Psyllid ID: psy9123

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------12
Protein Sequence
MFQNGDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQILSKKP
Secondary Structure (PSIPRED)
cccccccccEEEEEccccccccHHHHccccccccHHHHHHHHHHHHHHHccccEEEccccHHHHHHHHHHHHHHHHHcccccccEEEEcHHHHHHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHcccccEEEEcccHHHHHHHHcHHHHHHHHHHcccccEEEEccccHHHHHHHHHHHHHHHHcccccccEEEEcHHHHHHHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
MFQNGDNLDSLIASTASSNGQSKIAVLLHSdlnnitcdeKWMRDIknqnesgsvlvpcypsgviYDLFECLsshldnssltqipmffispvaDISLAYSNILAEWNTKVEVQILSKKP
Flexible Loop (DISEMBL)
MFQNGDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQILSKKP
Low Complexity Region (SEG)
MFQNGDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQILSKKP
Disordered region (IsUnstruct)
***********************IAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQIL****
Disordered Region (DISOPRED)
******N***LIASTASSNGQSKIAVLL*SDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVE*Q*L****
Disordered Region (DISEMBL)
MFQNGDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQILSKKP
Disordered Region (DISPRO)
****GDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQIL****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MFQNGDNLDSLIASTASSNGQSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQILSKKP
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	118	2.2.26 [Sep-21-2011]
A7SBF0	660	Integrator complex subuni	N/A	N/A	0.466	0.083	0.709	1e-18
Q4R5Z4	637	Integrator complex subuni	N/A	N/A	0.466	0.086	0.618	9e-16
Q9NV88	658	Integrator complex subuni	yes	N/A	0.466	0.083	0.618	9e-16
Q2KJA6	658	Integrator complex subuni	yes	N/A	0.466	0.083	0.636	1e-15
Q8K114	658	Integrator complex subuni	yes	N/A	0.466	0.083	0.636	1e-15
Q6DFF4	658	Integrator complex subuni	N/A	N/A	0.466	0.083	0.618	1e-15
Q5ZKK2	658	Integrator complex subuni	yes	N/A	0.466	0.083	0.618	1e-15
Q54SH0	712	Integrator complex subuni	yes	N/A	0.584	0.096	0.366	2e-08

>sp|A7SBF0|INT9_NEMVE Integrator complex subunit 9 homolog OS=Nematostella vectensis GN=ints9 PE=3 SV=1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 39/55 (70%), Positives = 47/55 (85%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGV+YDLFECL ++LDN+ L  +P++FISPVAD SLAYSNI  EW
Sbjct: 296 GGNVLVPCYPSGVLYDLFECLYTYLDNAKLGMVPIYFISPVADSSLAYSNIYGEW 350

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing.
Nematostella vectensis (taxid: 45351)

>sp|Q4R5Z4|INT9_MACFA Integrator complex subunit 9 OS=Macaca fascicularis GN=INTS9 PE=2 SV=1

 Score = 82.0 bits (201), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 34/55 (61%), Positives = 45/55 (81%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P++FISPVA+ SL +S I AEW
Sbjct: 271 GGNVLVPCYPSGVIYDLLECLYQYIDSAGLSSVPLYFISPVANSSLEFSQIFAEW 325

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes.

Macaca fascicularis (taxid: 9541)

>sp|Q9NV88|INT9_HUMAN Integrator complex subunit 9 OS=Homo sapiens GN=INTS9 PE=1 SV=2

 Score = 82.0 bits (201), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 34/55 (61%), Positives = 45/55 (81%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P++FISPVA+ SL +S I AEW
Sbjct: 292 GGNVLVPCYPSGVIYDLLECLYQYIDSAGLSSVPLYFISPVANSSLEFSQIFAEW 346

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes.

Homo sapiens (taxid: 9606)

>sp|Q2KJA6|INT9_BOVIN Integrator complex subunit 9 OS=Bos taurus GN=INTS9 PE=2 SV=1

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 35/55 (63%), Positives = 44/55 (80%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct: 292 GGNVLVPCYPSGVIYDLLECLYQYIDSAGLSSIPFYFISPVANSSLEFSQIFAEW 346

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes.

Bos taurus (taxid: 9913)

>sp|Q8K114|INT9_MOUSE Integrator complex subunit 9 OS=Mus musculus GN=Ints9 PE=2 SV=1

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 35/55 (63%), Positives = 44/55 (80%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct: 292 GGNVLVPCYPSGVIYDLLECLYQYIDSAGLSNIPFYFISPVANSSLEFSQIFAEW 346

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes.

Mus musculus (taxid: 10090)

>sp|Q6DFF4|INT9_XENLA Integrator complex subunit 9 OS=Xenopus laevis GN=ints9 PE=2 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 34/55 (61%), Positives = 44/55 (80%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P +FISPVA+ SL +S I AEW
Sbjct: 292 GGNVLVPCYPSGVIYDLLECLYQYIDSAGLSNVPFYFISPVANSSLEFSQIFAEW 346

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing.

Xenopus laevis (taxid: 8355)

>sp|Q5ZKK2|INT9_CHICK Integrator complex subunit 9 OS=Gallus gallus GN=INTS9 PE=2 SV=1

 Score = 81.3 bits (199), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 34/55 (61%), Positives = 44/55 (80%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P +FISPVA+ SL +S I AEW
Sbjct: 292 GGNVLVPCYPSGVIYDLLECLYQYIDSAGLSNVPFYFISPVANSSLEFSQIFAEW 346

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing.

Gallus gallus (taxid: 9031)

>sp|Q54SH0|INT9_DICDI Integrator complex subunit 9 homolog OS=Dictyostelium discoideum GN=ints9 PE=3 SV=1

 Score = 58.2 bits (139), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 26/71 (36%), Positives = 45/71 (63%), Gaps = 2/71 (2%)

Query: 50  ESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW--NT 107
           + G+VL+P Y  G+I DLFE L+ +L+   L  +P++F+S V+   L+Y++I +EW   +
Sbjct: 328 QGGTVLIPSYSCGIILDLFEHLADYLNKVGLPYVPIYFVSSVSKAVLSYADIYSEWLNKS 387

Query: 108 KVEVQILSKKP 118
           K E   + + P
Sbjct: 388 KQERAFMPETP 398

Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing.

Dictyostelium discoideum (taxid: 44689)

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	118
242025660	664	conserved hypothetical protein [Pediculu	0.466	0.082	0.836	2e-20
170038752	668	integrator complex subunit 9 [Culex quin	0.567	0.100	0.716	2e-20
307189043	661	Integrator complex subunit 9 [Camponotus	0.466	0.083	0.781	2e-20
332025996	638	Integrator complex subunit 9 [Acromyrmex	0.466	0.086	0.781	2e-20
157126894	665	cleavage and polyadenylation specificity	0.567	0.100	0.716	3e-20
307202731	608	Integrator complex subunit 9 [Harpegnath	0.466	0.090	0.781	3e-20
312381856	966	hypothetical protein AND_05771 [Anophele	0.466	0.056	0.836	3e-20
118786554	665	AGAP005494-PA [Anopheles gambiae str. PE	0.466	0.082	0.836	4e-20
322799917	675	hypothetical protein SINV_14498 [Solenop	0.466	0.081	0.781	5e-20
345498046	662	PREDICTED: LOW QUALITY PROTEIN: integrat	0.466	0.083	0.781	6e-20

>gi|242025660|ref|XP_002433242.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212518783|gb|EEB20504.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 46/55 (83%), Positives = 50/55 (90%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G VL+PCYPSGV+YDLFECLSS+LD + LTQIPMFFISPVAD SLAYSNILAEW
Sbjct: 291 GGCVLLPCYPSGVVYDLFECLSSYLDATGLTQIPMFFISPVADTSLAYSNILAEW 345

