Citrus Sinensis ID: 043749

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-----
Protein Sequence
MSPSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIPIL
Secondary Structure (PSIPRED)
ccccccccEEccccEEEEcccccccccccccccEEEEccccccHHHHHHHHcccccHHHHHHHcccccccEEEEEEEEEccccccccccEEEEEEccccHHHHHHHHcccccccccccEEEEccc
Secondary Structure Prediction (SSPRO)
ccccccccEcccccEEEEcEEccccccccccccEEEEEcccccHHHHHHHHcccccHHHHHHHcccccccEEEEEcccEEcccccccccEEEEEEccccHccHHHHccccccccccccEEEEccc
Coil and Loop (DISEMBL)
mspslgnqilgtkslvkvpiscpcidgikrsesttnnvwpadtIDSILNEFGGlvsaeqinstngsnyptSLMIMLSCtcfnngnngvtsVYKSKFWVMMAELVAtnglsqsvvdpidilaipil
Flexible Loop (DISEMBL)
mspslgnqilgtkslvkvPISCPCIDgikrsesttnnvWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVatnglsqsvvdpidILAIPIL
Low Complexity Region (SEG)
MSPSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIPIL
Disordered region (IsUnstruct)
********ILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIP**
Disordered Region (DISOPRED)
******N*ILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIPIL
Disordered Region (DISEMBL)
MSPSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIPIL
Disordered Region (DISPRO)
*****GNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIPIL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSPSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVATNGLSQSVVDPIDILAIPIL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	125	2.2.26 [Sep-21-2011]
Q93ZH0	416	LysM domain-containing GP	yes	no	0.976	0.293	0.370	6e-18
Q6NPN4	423	LysM domain-containing GP	no	no	0.984	0.290	0.333	3e-15

>sp|Q93ZH0|LYM1_ARATH LysM domain-containing GPI-anchored protein 1 OS=Arabidopsis thaliana GN=LYM1 PE=1 SV=1

 Score = 89.4 bits (220), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 53/143 (37%), Positives = 77/143 (53%), Gaps = 21/143 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + N IL +K  +K+PI+C C+DGI++S ST     P+D + SI +  +GGLVSAEQI 
Sbjct: 79  PDVENHILPSKLFLKIPITCSCVDGIRKSVSTHYKTRPSDNLGSIADSVYGGLVSAEQIQ 138

Query: 62  STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N  N P      TSL+I L C CFN  +N + +VY S              ++   + 
Sbjct: 139 EANSVNDPSLLDVGTSLVIPLPCACFNGTDNSLPAVYLSYVVKEIDTLVGIARRYSTTIT 198

Query: 102 ELVATNGLSQSVVDPIDILAIPI 124
           +L+  N +    V   DILA+P+
Sbjct: 199 DLMNVNAMGAPDVSSGDILAVPL 221

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NPN4|LYM3_ARATH LysM domain-containing GPI-anchored protein 2 OS=Arabidopsis thaliana GN=LYM3 PE=1 SV=1

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/144 (33%), Positives = 74/144 (51%), Gaps = 21/144 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + N +L  K  +K+PI+C C+DGI++S ST      +DT+ SI +  +GGLVS EQI 
Sbjct: 76  PDVENHVLPAKLFLKIPITCSCVDGIRKSLSTHYKTRTSDTLGSIADSVYGGLVSPEQIQ 135

Query: 62  STNGS------NYPTSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N        +  T L+I L C CFN  +  + ++Y S              +F   + 
Sbjct: 136 VANSETDLSVLDVGTKLVIPLPCACFNGTDESLPALYLSYVVRGIDTMAGIAKRFSTSVT 195

Query: 102 ELVATNGLSQSVVDPIDILAIPIL 125
           +L   N +    ++P DILA+P+L
Sbjct: 196 DLTNVNAMGAPDINPGDILAVPLL 219

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	125
225455922	408	PREDICTED: lysM domain-containing GPI-an	0.976	0.299	0.517	4e-28
255585434	405	LysM domain GPI-anchored protein 1 precu	0.976	0.301	0.5	3e-26
356527809	328	PREDICTED: lysM domain-containing GPI-an	0.992	0.378	0.465	2e-24
147767409	211	hypothetical protein VITISV_014762 [Viti	0.888	0.526	0.482	1e-23
388500350	226	unknown [Lotus japonicus]	0.888	0.491	0.450	4e-20
297845178	417	peptidoglycan-binding LysM domain-contai	0.976	0.292	0.370	2e-16
18395044	416	LysM domain-containing GPI-anchored prot	0.976	0.293	0.370	3e-16
388515603	412	unknown [Medicago truncatula]	0.976	0.296	0.342	3e-16
357461525	412	LysM domain-containing GPI-anchored prot	0.976	0.296	0.342	3e-16
30687570	316	LysM domain-containing GPI-anchored prot	0.976	0.386	0.370	3e-16

>gi|225455922|ref|XP_002276124.1| PREDICTED: lysM domain-containing GPI-anchored protein 1-like [Vitis vinifera]

 Score =  128 bits (322), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 72/139 (51%), Positives = 88/139 (63%), Gaps = 17/139 (12%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS 62
           PS  +QI+  KSLVKVPI CPC+DGI+RS STT  V  ADT+D I   +GGLVSA+QI S
Sbjct: 82  PSSASQIIPAKSLVKVPILCPCVDGIRRSLSTTYTVKAADTMDLISEGYGGLVSADQIRS 141

Query: 63  TN---GSNYPTSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMAELVA 105
            N   G+ Y  SL+I L CTCF N NNG T+VY S              ++   + +L A
Sbjct: 142 VNGGKGAGYGQSLVIPLPCTCFGNTNNGATAVYMSYVVQRGESLGSIGARYHTTVTDLAA 201

Query: 106 TNGLSQSVVDPIDILAIPI 124
            NGL Q V++P DILAIPI
Sbjct: 202 VNGLGQPVINPGDILAIPI 220

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255585434|ref|XP_002533411.1| LysM domain GPI-anchored protein 1 precursor, putative [Ricinus communis] gi|223526740|gb|EEF28969.1| LysM domain GPI-anchored protein 1 precursor, putative [Ricinus communis]

 Score =  122 bits (305), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 71/142 (50%), Positives = 86/142 (60%), Gaps = 20/142 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS 62
           PS+ NQIL   SLVK+PISCPC++GI+R  ST+  V PADT+DSI   FGGLVS EQI S
Sbjct: 78  PSINNQILHANSLVKIPISCPCVEGIRRLMSTSYTVKPADTVDSISLGFGGLVSGEQITS 137

Query: 63  TNGSNYPTSLM------IMLSCTCFNNGNNGVTSVYKS--------------KFWVMMAE 102
           TNG N    LM      I L C+CF+N +NGV +VY S              +F   + +
Sbjct: 138 TNGINANNPLMIGQKLVIPLPCSCFDNNDNGVAAVYMSYVVQNGESLEKIAMEFDTTVLD 197

Query: 103 LVATNGLSQSVVDPIDILAIPI 124
           L   NG  Q  VDP DILA+PI
Sbjct: 198 LENVNGFGQPQVDPGDILAVPI 219

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527809|ref|XP_003532499.1| PREDICTED: lysM domain-containing GPI-anchored protein 2-like [Glycine max]

 Score =  116 bits (290), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 67/144 (46%), Positives = 87/144 (60%), Gaps = 20/144 (13%)

Query: 1   MSPSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQ- 59
           ++PS  +QIL  KS VK+PISC C+DGI+RS ST   V  ADT+ SI   +GGLVSAEQ 
Sbjct: 78  ITPSSAHQILSAKSQVKIPISCSCVDGIRRSMSTIYTVHAADTLASISEGYGGLVSAEQI 137

Query: 60  -----INSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMM 100
                IN+TN   Y  +L+I L CTCF+N NNG  ++Y S              KF   +
Sbjct: 138 KIVNAINATNPLTYRGTLVIPLPCTCFDNVNNGGNAIYMSYVVQRRESLGSIATKFGTTV 197

Query: 101 AELVATNGLSQSVVDPIDILAIPI 124
           ++L   NG  ++ VDP DIL+IPI
Sbjct: 198 SDLETVNGFGEATVDPGDILSIPI 221

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147767409|emb|CAN77911.1| hypothetical protein VITISV_014762 [Vitis vinifera]

 Score =  113 bits (283), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 67/139 (48%), Positives = 81/139 (58%), Gaps = 28/139 (20%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS 62
           PS  +QI+  KSLVKVPI CPC+DGI+RS STT               +GGLVSA+QI S
Sbjct: 82  PSSASQIIPAKSLVKVPILCPCVDGIRRSLSTTYT-----------RGYGGLVSADQIRS 130

Query: 63  TN---GSNYPTSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMAELVA 105
            N   G+ Y  SL+I L CTCF N NNG T+VY S              ++   + +L A
Sbjct: 131 VNGGKGAGYGQSLVIPLPCTCFGNTNNGATAVYMSYVVQRGESLGSIGARYRTTVTDLAA 190

Query: 106 TNGLSQSVVDPIDILAIPI 124
            NGL Q V+DP DILAIPI
Sbjct: 191 VNGLGQLVIDPGDILAIPI 209

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500350|gb|AFK38241.1| unknown [Lotus japonicus]

 Score =  102 bits (253), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 59/131 (45%), Positives = 78/131 (59%), Gaps = 20/131 (15%)

Query: 1   MSPSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQ- 59
           ++PS G+QIL  KS+VK+P SCPC+DGI+RS ST  NV  +DT+ SI   +GGLV AEQ 
Sbjct: 76  ITPSSGHQILSAKSIVKIPFSCPCVDGIRRSISTIYNVEASDTLASISEGYGGLVGAEQI 135

Query: 60  -----INSTNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKSK--------------FWVMM 100
                IN TN   Y +S++I L C C NN NNG T+VY S               +   +
Sbjct: 136 KTMNSINETNPLTYGSSIVIPLPCKCLNNVNNGDTTVYMSYVVQKGQSLGSIATMYGTTV 195

Query: 101 AELVATNGLSQ 111
           ++L + NGL Q
Sbjct: 196 SDLESVNGLGQ 206

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297845178|ref|XP_002890470.1| peptidoglycan-binding LysM domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297336312|gb|EFH66729.1| peptidoglycan-binding LysM domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 53/143 (37%), Positives = 77/143 (53%), Gaps = 21/143 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + N IL +K  +K+PI+C C+DGI++S ST     P+D + SI +  +GGLVSAEQI 
Sbjct: 79  PDVENHILPSKLFLKIPITCSCVDGIRKSVSTHYKTRPSDNLGSIADSVYGGLVSAEQIQ 138

Query: 62  STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N  N P      TSL+I L C CFN  +N + +VY S              ++   + 
Sbjct: 139 EANSVNDPSLLDVGTSLVIPLPCACFNGTDNSLPAVYMSYVVREIDTLVGIARRYSTTIT 198

Query: 102 ELVATNGLSQSVVDPIDILAIPI 124
           +L+  N +    V   DILA+P+
Sbjct: 199 DLMNVNAMGAPDVSSGDILAVPL 221

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18395044|ref|NP_564153.1| LysM domain-containing GPI-anchored protein 1 [Arabidopsis thaliana] gi|38258218|sp|Q93ZH0.1|LYM1_ARATH RecName: Full=LysM domain-containing GPI-anchored protein 1; Flags: Precursor gi|15982870|gb|AAL09782.1| At1g21880/T26F17_5 [Arabidopsis thaliana] gi|53749174|gb|AAU90072.1| At1g21880 [Arabidopsis thaliana] gi|332192047|gb|AEE30168.1| LysM domain-containing GPI-anchored protein 1 [Arabidopsis thaliana]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/143 (37%), Positives = 77/143 (53%), Gaps = 21/143 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + N IL +K  +K+PI+C C+DGI++S ST     P+D + SI +  +GGLVSAEQI 
Sbjct: 79  PDVENHILPSKLFLKIPITCSCVDGIRKSVSTHYKTRPSDNLGSIADSVYGGLVSAEQIQ 138

Query: 62  STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N  N P      TSL+I L C CFN  +N + +VY S              ++   + 
Sbjct: 139 EANSVNDPSLLDVGTSLVIPLPCACFNGTDNSLPAVYLSYVVKEIDTLVGIARRYSTTIT 198

