Query psy8039
Match_columns 105
No_of_seqs 113 out of 639
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 16:51:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8039.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8039hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00971 glutaminase; Provisio 100.0 7.7E-41 1.7E-45 268.2 7.5 102 2-103 3-105 (307)
2 COG2066 GlsA Glutaminase [Amin 100.0 2.3E-40 5E-45 265.0 5.8 101 4-104 7-108 (309)
3 PRK12356 glutaminase; Reviewed 100.0 8.4E-40 1.8E-44 263.4 7.6 92 12-103 18-110 (319)
4 TIGR03814 Gln_ase glutaminase 100.0 7.7E-40 1.7E-44 261.8 6.9 89 15-103 9-98 (300)
5 PRK12357 glutaminase; Reviewed 100.0 2E-39 4.3E-44 261.8 6.7 97 7-103 17-114 (326)
6 PF04960 Glutaminase: Glutamin 100.0 6.6E-39 1.4E-43 255.0 5.9 83 21-103 1-84 (286)
7 KOG0506|consensus 100.0 1.3E-33 2.8E-38 237.9 1.3 94 11-104 186-279 (622)
8 PRK15442 beta-lactamase TEM; P 94.8 0.059 1.3E-06 42.9 5.0 64 27-90 29-95 (284)
9 PF02113 Peptidase_S13: D-Ala- 93.3 0.12 2.6E-06 43.4 4.2 51 34-84 15-66 (444)
10 PRK11113 D-alanyl-D-alanine ca 90.3 0.37 8E-06 40.9 3.9 51 34-84 32-83 (477)
11 PF00144 Beta-lactamase: Beta- 88.2 1.1 2.4E-05 34.0 4.8 25 54-78 45-71 (329)
12 COG2367 PenP Beta-lactamase cl 83.4 2 4.3E-05 35.0 4.3 55 24-78 49-105 (329)
13 PF06089 Asparaginase_II: L-as 83.4 1.2 2.6E-05 36.7 3.1 43 37-80 15-58 (324)
14 PRK03642 putative periplasmic 81.9 1.8 3.8E-05 35.9 3.6 25 54-78 93-120 (432)
15 PF00768 Peptidase_S11: D-alan 80.2 3.9 8.3E-05 31.6 4.7 38 40-77 14-52 (240)
16 PRK13128 D-aminopeptidase; Rev 79.7 3 6.4E-05 36.0 4.3 23 54-76 53-75 (518)
17 PRK10662 beta-lactam binding p 73.9 5 0.00011 32.7 4.0 20 55-74 79-98 (378)
18 PRK11289 ampC beta-lactamase/D 69.9 9.7 0.00021 31.2 4.8 65 21-86 33-116 (384)
19 PRK11669 pbpG D-alanyl-D-alani 68.4 9.6 0.00021 31.0 4.4 32 45-76 50-81 (306)
20 TIGR02073 PBP_1c penicillin-bi 67.4 8.7 0.00019 34.4 4.3 40 37-76 274-329 (727)
21 COG1686 DacC D-alanyl-D-alanin 65.0 11 0.00024 31.6 4.2 41 38-78 40-80 (389)
22 COG1680 AmpC Beta-lactamase cl 63.9 10 0.00022 29.9 3.7 45 55-100 85-137 (390)
23 PF13354 Beta-lactamase2: Beta 62.9 13 0.00028 26.7 3.8 24 46-70 3-26 (197)
24 COG4448 AnsA L-asparaginase II 57.6 12 0.00025 31.1 3.0 34 36-69 26-60 (339)
25 TIGR00666 PBP4 D-alanyl-D-alan 56.6 9.3 0.0002 31.0 2.4 38 47-84 2-39 (345)
26 PRK09506 mrcB bifunctional gly 56.5 14 0.0003 34.0 3.7 53 24-76 453-521 (830)
27 PRK10001 D-alanyl-D-alanine ca 56.2 12 0.00027 31.4 3.1 39 39-77 42-80 (400)
28 PF02762 Cbl_N3: CBL proto-onc 54.3 16 0.00035 24.9 2.8 31 21-51 23-53 (86)
29 PRK11397 dacD D-alanyl-D-alani 53.4 15 0.00033 30.7 3.2 33 44-76 44-76 (388)
30 TIGR02071 PBP_1b penicillin-bi 53.3 19 0.00042 32.4 4.0 40 37-76 405-457 (730)
31 PRK10793 D-alanyl-D-alanine ca 46.9 28 0.0006 29.3 3.8 39 39-77 49-87 (403)
32 PF00905 Transpeptidase: Penic 45.4 18 0.0004 27.9 2.3 19 58-76 41-59 (304)
33 PF06739 SBBP: Beta-propeller 44.5 37 0.00079 19.1 2.9 32 29-60 5-38 (38)
34 PRK11240 penicillin-binding pr 44.3 15 0.00032 33.4 1.8 41 37-78 298-354 (772)
35 TIGR02214 spoVD_pbp stage V sp 43.4 54 0.0012 28.6 5.1 19 58-76 284-302 (636)
36 PRK14850 penicillin-binding pr 41.3 18 0.00039 32.9 2.0 39 38-76 416-467 (764)
37 TIGR02074 PBP_1a_fam penicilli 39.5 19 0.00042 30.9 1.8 40 37-76 256-308 (530)
38 PF13540 RCC1_2: Regulator of 38.9 36 0.00077 18.0 2.2 16 41-56 12-27 (30)
39 COG4953 PbpC Membrane carboxyp 35.8 15 0.00033 33.5 0.6 14 63-76 337-350 (733)
40 COG1706 FlgI Flagellar basal-b 32.0 34 0.00074 28.9 2.0 42 23-68 21-69 (365)
41 cd01782 AF6_RA_repeat1 Ubiquit 31.5 66 0.0014 23.0 3.2 37 26-62 59-95 (112)
42 PRK11636 mrcA penicillin-bindi 31.5 87 0.0019 28.9 4.7 20 58-78 460-479 (850)
43 PRK15105 peptidoglycan synthas 28.2 1.3E+02 0.0029 26.2 5.1 19 58-76 301-319 (578)
44 PF07930 DAP_B: D-aminopeptida 27.5 38 0.00082 23.3 1.3 29 28-56 4-32 (88)
45 PF12243 CTK3: CTD kinase subu 27.1 47 0.001 24.2 1.8 25 60-85 20-44 (139)
46 KOG1785|consensus 27.0 54 0.0012 28.7 2.5 31 21-51 277-307 (563)
47 PF14728 PHTB1_C: PTHB1 C-term 26.6 2.4E+02 0.0052 23.6 6.2 71 23-95 115-189 (377)
48 COG0595 mRNA degradation ribon 25.3 57 0.0012 28.8 2.3 25 35-59 147-171 (555)
49 KOG3003|consensus 25.3 76 0.0016 25.4 2.8 23 76-98 164-189 (236)
50 TIGR03423 pbp2_mrdA penicillin 22.8 54 0.0012 28.3 1.7 19 58-76 303-321 (592)
51 TIGR01961 NuoC_fam NADH (or F4 22.6 49 0.0011 22.6 1.2 30 61-94 68-97 (121)
52 TIGR02934 nifT_nitrog probable 22.3 91 0.002 20.3 2.3 46 16-61 6-60 (67)
53 cd01784 rasfadin_RA Ubiquitin- 22.0 93 0.002 21.3 2.4 27 33-59 40-66 (87)
54 PF09508 Lact_bio_phlase: Lact 20.8 36 0.00079 31.1 0.3 19 84-102 310-328 (716)
55 PF06290 PsiB: Plasmid SOS inh 20.3 1.6E+02 0.0034 21.9 3.5 49 30-79 80-128 (143)
56 PRK15368 pathogenicity island 20.1 1.1E+02 0.0024 22.3 2.6 59 26-84 7-73 (127)
No 1
>PRK00971 glutaminase; Provisional
Probab=100.00 E-value=7.7e-41 Score=268.22 Aligned_cols=102 Identities=41% Similarity=0.646 Sum_probs=92.8
Q ss_pred chhhhhhhhcccccccCCCCccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHH
Q psy8039 2 SSDQCVQSSKFSNKVQLFLRQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEE 81 (105)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~ 81 (105)
...+.++...-+......+|+||+|||+||++||++|||||||+||++|++||++++||||||||||+|++||+++|.|+
T Consensus 3 ~~~~~l~~~~~~~~~~~~~G~vA~YIP~La~vdp~~fgiai~t~dG~~~~~GD~~~~FsiQSisK~f~l~lal~~~G~~~ 82 (307)
T PRK00971 3 LMQAILEEILEEVRPLIGQGKVADYIPELAKVDPNKLGIAVCTVDGEVYSAGDADERFSIQSISKVFSLALALQHYGEEE 82 (307)
T ss_pred chHHHHHHHHHHHHHHhCCCCCCcccHHhhCCChhHeEEEEEecCCcEEEecCCCCceechhhHHHHHHHHHHHHhCHHH
Confidence 34556666655555568889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhCCCCCCCCCceee-eccC
Q psy8039 82 VHKYVGQEPSGRNFNELI-LDHN 103 (105)
Q Consensus 82 V~~~VG~EPSG~~FNSi~-le~~ 103 (105)
||+|||+||||+|||||+ ||.+
T Consensus 83 V~~~VG~EPSG~~FNSi~~Le~~ 105 (307)
T PRK00971 83 VWQRVGKEPSGDPFNSLVQLELE 105 (307)
T ss_pred HHHHhCCCCCCCCCcchhhhhcc
Confidence 999999999999999996 7753
No 2
>COG2066 GlsA Glutaminase [Amino acid transport and metabolism]
Probab=100.00 E-value=2.3e-40 Score=264.99 Aligned_cols=101 Identities=41% Similarity=0.625 Sum_probs=95.6
Q ss_pred hhhhhhhcccccccCCCCccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHH
Q psy8039 4 DQCVQSSKFSNKVQLFLRQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVH 83 (105)
Q Consensus 4 ~~~~~~~~~~~~~~~~~G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~ 83 (105)
.+.++...-.-...+.+|+||+|||+||+|||++|||||||+||++|++||++.+||||||||||+|++||+++|.|+||
T Consensus 7 ~~~l~~~~~~~r~~~~~G~vAdYIP~La~vd~~~fgiai~t~dG~~~~aGD~d~~FsiqSISKvf~l~lal~~~g~~~v~ 86 (309)