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170038752|ref|XP_001847212.1| integrator complex subunit 9 [Culex quinquefasciatus] gi|167882458|gb|EDS45841.1| integrator complex subunit 9 [Culex quinquefasciatus]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/67 (71%), Positives = 52/67 (77%)

Query: 39  EKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAY 98
           E  M  +      GSVL+PCYPSGV+YDLFECLSS LDN   +QIPMFFISPVAD SLAY
Sbjct: 279 ELCMNVVMTLRNGGSVLIPCYPSGVVYDLFECLSSSLDNQGFSQIPMFFISPVADSSLAY 338

Query: 99  SNILAEW 105
           SNILAEW
Sbjct: 339 SNILAEW 345

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307189043|gb|EFN73542.1| Integrator complex subunit 9 [Camponotus floridanus]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 49/55 (89%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G VL+PCYPSGV+YDLFECLS+HLD S  TQ+P+FFISPVA+ SLAYSNILAEW
Sbjct: 292 GGCVLIPCYPSGVVYDLFECLSTHLDKSGFTQVPLFFISPVAETSLAYSNILAEW 346

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332025996|gb|EGI66149.1| Integrator complex subunit 9 [Acromyrmex echinatior]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 49/55 (89%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G VL+PCYPSGV+YDLFECLS+HLD S  TQ+P+FFISPVA+ SLAYSNILAEW
Sbjct: 269 GGCVLIPCYPSGVVYDLFECLSTHLDKSGFTQVPLFFISPVAETSLAYSNILAEW 323

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157126894|ref|XP_001660997.1| cleavage and polyadenylation specificity factor [Aedes aegypti] gi|108873097|gb|EAT37322.1| AAEL010663-PA [Aedes aegypti]

 Score =  102 bits (254), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 48/67 (71%), Positives = 51/67 (76%)

Query: 39  EKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAY 98
           E  M  +      GSVL+PCYPSGV+YDLFECLSS LDN    QIPMFFISPVAD SLAY
Sbjct: 280 ELCMNVVMTLRNGGSVLIPCYPSGVVYDLFECLSSSLDNQGFAQIPMFFISPVADSSLAY 339

Query: 99  SNILAEW 105
           SNILAEW
Sbjct: 340 SNILAEW 346

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307202731|gb|EFN82022.1| Integrator complex subunit 9 [Harpegnathos saltator]

 Score =  102 bits (254), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 49/55 (89%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G VL+PCYPSGV+YDLFECLS+HLD S  TQ+P+FFISPVA+ SLAYSNILAEW
Sbjct: 261 GGCVLIPCYPSGVVYDLFECLSTHLDKSGFTQVPLFFISPVAETSLAYSNILAEW 315

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312381856|gb|EFR27500.1| hypothetical protein AND_05771 [Anopheles darlingi]

 Score =  102 bits (254), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 46/55 (83%), Positives = 48/55 (87%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            GSVL+PCYPSGV+YDLFECLS  LDN   TQIPMFFISPVAD SLAYSNILAEW
Sbjct: 593 GGSVLIPCYPSGVVYDLFECLSVSLDNQGFTQIPMFFISPVADSSLAYSNILAEW 647

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|118786554|ref|XP_556128.2| AGAP005494-PA [Anopheles gambiae str. PEST] gi|116126379|gb|EAL39840.2| AGAP005494-PA [Anopheles gambiae str. PEST]

 Score =  102 bits (253), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 46/55 (83%), Positives = 48/55 (87%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            GSVL+PCYPSGV+YDLFECLS  LDN   TQIPMFFISPVAD SLAYSNILAEW
Sbjct: 293 GGSVLIPCYPSGVVYDLFECLSVSLDNQGFTQIPMFFISPVADSSLAYSNILAEW 347

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322799917|gb|EFZ21058.1| hypothetical protein SINV_14498 [Solenopsis invicta]

 Score =  101 bits (252), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 49/55 (89%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G VL+PCYPSGV+YDLFECLS+HLD S  TQ+P+FFISPVA+ SLAYSNILAEW
Sbjct: 292 GGCVLIPCYPSGVVYDLFECLSTHLDKSGFTQVPLFFISPVAESSLAYSNILAEW 346

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345498046|ref|XP_003428131.1| PREDICTED: LOW QUALITY PROTEIN: integrator complex subunit 9-like [Nasonia vitripennis]

 Score =  101 bits (251), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 48/55 (87%)

Query: 51  SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
            G VL+PCYPSGV+YDLFECLSSHLD S   Q+P+FFISPVA+ SLAYSNILAEW
Sbjct: 292 GGCVLIPCYPSGVVYDLFECLSSHLDKSGFAQVPLFFISPVAETSLAYSNILAEW 346

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	118
FB|FBgn0036570	654	IntS9 "Integrator 9" [Drosophi	0.466	0.084	0.745	7.2e-19
UNIPROTKB|E2QVB2	409	INTS9 "Uncharacterized protein	0.457	0.132	0.648	4.2e-15
UNIPROTKB|G3XAN1	525	INTS9 "Integrator complex subu	0.457	0.102	0.629	5.9e-15
UNIPROTKB|H7BYQ6	552	INTS9 "Integrator complex subu	0.457	0.097	0.629	6.5e-15
UNIPROTKB|Q9NV88	658	INTS9 "Integrator complex subu	0.457	0.082	0.629	9e-15
UNIPROTKB|F1RJQ5	576	INTS9 "Uncharacterized protein	0.457	0.093	0.648	9.1e-15
UNIPROTKB|F1MMA6	658	INTS9 "Integrator complex subu	0.457	0.082	0.648	1.1e-14
UNIPROTKB|Q2KJA6	658	INTS9 "Integrator complex subu	0.457	0.082	0.648	1.1e-14
UNIPROTKB|F6XI08	658	INTS9 "Uncharacterized protein	0.457	0.082	0.648	1.1e-14
MGI|MGI:1098533	658	Ints9 "integrator complex subu	0.457	0.082	0.648	1.1e-14

FB|FBgn0036570 IntS9 "Integrator 9" [Drosophila melanogaster (taxid:7227)]

 Score = 236 (88.1 bits), Expect = 7.2e-19, P = 7.2e-19
 Identities = 41/55 (74%), Positives = 49/55 (89%)

Query:    51 SGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             +GS L+PCYPSGV+YDLFECL+ +L+N+ L  +PMFFISPVAD SLAYSNILAEW
Sbjct:   291 NGSALIPCYPSGVVYDLFECLTQNLENAGLNNVPMFFISPVADSSLAYSNILAEW 345

GO:0005847 "mRNA cleavage and polyadenylation specificity factor complex" evidence=ISS

GO:0006379 "mRNA cleavage" evidence=ISS

GO:0006378 "mRNA polyadenylation" evidence=ISS

GO:0034472 "snRNA 3'-end processing" evidence=IDA

GO:0032039 "integrator complex" evidence=ISS

GO:0016180 "snRNA processing" evidence=ISS

UNIPROTKB|E2QVB2 INTS9 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 197 (74.4 bits), Expect = 4.2e-15, P = 4.2e-15
 Identities = 35/54 (64%), Positives = 44/54 (81%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct:    44 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSNIPFYFISPVANSSLEFSQIFAEW 97

GO:0032039 "integrator complex" evidence=IEA

GO:0016180 "snRNA processing" evidence=IEA

UNIPROTKB|G3XAN1 INTS9 "Integrator complex subunit 9" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 5.9e-15, P = 5.9e-15
 Identities = 34/54 (62%), Positives = 45/54 (83%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P++FISPVA+ SL +S I AEW
Sbjct:   293 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSSVPLYFISPVANSSLEFSQIFAEW 346