Query: 102 ELVATNGLSQSVVDPIDILAIPI 124
           +L+  N +    V   DILA+P+
Sbjct: 199 DLMNVNAMGAPDVSSGDILAVPL 221

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388515603|gb|AFK45863.1| unknown [Medicago truncatula]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/143 (34%), Positives = 80/143 (55%), Gaps = 21/143 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + + IL +K  +K+PI C CIDGI++S ST   + P+DT+ SI +  +GGLVS++Q+ 
Sbjct: 73  PDVEHHILPSKLYLKIPIQCSCIDGIRKSVSTNYKIRPSDTLSSIADSIYGGLVSSDQLR 132

Query: 62  STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N    P       +L++ L CTCFN  +NG+ ++Y S              +++  + 
Sbjct: 133 EANSVTDPNVLDVGQNLVVPLPCTCFNGSDNGLPAIYMSYVVQPLDSLNNIAARYFTTLT 192

Query: 102 ELVATNGLSQSVVDPIDILAIPI 124
           +L+  N +  + +   DILAIPI
Sbjct: 193 DLMNVNAMGTTGISAGDILAIPI 215

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357461525|ref|XP_003601044.1| LysM domain-containing GPI-anchored protein [Medicago truncatula] gi|355490092|gb|AES71295.1| LysM domain-containing GPI-anchored protein [Medicago truncatula]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/143 (34%), Positives = 80/143 (55%), Gaps = 21/143 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + + IL +K  +K+PI C CIDGI++S ST   + P+DT+ SI +  +GGLVS++Q+ 
Sbjct: 73  PDVEHHILPSKLYLKIPIQCSCIDGIRKSVSTNYKIRPSDTLSSIADSIYGGLVSSDQLR 132

Query: 62  STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N    P       +L++ L CTCFN  +NG+ ++Y S              +++  + 
Sbjct: 133 EANSVTDPNVLDVGQNLVVPLPCTCFNGSDNGLPAIYMSYVVQPLDSLNNIAARYFTTLT 192

Query: 102 ELVATNGLSQSVVDPIDILAIPI 124
           +L+  N +  + +   DILAIPI
Sbjct: 193 DLMNVNAMGTTGISAGDILAIPI 215

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30687570|ref|NP_849697.1| LysM domain-containing GPI-anchored protein 1 [Arabidopsis thaliana] gi|6552732|gb|AAF16531.1|AC013482_5 T26F17.10 [Arabidopsis thaliana] gi|332192046|gb|AEE30167.1| LysM domain-containing GPI-anchored protein 1 [Arabidopsis thaliana]

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/143 (37%), Positives = 77/143 (53%), Gaps = 21/143 (14%)

Query: 3   PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
           P + N IL +K  +K+PI+C C+DGI++S ST     P+D + SI +  +GGLVSAEQI 
Sbjct: 79  PDVENHILPSKLFLKIPITCSCVDGIRKSVSTHYKTRPSDNLGSIADSVYGGLVSAEQIQ 138

Query: 62  STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMA 101
             N  N P      TSL+I L C CFN  +N + +VY S              ++   + 
Sbjct: 139 EANSVNDPSLLDVGTSLVIPLPCACFNGTDNSLPAVYLSYVVKEIDTLVGIARRYSTTIT 198

Query: 102 ELVATNGLSQSVVDPIDILAIPI 124
           +L+  N +    V   DILA+P+
Sbjct: 199 DLMNVNAMGAPDVSSGDILAVPL 221

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	125
TAIR|locus:2201143	416	LYP2 "LysM-containing receptor	0.96	0.288	0.390	1.6e-16
TAIR|locus:2204720	423	LYM3 "lysin-motif (LysM) domai	0.952	0.281	0.348	1.2e-12

TAIR|locus:2201143 LYP2 "LysM-containing receptor protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 210 (79.0 bits), Expect = 1.6e-16, P = 1.6e-16
 Identities = 50/128 (39%), Positives = 73/128 (57%)

Query:     3 PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
             P + N IL +K  +K+PI+C C+DGI++S ST     P+D + SI +  +GGLVSAEQI 
Sbjct:    79 PDVENHILPSKLFLKIPITCSCVDGIRKSVSTHYKTRPSDNLGSIADSVYGGLVSAEQIQ 138

Query:    62 STNGSNYP------TSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVA-TNGLSQSVV 114
               N  N P      TSL+I L C CFN  +N + +VY S     +  LV      S ++ 
Sbjct:   139 EANSVNDPSLLDVGTSLVIPLPCACFNGTDNSLPAVYLSYVVKEIDTLVGIARRYSTTIT 198

Query:   115 DPIDILAI 122
             D +++ A+
Sbjct:   199 DLMNVNAM 206

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0016998 "cell wall macromolecule catabolic process" evidence=IEA;ISS

GO:0031225 "anchored to membrane" evidence=TAS

GO:0046658 "anchored to plasma membrane" evidence=IDA

GO:0006955 "immune response" evidence=IMP

GO:0042834 "peptidoglycan binding" evidence=IDA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0016570 "histone modification" evidence=RCA

GO:0048449 "floral organ formation" evidence=RCA

TAIR|locus:2204720 LYM3 "lysin-motif (LysM) domain protein 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 175 (66.7 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 45/129 (34%), Positives = 69/129 (53%)

Query:     3 PSLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNE-FGGLVSAEQIN 61
             P + N +L  K  +K+PI+C C+DGI++S ST      +DT+ SI +  +GGLVS EQI 
Sbjct:    76 PDVENHVLPAKLFLKIPITCSCVDGIRKSLSTHYKTRTSDTLGSIADSVYGGLVSPEQIQ 135

Query:    62 STNGS------NYPTSLMIMLSCTCFNNGNNGVTSVYKSKFWVMMAELVA--TNGLSQSV 113
               N        +  T L+I L C CFN  +  + ++Y S + V   + +A      S SV
Sbjct:   136 VANSETDLSVLDVGTKLVIPLPCACFNGTDESLPALYLS-YVVRGIDTMAGIAKRFSTSV 194

Query:   114 VDPIDILAI 122
              D  ++ A+
Sbjct:   195 TDLTNVNAM 203


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.315   0.131   0.389    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      125       125   0.00091  102 3  11 22  0.41    31
                                                     29  0.39    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  559 (59 KB)
  Total size of DFA:  121 KB (2079 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  11.54u 0.15s 11.69t   Elapsed:  00:00:00
  Total cpu time:  11.54u 0.15s 11.69t   Elapsed:  00:00:00
  Start:  Fri May 10 16:19:14 2013   End:  Fri May 10 16:19:14 2013

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0016998 "cell wall macromolecule catabolic process" evidence=IEA;ISS

GO:0031225 "anchored to membrane" evidence=TAS

GO:0046658 "anchored to plasma membrane" evidence=IDA

GO:0006955 "immune response" evidence=IMP

GO:0042834 "peptidoglycan binding" evidence=IDA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0042545 "cell wall modification" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	125
PRK06347	592	autolysin; Reviewed	99.77
PRK06347	592	autolysin; Reviewed	99.7
PRK10783	456	mltD membrane-bound lytic murein transglycosylase	99.68
PRK13914	481	invasion associated secreted endopeptidase; Provis	99.42
PRK10783	456	mltD membrane-bound lytic murein transglycosylase	99.32
PF01476	44	LysM: LysM domain; InterPro: IPR018392 This domain	99.32
PRK14125	103	cell division suppressor protein YneA; Provisional	99.18
TIGR02899	44	spore_safA spore coat assembly protein SafA. in wh	98.97
cd00118	46	LysM Lysin domain, found in a variety of enzymes i	98.89
TIGR02907	338	spore_VI_D stage VI sporulation protein D. SpoVID,	98.85
PRK10871	319	nlpD lipoprotein NlpD; Provisional	98.79
COG1388	124	LytE FOG: LysM repeat [Cell envelope biogenesis, o	98.79
smart00257	44	LysM Lysin motif.	98.54
PRK11198	147	LysM domain/BON superfamily protein; Provisional	98.54
PRK13914	481	invasion associated secreted endopeptidase; Provis	98.53
PF04225	85	OapA: Opacity-associated protein A LysM-like domai	98.27
COG1388	124	LytE FOG: LysM repeat [Cell envelope biogenesis, o	98.26
PF01476	44	LysM: LysM domain; InterPro: IPR018392 This domain	98.03
COG3858	423	Predicted glycosyl hydrolase [General function pre	97.93
COG3858	423	Predicted glycosyl hydrolase [General function pre	97.79
TIGR03505	74	FimV_core FimV N-terminal domain. This region is f	97.67
COG1652	269	XkdP Uncharacterized protein containing LysM domai	97.62
PRK10871	319	nlpD lipoprotein NlpD; Provisional	97.13
TIGR02899	44	spore_safA spore coat assembly protein SafA. in wh	97.11
cd00118	46	LysM Lysin domain, found in a variety of enzymes i	96.99
TIGR02907	338	spore_VI_D stage VI sporulation protein D. SpoVID,	96.77
PRK10190	310	L,D-transpeptidase; Provisional	96.77
PRK10260	306	L,D-transpeptidase; Provisional	96.74
PRK11649	439	putative peptidase; Provisional	96.72
COG3170	755	FimV Tfp pilus assembly protein FimV [Cell motilit	96.65
PRK14125	103	cell division suppressor protein YneA; Provisional	96.63
COG3061	242	OapA Cell envelope opacity-associated protein A [C	96.54
PF05489	60	Phage_tail_X: Phage Tail Protein X; InterPro: IPR0	95.15
smart00257	44	LysM Lysin motif.	94.95
PRK11198	147	LysM domain/BON superfamily protein; Provisional	92.17
COG4784	479	Putative Zn-dependent protease [General function p	89.74
COG0739	277	NlpD Membrane proteins related to metalloendopepti	80.95
PRK10190	310	L,D-transpeptidase; Provisional	80.44
COG4254	339	Uncharacterized protein conserved in bacteria [Fun	80.34

>PRK06347 autolysin; Reviewed

Probab=99.77  E-value=1.5e-18  Score=146.03  Aligned_cols=116  Identities=16%  Similarity=0.160  Sum_probs=82.4

Q ss_pred             CCcccCCCCEEEEcccccCCCC---------------CcccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCC
Q 043749            6 GNQILGTKSLVKVPISCPCIDG---------------IKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS-----TNG   65 (125)
Q Consensus         6 ~~~~l~~g~~l~IP~~c~c~~~---------------~~~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~   65 (125)
                      .+..|.+||.|.||..-.-...               ........|+|++|||||+||++||  +++++|++     .+.
T Consensus       437 ~s~~L~~Gq~L~IP~~~~~~~~t~~~s~~~~~~k~~s~~~~~~~~YtVk~GDTL~sIAkkyg--VSv~~L~~~N~l~s~~  514 (592)
T PRK06347        437 KSDFIYPGQKLKVSAGSTSNTNTSKPSTNTNTSKPSTNTNTNAKVYTVAKGDSLWRIANNNK--VTIANLKSWNNLKSDF  514 (592)
T ss_pred             CcceeccCcEEEEecCCcccccccccccccccccccccccccceeeeecCCCCHHHHHHHHC--CCHHHHHHhcCCCccc
Confidence            3457999999999965210000               0011235799999999999999999  89999988     467


Q ss_pred             CCCCCEEEEecCccccCCC------C---CCcceeeEe----------e-eCCcHHHHHHhcCCCCCCCCCCCEEEEc
Q 043749           66 SNYPTSLMIMLSCTCFNNG------N---NGVTSVYKS----------K-FWVMMAELVATNGLSQSVVDPIDILAIP  123 (125)
Q Consensus        66 i~~Gq~L~IP~~~~~~~~~------~---~~~~~~~~~----------y-~gvs~~~L~~~N~l~~~~l~~Gq~L~IP  123 (125)
                      |++||.|.||.........      .   ......|..          . ||+++++|++||+|....|++||+|.|+
T Consensus       515 L~~GQ~L~Ip~~~~~s~~~t~~~s~~~~~~~~~~~Y~Vk~GDTL~sIA~KygvSv~~L~~~N~L~~~~L~~GQ~L~I~  592 (592)
T PRK06347        515 IYPGQKLKVSAGSTTNNTNTAKPSTNKPSNSTVKTYTVKKGDSLWAISRQYKTTVDNIKAWNKLTSNMIHVGQKLTIK  592 (592)
T ss_pred             ccCCcEEEEecCcccccccccCCccCCccCccceeeecCCCCcHHHHHHHhCCCHHHHHHhcCCCcccCCCCCEEecC
Confidence            9999999999754321100      0   000011111          1 9999999999999987779999999986