T COG2066 7 QKALEEIVRAARPLTGGGKVADYIPALAKVDPDLFGIAIVTVDGQVYSAGDADERFSIQSISKVFTLALALEDIGPDYVW 86 (309)
T ss_pred HHHHHHHHHHhcccccCCcchhhhhHhhcCChhHcEEEEEecCCeEEEccCcCcceeeeeeHHHHHHHHHHHHhChHHHH
Confidence 35777777777888889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCCCCCCCCceee-eccCC
Q psy8039 84 KYVGQEPSGRNFNELI-LDHNS 104 (105)
Q Consensus 84 ~~VG~EPSG~~FNSi~-le~~~ 104 (105)
+|||+||||+|||||+ ||.++
T Consensus 87 ~rVG~ePSG~pFNSi~qLE~~~ 108 (309)
T COG2066 87 QRVGAEPSGLPFNSVIQLELEG 108 (309)
T ss_pred HHhCCCCCCCcchHHHHHHHhC
Confidence 9999999999999999 88765
No 3
>PRK12356 glutaminase; Reviewed
Probab=100.00 E-value=8.4e-40 Score=263.37 Aligned_cols=92 Identities=37% Similarity=0.607 Sum_probs=86.7
Q ss_pred ccccccCCCCccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHHhhCCCCC
Q psy8039 12 FSNKVQLFLRQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEPS 91 (105)
Q Consensus 12 ~~~~~~~~~G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~~VG~EPS 91 (105)
+++.+...+|+||+|||+||++||++|||||||+||++|++||++++||||||||||+|++||+++|.|+||+|||+|||
T Consensus 18 ~~~~~~~~~G~vA~YIP~La~vdp~~fgiav~t~dG~~~~~GD~~~~FsiQSisK~f~l~lal~~~G~~~V~~~VG~EPS 97 (319)
T PRK12356 18 YAQFKSDTGGKNADYIPALANVPSDLFGVAVVTTDGQVYSAGDSDYRFAIESISKVFTLALALEDVGPQAVREKIGADPT 97 (319)
T ss_pred HHHhccCCCCCCcccchhhhCCCCcceEEEEEecCCCEEEecCCCCcEehhhHHHHHHHHHHHHHhCHHHHHHHhCCCCC
Confidence 45556667899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceee-eccC
Q psy8039 92 GRNFNELI-LDHN 103 (105)
Q Consensus 92 G~~FNSi~-le~~ 103 (105)
|+|||||. ||.+
T Consensus 98 G~~FNsi~~Le~~ 110 (319)
T PRK12356 98 GLPFNSVIAIELH 110 (319)
T ss_pred CCCcchHHHhhcc
Confidence 99999997 7654
No 4
>TIGR03814 Gln_ase glutaminase A. This family describes the enzyme glutaminase, from a larger family that includes serine-dependent beta-lactamases and penicillin-binding proteins. Many bacteria have two isozymes. This model is based on selected known glutaminases and their homologs within prokaryotes, with the exclusion of highly-derived (long branch) and architecturally varied homologs, so as to achieve conservative assignments. A sharp drop in scores occurs below 250, and cutoffs are set accordingly. The enzyme converts glutamine to glutamate, with the release of ammonia. Members tend to be described as glutaminase A (glsA), where B (glsB) is unknown and may not be homologous (as in Rhizobium etli). Some species have two isozymes that may both be designated A (GlsA1 and GlsA2).
Probab=100.00 E-value=7.7e-40 Score=261.81 Aligned_cols=89 Identities=46% Similarity=0.776 Sum_probs=84.5
Q ss_pred cccCCCCccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHHhhCCCCCCCC
Q psy8039 15 KVQLFLRQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEPSGRN 94 (105)
Q Consensus 15 ~~~~~~G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~~VG~EPSG~~ 94 (105)
.....+|+||+|||+||++||++|||||||+||++|++||++++||||||||||+|++||+++|.|+||+|||+||||+|
T Consensus 9 ~~~~~~G~vA~YIP~La~vdp~~fgiai~t~dG~~~~~GD~~~~FsiQSisK~f~l~lal~~~G~~~V~~~VG~ePSG~~ 88 (300)
T TIGR03814 9 RPLTGEGKVADYIPALAKVDPNQFGIAVVTLDGEVFSAGDADVPFSIQSISKVFTLALALEDLGEDEVWERVGVEPSGDP 88 (300)
T ss_pred HHHhcCCCCccccHHhhcCChhheEEEEEecCCCEEEecCCCCcEehhhHHHHHHHHHHHHHHCHHHHHHHhCCCCCCCC
Confidence 34566799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Cceee-eccC
Q psy8039 95 FNELI-LDHN 103 (105)
Q Consensus 95 FNSi~-le~~ 103 (105)
||||+ ||.+
T Consensus 89 FNsi~~Le~~ 98 (300)
T TIGR03814 89 FNSIVQLELE 98 (300)
T ss_pred ccchhhhhcc
Confidence 99998 7754
No 5
>PRK12357 glutaminase; Reviewed
Probab=100.00 E-value=2e-39 Score=261.80 Aligned_cols=97 Identities=27% Similarity=0.381 Sum_probs=87.9
Q ss_pred hhhhcccccccCCCCccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHHhh
Q psy8039 7 VQSSKFSNKVQLFLRQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYV 86 (105)
Q Consensus 7 ~~~~~~~~~~~~~~G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~~V 86 (105)
++...-+......+|+||+|||+||++||++|||||||+||++|++||++++||||||||||+|++||+++|.|+||+||
T Consensus 17 L~~~~~~~~~~~~~G~vAdYIP~La~vdp~~fgiai~t~dG~~~~~GD~~~~FsiQSisK~f~l~lal~~~G~~~V~~~V 96 (326)
T PRK12357 17 LDQWVAHYRTYAAEGRSASYIPALGEINVSQLGICIVKPDGTMIKSGDWEVPFTLQSISKVISFIAACLSRGISYVLERV 96 (326)
T ss_pred HHHHHHHHHHHcCCCCCCcccHHhhCCChhHcEEEEEcCCCCEEEecCCCCcEehHhHHHHHHHHHHHHHhCHHHHHHHh
Confidence 33343344456678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCceee-eccC
Q psy8039 87 GQEPSGRNFNELI-LDHN 103 (105)
Q Consensus 87 G~EPSG~~FNSi~-le~~ 103 (105)
|+||||+|||||+ ||.+
T Consensus 97 G~EPSG~~FNSi~~Le~~ 114 (326)
T PRK12357 97 DVEPTGDAFNSIIRLEIH 114 (326)
T ss_pred CCCCCCCCcchhhhhhhc
Confidence 9999999999997 6644
No 6
>PF04960 Glutaminase: Glutaminase; InterPro: IPR015868 Glutaminases (3.5.1.2 from EC) deaminate glutamine to glutamate. In Bacillus subtilis, glutaminase is encoded by glnA, which is part of an operon, glnA-glnT (formerly ybgJ-ybgH), where glnT encodes a glutamine transporter. The glnA-glnT operon is regulated by the 2-component system GlnK-GlnL in response to glutamine []. This entry represents the core structural motif of a family of glutaminases that include GlnA, which are characterised by their beta-lactamase-like topology, containing a cluster of alpha-helices and an alpha/beta sandwich. This family describes the enzyme glutaminase, from a larger family that includes serine-dependent beta-lactamases and penicillin-binding proteins. Many bacteria have two isozymes. This model is based on selected known glutaminases and their homologs within prokaryotes, with the exclusion of highly-derived (long branch) and architecturally varied homologs, so as to achieve conservative assignments. A sharp drop in scores occurs below 250, and cutoffs are set accordingly. The enzyme converts glutamine to glutamate, with the release of ammonia. Members tend to be described as glutaminase A (glsA), where B (glsB) is unknown and may not be homologous (as in Rhizobium etli. Some species have two isozymes that may both be designated A (GlsA1 and GlsA2). ; GO: 0004359 glutaminase activity, 0006541 glutamine metabolic process; PDB: 2OSU_B 3BRM_A 3AGF_B 1MKI_B 2PBY_C 3SS5_D 3SS3_A 3SS4_C 3UO9_C 3UNW_C ....
Probab=100.00 E-value=6.6e-39 Score=254.97 Aligned_cols=83 Identities=57% Similarity=1.008 Sum_probs=75.7
Q ss_pred CccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHHhhCCCCCCCCCceee-
Q psy8039 21 RQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEPSGRNFNELI- 99 (105)
Q Consensus 21 G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~~VG~EPSG~~FNSi~- 99 (105)
|+||+|||+||++||++|||||||+||++|++||++++||||||||||+|++||+++|.|+||+|||+||||+|||||.