GO:0016180 "snRNA processing" evidence=IEA

GO:0032039 "integrator complex" evidence=IEA

UNIPROTKB|H7BYQ6 INTS9 "Integrator complex subunit 9" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 6.5e-15, P = 6.5e-15
 Identities = 34/54 (62%), Positives = 45/54 (83%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P++FISPVA+ SL +S I AEW
Sbjct:   187 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSSVPLYFISPVANSSLEFSQIFAEW 240

GO:0016180 "snRNA processing" evidence=IEA

GO:0032039 "integrator complex" evidence=IEA

UNIPROTKB|Q9NV88 INTS9 "Integrator complex subunit 9" [Homo sapiens (taxid:9606)]

 Score = 198 (74.8 bits), Expect = 9.0e-15, P = 9.0e-15
 Identities = 34/54 (62%), Positives = 45/54 (83%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ +P++FISPVA+ SL +S I AEW
Sbjct:   293 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSSVPLYFISPVANSSLEFSQIFAEW 346

GO:0005515 "protein binding" evidence=IPI

GO:0016180 "snRNA processing" evidence=IDA

GO:0032039 "integrator complex" evidence=IDA

UNIPROTKB|F1RJQ5 INTS9 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 197 (74.4 bits), Expect = 9.1e-15, P = 9.1e-15
 Identities = 35/54 (64%), Positives = 44/54 (81%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct:   211 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSSIPFYFISPVANSSLEFSQIFAEW 264

GO:0032039 "integrator complex" evidence=IEA

GO:0016180 "snRNA processing" evidence=IEA

UNIPROTKB|F1MMA6 INTS9 "Integrator complex subunit 9" [Bos taurus (taxid:9913)]

 Score = 197 (74.4 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 35/54 (64%), Positives = 44/54 (81%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct:   293 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSSIPFYFISPVANSSLEFSQIFAEW 346

GO:0032039 "integrator complex" evidence=IEA

GO:0016180 "snRNA processing" evidence=IEA

UNIPROTKB|Q2KJA6 INTS9 "Integrator complex subunit 9" [Bos taurus (taxid:9913)]

 Score = 197 (74.4 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 35/54 (64%), Positives = 44/54 (81%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct:   293 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSSIPFYFISPVANSSLEFSQIFAEW 346

GO:0032039 "integrator complex" evidence=IEA

GO:0016180 "snRNA processing" evidence=IEA

UNIPROTKB|F6XI08 INTS9 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 197 (74.4 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 35/54 (64%), Positives = 44/54 (81%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct:   293 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSNIPFYFISPVANSSLEFSQIFAEW 346

GO:0032039 "integrator complex" evidence=IEA

GO:0016180 "snRNA processing" evidence=IEA

MGI|MGI:1098533 Ints9 "integrator complex subunit 9" [Mus musculus (taxid:10090)]

 Score = 197 (74.4 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 35/54 (64%), Positives = 44/54 (81%)

Query:    52 GSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
             G+VLVPCYPSGVIYDL ECL  ++D++ L+ IP +FISPVA+ SL +S I AEW
Sbjct:   293 GNVLVPCYPSGVIYDLLECLYQYIDSAGLSNIPFYFISPVANSSLEFSQIFAEW 346

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0016180 "snRNA processing" evidence=ISO

GO:0032039 "integrator complex" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9NV88	INT9_HUMAN	No assigned EC number	0.6181	0.4661	0.0835	yes	N/A
Q5ZKK2	INT9_CHICK	No assigned EC number	0.6181	0.4661	0.0835	yes	N/A
Q8K114	INT9_MOUSE	No assigned EC number	0.6363	0.4661	0.0835	yes	N/A
Q2KJA6	INT9_BOVIN	No assigned EC number	0.6363	0.4661	0.0835	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	118
TIGR03675	630	arCOG00543 arCOG00543 universal archaeal KH-domain	99.78
COG1782	637	Predicted metal-dependent RNase, consists of a met	99.71
KOG1138|consensus	653		99.67
COG1236	427	YSH1 Predicted exonuclease of the beta-lactamase f	99.54
KOG1136|consensus	501		99.51
KOG1135|consensus	764		99.44
KOG1137|consensus	668		99.43
PF10996	126	Beta-Casp: Beta-Casp domain; InterPro: IPR022712 T	99.27
TIGR00649	422	MG423 conserved hypothetical protein. Contains an	97.15
PRK11188	209	rrmJ 23S rRNA methyltransferase J; Provisional	91.98
PF02522	229	Antibiotic_NAT: Aminoglycoside 3-N-acetyltransfera	86.12
PRK05728	142	DNA polymerase III subunit chi; Validated	85.5
COG2927	144	HolC DNA polymerase III, chi subunit [DNA replicat	85.08
TIGR00438	188	rrmJ cell division protein FtsJ.	84.67
TIGR00406	288	prmA ribosomal protein L11 methyltransferase. Ribo	84.42
COG0293	205	FtsJ 23S rRNA methylase [Translation, ribosomal st	84.33
PRK00377	198	cbiT cobalt-precorrin-6Y C(15)-methyltransferase;	82.98
PF10294	173	Methyltransf_16: Putative methyltransferase; Inter	82.7
PF12847	112	Methyltransf_18: Methyltransferase domain; PDB: 3G	82.2
PF01728	181	FtsJ: FtsJ-like methyltransferase; InterPro: IPR00	81.27
PF08241	95	Methyltransf_11: Methyltransferase domain; InterPr	81.09
PRK00517	250	prmA ribosomal protein L11 methyltransferase; Revi	80.7

>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein

Probab=99.78  E-value=1.1e-18  Score=154.06  Aligned_cols=91  Identities=13%  Similarity=0.202  Sum_probs=80.5

Q ss_pred             ceeEEEEccc----------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChh
Q psy9123          22 SKIAVLLHSD----------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPV   91 (118)
Q Consensus        22 ~~~~~~~~~~----------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPm   91 (118)
                      .++|+|+.-.          ..++..++|++.|.+|+++||+||||+|++||+||||+.|+++|+++++|++|||+|| |
T Consensus       363 ~~vD~LI~ESTYg~~~~~~~~r~~~e~~l~~~I~~tl~~gG~VLIP~favGR~QEll~~L~~~~~~g~lp~~pIy~dg-~  441 (630)
T TIGR03675       363 PRVETLIMESTYGGRDDYQPSREEAEKELIKVVNETIKRGGKVLIPVFAVGRAQEVMLVLEEAMRKGLIPEVPVYLDG-M  441 (630)
T ss_pred             CCCCEEEEeCccCCCCCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEechhHHHHHHHHHHHHHHHhCCCCCCcEEEEc-h
Confidence            4577777621          2345678899999999999999999999999999999999999999999999999999 9


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHh
Q psy9123          92 ADISLAYSNILAEWNTKVEVQI  113 (118)
Q Consensus        92 A~~al~~~~~~~Ewl~~~~~~~  113 (118)
                      +.+++++++.|+|||+++.++.
T Consensus       442 ~~~~t~i~~~~~e~l~~~~~~~  463 (630)
T TIGR03675       442 IWEATAIHTAYPEYLNKELRER  463 (630)
T ss_pred             HHHHHHHHHHhHHHhCHHHHHH
Confidence            9999999999999999986654

This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.