>PRK06347 autolysin; Reviewed

Probab=99.70  E-value=5.8e-17  Score=136.48  Aligned_cols=118  Identities=19%  Similarity=0.165  Sum_probs=83.4

Q ss_pred             CCCcccCCCCEEEEcccccCCCC----------------CcccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----c
Q 043749            5 LGNQILGTKSLVKVPISCPCIDG----------------IKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS-----T   63 (125)
Q Consensus         5 ~~~~~l~~g~~l~IP~~c~c~~~----------------~~~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~   63 (125)
                      +.+..|.+||.|.||..-.-...                .....+..|+|++|||||+||++||  +++.+|+.     .
T Consensus       361 l~~d~L~~Gq~L~VP~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~ytVk~GDTL~sIA~kyg--VSv~~L~~~N~l~s  438 (592)
T PRK06347        361 LKSDFIYPGQKLKVSAGSTTSDTNTSKPSTGTSTSKPSTGTSTNAKVYTVVKGDSLWRIANNNK--VTIANLKSWNNLKS  438 (592)
T ss_pred             CCccccccCcEEEEeccccccccccccccccccccccccccccCceeEEecCCCCHHHHHHHhC--CCHHHHHHHhCCCc
Confidence            34567999999999974211000                0012346899999999999999999  89999987     4


Q ss_pred             CCCCCCCEEEEecCccccCC----C-----C------CCcceeeEee-----------eCCcHHHHHHhcCCCCCCCCCC
Q 043749           64 NGSNYPTSLMIMLSCTCFNN----G-----N------NGVTSVYKSK-----------FWVMMAELVATNGLSQSVVDPI  117 (125)
Q Consensus        64 ~~i~~Gq~L~IP~~~~~~~~----~-----~------~~~~~~~~~y-----------~gvs~~~L~~~N~l~~~~l~~G  117 (125)
                      +.|++||.|.||........    .     .      ......|...           ||+++++|++||++.++.|++|
T Consensus       439 ~~L~~Gq~L~IP~~~~~~~~t~~~s~~~~~~k~~s~~~~~~~~YtVk~GDTL~sIAkkygVSv~~L~~~N~l~s~~L~~G  518 (592)
T PRK06347        439 DFIYPGQKLKVSAGSTSNTNTSKPSTNTNTSKPSTNTNTNAKVYTVAKGDSLWRIANNNKVTIANLKSWNNLKSDFIYPG  518 (592)
T ss_pred             ceeccCcEEEEecCCcccccccccccccccccccccccccceeeeecCCCCHHHHHHHHCCCHHHHHHhcCCCcccccCC
Confidence            67999999999964321000    0     0      0000111110           9999999999999987789999


Q ss_pred             CEEEEcC
Q 043749          118 DILAIPI  124 (125)
Q Consensus       118 q~L~IP~  124 (125)
                      |+|.||.
T Consensus       519 Q~L~Ip~  525 (592)
T PRK06347        519 QKLKVSA  525 (592)
T ss_pred             cEEEEec
Confidence            9999984

>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional

Probab=99.68  E-value=5.8e-16  Score=127.36  Aligned_cols=90  Identities=20%  Similarity=0.242  Sum_probs=69.2

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEecCccccCCCCCCcceeeEe----------e-e
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKS----------K-F   96 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~~~~~~~~~~~~~~~~~~~----------y-~   96 (125)
                      ..+|+|++||||++||++||  ++..+|++     .+.|++||.|.||.++.+...........|..          . |
T Consensus       343 ~~~y~Vk~GDTL~sIA~r~g--vs~~~L~~~N~l~~~~L~~Gq~L~Ip~~~~~~~~~~~~~~~~Y~Vr~GDTL~sIA~ky  420 (456)
T PRK10783        343 SRSYKVRSGDTLSGIASRLN--VSTKDLQQWNNLRGSKLKVGQTLTIGAGSSAQRLANNSDSITYRVRKGDSLSSIAKRH  420 (456)
T ss_pred             ceEEEECCCCcHHHHHHHHC--cCHHHHHHHcCCCcccCCCCCEEEecCCcccccccccccceeEEeCCCCCHHHHHHHh
Confidence            46899999999999999999  88888887     45799999999998655421111111111211          1 9


Q ss_pred             CCcHHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749           97 WVMMAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus        97 gvs~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                      |||+++|++||++..+.|+|||+|.|++
T Consensus       421 gVtv~~L~~~N~l~~~~L~pGq~L~l~v  448 (456)
T PRK10783        421 GVNIKDVMRWNSDTAKNLQPGDKLTLFV  448 (456)
T ss_pred             CCCHHHHHHhcCCCCCcCCCCCEEEEec
Confidence            9999999999998755899999999975

>PRK13914 invasion associated secreted endopeptidase; Provisional

Probab=99.42  E-value=1.1e-12  Score=108.10  Aligned_cols=44  Identities=20%  Similarity=0.132  Sum_probs=39.3

Q ss_pred             CceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEecC
Q 043749           32 ESTTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIMLS   77 (125)
Q Consensus        32 ~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~~   77 (125)
                      .+.+|+|++|||||+||++||  +++++|++     ++.|++||+|.||..
T Consensus        26 sa~tytVq~GDTLw~IA~~yg--vtv~~I~~~N~l~~~~I~~Gq~L~Ip~~   74 (481)
T PRK13914         26 SASTVVVEAGDTLWGIAQSKG--TTVDAIKKANNLTTDKIVPGQKLQVNEV   74 (481)
T ss_pred             cCceEEECCCCCHHHHHHHHC--CCHHHHHHHhCCCcccccCCCEEEeCCC
Confidence            357899999999999999999  88999987     567999999999954

>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional

Probab=99.32  E-value=6.9e-12  Score=103.36  Aligned_cols=69  Identities=16%  Similarity=0.187  Sum_probs=56.9

Q ss_pred             cccCCCCEEEEcccccCCCCCcccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEecCc
Q 043749            8 QILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIMLSC   78 (125)
Q Consensus         8 ~~l~~g~~l~IP~~c~c~~~~~~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~~~   78 (125)
                      ..|.+||.|.||..|.|..........+|+|++|||||+||++||  |++.+|++     .+.|++||+|.|++..
T Consensus       377 ~~L~~Gq~L~Ip~~~~~~~~~~~~~~~~Y~Vr~GDTL~sIA~kyg--Vtv~~L~~~N~l~~~~L~pGq~L~l~v~~  450 (456)
T PRK10783        377 SKLKVGQTLTIGAGSSAQRLANNSDSITYRVRKGDSLSSIAKRHG--VNIKDVMRWNSDTAKNLQPGDKLTLFVKN  450 (456)
T ss_pred             ccCCCCCEEEecCCcccccccccccceeEEeCCCCCHHHHHHHhC--CCHHHHHHhcCCCCCcCCCCCEEEEecCC
Confidence            569999999999988764322223347899999999999999999  89999987     2379999999999764

>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []

Probab=99.32  E-value=1.6e-12  Score=74.07  Aligned_cols=38  Identities=26%  Similarity=0.387  Sum_probs=30.9

Q ss_pred             eEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEe
Q 043749           36 NNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIM   75 (125)
Q Consensus        36 y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP   75 (125)
                      |+|++|||+|+||++|+  ++.++|++      .+.|.+||+|.||
T Consensus         1 y~V~~gDtl~~IA~~~~--~~~~~l~~~N~~~~~~~l~~G~~l~iP   44 (44)
T PF01476_consen    1 YTVQPGDTLWSIAKRYG--ISVDELMELNPNIDSDNLQPGQKLCIP   44 (44)
T ss_dssp             EEE-TT--HHHHHHHTT--S-HHHHHHHCCTTHGGCGGTTEEEEEC
T ss_pred             CEECcCCcHHHHHhhhh--hhHhHHHHhcCCCCcccCCCCCEEEeC
Confidence            89999999999999999  88998888      3459999999998

This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.

>PRK14125 cell division suppressor protein YneA; Provisional

Probab=99.18  E-value=7.2e-11  Score=79.54  Aligned_cols=48  Identities=15%  Similarity=0.194  Sum_probs=37.0

Q ss_pred             cCceeeEEcCCCCHHHHHHHhCCC--CC----HHHhhc-----cCCCCCCCEEEEecCc
Q 043749           31 SESTTNNVWPADTIDSILNEFGGL--VS----AEQINS-----TNGSNYPTSLMIMLSC   78 (125)
Q Consensus        31 ~~~~~y~V~~GDTl~~IA~~y~~~--vs----~~~i~~-----~~~i~~Gq~L~IP~~~   78 (125)
                      ..+.+|+|++|||||+||++|++.  ++    +++|++     ++.|++||+|.||...
T Consensus        34 ~~~~~~tV~~GDTLW~IA~~y~~~~~l~~~~~v~~I~~~N~l~~~~I~~Gq~L~IP~~~   92 (103)
T PRK14125         34 NQYVEITVQEGDTLWALADQYAGKHHMAKNEFIEWVEDVNNLPSGHIKAGDKLVIPVLK   92 (103)
T ss_pred             CCcEEEEECCCCCHHHHHHHhCCCcCCCHHHHHHHHHHhcCCCCCcCCCCCEEEEecCC
Confidence            346889999999999999999842  22    234433     5679999999999754

>TIGR02899 spore_safA spore coat assembly protein SafA

Probab=98.97  E-value=7.6e-10  Score=62.11  Aligned_cols=36  Identities=22%  Similarity=0.208  Sum_probs=31.6

Q ss_pred             EcCCCCHHHHHHHhCCCCCHHHhhc-------cCCCCCCCEEEEe
Q 043749           38 VWPADTIDSILNEFGGLVSAEQINS-------TNGSNYPTSLMIM   75 (125)
Q Consensus        38 V~~GDTl~~IA~~y~~~vs~~~i~~-------~~~i~~Gq~L~IP   75 (125)
                      |++|||||+||++|+  ++.++|++       ++.+++||+|.||
T Consensus         1 v~~gdtl~~IA~~~~--~~~~~l~~~N~~~~~~~~~~~g~~l~ip   43 (44)
T TIGR02899         1 VQKGDTLWKIAKKYG--VDFDELIQANPQLSNPNLIYPGMKIKIP   43 (44)
T ss_pred             CCCCCCHHHHHHHHC--cCHHHHHHHhhcCCCCCCcCCCCEEecC
Confidence            689999999999999  78888876       2469999999998

in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.

>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation

Probab=98.89  E-value=3.4e-09  Score=58.41  Aligned_cols=39  Identities=28%  Similarity=0.371  Sum_probs=34.4

Q ss_pred             eeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEe
Q 043749           35 TNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIM   75 (125)
Q Consensus        35 ~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP   75 (125)
                      .|+|++|||+|+||++|+  ++..+++.      ...+.+|+.|.||
T Consensus         2 ~~~v~~gdt~~~ia~~~~--~~~~~~~~~N~~~~~~~~~~g~~l~ip   46 (46)
T cd00118           2 TYTVKKGDTLSSIAQRYG--ISVEELLKLNGLSDPDNLQVGQKLKIP   46 (46)
T ss_pred             EEEECCCCCHHHHHHHHC--cCHHHHHHHcCCCCccccCCCCEEecC
Confidence            699999999999999999  78888877      3468999999987

This domain may have a general peptidoglycan binding function.

>TIGR02907 spore_VI_D stage VI sporulation protein D

Probab=98.85  E-value=4e-09  Score=83.46  Aligned_cols=43  Identities=23%  Similarity=0.203  Sum_probs=38.8

Q ss_pred             cCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEe
Q 043749           31 SESTTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIM   75 (125)
Q Consensus        31 ~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP   75 (125)
                      ..+.+|+|++|||||+||++||  +++..|++     ++.|++||.|.||
T Consensus       291 ~~~~~YiVq~GDTL~sIAkRYG--VSV~~L~r~N~L~~~~L~~GQ~L~IP  338 (338)
T TIGR02907       291 TKLRMCIVQEGDTIETIAERYE--ISVSQLIRHNQLEDFEVNEGQILYIP  338 (338)
T ss_pred             cccEEEEECCCCCHHHHHHHHC--cCHHHHHHHhCCCccccCCCCEEEeC
Confidence            4468999999999999999999  88888887     4689999999998

SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation.