T Consensus 1 G~va~YIP~La~~dp~~fgiai~t~dG~~~~~GD~~~~FsiQSisK~f~~~lal~~~G~~~V~~~VG~EPsg~~FNsi~~ 80 (286)
T PF04960_consen 1 GKVADYIPELAKVDPDLFGIAICTVDGQRYSAGDADTPFSIQSISKPFTLALALEDLGEEEVFERVGVEPSGDPFNSIVQ 80 (286)
T ss_dssp SBE-TSSHHHHTSSTT--EEEEEETTSEEEEEESTTSEEEGGGGHHHHHHHHHHHHHHHHHHHCCS-SS-SSSTTTTHHH
T ss_pred CCCCcccHHHhcCChHHeEEEEEecCCcEEecCCCCCcCcchhHHHHHHHHHHHHHhCHHHHHHHhCCCCCCCCccchhh
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eccC
Q psy8039 100 LDHN 103 (105)
Q Consensus 100 le~~ 103 (105)
||.+
T Consensus 81 le~~ 84 (286)
T PF04960_consen 81 LELE 84 (286)
T ss_dssp HHTS
T ss_pred hhcC
Confidence 6653
No 7
>KOG0506|consensus
Probab=99.97 E-value=1.3e-33 Score=237.93 Aligned_cols=94 Identities=59% Similarity=0.928 Sum_probs=91.7
Q ss_pred cccccccCCCCccCCcchhhhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHHhhCCCC
Q psy8039 11 KFSNKVQLFLRQVADYIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEP 90 (105)
Q Consensus 11 ~~~~~~~~~~G~vA~YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~~VG~EP 90 (105)
-|+.++...+|+||+|||+||+..|++||++|||+|||+.+.||+.++|++||+||||+||++..++|.|.||++||.||
T Consensus 186 IFEscke~seG~vA~YIPQLar~sPdlW~vSvCTvDGQR~s~Gd~k~pFClQSvsK~f~YAiv~sdlG~~~vH~yVG~EP 265 (622)
T KOG0506|consen 186 IFESCKESSEGKVATYIPQLARQSPDLWGVSVCTVDGQRHSLGDTKKPFCLQSVSKPFNYAIVASDLGTEVVHQYVGQEP 265 (622)
T ss_pred HHHHHHhcCCccHHHhhHHHhccCCccceeEEeeecCccccccccCCchhHhhhcccceeeeeeccccHHHHHHHhcCCC
Confidence 37889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCceeeeccCC
Q psy8039 91 SGRNFNELILDHNS 104 (105)
Q Consensus 91 SG~~FNSi~le~~~ 104 (105)
||..||.|.||.++
T Consensus 266 SGrlfN~i~Ld~~~ 279 (622)
T KOG0506|consen 266 SGRLFNEICLDSNN 279 (622)
T ss_pred ccchhhhhhccCCC
Confidence 99999999999876
No 8
>PRK15442 beta-lactamase TEM; Provisional
Probab=94.81 E-value=0.059 Score=42.88 Aligned_cols=64 Identities=14% Similarity=0.113 Sum_probs=45.6
Q ss_pred chhhhccCCCCeEEEEEecC-CcEEeecCCCcccchhhhhHHHHHHHHHhhc--ChHHHHHhhCCCC
Q psy8039 27 IPQLARADPKYWGVSVCTVD-GQRYSIGKTNIPFTIQSCSKPLTYAIALEEL--DQEEVHKYVGQEP 90 (105)
Q Consensus 27 IP~La~~dp~~fgiai~tvd-G~~~~~GD~~~~FsiQSisK~f~~~lAL~~~--G~e~V~~~VG~EP 90 (105)
|-+|.+.-+..+|+++.+.+ |+.+..=+.+.+|+++|+.|+++.+.+|++. |.-.+-++|-+++
T Consensus 29 i~~l~~~~~g~vGv~v~d~~tg~~~~~~n~d~~fp~aSt~K~~i~~avl~~v~~g~l~L~~~v~i~~ 95 (284)
T PRK15442 29 VKDAEDQLGARVGYIELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRVDAGQEQLGRRIHYSQ 95 (284)
T ss_pred HHHHHHhcCCeEEEEEEECCCCCEeeeecCCCcccchHHHHHHHHHHHHHHHHCCCCCCCceEEecH
Confidence 55566666789999999854 6666433679999999999999999888764 3333334444433
No 9
>PF02113 Peptidase_S13: D-Ala-D-Ala carboxypeptidase 3 (S13) family; InterPro: IPR000667 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 family of serine peptidases belong to MEROPS peptidase family S13 (D-Ala-D-Ala carboxypeptidase C, clan SE). The predicted active site residues for members of this family and family S12 occur in the motif SXXK. D-Ala-D-Ala carboxypeptidase C is involved in the metabolism of cell components []; it is synthesised with a leader peptide to target it to the cell membrane []. After cleavage of the leader peptide, the enzyme is retained in the membrane by a C-terminal anchor []. There are three families of serine-type D-Ala-D-Ala peptidase (designated S11, S12 and S13), which are also known as low molecular weight penicillin-binding proteins []. Family S13 comprises D-Ala-D-Ala peptidases that have sufficient sequence similarity around their active sites to assume a distant evolutionary relationship to other clan members; members of the S13 family also bind penicillin and have D-amino-peptidase activity. Proteases of family S11 have exclusive D-Ala-D-Ala peptidase activity, while some members of S12 are C beta-lactamases [].; GO: 0004185 serine-type carboxypeptidase activity, 0006508 proteolysis; PDB: 3A3F_B 3A3E_B 3A3D_A 3A3I_B 2Y59_C 1W8Q_A 3ZVT_B 3ZVW_B 2VGJ_B 1W79_D ....
Probab=93.33 E-value=0.12 Score=43.45 Aligned_cols=51 Identities=31% Similarity=0.316 Sum_probs=41.8
Q ss_pred CCCCeEEEEEec-CCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHH
Q psy8039 34 DPKYWGVSVCTV-DGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHK 84 (105)
Q Consensus 34 dp~~fgiai~tv-dG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~ 84 (105)
....+||.|.+. +|+.+..=+.+..|.--|..|+|+-+.||+.+|.+.-|+
T Consensus 15 ~~~~~gi~v~d~~~g~~l~~~n~~~~~~PAS~~Kl~Tt~aAL~~LG~d~rf~ 66 (444)
T PF02113_consen 15 PGARVGISVQDLDSGEVLYSHNADKPFTPASNTKLLTTAAALDTLGPDYRFK 66 (444)
T ss_dssp TT-EEEEEEEETTTTEEEEEESTTSEBE-GGGHHHHHHHHHHHHT-TT-EEE
T ss_pred cCCeEEEEEEECCCCCEeEEeCCCCccCchHHHHHHHHHHHHHhcCCCCcEE
Confidence 366999999996 578777778999999999999999999999999997665
No 10
>PRK11113 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional
Probab=90.33 E-value=0.37 Score=40.94 Aligned_cols=51 Identities=16% Similarity=-0.058 Sum_probs=44.4
Q ss_pred CCCCeEEEEEec-CCcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHH
Q psy8039 34 DPKYWGVSVCTV-DGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHK 84 (105)
Q Consensus 34 dp~~fgiai~tv-dG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~ 84 (105)
+...|||.|.+. +|+.+..=+.+..|.--|..|+|+-+.||+.+|.+.=|+
T Consensus 32 ~~~~~gi~v~dl~tg~~l~~~na~~~~~PAS~~Kl~TtaaAL~~LG~d~rf~ 83 (477)
T PRK11113 32 AGANLALMVQKVGASAPAIDYHSQQMALPASTQKVITALAALLQLGPDFRFT 83 (477)
T ss_pred CCCeEEEEEEECCCCCEEEEEcCCCccCCcHHHHHHHHHHHHHhcCCCceEE
Confidence 456899999986 567777778999999999999999999999999987665
No 11
>PF00144 Beta-lactamase: Beta-lactamase; InterPro: IPR001466 This entry represents the serine beta-lactamase-like superfamily. It is a group of diverse group of sequences that includes D-alanyl-D-alanine carboxypeptidase B, aminopeptidase (DmpB), alkaline D-peptidase, animal D-Ala-D-Ala carboxypeptidase homologues and the class A and C beta-lactamases and eukaryotic beta-lactamase homologues which are variously described as: transesterases, non-ribosomal peptide synthetases and hypothetical proteins. Many are serine peptidases belonging to MEROPS peptidase families S11 (D-Ala-D-Ala carboxypeptidase A family) and S12 (D-Ala-D-Ala carboxypeptidase B family, clan SE). The beta-lactamases are classified as both S11 and S12 non-peptidase homologues; these either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Beta-lactamase catalyses the opening and hydrolysis of the beta-lactam ring of beta-lactam antibiotics such as penicillins and cephalosporins []. There are four groups, classed A, B, C and D according to sequence, substrate specificity, and kinetic behaviour: class A (penicillinase-type) is the most common []. The genes for class A beta-lactamases are widely distributed in bacteria, frequently located on transmissible plasmids in Gram-negative organisms, although an equivalent chromosomal gene has been found in a few species []. Class A, C and D beta-lactamases are serine-utilising hydrolases - class B enzymes utilise a catalytic zinc centre instead. The 3 classes of serine beta-lactamase are evolutionarily related and belong to a superfamily that also includes DD-peptidases and other penicillin-binding proteins []. All these proteins contain an S-x-x-K motif, the Ser being the active site residue. Although clearly related, however, the sequences of the 3 classes of serine beta-lactamases vary considerably outside the active site. ; PDB: 1CI8_A 1CI9_B 1PW8_A 1PW1_A 1CEF_A 3PTE_A 1MPL_A 1PWG_A 1CEG_A 1IKG_A ....
Probab=88.22 E-value=1.1 Score=33.99 Aligned_cols=25 Identities=28% Similarity=0.286 Sum_probs=20.0
Q ss_pred CCCcccchhhhhHHHHHHHH--HhhcC
Q psy8039 54 KTNIPFTIQSCSKPLTYAIA--LEELD 78 (105)
Q Consensus 54 D~~~~FsiQSisK~f~~~lA--L~~~G 78 (105)
+.++.|.|.|+||+|+=+++ |.+.|
T Consensus 45 ~~~t~~~i~SvsK~~ta~~v~~l~~~G 71 (329)
T PF00144_consen 45 TPDTVFRIGSVSKSFTATAVMQLIDEG 71 (329)
T ss_dssp STTSBEEEGGGHHHHHHHHHHHHHHTT
T ss_pred CccceeeccCCcceeehhhhhhhhccc
Confidence 88999999999999994444 55556
No 12
>COG2367 PenP Beta-lactamase class A [Defense mechanisms]
Probab=83.44 E-value=2 Score=35.04 Aligned_cols=55 Identities=33% Similarity=0.271 Sum_probs=44.3
Q ss_pred CCcchhhhc--cCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcC
Q psy8039 24 ADYIPQLAR--ADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELD 78 (105)
Q Consensus 24 A~YIP~La~--~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G 78 (105)
++-|-+|.+ ..+-..|+.+.+++...+..=..+..|+.+|+.|...++.++++..
T Consensus 49 ~~~~~~l~~~~~~~~~~~~~v~d~~t~~~~~~n~~~~fp~aSt~K~~v~~a~l~~v~ 105 (329)
T COG2367 49 ADRLAQLERPAATDGRVGVYVLDVDTGELIAINGDERFPAASTIKLPVLAALLEQVD 105 (329)
T ss_pred HHHHHHhhhcccCCceeEEEEEecCCcceeeeccccccchHHHHHHHHHHHHHHHcc
Confidence 344555666 7788999999999987444445789999999999999999998866
No 13
>PF06089 Asparaginase_II: L-asparaginase II; InterPro: IPR010349 This family consists of several bacterial L-asparaginase II proteins. L-asparaginase (3.5.1.1 from EC) catalyses the hydrolysis of L-asparagine to L-aspartate and ammonium. Rhizobium etli possesses two asparaginases: asparaginase I, which is thermostable and constitutive, and asparaginase II, which is thermolabile, induced by asparagine and repressed by the carbon source [].