>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only]

Probab=99.71  E-value=8.8e-18  Score=146.84  Aligned_cols=84  Identities=13%  Similarity=0.162  Sum_probs=77.7

Q ss_pred             cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHHHHHHHHHHHHhhhhHHHH
Q psy9123          32 LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEV  111 (118)
Q Consensus        32 ~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~~al~~~~~~~Ewl~~~~~  111 (118)
                      -.++++++|.++|++|+++||+||||+|||||.||+|..|++..++|.+|.+|||+|. |-.++|++...||||++.+.+
T Consensus       389 ~R~eaE~~L~~vi~~t~~rGGKvLIP~fAVGR~QEvM~VLee~mr~g~ipe~PVYlDG-MI~EatAIhtaYPEyL~~~lr  467 (637)
T COG1782         389 PREEAEKELIKVINDTLKRGGKVLIPVFAVGRSQEVMIVLEEAMRKGLIPEVPVYLDG-MIWEATAIHTAYPEYLNKELR  467 (637)
T ss_pred             cHHHHHHHHHHHHHHHHhcCCeEEEEeeeccccceehhHHHHHHhcCCCCCCceeeee-eeeehhhhhhcCHHhhhHHHH
Confidence            3567788999999999999999999999999999999999999999999999999995 999999999999999999988


Q ss_pred             Hhhhh
Q psy9123         112 QILSK  116 (118)
Q Consensus       112 ~~L~~  116 (118)
                      +.+-+
T Consensus       468 ~~I~~  472 (637)
T COG1782         468 ERIFH  472 (637)
T ss_pred             HHHhc
Confidence            76543

>KOG1138|consensus

Probab=99.67  E-value=7.7e-17  Score=140.88  Aligned_cols=92  Identities=47%  Similarity=0.784  Sum_probs=84.8

Q ss_pred             ceeEEEEccccchhh-------HHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHHH
Q psy9123          22 SKIAVLLHSDLNNIT-------CDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADI   94 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~-------~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~~   94 (118)
                      ---|||+.+++..-.       .-|||..|+.|+++||+||+|++|+|.++||++++.+..++.++.+.||||+||+|..
T Consensus       257 k~~Dvli~T~lsql~tanpd~m~gelc~nvt~~~rn~GsvL~PcyPsGviydl~Ecls~~idna~ls~~P~yfISpvadS  336 (653)
T KOG1138|consen  257 KETDVLIYTGLSQLPTANPDEMGGELCKNVTLTGRNHGSVLLPCYPSGVIYDLIECLSQDIDNAGLSDTPIYFISPVADS  336 (653)
T ss_pred             ccccEEEEecccccccCCccchhhhHHHHHHHHhhcCCceeeeccCCchhhHHHHHhhhcccccCCcCCcceEecccchh
Confidence            346999998875544       3499999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhHHHHHh
Q psy9123          95 SLAYSNILAEWNTKVEVQI  113 (118)
Q Consensus        95 al~~~~~~~Ewl~~~~~~~  113 (118)
                      ++++.+++.||++..+|+.
T Consensus       337 sla~s~ilaEwls~akqnk  355 (653)
T KOG1138|consen  337 SLATSDILAEWLSLAKQNK  355 (653)
T ss_pred             hhhHHHHHHHHHHhhhccc
Confidence            9999999999999999864

>COG1236 YSH1 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]

Probab=99.54  E-value=2.5e-14  Score=121.24  Aligned_cols=89  Identities=18%  Similarity=0.240  Sum_probs=76.8

Q ss_pred             eEEEEccc--------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHHHH
Q psy9123          24 IAVLLHSD--------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADIS   95 (118)
Q Consensus        24 ~~~~~~~~--------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~~a   95 (118)
                      +|||+.--        -..+..++|.+.|.+++.+||+||||+||+||+||||.+|+.++.++   ++|||+||++|..+
T Consensus       181 ~DvLI~EsTYg~~~~~~r~~~e~~f~~~v~~~l~~GG~vlipafa~graQEll~~L~~~~~~~---~~pi~~d~~~a~~~  257 (427)
T COG1236         181 IDVLIVESTYGDRLHPNRDEVERRFIESVKAALERGGTVLIPAFALGRAQELLLILRELGFAG---DYPIYVDGPIARVA  257 (427)
T ss_pred             CcEEEEecccCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHHHhccC---CCCeEeccHHHHHH
Confidence            67776521        12334566999999999999999999999999999999999999988   79999999999999


Q ss_pred             HHHHHHHHhhhhHHHHHhhh
Q psy9123          96 LAYSNILAEWNTKVEVQILS  115 (118)
Q Consensus        96 l~~~~~~~Ewl~~~~~~~L~  115 (118)
                      +.+++.+.+|+++.......
T Consensus       258 ~~~~~~~~~~~~~~~~~~~~  277 (427)
T COG1236         258 LAYAKYPIGLDLPDLLKVAE  277 (427)
T ss_pred             HHHHHhchhccChHHHHHHH
Confidence            99999999999888765544

>KOG1136|consensus

Probab=99.51  E-value=1.9e-14  Score=122.20  Aligned_cols=79  Identities=16%  Similarity=0.324  Sum_probs=73.8

Q ss_pred             hHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHHHHHHHHHHHHhhhhHHHHHhhh
Q psy9123          36 TCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQILS  115 (118)
Q Consensus        36 ~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~~al~~~~~~~Ewl~~~~~~~L~  115 (118)
                      .+.+|...+.+++.+||+||||+||.||+|||+.+|+.||++..+. +||||.|.++.++..|++.|..|.++..+..+-
T Consensus       217 rERdFLk~VhecVa~GGkvlIPvFALGRAQElCiLLd~YWERm~lk-~Piyfs~Glte~an~yyk~fiswtn~~v~k~~~  295 (501)
T KOG1136|consen  217 RERDFLKKVHECVARGGKVLIPVFALGRAQELCILLDDYWERMNLK-VPIYFSSGLTEKANMYYKMFISWTNENVKKKFV  295 (501)
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEeeecchHHHHHHHHHHHHHhhccC-CCccccccccchhchHhhhhhhhcccchhhhhc
Confidence            4678999999999999999999999999999999999999999995 999999999999999999999999998776543

>KOG1135|consensus

Probab=99.44  E-value=3.7e-13  Score=120.59  Aligned_cols=83  Identities=22%  Similarity=0.376  Sum_probs=76.9

Q ss_pred             hhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcC--CCCCCCEEEeChhHHHHHHHHHHHHhhhhHHHH
Q psy9123          34 NITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNS--SLTQIPMFFISPVADISLAYSNILAEWNTKVEV  111 (118)
Q Consensus        34 ~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~--~Lp~iPIyldSPmA~~al~~~~~~~Ewl~~~~~  111 (118)
                      .+.-++|.+.|.+|++.||+||||++..||++||...|+++|.+.  +++.+|+++.|+.+.++.+|++++.|||++..-
T Consensus       209 kkRDe~f~d~v~~~L~~~G~VlipVDtAgRvLELa~iLdqlws~~~~gl~~~pl~~Ls~vs~~tveyAKSmiEWmsdkl~  288 (764)
T KOG1135|consen  209 KKRDEQFLDTVLKTLRSGGNVLIPVDTAGRVLELALILDQLWSQSDAGLSQYPLAFLSYVSSRTVEYAKSMIEWMSDKLS  288 (764)
T ss_pred             hHHHHHHHHHHHHHhcCCCcEEEEecccHHHHHHHHHHHHHHhcccCCCcccceeeeeccchhHHHHHHHHHHHhhhHHH
Confidence            344578999999999999999999999999999999999999998  677899999999999999999999999999988


Q ss_pred             Hhhhh
Q psy9123         112 QILSK  116 (118)
Q Consensus       112 ~~L~~  116 (118)
                      ..++.
T Consensus       289 k~fe~  293 (764)
T KOG1135|consen  289 KMFEE  293 (764)
T ss_pred             Hhhhh
Confidence            77765

>KOG1137|consensus

Probab=99.43  E-value=1.8e-13  Score=120.73  Aligned_cols=93  Identities=17%  Similarity=0.187  Sum_probs=79.9