>PRK10871 nlpD lipoprotein NlpD; Provisional

Probab=98.79  E-value=5.5e-09  Score=82.68  Aligned_cols=42  Identities=19%  Similarity=0.063  Sum_probs=37.9

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEecC
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP~~   77 (125)
                      .+|+||+|||||+||++||  +++.+|++      ++.|++||+|.||..
T Consensus        61 ~~y~Vk~GDTL~~IA~~~g--~~~~~La~~N~l~~p~~I~~GQ~L~i~~~  108 (319)
T PRK10871         61 STYTVKKGDTLFYIAWITG--NDFRDLAQRNNIQAPYSLNVGQTLQVGNA  108 (319)
T ss_pred             CceEECCCCHHHHHHHHHC--cCHHHHHHhcCCCCCccccCCCEEEeCCC
Confidence            5799999999999999999  88888877      578999999999754

>COG1388 LytE FOG: LysM repeat [Cell envelope biogenesis, outer membrane]

Probab=98.79  E-value=2.1e-08  Score=68.62  Aligned_cols=69  Identities=19%  Similarity=0.300  Sum_probs=52.1

Q ss_pred             CcccCCCCEEEEccc--ccCCCCC---cccC-------------ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----c
Q 043749            7 NQILGTKSLVKVPIS--CPCIDGI---KRSE-------------STTNNVWPADTIDSILNEFGGLVSAEQINS-----T   63 (125)
Q Consensus         7 ~~~l~~g~~l~IP~~--c~c~~~~---~~~~-------------~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~   63 (125)
                      ...+.+||.|.+|..  -.-..+.   ....             ..+|+|++||||+.||++|+  +++.+|+.     .
T Consensus        22 s~~i~~gq~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~gdtL~~Ia~~~~--~tv~~l~~~n~l~~   99 (124)
T COG1388          22 SDAIKPGQVLKIPGDISSTVNAGQTLSSLSNKVSDSSSASKAPPVVTYTVKKGDTLSKIARKYG--VTVAELKQLNNLSS   99 (124)
T ss_pred             CCccccCceEEccCCcccccccccccccccceeeccccccccCCCceEEEecCCCHHHHHHHhC--CCHHHHHHHhccCC
Confidence            567899999999963  1111110   0000             14799999999999999999  88888888     5


Q ss_pred             CCCCCCCEEEEecC
Q 043749           64 NGSNYPTSLMIMLS   77 (125)
Q Consensus        64 ~~i~~Gq~L~IP~~   77 (125)
                      +.+++||.|.++..
T Consensus       100 ~~i~~gq~l~~~~~  113 (124)
T COG1388         100 DKIKVGQKLKLPVS  113 (124)
T ss_pred             CceecCcEEEEecc
Confidence            78999999999963

>smart00257 LysM Lysin motif

Probab=98.54  E-value=1.6e-07  Score=50.87  Aligned_cols=38  Identities=26%  Similarity=0.362  Sum_probs=31.1

Q ss_pred             eeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEE
Q 043749           35 TNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMI   74 (125)
Q Consensus        35 ~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~I   74 (125)
                      .|+|++|||+|+||++|+  ++..++..      ...+++|+.|.|
T Consensus         1 ~~~v~~gdt~~~ia~~~~--~~~~~~~~~N~~~~~~~~~~g~~l~i   44 (44)
T smart00257        1 TYTVKKGDTLSSIARRYG--ISVSDLLELNNILDPDNLQVGQKLKI   44 (44)
T ss_pred             CeEeCCCCCHHHHHHHhC--CCHHHHHHHcCCCCccccCCCCEEeC
Confidence            489999999999999999  67777766      246888887764

>PRK11198 LysM domain/BON superfamily protein; Provisional

Probab=98.54  E-value=1.3e-07  Score=67.28  Aligned_cols=43  Identities=21%  Similarity=0.091  Sum_probs=33.4

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCC-CCHHHhhc--------cCCCCCCCEEEEe
Q 043749           33 STTNNVWPADTIDSILNEFGGL-VSAEQINS--------TNGSNYPTSLMIM   75 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~-vs~~~i~~--------~~~i~~Gq~L~IP   75 (125)
                      ..+|+|++|||||+||++|++. .....|.+        ++.|++||+|.||
T Consensus        95 ~~~y~Vk~GDTL~~IA~~~~g~~~~~~~I~~~N~~~l~~~~~I~pGq~L~IP  146 (147)
T PRK11198         95 SQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKPMLKSPDKIYPGQVLRIP  146 (147)
T ss_pred             CeEEEECCCCCHHHHHHHHcCChhhHHHHHHhhhhcCCCcCCcCcCCEEecC
Confidence            4689999999999999998532 33444433        4679999999998

>PRK13914 invasion associated secreted endopeptidase; Provisional

Probab=98.53  E-value=1.4e-07  Score=78.16  Aligned_cols=43  Identities=30%  Similarity=0.323  Sum_probs=39.2

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEecC
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIMLS   77 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~~   77 (125)
                      ..+|+|++|||||+||++||  +++++|++     .+.|++||+|.||..
T Consensus       199 a~tytVq~GDTL~sIAkrYg--Vtv~eI~~~N~l~s~~L~pGQ~L~Ip~s  246 (481)
T PRK13914        199 ATTHAVKSGDTIWALSVKYG--VSVQDIMSWNNLSSSSIYVGQKLAIKQT  246 (481)
T ss_pred             CeEEEECCCCCHHHHHHHHC--CCHHHHHHhcCCCccccCCCCEEEecCC
Confidence            47899999999999999999  89999988     467999999999964

>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein

Probab=98.27  E-value=8.7e-07  Score=57.69  Aligned_cols=43  Identities=21%  Similarity=0.232  Sum_probs=27.1

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc----------cCCCCCCCEEEEecC
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS----------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~----------~~~i~~Gq~L~IP~~   77 (125)
                      |..|+|++||||+.|-+++|  ++..++.+          -..|+|||.|.+-..
T Consensus         2 W~~~~V~~GDtLs~iF~~~g--ls~~dl~~v~~~~~~~k~L~~L~pGq~l~f~~d   54 (85)
T PF04225_consen    2 WQEYTVKSGDTLSTIFRRAG--LSASDLYAVLEADGEAKPLTRLKPGQTLEFQLD   54 (85)
T ss_dssp             --EEE--TT--HHHHHHHTT----HHHHHHHHHHGGGT--GGG--TT-EEEEEE-
T ss_pred             CcEEEECCCCcHHHHHHHcC--CCHHHHHHHHhccCccchHhhCCCCCEEEEEEC
Confidence            67899999999999999999  78877776          257999999999864

This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.

>COG1388 LytE FOG: LysM repeat [Cell envelope biogenesis, outer membrane]

Probab=98.26  E-value=1.9e-06  Score=58.91  Aligned_cols=76  Identities=21%  Similarity=0.216  Sum_probs=52.3

Q ss_pred             HHHHhCCCCCHHHhhc-------cCCCCCCCEEEEecCccccC----CCCCCccee-----------eEee---------
Q 043749           47 ILNEFGGLVSAEQINS-------TNGSNYPTSLMIMLSCTCFN----NGNNGVTSV-----------YKSK---------   95 (125)
Q Consensus        47 IA~~y~~~vs~~~i~~-------~~~i~~Gq~L~IP~~~~~~~----~~~~~~~~~-----------~~~y---------   95 (125)
                      ||.+|+  +++.+++.       .+.+++||+|.++.......    .........           +..|         
T Consensus         1 ia~~~~--~~v~~l~~~n~~~~~s~~i~~gq~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~gdtL~   78 (124)
T COG1388           1 IASKYG--VSVKALKKANALTGKSDAIKPGQVLKIPGDISSTVNAGQTLSSLSNKVSDSSSASKAPPVVTYTVKKGDTLS   78 (124)
T ss_pred             Cccccc--ccHHHHHHHhcccCCCCccccCceEEccCCcccccccccccccccceeeccccccccCCCceEEEecCCCHH
Confidence            577888  67777766       45899999999996311100    000111000           1122         


Q ss_pred             -----eCCcHHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749           96 -----FWVMMAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus        96 -----~gvs~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                           |++++.+|++||++.++.+++||.|.+|.
T Consensus        79 ~Ia~~~~~tv~~l~~~n~l~~~~i~~gq~l~~~~  112 (124)
T COG1388          79 KIARKYGVTVAELKQLNNLSSDKIKVGQKLKLPV  112 (124)
T ss_pred             HHHHHhCCCHHHHHHHhccCCCceecCcEEEEec
Confidence                 99999999999999988999999999973

>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []

Probab=98.03  E-value=2.3e-06  Score=48.24  Aligned_cols=28  Identities=25%  Similarity=0.462  Sum_probs=24.8

Q ss_pred             eCCcHHHHHHhc-CCCCCCCCCCCEEEEc
Q 043749           96 FWVMMAELVATN-GLSQSVVDPIDILAIP  123 (125)
Q Consensus        96 ~gvs~~~L~~~N-~l~~~~l~~Gq~L~IP  123 (125)
                      ||++.++|++|| ++..+.|++||+|.||
T Consensus        16 ~~~~~~~l~~~N~~~~~~~l~~G~~l~iP   44 (44)
T PF01476_consen   16 YGISVDELMELNPNIDSDNLQPGQKLCIP   44 (44)
T ss_dssp             TTS-HHHHHHHCCTTHGGCGGTTEEEEEC
T ss_pred             hhhhHhHHHHhcCCCCcccCCCCCEEEeC
Confidence            999999999999 7876569999999998

This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.

>COG3858 Predicted glycosyl hydrolase [General function prediction only]

Probab=97.93  E-value=6e-06  Score=67.25  Aligned_cols=87  Identities=17%  Similarity=0.043  Sum_probs=65.9

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEecCccccCCCCCCcceeeEe-eeCCcHHHHHHhc
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIMLSCTCFNNGNNGVTSVYKS-KFWVMMAELVATN  107 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~~~~~~~~~~~~~~~~~~~-y~gvs~~~L~~~N  107 (125)
                      ..|.|++||++..||++|+  ++..+|.+     .+.|.+||.+.||.... ...+..++....++ .|||+++.+..+|
T Consensus         2 ~i~~~~pg~~~~~i~~~~~--~~~~~i~~~~~~~~d~~~~~q~~~v~~~~~-~y~~~~~d~~~Sia~~~~vt~~~~~~m~   78 (423)
T COG3858           2 SIHLVGPGDSRLIIAVYFP--YTNNRIVNGNDYTNDDLVDGQTFVVPPSGH-FYDVGPGDTLTSIARTVGVTQDSAAIMN   78 (423)
T ss_pred             EEEEccCCceeeeehhhcc--ccccccccccccccccccCceeEEECCcce-EEEecCCcchhhhhhhhcCCHHHHHhhc
Confidence            4699999999999999999  77777776     46799999999996422 22233443222222 2999999999999


Q ss_pred             CCC-CCCCCCCCEEEEc
Q 043749          108 GLS-QSVVDPIDILAIP  123 (125)
Q Consensus       108 ~l~-~~~l~~Gq~L~IP  123 (125)
                      .+. ..-+.+|=.|.+|
T Consensus        79 ~~~~~~~l~~~~~l~~P   95 (423)
T COG3858          79 FVICPGYLQYGLNLYIP   95 (423)
T ss_pred             ccccccceeeeeEEecc
Confidence            876 4468899888887

>COG3858 Predicted glycosyl hydrolase [General function prediction only]

Probab=97.79  E-value=3.6e-05  Score=62.82  Aligned_cols=61  Identities=26%  Similarity=0.239  Sum_probs=50.3

Q ss_pred             CCCCcccCCCCEEEEcccccCCCCCcccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEecC
Q 043749            4 SLGNQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIMLS   77 (125)
Q Consensus         4 ~~~~~~l~~g~~l~IP~~c~c~~~~~~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP~~   77 (125)
                      +..++.|.+||.+.||...           ..|.|++|||+++||++|+  |+.++++.      +..+.+|=.|.+|..
T Consensus        31 ~~~~d~~~~~q~~~v~~~~-----------~~y~~~~~d~~~Sia~~~~--vt~~~~~~m~~~~~~~~l~~~~~l~~P~~   97 (423)
T COG3858          31 DYTNDDLVDGQTFVVPPSG-----------HFYDVGPGDTLTSIARTVG--VTQDSAAIMNFVICPGYLQYGLNLYIPSA   97 (423)
T ss_pred             ccccccccCceeEEECCcc-----------eEEEecCCcchhhhhhhhc--CCHHHHHhhcccccccceeeeeEEeccCC
Confidence            4455778999999998753           6799999999999999999  88877766      457788888888854