Probab=83.42 E-value=1.2 Score=36.68 Aligned_cols=43 Identities=28% Similarity=0.304 Sum_probs=32.9
Q ss_pred CeEEEEEecCCc-EEeecCCCcccchhhhhHHHHHHHHHhhcChH
Q psy8039 37 YWGVSVCTVDGQ-RYSIGKTNIPFTIQSCSKPLTYAIALEELDQE 80 (105)
Q Consensus 37 ~fgiai~tvdG~-~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e 80 (105)
.=.++|++.||+ .+++||.+.+.=.-|.+|||= |+++-..|..
T Consensus 15 ~G~~vVvd~~G~v~~~~Gd~~~~~f~RSa~KP~Q-Alp~l~sGa~ 58 (324)
T PF06089_consen 15 RGHAVVVDADGRVLASAGDPDRPTFPRSAAKPFQ-ALPLLESGAA 58 (324)
T ss_pred EEEEEEECCCCCEEEEecCCCCceehhhhccHHH-HHHHHHcCch
Confidence 345788999997 788999999999999999985 3333333543
No 14
>PRK03642 putative periplasmic esterase; Provisional
Probab=81.90 E-value=1.8 Score=35.92 Aligned_cols=25 Identities=24% Similarity=0.323 Sum_probs=17.7
Q ss_pred CCCcccchhhhhHHHH--HHHH-HhhcC
Q psy8039 54 KTNIPFTIQSCSKPLT--YAIA-LEELD 78 (105)
Q Consensus 54 D~~~~FsiQSisK~f~--~~lA-L~~~G 78 (105)
+.++.|.|.|+||+|+ .+++ |.+.|
T Consensus 93 t~dT~f~iaSiTK~ftt~~ai~~Lve~G 120 (432)
T PRK03642 93 TTNTMYDLASNTKMYATNFALQKLVSEG 120 (432)
T ss_pred CCCCEEechhhhHHHHHHHHHHHHHHCC
Confidence 3578899999999995 3332 44445
No 15
>PF00768 Peptidase_S11: D-alanyl-D-alanine carboxypeptidase This is family S11 in the peptidase classification. ; InterPro: IPR001967 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 group of serine peptidases belong to MEROPS peptidase family S11 (D-Ala-D-Ala carboxypeptidase A family, clan SE). The protein fold of the peptidase domain for members of this family resembles that of D-Ala-D-Ala-carboxypeptidase B, the type example for clan SE. 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, endo-peptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S27) of serine protease have been identified, these being grouped into 6 clans (SA, SB, SC, SE, SF and SG) on the basis of structural similarity and other functional evidence. Structures are known for four of the clans (SA, SB, SC and SE): these appear to be totally unrelated, suggesting at least four evolutionary origins of serine peptidases and possibly many more []. Not with standing their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C clans 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 (SA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. Bacterial cell walls are complex structures containing amino acids and amino sugars, with alternating chains of N-acetylglucosamine and N-acetyl-muramic acid units linked by short peptides []: the link peptide in Escherichia coli is L-alanyl-D-isoglutamyl-L-meso-diaminopimelyl-D-alanine. The chains are usually cross-linked between the carboxyl of D-alanine and the free amino group of diaminopimelate. During the synthesis of peptidoglycan, the precursor has the described tetramer sequence with an added C-terminal D-alanine []. D-Ala-D-Ala carboxypeptidase A is involved in the metabolism of cell components []; it is synthesised with a leader peptide to target it to the cell membrane []. After cleavage of the leader peptide, the enzyme is retained in the membrane by a C-terminal anchor. There are three families of serine-type D-Ala-D-Ala peptidase, which are also known as low molecular weight penicillin-binding proteins. Family S11 contains only D-Ala-D-Ala peptidases, unlike families S12 and S13, which contain other enzymes, such as class C beta-lactamases and D-amino-peptidases []. Although these enzymes are serine proteases, some members of family S11 are partially inhibited by thiol-blocking agents [].; GO: 0009002 serine-type D-Ala-D-Ala carboxypeptidase activity, 0006508 proteolysis; PDB: 2BCF_A 1TVF_A 3MFD_B 1ES3_A 1ESI_A 1ES4_A 1ES2_A 1SKF_A 1ES5_A 1J9M_A ....
Probab=80.16 E-value=3.9 Score=31.61 Aligned_cols=38 Identities=18% Similarity=0.123 Sum_probs=31.9
Q ss_pred EEEEec-CCcEEeecCCCcccchhhhhHHHHHHHHHhhc
Q psy8039 40 VSVCTV-DGQRYSIGKTNIPFTIQSCSKPLTYAIALEEL 77 (105)
Q Consensus 40 iai~tv-dG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~ 77 (105)
..|.+. .|+++..=+.+.++++-|++|+++..++++..
T Consensus 14 aiv~d~~tG~iL~~kn~~~~~~~ASlTKlmTa~~~le~~ 52 (240)
T PF00768_consen 14 AIVMDADTGKILYSKNADEKRPPASLTKLMTAYVVLEAI 52 (240)
T ss_dssp EEEEETTTSEEEEEESTTSEBE-GGGHHHHHHHHHHHHH
T ss_pred EEEEECCCCcChhhcccCceechhhHHHHHHHHHHHHHH
Confidence 344454 59988888999999999999999999999987
No 16
>PRK13128 D-aminopeptidase; Reviewed
Probab=79.73 E-value=3 Score=35.97 Aligned_cols=23 Identities=30% Similarity=0.325 Sum_probs=18.4
Q ss_pred CCCcccchhhhhHHHHHHHHHhh
Q psy8039 54 KTNIPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 54 D~~~~FsiQSisK~f~~~lAL~~ 76 (105)
+.++.|.|.||||.|+-++++..
T Consensus 53 t~dT~f~IaSiTK~fTa~~il~L 75 (518)
T PRK13128 53 TPETRMPICSVSKQFTCAVLLDC 75 (518)
T ss_pred CCCCeEechhhHHHHHHHHHHHH
Confidence 56789999999999986655443
No 17
>PRK10662 beta-lactam binding protein AmpH; Provisional
Probab=73.90 E-value=5 Score=32.67 Aligned_cols=20 Identities=20% Similarity=0.202 Sum_probs=16.3
Q ss_pred CCcccchhhhhHHHHHHHHH
Q psy8039 55 TNIPFTIQSCSKPLTYAIAL 74 (105)
Q Consensus 55 ~~~~FsiQSisK~f~~~lAL 74 (105)
.++.|.|.|++|+|+-++++
T Consensus 79 ~dT~f~iaSiTK~fta~ai~ 98 (378)
T PRK10662 79 LDSLIRIASITKLMTSEVLV 98 (378)
T ss_pred CCCeEEeeeecHHHHHHHHH
Confidence 56889999999999865544
No 18
>PRK11289 ampC beta-lactamase/D-alanine carboxypeptidase; Provisional
Probab=69.95 E-value=9.7 Score=31.25 Aligned_cols=65 Identities=26% Similarity=0.353 Sum_probs=37.1
Q ss_pred CccCCcchhhh-ccCCCCeEEEEEecCCcEE--eec----------CCCcccchhhhhHHHHHHHHH--hhcCh----HH
Q psy8039 21 RQVADYIPQLA-RADPKYWGVSVCTVDGQRY--SIG----------KTNIPFTIQSCSKPLTYAIAL--EELDQ----EE 81 (105)
Q Consensus 21 G~vA~YIP~La-~~dp~~fgiai~tvdG~~~--~~G----------D~~~~FsiQSisK~f~~~lAL--~~~G~----e~ 81 (105)
..+.++|-++- +.+-.-.+++|. .+|+++ ..| +.++.|.|-|+||+|+-++++ .+.|. +.
T Consensus 33 ~~vd~~i~~~~~~~~~pG~~vaV~-~~g~~~~~~~G~~~~~~~~p~~~dT~f~iaSvTK~fTa~~i~~Lve~G~L~Lddp 111 (384)
T PRK11289 33 DIVDRTITPLMEEQDIPGMAVAVI-YNGKPYYFNYGVADKATGQPVTQDTLFELGSVSKTFTATLAGYAQARGELSLSDP 111 (384)
T ss_pred HHHHHHHHHHHHhCCCCeEEEEEE-ECCEEEEEeeeecccccCCCCCCCCEEeeeechHHHHHHHHHHHHHCCCCCCCCc
Confidence 34555555542 223334455554 456543 234 566789999999999865443 34453 44
Q ss_pred HHHhh
Q psy8039 82 VHKYV 86 (105)
Q Consensus 82 V~~~V 86 (105)
|-+++
T Consensus 112 v~~yl 116 (384)
T PRK11289 112 ASKYL 116 (384)
T ss_pred HHHhC
Confidence 55555
No 19
>PRK11669 pbpG D-alanyl-D-alanine endopeptidase; Provisional
Probab=68.42 E-value=9.6 Score=30.97 Aligned_cols=32 Identities=16% Similarity=0.185 Sum_probs=28.5
Q ss_pred cCCcEEeecCCCcccchhhhhHHHHHHHHHhh
Q psy8039 45 VDGQRYSIGKTNIPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 45 vdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~ 76 (105)
.+|+++-.=+.+.++++-|++|+++..++++.
T Consensus 50 ~tG~vL~~kN~d~~~~pASlTKlmTalvvle~ 81 (306)
T PRK11669 50 NTNKVIYSSNPDLVVPIASITKLMTAMVVLDA 81 (306)
T ss_pred CCCcEEEeECcCCCcCchHHHHHHHHHHHHHc
Confidence 46888877789999999999999999999974
No 20
>TIGR02073 PBP_1c penicillin-binding protein 1C. This subfamily of the penicillin binding proteins includes the member from E. coli designated penicillin-binding protein 1C. Members have both transglycosylase and transpeptidase domains and are involved in forming cross-links in the late stages of peptidoglycan biosynthesis. All members of this subfamily are presumed to have the same basic function.
Probab=67.40 E-value=8.7 Score=34.41 Aligned_cols=40 Identities=28% Similarity=0.474 Sum_probs=27.8
Q ss_pred CeEEEEEe-cCCcEEe-ecCCC--------------cccchhhhhHHHHHHHHHhh
Q psy8039 37 YWGVSVCT-VDGQRYS-IGKTN--------------IPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 37 ~fgiai~t-vdG~~~~-~GD~~--------------~~FsiQSisK~f~~~lAL~~ 76 (105)
.-|+.+.+ .+|++.. +|-.+ ..++.-|.-|||+|+.||+.