Q ss_pred             CCceeEEEEc-cc-------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCC-CCCCCEEEeCh
Q psy9123          20 GQSKIAVLLH-SD-------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSS-LTQIPMFFISP   90 (118)
Q Consensus        20 ~~~~~~~~~~-~~-------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~-Lp~iPIyldSP   90 (118)
                      .+-++|||+. |+       -.++.+.+|..+|..++.+||.||||+||.||+||||..|++||.+.. +.++|||.-|+
T Consensus       196 P~~~~dvli~estygv~~h~~r~~re~rlt~vIh~~v~rGGR~L~PvFAlgrAqELllildeyw~~h~~l~~iPiyyaSs  275 (668)
T KOG1137|consen  196 PPTGPDVLITESTYGVQIHEPREEREGRLTWVIHSTVPRGGRVLIPVFALGRAQELLLILDEYWGNHVDLRDIPIYYASS  275 (668)
T ss_pred             CCCCccEEEEEeeeeEEecCchHHhhhhhhhhHHhhccCCCceEeeeeecchHHHHHHHHHHHhhcchhhhcCceeehhh
Confidence            3456676642 21       245667789999999999999999999999999999999999999864 56899999999


Q ss_pred             hHHHHHHHHHHHHhhhhHHHHH
Q psy9123          91 VADISLAYSNILAEWNTKVEVQ  112 (118)
Q Consensus        91 mA~~al~~~~~~~Ewl~~~~~~  112 (118)
                      +|++...+|++|..-|++..+.
T Consensus       276 lakkcm~vfQtyv~~mnd~Irk  297 (668)
T KOG1137|consen  276 LAKKCMGVFQTYVNMMNDRIRK  297 (668)
T ss_pred             HHHhhhhhHheehhhhhhhhHH
Confidence            9999999999999999998874

>PF10996 Beta-Casp: Beta-Casp domain; InterPro: IPR022712 The beta-CASP domain is found C-terminal to the beta-lactamase domain in pre-mRNA 3'-end-processing endonuclease

Probab=99.27  E-value=7.6e-12  Score=87.54  Aligned_cols=52  Identities=21%  Similarity=0.380  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHhhcCCCC-CCCEEEeChhHHHHHHHHHHHHhhhhHHHHHhhh
Q psy9123          64 IYDLFECLSSHLDNSSLT-QIPMFFISPVADISLAYSNILAEWNTKVEVQILS  115 (118)
Q Consensus        64 tqELL~~L~~l~~~~~Lp-~iPIyldSPmA~~al~~~~~~~Ewl~~~~~~~L~  115 (118)
                      |||||++|+++|++++++ ++|||+|||||.+++++++.|.||+++..++.+.
T Consensus         1 ~qEll~~L~~~~~~~~~~~~~pI~~~s~~a~~~~~~~~~~~e~l~~~~~~~~~   53 (126)
T PF10996_consen    1 AQELLLILDEYWKEGKLPRDVPIYVDSPMAAKVLEYYKSYPEWLSESIQRKFE   53 (126)
T ss_dssp             HHHHHHHHHHHHCTTSSGTTSEEEEESTCHHHHHHHHHHCGGGS-HHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCCCCCcEEEEChHHHHHHHHHHHHHHHHCHHHHHHHH
Confidence            799999999999999984 6999999999999999999999999999776554

The active site of this enzyme is located at the interface of these two domains []. ; PDB: 2YCB_B 2XR1_B 2I7T_A 2I7V_A 2I7X_A 3A4Y_A 3IE2_D 3IE1_B 3IE0_D 2DKF_D ....

>TIGR00649 MG423 conserved hypothetical protein

Probab=97.15  E-value=0.0026  Score=53.37  Aligned_cols=78  Identities=10%  Similarity=0.065  Sum_probs=57.7

Q ss_pred             ceeEEEEccccc------hhhHHHHHHHHHHHH-hcCCeEEEcCCc--hHHHHHHHHHHHHHhhcCCCCCCCEEEeChhH
Q psy9123          22 SKIAVLLHSDLN------NITCDEKWMRDIKNQ-NESGSVLVPCYP--SGVIYDLFECLSSHLDNSSLTQIPMFFISPVA   92 (118)
Q Consensus        22 ~~~~~~~~~~~~------~~~~~eL~~~I~~Tl-~~GG~VLIPaFa--vGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA   92 (118)
                      .+.|+|++-.-.      ..+..++.+.+.+.+ +.+|.|+||+|+  ++|+|+++....++       .-||++++.+.
T Consensus       182 ~g~d~Li~EsT~~~~~~~~~~e~~~~~~i~~~~~~~~~~viv~~fa~~~~R~~~i~~~a~~~-------~r~v~v~g~~~  254 (422)
T TIGR00649       182 KGVLLLISDSTNVENPGFTPSEAKVLEQLNDIFKNAKGRVIVATFASNIHRVQQLIQIARKQ-------GRKFAVYGRSM  254 (422)
T ss_pred             cCeEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEccccHHHHHHHHHHHHHh-------CCEEEEECccH
Confidence            457887764321      124556677777776 679999999999  99999999987653       24699999999


Q ss_pred             HHHHHHHHHHHhhhh
Q psy9123          93 DISLAYSNILAEWNT  107 (118)
Q Consensus        93 ~~al~~~~~~~Ewl~  107 (118)
                      .++++++..+ .|+.
T Consensus       255 ~~~~~~~~~~-g~~~  268 (422)
T TIGR00649       255 EHLFGIARRL-GLIK  268 (422)
T ss_pred             HHHHHHHHHc-CCcc
Confidence            9998887765 4443

Contains an ATP-binding domain at the N-terminal end of the protein. Possibly part of a superfamily of beta-lactmases

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional

Probab=91.98  E-value=0.27  Score=37.84  Aligned_cols=58  Identities=14%  Similarity=0.092  Sum_probs=44.5

Q ss_pred             CceeEEEEccccch-------h------hHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcC
Q psy9123          21 QSKIAVLLHSDLNN-------I------TCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNS   78 (118)
Q Consensus        21 ~~~~~~~~~~~~~~-------~------~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~   78 (118)
                      ..+||+++..--+.       +      ..+++.+.+.+.++.||.++|=.|.-++++++++.+.+++.+-
T Consensus       115 ~~~~D~V~S~~~~~~~g~~~~d~~~~~~~~~~~L~~~~~~LkpGG~~vi~~~~~~~~~~~l~~l~~~f~~v  185 (209)
T PRK11188        115 DSKVQVVMSDMAPNMSGTPAVDIPRAMYLVELALDMCRDVLAPGGSFVVKVFQGEGFDEYLREIRSLFTKV  185 (209)
T ss_pred             CCCCCEEecCCCCccCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEEEEecCcCHHHHHHHHHhCceEE
Confidence            46799988632110       1      1245677888899999999999999999999999998888764

>PF02522 Antibiotic_NAT: Aminoglycoside 3-N-acetyltransferase; InterPro: IPR003679 This family consists of bacterial aminoglycoside 3-N-acetyltransferases (2

Probab=86.12  E-value=1.1  Score=35.23  Aligned_cols=37  Identities=16%  Similarity=0.263  Sum_probs=25.3

Q ss_pred             EEccccc-----hhhHHHHHHHHHHHHhcCCeEEEcCCchHH
Q psy9123          27 LLHSDLN-----NITCDEKWMRDIKNQNESGSVLVPCYPSGV   63 (118)
Q Consensus        27 ~~~~~~~-----~~~~~eL~~~I~~Tl~~GG~VLIPaFavGR   63 (118)
                      ||||.+.     +-.-+.+.+++.+++...|++++|+|+..-
T Consensus         1 lVHsSl~~lG~v~gg~~~vi~aL~~~vg~~GTlvmPt~t~~~   42 (229)
T PF02522_consen    1 LVHSSLSSLGYVEGGAETVIDALLEVVGPEGTLVMPTFTYSN   42 (229)
T ss_dssp             EEEE-TGGG-CBTTHHHHHHHHHHHHHTTTSEEEEE---CCC
T ss_pred             CeeechHHhCCCCCcHHHHHHHHHHHhccCCeEEEEccCCcc
Confidence            4566653     234568899999999999999999998753