>TIGR03505 FimV_core FimV N-terminal domain

Probab=97.67  E-value=4.6e-05  Score=48.40  Aligned_cols=36  Identities=25%  Similarity=0.072  Sum_probs=28.4

Q ss_pred             CCHHHHHHHhC--CCCCHHHhhc--------------cCCCCCCCEEEEecC
Q 043749           42 DTIDSILNEFG--GLVSAEQINS--------------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        42 DTl~~IA~~y~--~~vs~~~i~~--------------~~~i~~Gq~L~IP~~   77 (125)
                      ||||+||++|.  +.+++.+.+.              .+.|++|+.|.||..
T Consensus         1 DTLw~IA~~~~~~~~~s~~q~m~ai~~aNp~AF~~~nin~L~~G~~L~iP~~   52 (74)
T TIGR03505         1 DTLWGIAQRVRPDNSVSLYQMMLALYRANPDAFIGGNINRLKVGQILRIPSE   52 (74)
T ss_pred             CcHHHHHHHHccCCCCCHHHHHHHHHHHCHHhHhcCChhhcCCCCEEeCCCH
Confidence            89999999885  3367765543              367999999999964

This region is found at, or about 200 amino acids from, the N-terminus of FimV from Pseudomonas aeruginosa, TspA of Neisseria meningitidis, and related proteins. Disruption of FimV blocks twitching motility from type IV pili; Semmler, et al. suggest a role for this family in peptidoglycan layer remodelling required by type IV fimbrial systems. Most but not all members of this protein family have a C-terminal region recognized by TIGR03504. In between is a highly variable, often repeat-filled region rich in the negatively charged amino acids Asp and Glu.

>COG1652 XkdP Uncharacterized protein containing LysM domain [Function unknown]

Probab=97.62  E-value=1.9e-05  Score=60.96  Aligned_cols=44  Identities=25%  Similarity=0.201  Sum_probs=33.6

Q ss_pred             eeeEEcCCCCHHHHHH-HhCCCCCH------HH---hhccCCCCCCCEEEEecC
Q 043749           34 TTNNVWPADTIDSILN-EFGGLVSA------EQ---INSTNGSNYPTSLMIMLS   77 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~-~y~~~vs~------~~---i~~~~~i~~Gq~L~IP~~   77 (125)
                      .+|+|++|||||.||+ .||..+..      +.   +.+++.|++||+|.||-.
T Consensus       211 ~~~~v~rgDTl~~is~~~Yg~~~~y~~I~~aNk~~~~~~p~~I~pGq~l~iP~~  264 (269)
T COG1652         211 TTNTVKRGDTLWQISKKVYGDGVEYRKIAEANKALVLDNPDKIKPGQVLRIPDQ  264 (269)
T ss_pred             eEEEeccCCcccccchhhcCcceEEEeHhhhhhhhccCCCCcCCCcceeeCCCc
Confidence            3899999999999999 66632211      22   444789999999999954

>PRK10871 nlpD lipoprotein NlpD; Provisional

Probab=97.13  E-value=0.00017  Score=57.32  Aligned_cols=41  Identities=15%  Similarity=0.054  Sum_probs=31.7

Q ss_pred             CCCCcceeeEee-eCCcHHHHHHhcCCCC-CCCCCCCEEEEcC
Q 043749           84 GNNGVTSVYKSK-FWVMMAELVATNGLSQ-SVVDPIDILAIPI  124 (125)
Q Consensus        84 ~~~~~~~~~~~y-~gvs~~~L~~~N~l~~-~~l~~Gq~L~IP~  124 (125)
                      +++|++.+.+++ ||+++++|++||+|.+ ..|++||+|.||.
T Consensus        65 Vk~GDTL~~IA~~~g~~~~~La~~N~l~~p~~I~~GQ~L~i~~  107 (319)
T PRK10871         65 VKKGDTLFYIAWITGNDFRDLAQRNNIQAPYSLNVGQTLQVGN  107 (319)
T ss_pred             ECCCCHHHHHHHHHCcCHHHHHHhcCCCCCccccCCCEEEeCC
Confidence            445554333444 9999999999999986 4699999999973

>TIGR02899 spore_safA spore coat assembly protein SafA

Probab=97.11  E-value=0.00058  Score=37.59  Aligned_cols=29  Identities=31%  Similarity=0.417  Sum_probs=25.1

Q ss_pred             eCCcHHHHHHhcC-CCC-CCCCCCCEEEEcC
Q 043749           96 FWVMMAELVATNG-LSQ-SVVDPIDILAIPI  124 (125)
Q Consensus        96 ~gvs~~~L~~~N~-l~~-~~l~~Gq~L~IP~  124 (125)
                      ||++.++|+++|+ +.+ ..+++||+|.||.
T Consensus        14 ~~~~~~~l~~~N~~~~~~~~~~~g~~l~ip~   44 (44)
T TIGR02899        14 YGVDFDELIQANPQLSNPNLIYPGMKIKIPS   44 (44)
T ss_pred             HCcCHHHHHHHhhcCCCCCCcCCCCEEecCC
Confidence            9999999999997 444 4699999999984

in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.

>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation

Probab=96.99  E-value=0.00091  Score=35.97  Aligned_cols=28  Identities=32%  Similarity=0.444  Sum_probs=25.5

Q ss_pred             eCCcHHHHHHhcCCC-CCCCCCCCEEEEc
Q 043749           96 FWVMMAELVATNGLS-QSVVDPIDILAIP  123 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~-~~~l~~Gq~L~IP  123 (125)
                      |+++.++|+++|+.. ...+.+|+.|.||
T Consensus        18 ~~~~~~~~~~~N~~~~~~~~~~g~~l~ip   46 (46)
T cd00118          18 YGISVEELLKLNGLSDPDNLQVGQKLKIP   46 (46)
T ss_pred             HCcCHHHHHHHcCCCCccccCCCCEEecC
Confidence            899999999999984 5679999999998

This domain may have a general peptidoglycan binding function.

>TIGR02907 spore_VI_D stage VI sporulation protein D

Probab=96.77  E-value=0.0013  Score=52.60  Aligned_cols=28  Identities=29%  Similarity=0.420  Sum_probs=26.7

Q ss_pred             eCCcHHHHHHhcCCCCCCCCCCCEEEEc
Q 043749           96 FWVMMAELVATNGLSQSVVDPIDILAIP  123 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~~~l~~Gq~L~IP  123 (125)
                      ||+++++|++||++....|++||+|.||
T Consensus       311 YGVSV~~L~r~N~L~~~~L~~GQ~L~IP  338 (338)
T TIGR02907       311 YEISVSQLIRHNQLEDFEVNEGQILYIP  338 (338)
T ss_pred             HCcCHHHHHHHhCCCccccCCCCEEEeC
Confidence            9999999999999987789999999998

SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation.

>PRK10190 L,D-transpeptidase; Provisional

Probab=96.77  E-value=0.0029  Score=50.20  Aligned_cols=42  Identities=12%  Similarity=0.101  Sum_probs=35.1

Q ss_pred             eeeEEcCCC--CHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEecC
Q 043749           34 TTNNVWPAD--TIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        34 ~~y~V~~GD--Tl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP~~   77 (125)
                      ..|+|+++|  +|..||++|+  +..++|.+      +...++|++|.||..
T Consensus        38 ~~~~v~~~~~~~le~iA~~f~--~g~~~l~~aNPgvd~~~p~~G~~i~iP~~   87 (310)
T PRK10190         38 LTVTVPDHNTQPLETFAAQYG--QGLSNMLEANPGADVFLPKSGSQLTIPQQ   87 (310)
T ss_pred             EEEEecCCCCccHHHHHHHhC--CCHHHHHHhCCCCCCCCCCCCCEEEecCc
Confidence            679999976  5999999999  88888887      223689999999963

>PRK10260 L,D-transpeptidase; Provisional

Probab=96.74  E-value=0.0032  Score=49.87  Aligned_cols=41  Identities=12%  Similarity=0.086  Sum_probs=34.7

Q ss_pred             eeeEEcCCCC--HHHHHHHhCCCCCHHHhhc--c--C--CCCCCCEEEEec
Q 043749           34 TTNNVWPADT--IDSILNEFGGLVSAEQINS--T--N--GSNYPTSLMIML   76 (125)
Q Consensus        34 ~~y~V~~GDT--l~~IA~~y~~~vs~~~i~~--~--~--~i~~Gq~L~IP~   76 (125)
                      ..|+|++|||  |..||++|+  +...+|++  +  +  ..++|++|.||.
T Consensus        41 ~~~~v~~~~~~~le~iA~~f~--~g~~~l~~aNPgvdp~lp~~G~~i~iP~   89 (306)
T PRK10260         41 QVITIPEGNTQPLEYFAAEYQ--MGLSNMMEANPGVDTFLPKGGTVLNIPQ   89 (306)
T ss_pred             EEEEeCCCCCchHHHHHHHhC--CCHHHHHHhCcCCCCCcCCCCCEEEeCC
Confidence            6799999764  999999999  88888887  2  2  567999999996

>PRK11649 putative peptidase; Provisional

Probab=96.72  E-value=0.0029  Score=52.39  Aligned_cols=44  Identities=25%  Similarity=0.332  Sum_probs=37.3

Q ss_pred             CceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-------cCCCCCCCEEEEecC
Q 043749           32 ESTTNNVWPADTIDSILNEFGGLVSAEQINS-------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        32 ~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-------~~~i~~Gq~L~IP~~   77 (125)
                      .|..|+|++||||.+|=+++|  ++..++.+       ...|++||.+.+-..
T Consensus        94 ~~~~~~Vk~GDTl~~iL~r~G--i~~~di~~l~~~~~~L~~Lr~Gq~l~~~~d  144 (439)
T PRK11649         94 GVHEYVVSTGDTLSSILNQYG--IDMSDISQLAAQDKELRNLKIGQQLSWTLT  144 (439)
T ss_pred             ceEEEEeCCCCCHHHHHHHcC--CCHHHHHHHHHcChHhhcCCCCCEEEEEEC
Confidence            356899999999999999999  78777765       357999999999753

>COG3170 FimV Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.65  E-value=0.0012  Score=57.09  Aligned_cols=45  Identities=24%  Similarity=0.165  Sum_probs=36.5

Q ss_pred             ceeeEEcCCCCHHHHHHHhC--CCCCHHHhhc--------------cCCCCCCCEEEEecC
Q 043749           33 STTNNVWPADTIDSILNEFG--GLVSAEQINS--------------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~--~~vs~~~i~~--------------~~~i~~Gq~L~IP~~   77 (125)
                      ..+|+|++|||||+||.+--  ..++.++++.              -+++++|++|.||.-
T Consensus       188 g~tyt~~~~Dtl~dIAs~~rp~~~vt~~Q~~lAly~lNP~af~~gni~RLr~GSvLriP~~  248 (755)
T COG3170         188 GDTYTVRSGDTLWDIASRLRPQDHVTVEQMLLALYQLNPQAFVNGNINRLRAGSVLRIPSA  248 (755)
T ss_pred             CcccccCCcchHHHHHHhhcCcccccHHHHHHHHHhhChhhhcccchhhccccceeeccch
Confidence            47899999999999999543  3577777765              258999999999953

>PRK14125 cell division suppressor protein YneA; Provisional

Probab=96.63  E-value=0.0027  Score=42.70  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=21.6

Q ss_pred             HHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749          100 MAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus       100 ~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                      ++.|++.|++.++.|+|||+|.||.
T Consensus        66 v~~I~~~N~l~~~~I~~Gq~L~IP~   90 (103)
T PRK14125         66 IEWVEDVNNLPSGHIKAGDKLVIPV   90 (103)
T ss_pred             HHHHHHhcCCCCCcCCCCCEEEEec
Confidence            4667778999887899999999996

>COG3061 OapA Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]

Probab=96.54  E-value=0.0061  Score=46.18  Aligned_cols=67  Identities=13%  Similarity=0.113  Sum_probs=47.3