T Consensus 274 ~~a~vv~D~~TG~IlAmvg~~~~~~~~~~~~~~~~~a~rqPGStfKPf~yaaALe~ 329 (727)
T TIGR02073 274 NLAILVVDNRSGAVLAYVGSADFFDDSNSGQVDGVRAPRSPGSTLKPFLYALALDD 329 (727)
T ss_pred eEEEEEEECCCCcEEEEEeCCCcCCccccchhhhhcCCcCCchHHHHHHHHHHHHC
Confidence 45555555 4788666 44221 23667799999999999997
No 21
>COG1686 DacC D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]
Probab=64.95 E-value=11 Score=31.57 Aligned_cols=41 Identities=17% Similarity=0.113 Sum_probs=35.4
Q ss_pred eEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcC
Q psy8039 38 WGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELD 78 (105)
Q Consensus 38 fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G 78 (105)
=+|.|--..|+++..-|.+.++++-|+.|+.+..++++.+-
T Consensus 40 ~aiviD~~sGkVLy~kn~d~~~~pASlTKlMTayv~~ea~~ 80 (389)
T COG1686 40 AAIVIDADSGKVLYSKNADARRPPASLTKLMTAYVVLEALK 80 (389)
T ss_pred eEEEEECCCCcEeeccCCCCCCCccHHHHHHHHHHHHHHhh
Confidence 34555557789999999999999999999999999999873
No 22
>COG1680 AmpC Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]
Probab=63.86 E-value=10 Score=29.91 Aligned_cols=45 Identities=27% Similarity=0.418 Sum_probs=29.9
Q ss_pred CCcccchhhhhHHHHHHHH--HhhcC----hHHHHHhhC--CCCCCCCCceeee
Q psy8039 55 TNIPFTIQSCSKPLTYAIA--LEELD----QEEVHKYVG--QEPSGRNFNELIL 100 (105)
Q Consensus 55 ~~~~FsiQSisK~f~~~lA--L~~~G----~e~V~~~VG--~EPSG~~FNSi~l 100 (105)
.++.|-|-|++|+|+-.++ |.+.| .+-|-+++. ..+.... +.|.+
T Consensus 85 ~~t~f~i~S~TK~~ta~~i~~LveeG~l~lddpV~~ylP~~~~~~~~~-~~iTi 137 (390)
T COG1680 85 PPTVFRIASVTKSFTATLLGKLVEEGKLDLDDPVSKYLPEGKDPATGG-APITL 137 (390)
T ss_pred CCceeeehhhhHHHHHHHHHHHHHcCCCCCCchHHHhCCCccCCcCCc-cceeH
Confidence 4578999999999974443 44445 345777775 5566655 66653
No 23
>PF13354 Beta-lactamase2: Beta-lactamase enzyme family; PDB: 1G6A_A 1G68_A 3NIA_A 3NI9_B 1BUL_A 1BUE_A 4EUZ_A 4EV4_A 4EQI_A 1O7E_B ....
Probab=62.87 E-value=13 Score=26.75 Aligned_cols=24 Identities=25% Similarity=0.349 Sum_probs=20.3
Q ss_pred CCcEEeecCCCcccchhhhhHHHHH
Q psy8039 46 DGQRYSIGKTNIPFTIQSCSKPLTY 70 (105)
Q Consensus 46 dG~~~~~GD~~~~FsiQSisK~f~~ 70 (105)
+|++++. +.+..|+..|+.|++++
T Consensus 3 tg~~~~~-n~d~~~~~AS~~Kl~i~ 26 (197)
T PF13354_consen 3 TGETFSY-NADEPFPAASTIKLPIA 26 (197)
T ss_dssp TTEEEEE-STTSEEE-GGGGHHHHH
T ss_pred CCCEEEE-CCCCcEechhHHHHHHH
Confidence 6888877 68899999999999988
No 24
>COG4448 AnsA L-asparaginase II [Amino acid transport and metabolism]
Probab=57.58 E-value=12 Score=31.11 Aligned_cols=34 Identities=24% Similarity=0.265 Sum_probs=28.2
Q ss_pred CCeEEEEEecCCc-EEeecCCCcccchhhhhHHHH
Q psy8039 36 KYWGVSVCTVDGQ-RYSIGKTNIPFTIQSCSKPLT 69 (105)
Q Consensus 36 ~~fgiai~tvdG~-~~~~GD~~~~FsiQSisK~f~ 69 (105)
.+-.+++++-||+ .+++||++.+-=.-|..|+|-
T Consensus 26 H~g~a~V~D~dGr~l~~~Gd~e~~~FpRSA~K~~Q 60 (339)
T COG4448 26 HRGAAVVVDGDGRVLFSAGDSERPTFPRSALKAFQ 60 (339)
T ss_pred ceeeEEEEcCCCcEEEecccccCCccchhhhhhhh
Confidence 4556778899998 778999998888899999984
No 25
>TIGR00666 PBP4 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family. In E. coli, this protein is known as penicillin binding protein 4 (dacB). A signal sequence is cleaved from a precursor form. The protein is described as periplasmic in E. coli (Gram-negative) and extracellular in Actinomadura R39 (Gram-positive). Unlike some other proteins with similar activity, it does not form transpeptidation. It is not essential for viability. This family is related to class A beta-lactamases.
Probab=56.64 E-value=9.3 Score=31.04 Aligned_cols=38 Identities=21% Similarity=-0.001 Sum_probs=32.1
Q ss_pred CcEEeecCCCcccchhhhhHHHHHHHHHhhcChHHHHH
Q psy8039 47 GQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQEEVHK 84 (105)
Q Consensus 47 G~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~ 84 (105)
|+.+..=+.+.+|.--|..|+|+-+.||+.+|.+.-|+
T Consensus 2 g~~l~~~n~~~~~~PAS~~KL~Tt~aAL~~LG~d~r~~ 39 (345)
T TIGR00666 2 SQPIYDYHGDTFMLPASTQKVITAAAALLQLGPQFRFT 39 (345)
T ss_pred CceeEEECCCcccCCcHHHHHHHHHHHHHhcCCCCcee
Confidence 55444446889999999999999999999999997665
No 26
>PRK09506 mrcB bifunctional glycosyl transferase/transpeptidase; Reviewed
Probab=56.54 E-value=14 Score=33.99 Aligned_cols=53 Identities=26% Similarity=0.355 Sum_probs=33.6
Q ss_pred CCcchhhhccC---CCCeEEEEEe-cCCcEEe-ecCC-----------CcccchhhhhHHHHHHHHHhh
Q psy8039 24 ADYIPQLARAD---PKYWGVSVCT-VDGQRYS-IGKT-----------NIPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 24 A~YIP~La~~d---p~~fgiai~t-vdG~~~~-~GD~-----------~~~FsiQSisK~f~~~lAL~~ 76 (105)
.+.++.|.+.. .-.-|+.+.+ .+|++.. +|-. +..+++-|+.|||+|+.||++
T Consensus 453 ~~~i~~l~~~~~~~~lqgA~Vv~D~~TGeIlAmvGG~~~~~~~fNRA~~a~rqPGStfKP~vyaaALe~ 521 (830)
T PRK09506 453 EEGIPALKKQRKLSDLETAMVVVDRFSGEVRAMVGGSEPQFAGYNRAMQARRSIGSLAKPATYLTALSQ 521 (830)
T ss_pred HHHHHhhhhcccccccceeEEEEECCCCcEEEEEeCCCccccccchhhcCccCCchHHHHHHHHHHHHc
Confidence 44556554321 1134555555 4888766 4522 235788999999999999996
No 27
>PRK10001 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional
Probab=56.24 E-value=12 Score=31.35 Aligned_cols=39 Identities=15% Similarity=0.115 Sum_probs=32.1
Q ss_pred EEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhc
Q psy8039 39 GVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEEL 77 (105)
Q Consensus 39 giai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~ 77 (105)
+|.+-...|+++-.=+.+.++++-|++|+++..++++.+
T Consensus 42 aiv~D~~TG~vL~~knad~~~~pAS~TKlMTa~v~~e~i 80 (400)
T PRK10001 42 WILMDYASGKVLAEGNADEKLDPASLTKIMTSYVVGQAL 80 (400)
T ss_pred EEEEECCCCcChhhcCcCCCcCchHHHHHHHHHHHHHHH
Confidence 344444679988888999999999999999999998743
No 28
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=54.33 E-value=16 Score=24.90 Aligned_cols=31 Identities=23% Similarity=0.396 Sum_probs=28.1
Q ss_pred CccCCcchhhhccCCCCeEEEEEecCCcEEe
Q psy8039 21 RQVADYIPQLARADPKYWGVSVCTVDGQRYS 51 (105)
Q Consensus 21 G~vA~YIP~La~~dp~~fgiai~tvdG~~~~ 51 (105)
-+.-+||=.|+-..-.+|||.-++.||++++
T Consensus 23 ~kpGsYiFRlSCTrLGQWAIGyV~~dg~I~Q 53 (86)
T PF02762_consen 23 DKPGSYIFRLSCTRLGQWAIGYVTQDGKILQ 53 (86)
T ss_dssp TSTTEEEEEEESSSTTSEEEEEEETTSEEEE
T ss_pred CCcccEEEeeccccccceeEEEEcCCCcEEE
Confidence 4567999999999999999999999999876
No 29
>PRK11397 dacD D-alanyl-D-alanine carboxypeptidase; Provisional
Probab=53.41 E-value=15 Score=30.72 Aligned_cols=33 Identities=18% Similarity=0.087 Sum_probs=29.0
Q ss_pred ecCCcEEeecCCCcccchhhhhHHHHHHHHHhh
Q psy8039 44 TVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 44 tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~ 76 (105)
...|+++-.=+.+.++++-|++|+++..++++.
T Consensus 44 ~~tG~vL~~kn~d~~~~pASlTKlMTa~lv~ea 76 (388)
T PRK11397 44 YTTGQILTAGNEHQQRNPASLTKLMTGYVVDRA 76 (388)
T ss_pred CCCCcChhhcCcCCCcCCHHHHHHHHHHHHHHH
Confidence 456888888999999999999999999998764
No 30
>TIGR02071 PBP_1b penicillin-binding protein 1B. Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of a particular bifunctional transglycosylase/transpeptidase in E. coli and other Proteobacteria, designated penicillin-binding protein 1B.
Probab=53.32 E-value=19 Score=32.37 Aligned_cols=40 Identities=25% Similarity=0.301 Sum_probs=28.3
Q ss_pred CeEEEEEe-cCCcEEe-ecCC-----------CcccchhhhhHHHHHHHHHhh
Q psy8039 37 YWGVSVCT-VDGQRYS-IGKT-----------NIPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 37 ~fgiai~t-vdG~~~~-~GD~-----------~~~FsiQSisK~f~~~lAL~~ 76 (105)
.-|+.+.+ .+|++.. +|.. +..++.-|+.|||+|+.||+.