3.1.81 from EC) that catalyse the reaction []: Acetyl-Co + a 2-deoxystreptamine antibiotic = CoA + N3'-acetyl-2-deoxystreptamine antibiotic The enzyme can use a range of antibiotics with 2-deoxystreptamine rings as acceptor for its acetyltransferase activity, this inactivates and confers resistance to gentamicin, kanamycin, tobramycin, neomycin and apramycin amongst others. For the kanamycin group antibiotics acetylation occurred at the 3"-amino group in arbekacin and amikacin, and at the 3-amino group in dibekacin as in the case of kanamycin reflecting the effect of the (S)-4-amino-2-hydroxybutyryl side chain which is present in arbekacin and amikacin, but absent in dibekacin and kanamycin [].; GO: 0046353 aminoglycoside 3-N-acetyltransferase activity, 0046677 response to antibiotic; PDB: 3SMA_D 3N0M_B 3IJW_B 3N0S_D 3SLB_C 3SLF_A 3KZL_D 3E4F_B 2NYG_E.

>PRK05728 DNA polymerase III subunit chi; Validated

Probab=85.50  E-value=6.2  Score=28.94  Aligned_cols=57  Identities=21%  Similarity=0.067  Sum_probs=45.7

Q ss_pred             cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCC----------CCCEEEe
Q psy9123          32 LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLT----------QIPMFFI   88 (118)
Q Consensus        32 ~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp----------~iPIyld   88 (118)
                      ..++...-+|..+.+++++|-.|+|=+-.-+++++|=..|+++-..+=+|          ..||.+-
T Consensus        10 ~~~~~~~~~c~L~~ka~~~g~rv~I~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~~~~~~PV~l~   76 (142)
T PRK05728         10 TLSALEALLCELAEKALRAGWRVLVQCEDEEQAEALDEALWTFRDESFLPHGLAGEGPAAGQPVLLT   76 (142)
T ss_pred             CchhHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHHHHhcCCCCCcCCCCCcCCCCCCCCCCEEEE
Confidence            35556777999999999999999999988899999999998765554343          3588875

>COG2927 HolC DNA polymerase III, chi subunit [DNA replication, recombination, and repair]

Probab=85.08  E-value=3.2  Score=31.47  Aligned_cols=54  Identities=19%  Similarity=0.119  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCC----------CCCEEEeCh
Q psy9123          37 CDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLT----------QIPMFFISP   90 (118)
Q Consensus        37 ~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp----------~iPIyldSP   90 (118)
                      .+-+|..+.+++++|.+|+|=|-.-+|.++|=..|+++-.+.=||          .-||++.-+
T Consensus        15 ~~~~c~L~~k~~~~G~rvlI~~~d~~q~e~LD~~LWt~~~~sFiPH~~~~e~~~~~qPIli~~~   78 (144)
T COG2927          15 LAAACRLAEKAWRSGWRVLIQCEDEAQAEALDEHLWTFSAESFIPHNLAGEPPPAGQPILIAWP   78 (144)
T ss_pred             HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHhhhccchhcccCCccCCCCCCCCCCEEEEcC
Confidence            348899999999999999999999999999999998876554332          467776543

>TIGR00438 rrmJ cell division protein FtsJ

Probab=84.67  E-value=2.9  Score=30.95  Aligned_cols=57  Identities=11%  Similarity=0.186  Sum_probs=40.9

Q ss_pred             CceeEEEEccc---------cch----hhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          21 QSKIAVLLHSD---------LNN----ITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        21 ~~~~~~~~~~~---------~~~----~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      +.+||+++..-         +..    ...+++.+.+.+.++.||.++|=.+...++-+++..+.+.+..
T Consensus        96 ~~~~D~V~~~~~~~~~g~~~~~~~~~~~~~~~~l~~~~~~LkpgG~lvi~~~~~~~~~~~l~~l~~~~~~  165 (188)
T TIGR00438        96 DDKVDVVMSDAAPNISGYWDIDHLRSIDLVELALDIAKEVLKPKGNFVVKVFQGEEIDEYLNELRKLFEK  165 (188)
T ss_pred             CCCccEEEcCCCCCCCCCccccHHHHHHHHHHHHHHHHHHccCCCEEEEEEccCccHHHHHHHHHhhhce
Confidence            45799988521         110    1135677778889999999999778888888888888776643

>TIGR00406 prmA ribosomal protein L11 methyltransferase

Probab=84.42  E-value=2.8  Score=33.65  Aligned_cols=52  Identities=8%  Similarity=0.062  Sum_probs=40.9

Q ss_pred             ceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      .+||++++ +...+...++...+.+.++.||.+++--+-.....++...+.+.
T Consensus       224 ~~fDlVva-n~~~~~l~~ll~~~~~~LkpgG~li~sgi~~~~~~~v~~~~~~~  275 (288)
T TIGR00406       224 GKADVIVA-NILAEVIKELYPQFSRLVKPGGWLILSGILETQAQSVCDAYEQG  275 (288)
T ss_pred             CCceEEEE-ecCHHHHHHHHHHHHHHcCCCcEEEEEeCcHhHHHHHHHHHHcc
Confidence            47998876 44455667788888999999999999888777787877777654

Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.

>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]

Probab=84.33  E-value=1.4  Score=35.00  Aligned_cols=58  Identities=19%  Similarity=0.299  Sum_probs=43.5

Q ss_pred             CCceeEEEEccccchhh--------------HHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcC
Q psy9123          20 GQSKIAVLLHSDLNNIT--------------CDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNS   78 (118)
Q Consensus        20 ~~~~~~~~~~~~~~~~~--------------~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~   78 (118)
                      |..++|| |.||..+++              ++..++...+.++.||+.+++.|--|-..++++.+.++++.-
T Consensus       108 ~~~~~Dv-V~sD~ap~~~g~~~~Dh~r~~~L~~~a~~~a~~vL~~~G~fv~K~fqg~~~~~~l~~~~~~F~~v  179 (205)
T COG0293         108 GGAPVDV-VLSDMAPNTSGNRSVDHARSMYLCELALEFALEVLKPGGSFVAKVFQGEDFEDLLKALRRLFRKV  179 (205)
T ss_pred             CCCCcce-EEecCCCCcCCCccccHHHHHHHHHHHHHHHHHeeCCCCeEEEEEEeCCCHHHHHHHHHHhhcee
Confidence            4455665 456666632              233445555668999999999999999999999999998763

>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional

Probab=82.98  E-value=3.2  Score=31.14  Aligned_cols=51  Identities=8%  Similarity=0.113  Sum_probs=38.4

Q ss_pred             ceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSS   73 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~   73 (118)
                      .+||.++..- ......++.+.+.+.++.||.+++-....+++.+++..|.+
T Consensus       110 ~~~D~V~~~~-~~~~~~~~l~~~~~~LkpgG~lv~~~~~~~~~~~~~~~l~~  160 (198)
T PRK00377        110 EKFDRIFIGG-GSEKLKEIISASWEIIKKGGRIVIDAILLETVNNALSALEN  160 (198)
T ss_pred             CCCCEEEECC-CcccHHHHHHHHHHHcCCCcEEEEEeecHHHHHHHHHHHHH
Confidence            4788877622 22334566777778899999999988888998999888865

>PF10294 Methyltransf_16: Putative methyltransferase; InterPro: IPR019410 There are a number of unidentified genes that have a high probability of coding for methyltransferases

Probab=82.70  E-value=1.5  Score=32.69  Aligned_cols=37  Identities=19%  Similarity=0.196  Sum_probs=29.3