Q ss_pred             cCCCCEEEEccccc-CCCCCcccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc----------cCCCCCCCEEEEecCc
Q 043749           10 LGTKSLVKVPISCP-CIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS----------TNGSNYPTSLMIMLSC   78 (125)
Q Consensus        10 l~~g~~l~IP~~c~-c~~~~~~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~----------~~~i~~Gq~L~IP~~~   78 (125)
                      ++.++...+|..-. -+.......|.+|+|++|+||..+=|-++  ..+.++..          -+.+++||.+.|-+..
T Consensus       135 ~q~~q~~~v~~~~~~~P~~~s~g~wqsy~V~~G~TLaQlFRdn~--LpitDVnAMakveGagkpLSnlkaGq~Vki~~na  212 (242)
T COG3061         135 IQAKQEKKVPRTVDAQPFKPSSGNWQSYTVPQGKTLAQLFRDNN--LPITDVNAMAKVEGAGKPLSNLKAGQKVKISLNA  212 (242)
T ss_pred             hhccCccccCCccccCccccCcccceeEEecCCccHHHHHhccC--CChHHhHHHHhhccCCCchhhccCCCEEEEEEcC
Confidence            45677777773321 12222233789999999999999999888  55555544          2679999999998753

>PF05489 Phage_tail_X: Phage Tail Protein X; InterPro: IPR008861 This entry is represented by Bacteriophage P2, GpX

Probab=95.15  E-value=0.062  Score=32.64  Aligned_cols=43  Identities=19%  Similarity=0.089  Sum_probs=29.1

Q ss_pred             eeEEcCCCCHHHHHH-HhCCCCCH-HHhhc--------cCCCCCCCEEEEecCc
Q 043749           35 TNNVWPADTIDSILN-EFGGLVSA-EQINS--------TNGSNYPTSLMIMLSC   78 (125)
Q Consensus        35 ~y~V~~GDTl~~IA~-~y~~~vs~-~~i~~--------~~~i~~Gq~L~IP~~~   78 (125)
                      .|+. .|||++.||. .||..--. +.+.+        +..+.+|..|.+|...
T Consensus         3 v~t~-~GDtlD~I~~r~yG~~~~~~e~ll~aNp~La~~~~~lpaG~~I~lP~i~   55 (60)
T PF05489_consen    3 VYTT-QGDTLDLIAYRHYGREDGAVEALLEANPGLADTGPVLPAGTVIILPDIP   55 (60)
T ss_pred             EEEe-CcCcHHHHHHHHhCcHHHHHHHHHHHChhhhhcCCcCCCCCEEECCCCC
Confidence            3554 9999999999 56632111 23333        3579999999999653

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family is found in a family of phage tail proteins. Sequence analysis suggests that they are related to IPR002482 from INTERPRO which suggests a general peptidoglycan binding function.

>smart00257 LysM Lysin motif

Probab=94.95  E-value=0.036  Score=29.01  Aligned_cols=27  Identities=15%  Similarity=0.230  Sum_probs=23.3

Q ss_pred             eCCcHHHHHHhcCCC-CCCCCCCCEEEE
Q 043749           96 FWVMMAELVATNGLS-QSVVDPIDILAI  122 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~-~~~l~~Gq~L~I  122 (125)
                      |+++.++|+++|+.. ...+++|+.|.|
T Consensus        17 ~~~~~~~~~~~N~~~~~~~~~~g~~l~i   44 (44)
T smart00257       17 YGISVSDLLELNNILDPDNLQVGQKLKI   44 (44)
T ss_pred             hCCCHHHHHHHcCCCCccccCCCCEEeC
Confidence            899999999999954 467999999874

>PRK11198 LysM domain/BON superfamily protein; Provisional

Probab=92.17  E-value=0.071  Score=37.76  Aligned_cols=26  Identities=23%  Similarity=0.370  Sum_probs=22.0

Q ss_pred             CcHHHHHHhcC--CCC-CCCCCCCEEEEc
Q 043749           98 VMMAELVATNG--LSQ-SVVDPIDILAIP  123 (125)
Q Consensus        98 vs~~~L~~~N~--l~~-~~l~~Gq~L~IP  123 (125)
                      ....+|+++|+  +.+ ..|+|||+|.||
T Consensus       118 ~~~~~I~~~N~~~l~~~~~I~pGq~L~IP  146 (147)
T PRK11198        118 NKYNKIFEANKPMLKSPDKIYPGQVLRIP  146 (147)
T ss_pred             hhHHHHHHhhhhcCCCcCCcCcCCEEecC
Confidence            45789999998  665 469999999998

>COG4784 Putative Zn-dependent protease [General function prediction only]

Probab=89.74  E-value=0.47  Score=38.72  Aligned_cols=41  Identities=15%  Similarity=0.081  Sum_probs=28.9

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc-------cCCCCCCCEEEE
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS-------TNGSNYPTSLMI   74 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-------~~~i~~Gq~L~I   74 (125)
                      ..-+||+|||+.++|.+.-++..-.++-+       ...+++|+.++|
T Consensus       429 rvvtVk~GqT~~~lAA~m~G~~rkldlfRllNam~~~a~~~pGd~vKi  476 (479)
T COG4784         429 RVVTVKPGQTMASLAARMMGTDRKLDLFRLLNAMSPGATVRPGDKVKI  476 (479)
T ss_pred             EEEEecCCccHHHHHhhccCchhHHHHHHHHhccCCCCcCCCCCeeee
Confidence            34679999999999996665222222222       567999999988

>COG0739 NlpD Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]

Probab=80.95  E-value=2.6  Score=31.65  Aligned_cols=42  Identities=19%  Similarity=0.187  Sum_probs=34.2

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEecC
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP~~   77 (125)
                      ..|.++.||+|..|+++++  .....+..      ...++.|+.+.+|..
T Consensus         2 ~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (277)
T COG0739           2 SLYVVKKGDTLSAIAARLG--ISAKDLARLNNLLKKRLLRIGQLLRVPRA   49 (277)
T ss_pred             ceEEecCCCHHHHHHHHcC--CCHHHHHHHHhhccccccCccceeeeccc
Confidence            3589999999999999999  56655555      227899999999975

>PRK10190 L,D-transpeptidase; Provisional

Probab=80.44  E-value=2.2  Score=34.07  Aligned_cols=29  Identities=14%  Similarity=0.146  Sum_probs=25.7

Q ss_pred             eCCcHHHHHHhcCCCCCC-CCCCCEEEEcC
Q 043749           96 FWVMMAELVATNGLSQSV-VDPIDILAIPI  124 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~~~-l~~Gq~L~IP~  124 (125)
                      |+++..+|+++|.-.+.- .++|++|.||.
T Consensus        57 f~~g~~~l~~aNPgvd~~~p~~G~~i~iP~   86 (310)
T PRK10190         57 YGQGLSNMLEANPGADVFLPKSGSQLTIPQ   86 (310)
T ss_pred             hCCCHHHHHHhCCCCCCCCCCCCCEEEecC
Confidence            999999999999977664 48999999995

>COG4254 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.34  E-value=1.7  Score=34.65  Aligned_cols=47  Identities=19%  Similarity=0.119  Sum_probs=35.0

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc-------cCCCCCCCEEEEecCcc
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS-------TNGSNYPTSLMIMLSCT   79 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-------~~~i~~Gq~L~IP~~~~   79 (125)
                      ..+|.|+.||||--++..|=++.+-....+       +..+++|.-|.||.+..
T Consensus         5 ~~~yrv~~gdtli~l~~~yl~~~~g~r~~q~an~~~~P~~l~pgs~l~ip~~~~   58 (339)
T COG4254           5 ALTYRVLFGDTLILLLGGYLTLLAGSRAAQPANTKRPPFILQPGSCLPIPLPAS   58 (339)
T ss_pred             cceeeeccccHHHHHHHHhhhccchhhhhcccccCCCCcccCCCccccCCCccc
Confidence            478999999999999998864322222221       67899999999998643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	125
4eby_A	212	Chitin elicitor receptor kinase 1; pathogen-associ	3e-05

>4eby_A Chitin elicitor receptor kinase 1; pathogen-associated molecular patterns, pattern recognition receptors, LYSM, lysine chitin oligomer; HET: NAG BMA; 1.65A {Arabidopsis thaliana} PDB: 4ebz_A* Length = 212

 Score = 40.9 bits (95), Expect = 3e-05
 Identities = 21/138 (15%), Positives = 43/138 (31%), Gaps = 21/138 (15%)

Query: 7   NQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFG-GLVSAEQINSTNG 65
              +   S V VP  C C  G     + + +V   DT + +       L + E + + N 
Sbjct: 52  KDRIQMGSRVLVPFPCECQPGDFLGHNFSYSVRQEDTYERVAISNYANLTTMESLQARNP 111

Query: 66  SNYPT-----SLMIMLSCTCFNNGNNGVTSVYKS--------------KFWVMMAELVAT 106
                     +L ++++C+C +   +    ++ +                 V    L   
Sbjct: 112 FPATNIPLSATLNVLVNCSCGDESVSKDFGLFVTYPLRPEDSLSSIARSSGVSADILQRY 171

Query: 107 NGLSQSVVDPIDILAIPI 124
           N           I+ +P 
Sbjct: 172 NPGVNFNS-GNGIVYVPG 188

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	125
4eby_A	212	Chitin elicitor receptor kinase 1; pathogen-associ	99.93
4eby_A	212	Chitin elicitor receptor kinase 1; pathogen-associ	99.78
2djp_A	77	Hypothetical protein SB145; LYSM, structural genom	99.43
2gu1_A	361	Zinc peptidase; alpha/beta, beta barrel, structura	99.35
1e0g_A	48	Membrane-bound lytic murein transglycosylase D; ce	99.32
2l9y_A	167	CVNH-LYSM lectin; carbohydrate, sugar binding prot	99.27
4a1k_A	165	Putative L, D-transpeptidase YKUD; transferase, pe	98.59
2djp_A	77	Hypothetical protein SB145; LYSM, structural genom	98.37
2gu1_A	361	Zinc peptidase; alpha/beta, beta barrel, structura	98.2
1e0g_A	48	Membrane-bound lytic murein transglycosylase D; ce	97.79
3slu_A	371	M23 peptidase domain protein; outer membrane, hydr	97.43
2l9y_A	167	CVNH-LYSM lectin; carbohydrate, sugar binding prot	97.35
4a1k_A	165	Putative L, D-transpeptidase YKUD; transferase, pe	93.58

>4eby_A Chitin elicitor receptor kinase 1; pathogen-associated molecular patterns, pattern recognition receptors, LYSM, lysine chitin oligomer; HET: NAG BMA; 1.65A {Arabidopsis thaliana} PDB: 4ebz_A*

Probab=99.93  E-value=4.1e-26  Score=169.92  Aligned_cols=121  Identities=16%  Similarity=0.219  Sum_probs=95.0

Q ss_pred             CCCC-CcccCCCCEEEEcccccCCCCCcccCceeeEEcCCCCHHHHH-HHhCCCCCHHHhhc-----cCCCCCCCEEEEe
Q 043749            3 PSLG-NQILGTKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSIL-NEFGGLVSAEQINS-----TNGSNYPTSLMIM   75 (125)
Q Consensus         3 ~~~~-~~~l~~g~~l~IP~~c~c~~~~~~~~~~~y~V~~GDTl~~IA-~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP   75 (125)
                      |++. +..|++||.|+||.+|.|..+.......+|+|++|||||+|| ++|++++++++|+.     ++.|++||+|.||
T Consensus        47 p~l~~~~~l~~Gq~L~IP~~~~~~~~~~~~~~~~Y~V~~GDTL~~IA~~~y~~lvt~~~L~~~N~~~~~~l~~Gq~L~IP  126 (212)
T 4eby_A           47 SNIKDKDRIQMGSRVLVPFPCECQPGDFLGHNFSYSVRQEDTYERVAISNYANLTTMESLQARNPFPATNIPLSATLNVL  126 (212)
T ss_dssp             TTCSCTTSCCTTCEEEEEECCEEETTTEEEEEEEEECCTTCCHHHHHHTTTTTSSCHHHHHHHCCSCTTCCCTTCEEEEE
T ss_pred             cCCCCcCccCCCCEEEEeccccccCCccccCceEEEecCCCcHHHHHHHhcCCCCCHHHHHHhcCCCcccCCCCCEEEEc
Confidence            5664 578999999999999999755333445789999999999999 69998899999987     5689999999999