T Consensus 405 ~gA~Vv~Dp~TGeIlAmvGg~~~~~~~~NrA~~a~rqpGStfKP~vyaaALe~ 457 (730)
T TIGR02071 405 EAAMVVTDRFTGEVRAMVGGSDPQFAGFNRALQARRQIGSLVKPAVYLTALSQ 457 (730)
T ss_pred ceeEEEEECCCCcEEEEEeCCCCCccchhhhhcCCcCCchHHHHHHHHHHHHc
Confidence 34544554 5788766 4522 235788899999999999997
No 31
>PRK10793 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional
Probab=46.94 E-value=28 Score=29.28 Aligned_cols=39 Identities=10% Similarity=0.030 Sum_probs=32.1
Q ss_pred EEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhc
Q psy8039 39 GVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEEL 77 (105)
Q Consensus 39 giai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~ 77 (105)
++.+-...|+++..=+.+.+.++-|++|+++..++++.+
T Consensus 49 ail~D~~tG~vL~~knad~~~~pASlTKlMTa~lvleai 87 (403)
T PRK10793 49 YILIDYNSGKVLAEQNADVRRDPASLTKMMTSYVIGQAM 87 (403)
T ss_pred EEEEECCCCcEehhcCcCCCcCCHHHHHHHHHHHHHHHH
Confidence 344444679999999999999999999999999977643
No 32
>PF00905 Transpeptidase: Penicillin binding protein transpeptidase domain; InterPro: IPR001460 This signature identifies a large group of proteins, which include: Beta-lactamase precursor (3.5.2.6 from EC, penicillinase) Peptidoglycan synthetase ftsI (2.4.1.129 from EC, peptidoglycan glycosyltransferase 3) Methicillin resistance mecR1 protein Methicillin resistance blaR1 protein The large number of penicillin binding proteins, which are represented in this group of sequences, are responsible for the final stages of peptidoglycan biosynthesis for cell wall formation. The proteins synthesise cross-linked peptidoglycan from lipid intermediates, and contain a penicillin-sensitive transpeptidase carboxy-terminal domain. The active site serine (residue 337 in P14677 from SWISSPROT) is conserved in all members of this family []. MecR1 and BlaR1 are metallopeptidases belonging to MEROPS peptidase family M56, clan M-. BlaR1 and MecR1 cleave their cognate transcriptional repressors BlaI and MecI, respectively, activating the synthesis of MecA. MecR1 is present in Staphylococcus aureus and Staphylococcus sciuri, whereas BlaR1 (also known as BlaR, PenR1, or PenJ) has been found in Bacillus licheniformis, Staphylococcus epidermidis, Staphylococcus haemolyticus, and several S. aureus strains. These proteins are either plasmid-encoded, chromosomal, or transposon-mediated. MecR1/BlaR1 proteins are made up by homologous N-terminal 330-residue transmembrane metallopeptidase domains linked to extracellular 260-residue homologous PBP-like penicillin sensor moieties. ; GO: 0008658 penicillin binding, 0009273 peptidoglycan-based cell wall biogenesis; PDB: 3FWL_A 3VMA_A 2Z2M_E 2Z2L_E 1QME_A 1RP5_B 2ZC4_E 2ZC3_E 1QMF_A 3HBR_A ....
Probab=45.37 E-value=18 Score=27.86 Aligned_cols=19 Identities=42% Similarity=0.296 Sum_probs=16.6
Q ss_pred ccchhhhhHHHHHHHHHhh
Q psy8039 58 PFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 58 ~FsiQSisK~f~~~lAL~~ 76 (105)
.++--|+-|||+++.||+.
T Consensus 41 ~~~pGStfKp~~~~aale~ 59 (304)
T PF00905_consen 41 QRQPGSTFKPFTAAAALES 59 (304)
T ss_dssp EBE-GGGGHHHHHHHHHHT
T ss_pred cccccceeHHHHHHHHhhc
Confidence 4888999999999999998
No 33
>PF06739 SBBP: Beta-propeller repeat; InterPro: IPR010620 This family is related to IPR001680 from INTERPRO and is likely to also form a beta-propeller. SBBP stands for Seven Bladed Beta Propeller.
Probab=44.46 E-value=37 Score=19.11 Aligned_cols=32 Identities=28% Similarity=0.445 Sum_probs=21.4
Q ss_pred hhhccCCCCeEEEE-EecCCcEEeecCCCc-ccc
Q psy8039 29 QLARADPKYWGVSV-CTVDGQRYSIGKTNI-PFT 60 (105)
Q Consensus 29 ~La~~dp~~fgiai-~tvdG~~~~~GD~~~-~Fs 60 (105)
+|........+-+| ++.+|.+|-+|.+.. .|+
T Consensus 5 ~lG~~~~~~~~~~IavD~~GNiYv~G~T~~~~fp 38 (38)
T PF06739_consen 5 QLGGPGAQDYGNGIAVDSNGNIYVTGYTNGNDFP 38 (38)
T ss_pred EeCCCCCceeEEEEEECCCCCEEEEEeecCCCCC
Confidence 34434444455555 468899999999887 664
No 34
>PRK11240 penicillin-binding protein 1C; Provisional
Probab=44.30 E-value=15 Score=33.39 Aligned_cols=41 Identities=22% Similarity=0.310 Sum_probs=27.7
Q ss_pred CeEEEEEe-cCCcEEe-ecCCC--------------cccchhhhhHHHHHHHHHhhcC
Q psy8039 37 YWGVSVCT-VDGQRYS-IGKTN--------------IPFTIQSCSKPLTYAIALEELD 78 (105)
Q Consensus 37 ~fgiai~t-vdG~~~~-~GD~~--------------~~FsiQSisK~f~~~lAL~~~G 78 (105)
.-|+.+++ .+|++.. +|-.+ ..++.-|+-|||+|+.||+. |
T Consensus 298 ~~A~vviD~~TG~VlAmvG~~d~~~~~~~~~~~~~~a~rqPGSt~KPfvYaaALd~-G 354 (772)
T PRK11240 298 SLAMIVVDHTDMAVRGWVGSVDLNDDSRFGHVDMVNAIRSPGSVLKPFVYGLALDD-G 354 (772)
T ss_pred eEEEEEEECCCCeEEEEEeCCCCCcccccchhhhhcCccCCHHHHHHHHHHHHHHC-C
Confidence 44555555 4677654 34221 24667799999999999997 5
No 35
>TIGR02214 spoVD_pbp stage V sporulation protein D. This model describes the spoVD subfamily of homologs of the cell division protein FtsI, a penicillin binding protein. This subfamily is restricted to Bacillus subtilis and related Gram-positive species with known or suspected endospore formation capability. In these species, the functional equivalent of FtsI is desginated PBP-2B, a paralog of spoVD.
Probab=43.38 E-value=54 Score=28.61 Aligned_cols=19 Identities=32% Similarity=0.305 Sum_probs=17.5
Q ss_pred ccchhhhhHHHHHHHHHhh
Q psy8039 58 PFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 58 ~FsiQSisK~f~~~lAL~~ 76 (105)
.|+--|+-|||+++.||+.
T Consensus 284 ~y~PGStfK~~t~~aaLe~ 302 (636)
T TIGR02214 284 AYEPGSTFKIITSSAAMEE 302 (636)
T ss_pred ccCCchHHHHHHHHHHHHc
Confidence 5888999999999999997
No 36
>PRK14850 penicillin-binding protein 1b; Provisional
Probab=41.35 E-value=18 Score=32.87 Aligned_cols=39 Identities=31% Similarity=0.451 Sum_probs=27.4
Q ss_pred eEEEEEe-cCCcEEe-ecCCC-----------cccchhhhhHHHHHHHHHhh
Q psy8039 38 WGVSVCT-VDGQRYS-IGKTN-----------IPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 38 fgiai~t-vdG~~~~-~GD~~-----------~~FsiQSisK~f~~~lAL~~ 76 (105)
-|+.+.+ .+|++.. +|..+ ..+++-|..|||+|+.||++
T Consensus 416 gA~Vv~Dp~TGeIlAmVGg~d~~~~~~NrA~~a~rqPGStfKP~vyaaALe~ 467 (764)
T PRK14850 416 VAMVIIDRFSGEVRALIGSSKPEFNGYNRALKARRSIGSLSKPITYLTALSQ 467 (764)
T ss_pred eeEEEEECCCCcEEEEEECCCCCccccchhhcCccCChHHHHHHHHHHHHHc
Confidence 3444444 5788766 45322 24688899999999999996
No 37
>TIGR02074 PBP_1a_fam penicillin-binding protein, 1A family. Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of bifunctional transglycosylase/transpeptidase penicillin-binding proteins (PBP). In the Proteobacteria, this family includes PBP 1A but not the paralogous PBP 1B (TIGR02071). This family also includes related proteins, often designated PBP 1A, from other bacterial lineages.
Probab=39.45 E-value=19 Score=30.87 Aligned_cols=40 Identities=25% Similarity=0.241 Sum_probs=27.7
Q ss_pred CeEEEEEe-cCCcEEee-cCC-----------CcccchhhhhHHHHHHHHHhh
Q psy8039 37 YWGVSVCT-VDGQRYSI-GKT-----------NIPFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 37 ~fgiai~t-vdG~~~~~-GD~-----------~~~FsiQSisK~f~~~lAL~~ 76 (105)
.-++.+.+ .+|++.+. |-. ...|+.-|+-|||+|+.||+.
T Consensus 256 ~~a~Vv~d~~TG~IlAmvg~~~~~~~~~Nra~~~~~~PGStfKp~~~aaALe~ 308 (530)
T TIGR02074 256 QAALVAIDPDTGAVRALVGGRDYGESQFNRATQAKRQPGSTFKPFVYAAALEK 308 (530)
T ss_pred ceeEEEEECCCCeEEEEEeCCCCCccccchhhhCCCCCchHHHHHHHHHHHHc
Confidence 44555555 45887763 321 234788899999999999997
No 38
>PF13540 RCC1_2: Regulator of chromosome condensation (RCC1) repeat; PDB: 3QI0_D 1JTD_B 3QHY_B.