Q ss_pred             ceeEEEEcccc--chhhHHHHHHHHHHHHhcCCeEEEcC
Q psy9123          22 SKIAVLLHSDL--NNITCDEKWMRDIKNQNESGSVLVPC   58 (118)
Q Consensus        22 ~~~~~~~~~~~--~~~~~~eL~~~I~~Tl~~GG~VLIPa   58 (118)
                      .+|||+++||.  .++..+.|.+++.+.++.+|.+++-.
T Consensus       118 ~~~D~IlasDv~Y~~~~~~~L~~tl~~ll~~~~~vl~~~  156 (173)
T PF10294_consen  118 HSFDVILASDVLYDEELFEPLVRTLKRLLKPNGKVLLAY  156 (173)
T ss_dssp             SSBSEEEEES--S-GGGHHHHHHHHHHHBTT-TTEEEEE
T ss_pred             ccCCEEEEecccchHHHHHHHHHHHHHHhCCCCEEEEEe
Confidence            58999999997  46678899999999999999977644

They make up approximately 0.6-1.6% of the genes in the yeast, human, mouse, Drosophila melanogaster, Caenorhabditis elegans, Arabidopsis thaliana, and Escherichia coli genomes []. This entry represents putative nicotinamide N-methyltransferases involved in rDNA silencing and in lifespan determination. ; PDB: 3BZB_A.

>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A

Probab=82.20  E-value=2.4  Score=27.90  Aligned_cols=39  Identities=10%  Similarity=0.033  Sum_probs=30.1

Q ss_pred             cCCCceeEEEEccc-----cch-hhHHHHHHHHHHHHhcCCeEEE
Q psy9123          18 SNGQSKIAVLLHSD-----LNN-ITCDEKWMRDIKNQNESGSVLV   56 (118)
Q Consensus        18 ~~~~~~~~~~~~~~-----~~~-~~~~eL~~~I~~Tl~~GG~VLI   56 (118)
                      .....+||+.+...     +.. +..+++.+.+.+.++.||.++|
T Consensus        65 ~~~~~~~D~v~~~~~~~~~~~~~~~~~~~l~~~~~~L~pgG~lvi  109 (112)
T PF12847_consen   65 PDFLEPFDLVICSGFTLHFLLPLDERRRVLERIRRLLKPGGRLVI  109 (112)
T ss_dssp             TTTSSCEEEEEECSGSGGGCCHHHHHHHHHHHHHHHEEEEEEEEE
T ss_pred             cccCCCCCEEEECCCccccccchhHHHHHHHHHHHhcCCCcEEEE
Confidence            44556799998888     333 3456778888999999999987

...

>PF01728 FtsJ: FtsJ-like methyltransferase; InterPro: IPR002877 RrmJ (FtsJ) is a well conserved heat shock protein present in prokaryotes, archaea, and eukaryotes

Probab=81.27  E-value=2.3  Score=31.13  Aligned_cols=58  Identities=16%  Similarity=0.235  Sum_probs=39.1

Q ss_pred             CCceeEEEEcccc-----------chhhHHHHHHH---HHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcC
Q psy9123          20 GQSKIAVLLHSDL-----------NNITCDEKWMR---DIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNS   78 (118)
Q Consensus        20 ~~~~~~~~~~~~~-----------~~~~~~eL~~~---I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~   78 (118)
                      ++.++|+++ +|.           .....+.....   ..+.++.||+.++-.|-.....++++.+.++++.-
T Consensus        88 ~~~~~dlv~-~D~~~~~~g~~~~d~~~~~~l~~~~l~~a~~~L~~gG~~v~K~~~~~~~~~~~~~l~~~F~~v  159 (181)
T PF01728_consen   88 SGEKFDLVL-SDMAPNVSGDRNIDEFISIRLILSQLLLALELLKPGGTFVIKVFKGPEIEELIYLLKRCFSKV  159 (181)
T ss_dssp             TTCSESEEE-E-------SSHHSSHHHHHHHHHHHHHHHHHHHCTTEEEEEEESSSTTSHHHHHHHHHHHHHE
T ss_pred             cccCcceec-cccccCCCCchhhHHHHHHHHHHHHHHHHHhhhcCCCEEEEEeccCccHHHHHHHHHhCCeEE
Confidence            447899755 566           33333332222   23447999999999999777679999999998874

RrmJ is responsible for methylating 23 S rRNA at position U2552 in the aminoacyl (A)1-site of the ribosome []. U2552 is one of the five universally conserved A-loop residues and has been shown to be methylated at the ribose 2'-OH group in the majority of organisms investigated so far. This suggests that this modification plays an important role in the A-loop function. RrmJ recognises its methylation target only when the 23 S rRNA is present in 50 S ribosomal subunits. This suggests that the RrmJ-mediated methylation must occur late in the maturation process of the ribosome. This is in contrast to other known 23 S rRNA modifications that occur in earlier maturation steps. The 1.5 A crystal structure of RrmJ in complex with its cofactor S-adenosylmethionine revealed that RrmJ has a methyltransferase fold. The active site of RrmJ appears to be formed by a catalytic triad consisting of two lysine residues and the negatively charged aspartate residue. Another highly conserved glutamate residue that is present in the active site of RrmJ appears to play only a minor role in the methyltransfer reaction in vivo []. ; GO: 0003676 nucleic acid binding, 0008168 methyltransferase activity, 0032259 methylation; PDB: 3GCZ_A 2PLW_A 2NYU_A 2OXT_C 3EMD_A 3ELY_A 3ELW_A 3ELU_A 3ELD_A 3EMB_A ....

>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals

Probab=81.09  E-value=1.9  Score=26.97  Aligned_cols=36  Identities=6%  Similarity=0.129  Sum_probs=28.1

Q ss_pred             CceeEEEEccccch--hhHHHHHHHHHHHHhcCCeEEE
Q psy9123          21 QSKIAVLLHSDLNN--ITCDEKWMRDIKNQNESGSVLV   56 (118)
Q Consensus        21 ~~~~~~~~~~~~~~--~~~~eL~~~I~~Tl~~GG~VLI   56 (118)
                      ...||+.+......  +..+++.+-+.++++.||.++|
T Consensus        58 ~~sfD~v~~~~~~~~~~~~~~~l~e~~rvLk~gG~l~~   95 (95)
T PF08241_consen   58 DNSFDVVFSNSVLHHLEDPEAALREIYRVLKPGGRLVI   95 (95)
T ss_dssp             TT-EEEEEEESHGGGSSHHHHHHHHHHHHEEEEEEEEE
T ss_pred             cccccccccccceeeccCHHHHHHHHHHHcCcCeEEeC
Confidence            45799888877665  3566788889999999999986

The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....

>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed

Probab=80.70  E-value=4.5  Score=31.63  Aligned_cols=50  Identities=10%  Similarity=0.039  Sum_probs=37.9

Q ss_pred             eeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHH
Q psy9123          23 KIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSS   73 (118)
Q Consensus        23 ~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~   73 (118)
                      +||++++ +...+....+...+.+.++.||.+++--+......++...+.+
T Consensus       179 ~fD~Vva-ni~~~~~~~l~~~~~~~LkpgG~lilsgi~~~~~~~v~~~l~~  228 (250)
T PRK00517        179 KADVIVA-NILANPLLELAPDLARLLKPGGRLILSGILEEQADEVLEAYEE  228 (250)
T ss_pred             CcCEEEE-cCcHHHHHHHHHHHHHhcCCCcEEEEEECcHhhHHHHHHHHHH
Confidence            7998765 4555666778888889999999999977766777777666654

---

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	118
2i7x_A	717	Protein CFT2; polyadenylation, metallo-B-lactamase	7e-09

>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination, double-strand break repair; 2.50A {Saccharomyces cerevisiae} SCOP: d.157.1.10 Length = 717