Q ss_pred             cCccccCCCCCCcceeeEee--------------eCCcHHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749           76 LSCTCFNNGNNGVTSVYKSK--------------FWVMMAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~y--------------~gvs~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                      ..|.|.............+|              ||+++++|++||++.+..+..|+ |+||.
T Consensus       127 ~~~~~~~~~~~~~~~~~~~Y~V~~GDTL~~IA~~fgvsv~~L~~~N~~~~~~~~~g~-l~IP~  188 (212)
T 4eby_A          127 VNCSCGDESVSKDFGLFVTYPLRPEDSLSSIARSSGVSADILQRYNPGVNFNSGNGI-VYVPG  188 (212)
T ss_dssp             EECCCCCTTTCSSCCCEEEEECCTTCCHHHHHHHHTSCHHHHHHHSTTCCTTSCSSE-EEEEC
T ss_pred             CCCcCCCcccccCCCCeEEEEECCCCcHHHHHHHHCcCHHHHHHhcCCCccCCCCCE-EEecC
Confidence            98877543211111122334              99999999999998776666666 99995

>4eby_A Chitin elicitor receptor kinase 1; pathogen-associated molecular patterns, pattern recognition receptors, LYSM, lysine chitin oligomer; HET: NAG BMA; 1.65A {Arabidopsis thaliana} PDB: 4ebz_A*

Probab=99.78  E-value=1.5e-19  Score=134.45  Aligned_cols=90  Identities=13%  Similarity=0.170  Sum_probs=71.1

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCH--------HHhhc-------cCCCCCCCEEEEecCccccC----------CCCCC
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSA--------EQINS-------TNGSNYPTSLMIMLSCTCFN----------NGNNG   87 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~--------~~i~~-------~~~i~~Gq~L~IP~~~~~~~----------~~~~~   87 (125)
                      ..+|+|++|||||+||++||  +++        ++|++       ++.|++||.|.||.+|.|..          .++.|
T Consensus         9 ~~~Y~V~~GDTL~~IA~~~~--vsv~~~~~~~~~~I~~~Np~l~~~~~l~~Gq~L~IP~~~~~~~~~~~~~~~~Y~V~~G   86 (212)
T 4eby_A            9 LASYYLENGTTLSVINQNLN--SSIAPYDQINFDPILRYNSNIKDKDRIQMGSRVLVPFPCECQPGDFLGHNFSYSVRQE   86 (212)
T ss_dssp             EEEEECCTTCCHHHHHHHTC--CSSSCCCSSCCHHHHTTCTTCSCTTSCCTTCEEEEEECCEEETTTEEEEEEEEECCTT
T ss_pred             eEEEEeCCCCCHHHHHHHHC--CCchhccccCHHHHHHhccCCCCcCccCCCCEEEEeccccccCCccccCceEEEecCC
Confidence            46899999999999999999  565        67765       36799999999999887752          12333


Q ss_pred             cceeeEe--eeC--CcHHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749           88 VTSVYKS--KFW--VMMAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus        88 ~~~~~~~--y~g--vs~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                      ++...++  .|+  +++++|++||++....|++||+|.||.
T Consensus        87 DTL~~IA~~~y~~lvt~~~L~~~N~~~~~~l~~Gq~L~IP~  127 (212)
T 4eby_A           87 DTYERVAISNYANLTTMESLQARNPFPATNIPLSATLNVLV  127 (212)
T ss_dssp             CCHHHHHHTTTTTSSCHHHHHHHCCSCTTCCCTTCEEEEEE
T ss_pred             CcHHHHHHHhcCCCCCHHHHHHhcCCCcccCCCCCEEEEcC
Confidence            3222233  298  999999999997667899999999994

>2djp_A Hypothetical protein SB145; LYSM, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.43  E-value=6.5e-14  Score=88.14  Aligned_cols=56  Identities=21%  Similarity=0.291  Sum_probs=47.7

Q ss_pred             CCCEEEEcccccCCCCCcccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEecCc
Q 043749           12 TKSLVKVPISCPCIDGIKRSESTTNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIMLSC   78 (125)
Q Consensus        12 ~g~~l~IP~~c~c~~~~~~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP~~~   78 (125)
                      .||.|.||...         .+.+|+|++|||||+||++|+  +++++|++      ++.|++||+|.||...
T Consensus         3 ~Gq~l~ip~~~---------~~~~y~V~~GDTL~~IA~~~~--~~~~~l~~~N~l~~~~~l~~Gq~l~iP~~~   64 (77)
T 2djp_A            3 SGSSGCSPVRE---------RRLEHQLEPGDTLAGLALKYG--VTMEQIKRANRLYTNDSIFLKKTLYIPILT   64 (77)
T ss_dssp             CCCCCCCCCCE---------EEEEECCCTTCCHHHHHHHHT--CCHHHHHHHHTCCCSSCGGGSSCEEEEEEC
T ss_pred             CCcEeeccCCC---------CcEEEEECCCCcHHHHHHHHC--cCHHHHHHHcCCCCccccCCCCEEEECCCC
Confidence            68888888642         247899999999999999999  88998886      4689999999999753

>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics, PSI, protein structure initiative; 1.90A {Vibrio cholerae}

Probab=99.35  E-value=1e-12  Score=104.02  Aligned_cols=90  Identities=12%  Similarity=0.053  Sum_probs=64.4

Q ss_pred             CceeeEEcCCCCHHHHHHHhCCCCCHHHhhc----------cCCCCCCCEEEEecCccccC---------------CCC-
Q 043749           32 ESTTNNVWPADTIDSILNEFGGLVSAEQINS----------TNGSNYPTSLMIMLSCTCFN---------------NGN-   85 (125)
Q Consensus        32 ~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~----------~~~i~~Gq~L~IP~~~~~~~---------------~~~-   85 (125)
                      .|..|+|++|||||+||++||  ++..+|.+          .+.|++||+|.||.......               ... 
T Consensus         6 ~~~~~~Vk~GDTL~~Ia~r~g--vs~~~l~~~n~~~~~~~~~~~L~~Gq~L~i~~~~~~~l~~l~~~~~~~~~~~~~~~~   83 (361)
T 2gu1_A            6 KRIHYMVKVGDTLSGIFAQLG--VPYSILQKILSVDLDHLQLDMIQPGEELELMMDDMGQLSRLIYHMSIVEKAIYTREN   83 (361)
T ss_dssp             -CEEEECCTTCCHHHHHHHTT--CCHHHHHHHHHHGGGTCCGGGCCTTCEEEEEECTTSCEEEEEEEEETTEEEEEEECT
T ss_pred             CceEEEECCCCcHHHHHHHcC--CCHHHHHHHHhhcccccchhcCCCCCEEEEEECCCCcceEEEEEcCccceEEEEecC
Confidence            478999999999999999999  88888887          15799999999996422100               000 


Q ss_pred             CCc----------ceeeEee--------------eCCcHHHHHHhcCCCC------CCCCCCCEEEEc
Q 043749           86 NGV----------TSVYKSK--------------FWVMMAELVATNGLSQ------SVVDPIDILAIP  123 (125)
Q Consensus        86 ~~~----------~~~~~~y--------------~gvs~~~L~~~N~l~~------~~l~~Gq~L~IP  123 (125)
                      .+.          ......|              ||+++++|++||++..      ..|++||.|.|+
T Consensus        84 ~g~f~~~~~~~~~~~~~~~~~v~igdSL~~iA~~~Gvs~~~i~~ln~i~~~~idf~~~Lr~GD~l~V~  151 (361)
T 2gu1_A           84 DGSFSYDFQEISGEWREILFSGEINGSFSVSARRVGLTSSQVANITQVMKDKIDFSRSLRAGDRFDIL  151 (361)
T ss_dssp             TSCEEEEEEECCCEEEEEEEEEESSSCHHHHHHHTTCCHHHHHHHHHHHTTTCCTTTCCCC-CEEEEE
T ss_pred             CCcceeeecccCceEEEEEEEEEECCcHHHHHHHcCCCHHHHHHHHHhhcccccccccCCCCCEEEEE
Confidence            110          0000111              9999999999998743      469999999986

>1e0g_A Membrane-bound lytic murein transglycosylase D; cell WALL, hydrolase, glycosidase, lipoprotein, outer membrane, multigene family; NMR {Escherichia coli} SCOP: d.7.1.1

Probab=99.32  E-value=1.2e-12  Score=74.78  Aligned_cols=42  Identities=24%  Similarity=0.314  Sum_probs=37.6

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc----cCCCCCCCEEEEec
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS----TNGSNYPTSLMIML   76 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~----~~~i~~Gq~L~IP~   76 (125)
                      +.+|+|++|||||+||++|+  +++.+|++    ++.|++||+|.||.
T Consensus         2 ~~~y~V~~GDtl~~Ia~~~~--~~~~~l~~~N~~~~~l~~G~~l~ip~   47 (48)
T 1e0g_A            2 SITYRVRKGDSLSSIAKRHG--VNIKDVMRWNSDTANLQPGDKLTLFV   47 (48)
T ss_dssp             CCEEEECTTCCHHHHHHHHT--CCHHHHHHHCSCGGGCCTTEEEECCC
T ss_pred             CEEEEEcCCCcHHHHHHHHC--cCHHHHHHhCCCCCcCCcCCEEEEec
Confidence            46799999999999999999  88888876    46799999999995

>2l9y_A CVNH-LYSM lectin; carbohydrate, sugar binding protein; NMR {Magnaporthe oryzae 70-15}

Probab=99.27  E-value=1.5e-12  Score=93.39  Aligned_cols=45  Identities=18%  Similarity=0.102  Sum_probs=40.3

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc------cCCCCCCCEEEEecCcc
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS------TNGSNYPTSLMIMLSCT   79 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~------~~~i~~Gq~L~IP~~~~   79 (125)
                      ..+|+||+|||||+||++|+  +++.+|++      ++.|++||+|.||....
T Consensus        62 ~~~y~V~~GDTL~~IA~~~~--~~~~~l~~~N~~~~~~~i~~Gq~L~ip~~~~  112 (167)
T 2l9y_A           62 TATVTVQQGDTLRDIGRRFD--CDFHEIARRNNIQNEDLIYPGQVLQVPTKGG  112 (167)
T ss_dssp             CEEEEECTTCCHHHHHHHTT--CCHHHHHHHHTCCGGGCCCTTEEEEESCCCC
T ss_pred             CceEEECCCCcHHHHHHHcC--CCHHHHHHHcCCCCcccccCCCEEEEcCCCC
Confidence            37899999999999999999  89999988      58999999999997543

>4a1k_A Putative L, D-transpeptidase YKUD; transferase, peptidoglycan synthesis; HET: CME; 1.75A {Bacillus subtilis} PDB: 4a1j_A 4a1i_A* 1y7m_A 3zqd_A 4a52_A*

Probab=98.59  E-value=4.2e-08  Score=69.90  Aligned_cols=41  Identities=27%  Similarity=0.300  Sum_probs=36.1

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEec
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIML   76 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~   76 (125)
                      .+|+||+||||++||++|+  +...+|++     ...+.+||+|.||.
T Consensus         3 ~~y~V~~GdtL~~IA~~f~--~g~~~l~~aNp~vd~~l~~g~~i~ip~   48 (165)
T 4a1k_A            3 LTYQVKQGDTLNSIAADFR--ISTAALLQANPSLQAGLTAGQSIVIPG   48 (165)
T ss_dssp             EEEECCTTCCHHHHHHHTT--CCHHHHHHHCGGGGGCCCTTCEEEETT
T ss_pred             EEEEECCCCCHHHHHHHhC--CCHHHHHHhCccCCCccCCCccccCcc
Confidence            6899999999999999999  88888887     23479999999984

>2djp_A Hypothetical protein SB145; LYSM, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.37  E-value=3.8e-08  Score=61.38  Aligned_cols=57  Identities=19%  Similarity=0.029  Sum_probs=41.6

