGALGNLIDRLFRGFVVDFIDFHYGNWHFPIFNLADVFISV 146 (167)
T ss_pred HHHHHHHHHHhhhcccceEEEEecCccccceeehhHHHHHH
Confidence 45677899999999867899999999999999999986654
No 35
>PF11508 DUF3218: Protein of unknown function (DUF3218); InterPro: IPR021593 This family of proteins with unknown function appears to be restricted to Pseudomonas. ; PDB: 2IGS_H.
Probab=29.26 E-value=33 Score=29.07 Aligned_cols=30 Identities=27% Similarity=0.392 Sum_probs=17.7
Q ss_pred hhhhcccccccccceeecccCChhHHHHHHHHH
Q psy1922 75 THVLGRLFPFDDRGLVHAYWAPNFWAFYNTADK 107 (159)
Q Consensus 75 ~Q~lsRLfp~~~rGl~Ha~WApN~WAlY~~~Dk 107 (159)
||=+..|.-.. .|+ --=|||||+.||-+--
T Consensus 166 P~siK~L~tpG-vGl--~L~apnfs~vfN~I~~ 195 (213)
T PF11508_consen 166 PQSIKQLITPG-VGL--HLSAPNFSPVFNQIRS 195 (213)
T ss_dssp -HHHHHHHGGG-TT---BTTSTTHHHHHHHHHH
T ss_pred hHHHHHHhcCC-cce--ecCCcchHHHHHHHHh
Confidence 33344444444 444 4569999999997643
No 36
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=28.74 E-value=19 Score=23.21 Aligned_cols=12 Identities=42% Similarity=0.930 Sum_probs=9.7
Q ss_pred hhhccccccccc
Q psy1922 76 HVLGRLFPFDDR 87 (159)
Q Consensus 76 Q~lsRLfp~~~r 87 (159)
.++.|+||.+.|
T Consensus 6 diL~rvFP~~kr 17 (39)
T PF03474_consen 6 DILTRVFPHQKR 17 (39)
T ss_pred HHHHHHCCCCCh
Confidence 478999999954
No 37
>KOG0375|consensus
Probab=27.73 E-value=23 Score=33.35 Aligned_cols=23 Identities=39% Similarity=0.950 Sum_probs=14.7
Q ss_pred eecccCChh-----HHHHHHHHHHHHHH
Q psy1922 90 VHAYWAPNF-----WAFYNTADKAAVVL 112 (159)
Q Consensus 90 ~Ha~WApN~-----WAlY~~~Dkvl~~~ 112 (159)
-|-||.||| |.|==.-.||-..+
T Consensus 343 PHPYWLPnFMDVFTWSLPFVGEKVTeML 370 (517)
T KOG0375|consen 343 PHPYWLPNFMDVFTWSLPFVGEKVTEML 370 (517)
T ss_pred CCCccccchhhheeeccccchHHHHHHH
Confidence 699999999 44433445554433
No 38
>PF15476 SAP25: Histone deacetylase complex subunit SAP25; PDB: 2RMS_B.
Probab=26.42 E-value=22 Score=30.01 Aligned_cols=26 Identities=38% Similarity=0.866 Sum_probs=0.0
Q ss_pred cccccceeecccCChhHHHHHHH-HHHHHHH
Q psy1922 83 PFDDRGLVHAYWAPNFWAFYNTA-DKAAVVL 112 (159)
Q Consensus 83 p~~~rGl~Ha~WApN~WAlY~~~-Dkvl~~~ 112 (159)
.|+.|-||| |.||-||.++ -|-+.-.
T Consensus 30 sfSgRTLcH----PSfWPlYea~sgR~~rp~ 56 (204)
T PF15476_consen 30 SFSGRTLCH----PSFWPLYEAASGRGLRPL 56 (204)
T ss_dssp -------------------------------
T ss_pred cccCccccC----CCcchhhhhhcccccCCC
Confidence 566689999 8999999998 5544433
No 39
>PF06067 DUF932: Domain of unknown function (DUF932); InterPro: IPR017686 Members of this uncharacterised protein are found in various Mycobacterium phage genomes, in Streptomyces coelicolor Plasmid SCP1 and in bacterial genomes near various markers that suggest lateral gene transfer. The function of this protein is unknown.
Probab=25.91 E-value=1.2e+02 Score=25.04 Aligned_cols=50 Identities=14% Similarity=0.260 Sum_probs=34.4
Q ss_pred hccCcchhhhhhhhcccccccccc----------------------eeecccCChhHHHHHHHHHHHHHHhhh
Q psy1922 65 KELNVEESSATHVLGRLFPFDDRG----------------------LVHAYWAPNFWAFYNTADKAAVVLGKR 115 (159)
Q Consensus 65 ~~l~~~~~ql~Q~lsRLfp~~~rG----------------------l~Ha~WApN~WAlY~~~Dkvl~~~~~~ 115 (159)
....+...|..+++.+++|.. -+ =....|.++.|++||++-..+....+.
T Consensus 141 ~~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~t~w~~~Navte~~~h~~~~ 212 (239)
T PF06067_consen 141 AQIELTDDEFEAFADAALPLR-YDSERKQRNNPKRRDQLLRLRRSEDRLAGWGGTLWGAYNAVTEYLDHGGPS 212 (239)
T ss_pred HhcCCCHHHHHHHHHHHhccC-cccccccccccccHHHHHHHHhcCcccccCCCCHHHHHHHHHHHHHhcCcc
Confidence 345566666777777777665 11 114568999999999998888776444
No 40
>PF00673 Ribosomal_L5_C: ribosomal L5P family C-terminus; InterPro: IPR002132 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L5, ~180 amino acids in length, is one of the proteins from the large ribosomal subunit. In Escherichia coli, L5 is known to be involved in binding 5S RNA to the large ribosomal subunit. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, , , ], groups: Eubacterial L5. Algal chloroplast L5. Cyanelle L5. Archaebacterial L5. Mammalian L11. Tetrahymena thermophila L21. Dictyostelium discoideum (Slime mold) L5 Saccharomyces cerevisiae (Baker's yeast) L16 (39A). Plant mitochondrial L5. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1IQ4_B 2ZJR_D 2ZJP_D 3PIO_D 3CF5_D 2ZJQ_D 3DLL_D 3PIP_D 2WDL_G 3UZN_G ....
Probab=25.62 E-value=56 Score=23.88 Aligned_cols=17 Identities=24% Similarity=0.354 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHhhhh
Q psy1922 100 AFYNTADKAAVVLGKRF 116 (159)
Q Consensus 100 AlY~~~Dkvl~~~~~~l 116 (159)
..|+|+||.+..+.+++
T Consensus 12 ~m~~FL~kli~~vlPri 28 (95)
T PF00673_consen 12 KMYEFLDKLITIVLPRI 28 (95)
T ss_dssp HHHHHHHHHHHTTTTTS
T ss_pred HHHHHHHHHHHHhhhhc
Confidence 37999999999988774
Done!