Probab=38.94 E-value=36 Score=18.01 Aligned_cols=16 Identities=38% Similarity=0.598 Sum_probs=10.3
Q ss_pred EEEecCCcEEeecCCC
Q psy8039 41 SVCTVDGQRYSIGKTN 56 (105)
Q Consensus 41 ai~tvdG~~~~~GD~~ 56 (105)
++.+.||++|+.|+..
T Consensus 12 ~al~~~g~v~~wG~n~ 27 (30)
T PF13540_consen 12 CALTSDGEVYCWGDNN 27 (30)
T ss_dssp EEEE-TTEEEEEE--T
T ss_pred EEEEcCCCEEEEcCCc
Confidence 4456799999999764
No 39
>COG4953 PbpC Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]
Probab=35.80 E-value=15 Score=33.52 Aligned_cols=14 Identities=36% Similarity=0.769 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHhh
Q psy8039 63 SCSKPLTYAIALEE 76 (105)
Q Consensus 63 SisK~f~~~lAL~~ 76 (105)
|.=|||+|+||+++
T Consensus 337 StLKPFiY~LA~D~ 350 (733)
T COG4953 337 STLKPFVYGLAFDQ 350 (733)
T ss_pred cccchhhhhhhhcc
No 40
>COG1706 FlgI Flagellar basal-body P-ring protein [Cell motility and secretion]
Probab=31.99 E-value=34 Score=28.95 Aligned_cols=42 Identities=36% Similarity=0.510 Sum_probs=29.3
Q ss_pred cCCcchhhhcc----CCCCeEEEEE-ecCCcEEeecC--CCcccchhhhhHHH
Q psy8039 23 VADYIPQLARA----DPKYWGVSVC-TVDGQRYSIGK--TNIPFTIQSCSKPL 68 (105)
Q Consensus 23 vA~YIP~La~~----dp~~fgiai~-tvdG~~~~~GD--~~~~FsiQSisK~f 68 (105)
.|.-|-.+|.+ |-.++|..++ -.||. || ...+|+.||+.+.+
T Consensus 21 ~a~rIKDiasiqgvRdNqLiGYGLVVGL~Gt----GD~~~~spfT~QSi~nML 69 (365)
T COG1706 21 QAERIKDIASIQGVRDNQLIGYGLVVGLDGT----GDQLTQSPFTKQSINNML 69 (365)
T ss_pred hhhhhhhheeeecccccceEEEEEEEecccc----CCcccCCcchHHHHHHHH
Confidence 34455555544 3457777766 57887 99 68999999998863
No 41
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=31.47 E-value=66 Score=23.00 Aligned_cols=37 Identities=11% Similarity=0.271 Sum_probs=29.4
Q ss_pred cchhhhccCCCCeEEEEEecCCcEEeecCCCcccchh
Q psy8039 26 YIPQLARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQ 62 (105)
Q Consensus 26 YIP~La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQ 62 (105)
|-|++.-++|..||+.++..+|+.--..|.+.|--+|
T Consensus 59 Fk~d~~~~s~p~FALYevh~nGe~RKL~d~E~PL~~R 95 (112)
T cd01782 59 FRPDMRMLSNPTYSLYEVHENGEERRLLDDEKPLVVQ 95 (112)
T ss_pred hcccccccCCcceEEEEEecCCceEEcCCcCCCeEEe
Confidence 4566666777799999999999988899988875443
No 42
>PRK11636 mrcA penicillin-binding protein 1a; Provisional
Probab=31.47 E-value=87 Score=28.92 Aligned_cols=20 Identities=25% Similarity=0.393 Sum_probs=17.5
Q ss_pred ccchhhhhHHHHHHHHHhhcC
Q psy8039 58 PFTIQSCSKPLTYAIALEELD 78 (105)
Q Consensus 58 ~FsiQSisK~f~~~lAL~~~G 78 (105)
.+..-|+-|||+|+.||+. |
T Consensus 460 ~rqPGStfKPfvyaaALe~-G 479 (850)
T PRK11636 460 LRQVGSNIKPFLYTAAMDK-G 479 (850)
T ss_pred ccCChHHHHHHHHHHHHHC-C
Confidence 4677899999999999986 5
No 43
>PRK15105 peptidoglycan synthase FtsI; Provisional
Probab=28.16 E-value=1.3e+02 Score=26.17 Aligned_cols=19 Identities=32% Similarity=0.385 Sum_probs=17.2
Q ss_pred ccchhhhhHHHHHHHHHhh
Q psy8039 58 PFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 58 ~FsiQSisK~f~~~lAL~~ 76 (105)
.|+--|+-|||+++.||+.
T Consensus 301 ~y~PGStfK~it~aaaLe~ 319 (578)
T PRK15105 301 VFEPGSTVKPMVVMTALQR 319 (578)
T ss_pred eeCChHHHHHHHHHHHHHc
Confidence 5788899999999999986
No 44
>PF07930 DAP_B: D-aminopeptidase, domain B; InterPro: IPR012856 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) [, ]. D-aminopeptidase (Q9ZBA9 from SWISSPROT) is a dimeric enzyme with each monomer being composed of three domains. Domain B is organised to form a beta barrel made up of eight antiparallel beta strands. It is connected to domain A, the catalytic domain, by an eight-residue sequence, and also interacts with both domains A and C via non-covalent bonds. Domain B probably functions in maintaining domain C in a good position to interact with the catalytic domain []. This domain is found in peptidases that belong to MEROPS peptidase family S12 (D-Ala-D-Ala carboxypeptidase B family, clan ME).; GO: 0004177 aminopeptidase activity; PDB: 1EI5_A.
Probab=27.48 E-value=38 Score=23.29 Aligned_cols=29 Identities=21% Similarity=0.362 Sum_probs=13.2
Q ss_pred hhhhccCCCCeEEEEEecCCcEEeecCCC
Q psy8039 28 PQLARADPKYWGVSVCTVDGQRYSIGKTN 56 (105)
Q Consensus 28 P~La~~dp~~fgiai~tvdG~~~~~GD~~ 56 (105)
|.+++++|.|||.-+..--|=..++.|..
T Consensus 4 ~~~v~a~~~W~G~wLD~etgL~l~i~~~~ 32 (88)
T PF07930_consen 4 PTRVQASPAWFGSWLDPETGLVLRIEDAG 32 (88)
T ss_dssp -------GGG-EEEE-TTT--EEEEEE-S
T ss_pred cEeccCCCCcceeeEcCCCceEEEeecCC
Confidence 67889999999999887777666666543
No 45
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=27.05 E-value=47 Score=24.18 Aligned_cols=25 Identities=16% Similarity=0.353 Sum_probs=20.0
Q ss_pred chhhhhHHHHHHHHHhhcChHHHHHh
Q psy8039 60 TIQSCSKPLTYAIALEELDQEEVHKY 85 (105)
Q Consensus 60 siQSisK~f~~~lAL~~~G~e~V~~~ 85 (105)
|.||+.|+-.||+=..+++. .+|.-
T Consensus 20 S~qSi~kaa~fAlk~~~~~e-dL~~c 44 (139)
T PF12243_consen 20 SQQSIQKAAQFALKNRDMEE-DLWSC 44 (139)
T ss_pred hHHHHHHHHHHHHHccccHH-HHHHH
Confidence 68999999999998877774 46653
No 46
>KOG1785|consensus
Probab=27.00 E-value=54 Score=28.72 Aligned_cols=31 Identities=23% Similarity=0.437 Sum_probs=28.3
Q ss_pred CccCCcchhhhccCCCCeEEEEEecCCcEEe
Q psy8039 21 RQVADYIPQLARADPKYWGVSVCTVDGQRYS 51 (105)
Q Consensus 21 G~vA~YIP~La~~dp~~fgiai~tvdG~~~~ 51 (105)
-|.-+||=.|+-..+.+|||.-++.||.+++
T Consensus 277 ~KpGSYIFRlSCTRlGQWAIGYVt~dG~IlQ 307 (563)
T KOG1785|consen 277 KKPGSYIFRLSCTRLGQWAIGYVTADGNILQ 307 (563)
T ss_pred cCCCceEEeeccCcccceeEEEEcCCCceee
Confidence 4567999999999999999999999999876
No 47
>PF14728 PHTB1_C: PTHB1 C-terminus
Probab=26.62 E-value=2.4e+02 Score=23.60 Aligned_cols=71 Identities=23% Similarity=0.282 Sum_probs=43.4
Q ss_pred cCCcchhhhc--cCCCCeEEEEEecCCcEEee--cCCCcccchhhhhHHHHHHHHHhhcChHHHHHhhCCCCCCCCC
Q psy8039 23 VADYIPQLAR--ADPKYWGVSVCTVDGQRYSI--GKTNIPFTIQSCSKPLTYAIALEELDQEEVHKYVGQEPSGRNF 95 (105)
Q Consensus 23 vA~YIP~La~--~dp~~fgiai~tvdG~~~~~--GD~~~~FsiQSisK~f~~~lAL~~~G~e~V~~~VG~EPSG~~F 95 (105)
.++-.|++.. .+++.+|+.....+|.+.++ .-...+|.|||=+ .=.+.+.++++ ..++.++.+..-..++|
T Consensus 115 L~~lFpdf~~~~~~~nalgfq~~~~~g~~VTIlask~s~RYRIQSd~-~e~l~lv~~eL-i~Rl~~~~~~~~~~~~~ 189 (377)
T PF14728_consen 115 LSDLFPDFLEEDSQSNALGFQYLNGSGSVVTILASKTSNRYRIQSDS-FEALWLVLEEL-IRRLKEHFPKQGVKDRF 189 (377)
T ss_pred HHHHhhHhhccCCCCcEEEEEEeecCCceEEEEEecCCcEEEEEcCC-HhHHHHHHHHH-HHHHHHhccccCcccce
Confidence 3445577663 45566777666666886664 7777899999944 44444554443 35566665554444444
No 48
>COG0595 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]
Probab=25.30 E-value=57 Score=28.81 Aligned_cols=25 Identities=20% Similarity=0.287 Sum_probs=22.9
Q ss_pred CCCeEEEEEecCCcEEeecCCCccc
Q psy8039 35 PKYWGVSVCTVDGQRYSIGKTNIPF 59 (105)
Q Consensus 35 p~~fgiai~tvdG~~~~~GD~~~~F 59 (105)
|+.+|++|-|.+|.+...||+...+
T Consensus 147 Pds~g~~i~Tp~G~Iv~TGDFk~d~ 171 (555)
T COG0595 147 PDSLGIVIKTPEGNIVYTGDFKFDP 171 (555)
T ss_pred ccceEEEEECCCccEEEeCCEEecC
Confidence 8999999999999999999998655
No 49
>KOG3003|consensus
Probab=25.29 E-value=76 Score=25.39 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=16.8
Q ss_pred hcChHHHHHhhCC---CCCCCCCcee
Q psy8039 76 ELDQEEVHKYVGQ---EPSGRNFNEL 98 (105)
Q Consensus 76 ~~G~e~V~~~VG~---EPSG~~FNSi 98 (105)
.--...||.+-|. +|.|++|+.-
T Consensus 164 e~ql~~vf~KhGLekldPigekFDPn 189 (236)
T KOG3003|consen 164 EAQLKEVFAKHGLEKLDPIGEKFDPN 189 (236)
T ss_pred HHHHHHHHHHcCceecCCCCCCCCcc
Confidence 3344578888886 5899999863
No 50
>TIGR03423 pbp2_mrdA penicillin-binding protein 2. Members of this protein family are penicillin-binding protein 2 (PBP-2), a protein whose gene (designated pbpA or mrdA) generally is found next to the gene for RodA, a protein required for rod (bacillus) shape in many bacteria. PBP-2 acts as a transpeptidase for cell elongation (hence, rod-shape).