Q ss_pred             CCCEEEEecCccc-cCCCCCCcceeeEee-eCCcHHHHHHhcCCCC-CCCCCCCEEEEcC
Q 043749           68 YPTSLMIMLSCTC-FNNGNNGVTSVYKSK-FWVMMAELVATNGLSQ-SVVDPIDILAIPI  124 (125)
Q Consensus        68 ~Gq~L~IP~~~~~-~~~~~~~~~~~~~~y-~gvs~~~L~~~N~l~~-~~l~~Gq~L~IP~  124 (125)
                      .||.|.||..... .+.+..+++...++. ||+++++|++||++.+ ..|++||+|.||.
T Consensus         3 ~Gq~l~ip~~~~~~~y~V~~GDTL~~IA~~~~~~~~~l~~~N~l~~~~~l~~Gq~l~iP~   62 (77)
T 2djp_A            3 SGSSGCSPVRERRLEHQLEPGDTLAGLALKYGVTMEQIKRANRLYTNDSIFLKKTLYIPI   62 (77)
T ss_dssp             CCCCCCCCCCEEEEEECCCTTCCHHHHHHHHTCCHHHHHHHHTCCCSSCGGGSSCEEEEE
T ss_pred             CCcEeeccCCCCcEEEEECCCCcHHHHHHHHCcCHHHHHHHcCCCCccccCCCCEEEECC
Confidence            6899999965321 234455553222333 9999999999999974 6799999999995

>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics, PSI, protein structure initiative; 1.90A {Vibrio cholerae}

Probab=98.20  E-value=4e-06  Score=66.15  Aligned_cols=42  Identities=7%  Similarity=0.047  Sum_probs=35.5

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----c------CCCCCCCEEEEecC
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS-----T------NGSNYPTSLMIMLS   77 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~------~~i~~Gq~L~IP~~   77 (125)
                      ..|+|+.|||||+||++||  ++..+|++     .      ..|++||+|.|+..
T Consensus       101 ~~~~v~igdSL~~iA~~~G--vs~~~i~~ln~i~~~~idf~~~Lr~GD~l~V~~~  153 (361)
T 2gu1_A          101 ILFSGEINGSFSVSARRVG--LTSSQVANITQVMKDKIDFSRSLRAGDRFDILVK  153 (361)
T ss_dssp             EEEEEESSSCHHHHHHHTT--CCHHHHHHHHHHHTTTCCTTTCCCC-CEEEEEEE
T ss_pred             EEEEEEECCcHHHHHHHcC--CCHHHHHHHHHhhcccccccccCCCCCEEEEEEE
Confidence            4689999999999999999  88888876     2      46999999999864

>1e0g_A Membrane-bound lytic murein transglycosylase D; cell WALL, hydrolase, glycosidase, lipoprotein, outer membrane, multigene family; NMR {Escherichia coli} SCOP: d.7.1.1

Probab=97.79  E-value=9.3e-06  Score=45.48  Aligned_cols=28  Identities=18%  Similarity=0.239  Sum_probs=25.7

Q ss_pred             eCCcHHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749           96 FWVMMAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                      ||+++++|+++|+ ....|++||+|.||+
T Consensus        20 ~~~~~~~l~~~N~-~~~~l~~G~~l~ip~   47 (48)
T 1e0g_A           20 HGVNIKDVMRWNS-DTANLQPGDKLTLFV   47 (48)
T ss_dssp             HTCCHHHHHHHCS-CGGGCCTTEEEECCC
T ss_pred             HCcCHHHHHHhCC-CCCcCCcCCEEEEec
Confidence            9999999999999 556799999999995

>3slu_A M23 peptidase domain protein; outer membrane, hydrolase; 2.41A {Neisseria meningitidis}

Probab=97.43  E-value=0.00014  Score=57.72  Aligned_cols=46  Identities=15%  Similarity=0.278  Sum_probs=39.0

Q ss_pred             ccCceeeEEcCCCCHHHHHHHhCCCCCHHHhhc----------cCCCCCCCEEEEecC
Q 043749           30 RSESTTNNVWPADTIDSILNEFGGLVSAEQINS----------TNGSNYPTSLMIMLS   77 (125)
Q Consensus        30 ~~~~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~----------~~~i~~Gq~L~IP~~   77 (125)
                      ...|..|+|++||||.+|-+++|  ++..++.+          .+.|++||.|.+...
T Consensus        11 ~~~W~~~~V~~GDTL~~IL~r~G--ls~~di~~i~~~~~~~~~l~~LrpGq~l~i~~~   66 (371)
T 3slu_A           11 TAYWVQEAVQPGDSLADVLARSG--MARDEIARITEKYGGEADLRHLRADQSVHVLVG   66 (371)
T ss_dssp             CCEEEEEECCTTCCHHHHHHHTT--CCHHHHHHHHTTC------CCBCSSSEEEEEEC
T ss_pred             CCceEEEEECCCCcHHHHHHHcC--CCHHHHHHHHHhccccCchhhCCCCCEEEEEEC
Confidence            34588999999999999999999  88777666          368999999999864

>2l9y_A CVNH-LYSM lectin; carbohydrate, sugar binding protein; NMR {Magnaporthe oryzae 70-15}

Probab=97.35  E-value=9.2e-05  Score=52.67  Aligned_cols=29  Identities=21%  Similarity=0.424  Sum_probs=26.9

Q ss_pred             eCCcHHHHHHhcCCCC-CCCCCCCEEEEcC
Q 043749           96 FWVMMAELVATNGLSQ-SVVDPIDILAIPI  124 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~-~~l~~Gq~L~IP~  124 (125)
                      ||+++.+|++||++.+ +.|+|||+|.||.
T Consensus        80 ~~~~~~~l~~~N~~~~~~~i~~Gq~L~ip~  109 (167)
T 2l9y_A           80 FDCDFHEIARRNNIQNEDLIYPGQVLQVPT  109 (167)
T ss_dssp             TTCCHHHHHHHHTCCGGGCCCTTEEEEESC
T ss_pred             cCCCHHHHHHHcCCCCcccccCCCEEEEcC
Confidence            9999999999999987 5799999999984

>4a1k_A Putative L, D-transpeptidase YKUD; transferase, peptidoglycan synthesis; HET: CME; 1.75A {Bacillus subtilis} PDB: 4a1j_A 4a1i_A* 1y7m_A 3zqd_A 4a52_A*

Probab=93.58  E-value=0.037  Score=38.82  Aligned_cols=30  Identities=27%  Similarity=0.272  Sum_probs=26.7

Q ss_pred             eCCcHHHHHHhcCCCCCCCCCCCEEEEcCC
Q 043749           96 FWVMMAELVATNGLSQSVVDPIDILAIPIL  125 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~~~l~~Gq~L~IP~~  125 (125)
                      |+++..+|+++|...++.|.+|++|.||.+
T Consensus        20 f~~g~~~l~~aNp~vd~~l~~g~~i~ip~~   49 (165)
T 4a1k_A           20 FRISTAALLQANPSLQAGLTAGQSIVIPGL   49 (165)
T ss_dssp             TTCCHHHHHHHCGGGGGCCCTTCEEEETTC
T ss_pred             hCCCHHHHHHhCccCCCccCCCccccCccC
Confidence            999999999999876667899999999853

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	125
d1e0ga_	48	Membrane-bound lytic murein transclycosylase D, Ml	99.57
d1y7ma2	48	Hypothetical protein YkuD, N-terminal domain {Baci	99.53
d1e0ga_	48	Membrane-bound lytic murein transclycosylase D, Ml	98.43
d1y7ma2	48	Hypothetical protein YkuD, N-terminal domain {Baci	98.34

>d1e0ga_ d.7.1.1 (A:) Membrane-bound lytic murein transclycosylase D, MltD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Membrane-bound lytic murein transclycosylase D, MltD
species: Escherichia coli [TaxId: 562]

Probab=99.57  E-value=8.7e-16  Score=87.92  Aligned_cols=42  Identities=24%  Similarity=0.314  Sum_probs=38.4

Q ss_pred             ceeeEEcCCCCHHHHHHHhCCCCCHHHhhc----cCCCCCCCEEEEec
Q 043749           33 STTNNVWPADTIDSILNEFGGLVSAEQINS----TNGSNYPTSLMIML   76 (125)
Q Consensus        33 ~~~y~V~~GDTl~~IA~~y~~~vs~~~i~~----~~~i~~Gq~L~IP~   76 (125)
                      +.+|+|++|||||+||++||  +++++|++    ++.|++||+|.||.
T Consensus         2 ~v~y~V~~GDTl~~IA~~y~--vs~~~i~~~N~l~~~l~~Gq~L~i~v   47 (48)
T d1e0ga_           2 SITYRVRKGDSLSSIAKRHG--VNIKDVMRWNSDTANLQPGDKLTLFV   47 (48)
T ss_dssp             CCEEEECTTCCHHHHHHHHT--CCHHHHHHHCSCGGGCCTTEEEECCC
T ss_pred             cEEEEECCCCCHHHHHHHHC--CCHHHHHHHcCCcccCcCCCEEEEEe
Confidence            46899999999999999999  89999998    56799999999996

>d1y7ma2 d.7.1.1 (A:1-48) Hypothetical protein YkuD, N-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Hypothetical protein YkuD, N-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.53  E-value=1.7e-15  Score=86.64  Aligned_cols=41  Identities=27%  Similarity=0.300  Sum_probs=36.8

Q ss_pred             eeeEEcCCCCHHHHHHHhCCCCCHHHhhc-----cCCCCCCCEEEEec
Q 043749           34 TTNNVWPADTIDSILNEFGGLVSAEQINS-----TNGSNYPTSLMIML   76 (125)
Q Consensus        34 ~~y~V~~GDTl~~IA~~y~~~vs~~~i~~-----~~~i~~Gq~L~IP~   76 (125)
                      .+|+||+|||||+||++||  +++++|++     .+.|++||+|.||.
T Consensus         2 i~y~V~~GDTL~~IA~~y~--v~~~~i~~~N~~~~~~l~~Gq~L~IPg   47 (48)
T d1y7ma2           2 LTYQVKQGDTLNSIAADFR--ISTAALLQANPSLQAGLTAGQSIVIPG   47 (48)
T ss_dssp             EEEECCTTCCHHHHHHHTT--SCCCCCCCTSCTTCSSCCTTCEEEETT
T ss_pred             EEEEECCCCCHHHHHHHhC--CCHHHHHHHcCCCCCCCCCCCEEEeCC
Confidence            4799999999999999999  78888887     45799999999995

>d1e0ga_ d.7.1.1 (A:) Membrane-bound lytic murein transclycosylase D, MltD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Membrane-bound lytic murein transclycosylase D, MltD
species: Escherichia coli [TaxId: 562]

Probab=98.43  E-value=3.5e-08  Score=55.51  Aligned_cols=28  Identities=18%  Similarity=0.188  Sum_probs=26.0

Q ss_pred             eCCcHHHHHHhcCCCCCCCCCCCEEEEcC
Q 043749           96 FWVMMAELVATNGLSQSVVDPIDILAIPI  124 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~~~l~~Gq~L~IP~  124 (125)
                      ||+++++|++||++.+ .|+|||+|.||+
T Consensus        20 y~vs~~~i~~~N~l~~-~l~~Gq~L~i~v   47 (48)
T d1e0ga_          20 HGVNIKDVMRWNSDTA-NLQPGDKLTLFV   47 (48)
T ss_dssp             HTCCHHHHHHHCSCGG-GCCTTEEEECCC
T ss_pred             HCCCHHHHHHHcCCcc-cCcCCCEEEEEe
Confidence            9999999999999964 599999999996

>d1y7ma2 d.7.1.1 (A:1-48) Hypothetical protein YkuD, N-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Hypothetical protein YkuD, N-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.34  E-value=2.9e-08  Score=55.78  Aligned_cols=30  Identities=27%  Similarity=0.272  Sum_probs=28.2

Q ss_pred             eCCcHHHHHHhcCCCCCCCCCCCEEEEcCC
Q 043749           96 FWVMMAELVATNGLSQSVVDPIDILAIPIL  125 (125)
Q Consensus        96 ~gvs~~~L~~~N~l~~~~l~~Gq~L~IP~~  125 (125)
                      ||+++++|++||++.++.|++||+|.||-+
T Consensus        19 y~v~~~~i~~~N~~~~~~l~~Gq~L~IPg~   48 (48)
T d1y7ma2          19 FRISTAALLQANPSLQAGLTAGQSIVIPGL   48 (48)
T ss_dssp             TTSCCCCCCCTSCTTCSSCCTTCEEEETTC
T ss_pred             hCCCHHHHHHHcCCCCCCCCCCCEEEeCCC
Confidence            999999999999998888999999999964