Probab=22.78 E-value=54 Score=28.34 Aligned_cols=19 Identities=37% Similarity=0.368 Sum_probs=17.4
Q ss_pred ccchhhhhHHHHHHHHHhh
Q psy8039 58 PFTIQSCSKPLTYAIALEE 76 (105)
Q Consensus 58 ~FsiQSisK~f~~~lAL~~ 76 (105)
.|+.-|+-|||+++.||+.
T Consensus 303 ~~~PGStfKp~t~aaaLe~ 321 (592)
T TIGR03423 303 VYPPGSTFKPFVALAALEE 321 (592)
T ss_pred ccCCccHHHHHHHHHHHHc
Confidence 5888999999999999987
No 51
>TIGR01961 NuoC_fam NADH (or F420H2) dehydrogenase, subunit C. This model describes the C subunit of the NADH dehydrogenase complex I in bacteria, as well as many instances of the corresponding mitochondrial subunit (NADH dehydrogenase subunit 9) and of the F420H2 dehydrogenase in Methanosarcina. Complex I contains subunits designated A-N. This C subunit often occurs as a fusion protein with the D subunit. This model excludes the NAD(P)H and plastoquinone-dependent form of chloroplasts and
Probab=22.55 E-value=49 Score=22.58 Aligned_cols=30 Identities=20% Similarity=0.113 Sum_probs=26.3
Q ss_pred hhhhhHHHHHHHHHhhcChHHHHHhhCCCCCCCC
Q psy8039 61 IQSCSKPLTYAIALEELDQEEVHKYVGQEPSGRN 94 (105)
Q Consensus 61 iQSisK~f~~~lAL~~~G~e~V~~~VG~EPSG~~ 94 (105)
+.||+.++--|.-.|. ++++-.|+++.|-|
T Consensus 68 ipSis~i~p~A~~~ER----Ei~DmfGi~f~Ghp 97 (121)
T TIGR01961 68 VPSLTSVFPTANWYER----ETYDMYGIVFDGHP 97 (121)
T ss_pred CCchHHhhhcccHHHH----HHHhhcCcEeCCCC
Confidence 9999999988877764 59999999999986
No 52
>TIGR02934 nifT_nitrog probable nitrogen fixation protein FixT. This largely uncharacterized protein family is assigned a role in nitrogen fixation by two criteria. First, its gene occurs, generally, among genes essential for expression of active nitrogenase. Second, its phylogenetic profile closely matches that of nitrogen-fixing bacteria. However, mutational studies in Klebsiella pneumoniae failed to demonstrate any phenotype for deletion or overexpression of the protein.
Probab=22.32 E-value=91 Score=20.32 Aligned_cols=46 Identities=17% Similarity=0.385 Sum_probs=33.0
Q ss_pred ccCCCCccCCcchh-------hhccCCCCeEEEEEecCCcEEeecCC--Ccccch
Q psy8039 16 VQLFLRQVADYIPQ-------LARADPKYWGVSVCTVDGQRYSIGKT--NIPFTI 61 (105)
Q Consensus 16 ~~~~~G~vA~YIP~-------La~~dp~~fgiai~tvdG~~~~~GD~--~~~Fsi 61 (105)
+.+..|+..-|||. .+..+|+.||=.|.-.||-+|.+=+- +.+|||
T Consensus 6 R~~~~g~l~~YvpKKDLEE~Vv~~e~~~~WGG~v~L~NGw~l~lp~l~~~~~LPi 60 (67)
T TIGR02934 6 RRNRAGELSAYVPKKDLEEVIVSVEKEELWGGWVTLANGWRLELPEIPDDTRLPI 60 (67)
T ss_pred EeCCCCCEEEEEECCcchhheeeeecCccccCEEEECCccEEEeCCCCCCCCCCE
Confidence 44566888888884 23347999999999999998887543 355554
No 53
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=21.96 E-value=93 Score=21.28 Aligned_cols=27 Identities=11% Similarity=0.378 Sum_probs=23.5
Q ss_pred cCCCCeEEEEEecCCcEEeecCCCccc
Q psy8039 33 ADPKYWGVSVCTVDGQRYSIGKTNIPF 59 (105)
Q Consensus 33 ~dp~~fgiai~tvdG~~~~~GD~~~~F 59 (105)
-+|+.||+.++...|+.--.-|.+.|-
T Consensus 40 ~~p~~FALy~vh~~Ge~rkL~d~E~PL 66 (87)
T cd01784 40 NSAEEFALYIVHTSGEKRKLKATDYPL 66 (87)
T ss_pred CCHHHeEEEEEeeCCCEEECCCcCCCe
Confidence 369999999999999988888888774
No 54
>PF09508 Lact_bio_phlase: Lacto-N-biose phosphorylase; InterPro: IPR012711 The gene which codes for this protein in gut-bacteria is located in a novel putative operon for galactose metabolism. The protein appears to be a carbohydrate-processing phosphorolytic enzyme (2.4.1.211 from EC), unlike either glycoside hydrolases or glycoside lyase. Intestinal colonisation by Bifidobacteria is important for human health, especially in paediatrics, because colonisation seems to prevent infection by some pathogenic bacteria that cause diarrhoea or other illnesses. The operon seems to be involved in intestinal colonisation by Bifidobacteria mediated by metabolism of mucin sugars. In addition, it may also resolve the question of the nature of the bifidus factor in human milk as the lacto-N-biose structure found in milk oligosaccharides. ; GO: 0016758 transferase activity, transferring hexosyl groups; PDB: 2ZUW_A 2ZUU_C 2ZUT_D 2ZUV_A 2ZUS_B.
Probab=20.81 E-value=36 Score=31.08 Aligned_cols=19 Identities=37% Similarity=0.803 Sum_probs=13.6
Q ss_pred HhhCCCCCCCCCceeeecc
Q psy8039 84 KYVGQEPSGRNFNELILDH 102 (105)
Q Consensus 84 ~~VG~EPSG~~FNSi~le~ 102 (105)
.+||+||-|+.|-+|-||.
T Consensus 310 ~WIGtEPyg~~F~~iGlDa 328 (716)
T PF09508_consen 310 HWIGTEPYGKYFKSIGLDA 328 (716)
T ss_dssp SBTTT-TTSTTGGGG---E
T ss_pred ceeecccchhhhhhcCcce
Confidence 5899999999999998874
No 55
>PF06290 PsiB: Plasmid SOS inhibition protein (PsiB); InterPro: IPR009385 This family consists of several plasmid SOS inhibition protein (PsiB) sequences [].; PDB: 3NCT_B.
Probab=20.30 E-value=1.6e+02 Score=21.93 Aligned_cols=49 Identities=14% Similarity=0.264 Sum_probs=35.4
Q ss_pred hhccCCCCeEEEEEecCCcEEeecCCCcccchhhhhHHHHHHHHHhhcCh
Q psy8039 30 LARADPKYWGVSVCTVDGQRYSIGKTNIPFTIQSCSKPLTYAIALEELDQ 79 (105)
Q Consensus 30 La~~dp~~fgiai~tvdG~~~~~GD~~~~FsiQSisK~f~~~lAL~~~G~ 79 (105)
-.++.|.|+ +.+.+.+|+.++.=-....|+-.-|+-.+.++--|...|-
T Consensus 80 pG~~sp~W~-~vl~~~~G~~~~vv~t~~~f~PE~I~h~L~lva~ld~~Gy 128 (143)
T PF06290_consen 80 PGEVSPYWM-LVLVNRGGQPFAVVRTQDRFEPETINHTLALVAGLDRDGY 128 (143)
T ss_dssp SSSS-SSEE-EEEEECCC-SEEEEEEESS--HHHHHHHHHHHHHHHHTT-
T ss_pred CCCcCcceE-EEEECCCCcEEEEEEecCccCHHHHHHHHHHHHhHhhcCC
Confidence 345566666 7778889998887778889999999999999888887763
No 56
>PRK15368 pathogenicity island chaperone protein SpiC; Provisional
Probab=20.13 E-value=1.1e+02 Score=22.30 Aligned_cols=59 Identities=22% Similarity=0.209 Sum_probs=42.0
Q ss_pred cchhhhccCCCCeE-EEEEecCCcEEeecCCCcccch-------hhhhHHHHHHHHHhhcChHHHHH
Q psy8039 26 YIPQLARADPKYWG-VSVCTVDGQRYSIGKTNIPFTI-------QSCSKPLTYAIALEELDQEEVHK 84 (105)
Q Consensus 26 YIP~La~~dp~~fg-iai~tvdG~~~~~GD~~~~Fsi-------QSisK~f~~~lAL~~~G~e~V~~ 84 (105)
-+|-+..++-+.-+ +...+.||.-..+=|..+.|+| .++|++-..=+.|...+.+.++.
T Consensus 7 ~~pli~dI~lsd~~~~~~~~lngiPAr~~~~~hS~~i~if~~e~k~isd~~i~YITLmLaA~~d~hD 73 (127)
T PRK15368 7 GIPLIQDIKAEGNSRSWIMTIDGHPARGEIFSEAFSISLFLNDLESLPKPCLAYVTLLLAAHPDVHD 73 (127)
T ss_pred CCchhhhccccCCCcEEEEEECCCcchheeeeccEEEEEEEeehhcCcHHHHHHHHHHHHhCCCchh
Confidence 36778888888777 8899999988888888888876 46777655444444444444544
Done!