 Score = 51.3 bits (122), Expect = 7e-09
 Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 5/74 (6%)

Query: 37  CDEKWMRDIKNQ-NESGSVLVPCYPSG----VIYDLFECLSSHLDNSSLTQIPMFFISPV 91
             + +   +K   +  GSV++P   SG    +   + E L      ++ TQ+P+  +S  
Sbjct: 226 RSKIFKDTLKKGLSSDGSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYA 285

Query: 92  ADISLAYSNILAEW 105
              +L Y+  + EW
Sbjct: 286 RGRTLTYAKSMLEW 299

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	118
3iek_A	431	Ribonuclease TTHA0252; metallo beta lactamase fold	99.83
2i7t_A	459	Cleavage and polyadenylation specificity factor 73	99.75
2i7x_A	717	Protein CFT2; polyadenylation, metallo-B-lactamase	99.6
3af5_A	651	Putative uncharacterized protein PH1404; archaeal	99.58
2ycb_A	636	Beta-CAsp RNAse, cleavage and polyadenylation spec	99.54
2xr1_A	640	Cleavage and polyadenylation specificity factor 1	99.52
3zq4_A	555	Ribonuclease J 1, RNAse J1; hydrolase, RNA maturat	98.39
3bk2_A	562	RNAse J, metal dependent hydrolase; endoribonuclea	97.61
3zdk_A	336	5' exonuclease apollo; hydrolase; HET: TLA; 2.16A	97.01
2az4_A	429	Hypothetical protein EF2904; structural genomics,	96.91
4b87_A	367	DNA cross-LINK repair 1A protein; dclre1A, DCLRE,	95.96
3dou_A	191	Ribosomal RNA large subunit methyltransferase J; c	91.47
2nyu_A	196	Putative ribosomal RNA methyltransferase 2; SAM, s	90.97
1ej0_A	180	FTSJ; methyltransferase, adoMet, adenosyl methioni	90.15
3hm2_A	178	Precorrin-6Y C5,15-methyltransferase; alpha-beta-s	89.74
1dus_A	194	MJ0882; hypothetical protein, methanococcus jannas	88.71
3e05_A	204	Precorrin-6Y C5,15-methyltransferase (decarboxyla;	88.6
1l3i_A	192	Precorrin-6Y methyltransferase/putative decarboxyl	87.61
2plw_A	201	Ribosomal RNA methyltransferase, putative; malaria	86.64
3lpm_A	259	Putative methyltransferase; structural genomics, p	86.29
3njr_A	204	Precorrin-6Y methylase; methyltransferase, decarbo	85.62
3ijw_A	268	Aminoglycoside N3-acetyltransferase; anthrax, COA,	83.93
2yxd_A	183	Probable cobalt-precorrin-6Y C(15)-methyltransfer	83.85
2nyg_A	273	YOKD protein; PFAM02522, NYSGXRC, aminoglycoside 3	83.71
3sma_A	286	FRBF; N-acetyl transferase, acetyl COA binding, tr	81.14
3evf_A	277	RNA-directed RNA polymerase NS5; NS5 methyltransfe	80.93
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	80.91

>3iek_A Ribonuclease TTHA0252; metallo beta lactamase fold, endonuclease, hydrolase, metal- nuclease, RNA-binding, rRNA processing; HET: FLC; 2.05A {Thermus thermophilus} SCOP: d.157.1.10 PDB: 2dkf_A* 3iel_A* 3iem_A* 2zdf_A* 3idz_A* 2zdd_A* 3ie0_A* 2zde_A* 3ie1_A* 2zdw_A* 3a4y_A* 2yvd_A* 3ie2_A*

Probab=99.83  E-value=1.3e-20  Score=155.50  Aligned_cols=93  Identities=18%  Similarity=0.212  Sum_probs=83.2

Q ss_pred             ceeEEEEccc--------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHH
Q psy9123          22 SKIAVLLHSD--------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVAD   93 (118)
Q Consensus        22 ~~~~~~~~~~--------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~   93 (118)
                      .+.|+|++-.        -..++.++|.+.|.+++++||+||||+|++||+|||++.|.++|++  +|++|||+|||||.
T Consensus       178 ~~~D~LI~EsTy~~~~h~~~~~~~~~l~~~i~~~~~~gg~vlIp~fa~gR~qell~~l~~~~~~--~~~~pi~~~s~~a~  255 (431)
T 3iek_A          178 PLADLVLAEGTYGDRPHRPYRETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHR--LPRAPIYLDSPMAG  255 (431)
T ss_dssp             CCCSEEEEECTTTTCCCCCHHHHHHHHHHHHHHHHHTTCEEEEECCTTTHHHHHHHHHHHHGGG--SCCCCEEEECHHHH
T ss_pred             CCccEEEEEcccCCcCCCChHHHHHHHHHHHHHHHHcCCeEEEEeccchHHHHHHHHHHHHHHh--ccCCCEEEeChHHH
Confidence            4678888432        1345678999999999999999999999999999999999999988  88999999999999


Q ss_pred             HHHHHHHHHHhhhhHHHHHhhhh
Q psy9123          94 ISLAYSNILAEWNTKVEVQILSK  116 (118)
Q Consensus        94 ~al~~~~~~~Ewl~~~~~~~L~~  116 (118)
                      +++++++.|+|||+++.++.+++
T Consensus       256 ~~~~~~~~~~~~~~~~~~~~~~~  278 (431)
T 3iek_A          256 RVLSLYPRLVRYFSEEVQAHFLQ  278 (431)
T ss_dssp             HHHHHGGGGGGGSCHHHHHHHHT
T ss_pred             HHHHHHHHhHHHHHHHHHHHHhc
Confidence            99999999999999999987764

>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit; metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10 PDB: 2i7v_A

Probab=99.75  E-value=8.9e-19  Score=144.17  Aligned_cols=94  Identities=17%  Similarity=0.186  Sum_probs=58.4

Q ss_pred             CceeEEEEcc-c-------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcC-CCCCCCEEEeChh
Q psy9123          21 QSKIAVLLHS-D-------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNS-SLTQIPMFFISPV   91 (118)
Q Consensus        21 ~~~~~~~~~~-~-------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~-~Lp~iPIyldSPm   91 (118)
                      ..+.|+|++. +       -.+++.++|.+.|.+|+++||+|+||+|++||+|||+++|+++|+++ .++.+|||++|||
T Consensus       195 ~~~~D~Li~Esty~~~~~~~~~~~~~~l~~~i~~~~~~~g~vlip~fa~gr~qell~~l~~~~~~~~~~~~~pi~~~s~~  274 (459)
T 2i7t_A          195 NIKPDILIIESTYGTHIHEKREEREARFCNTVHDIVNRGGRGLIPVFALGRAQELLLILDEYWQNHPELHDIPIYYASSL  274 (459)
T ss_dssp             SSCCSEEEEECTTTTCCCCCHHHHHHHHHHHHHHHHHTTCEEEEECCSSSSHHHHHHHHHHHHHHCGGGTTSCEEEC---
T ss_pred             CCCCeEEEECCCCCCCCCCChHHHHHHHHHHHHHHHHCCCEEEEEecchhHHHHHHHHHHHHHHhcCCCCCccEEEECHH
Confidence            3578999872 1       12345678999999999999999999999999999999999999885 5788999999999


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHhh
Q psy9123          92 ADISLAYSNILAEWNTKVEVQIL  114 (118)
Q Consensus        92 A~~al~~~~~~~Ewl~~~~~~~L  114 (118)
                      |.+++++++.|.+|+++..++.+
T Consensus       275 a~~~~~~~~~~~~~~~~~~~~~~  297 (459)
T 2i7t_A          275 AKKCMAVYQTYVNAMNDKIRKQI  297 (459)
T ss_dssp             -----------------------
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHh
Confidence            99999999999999999877654

>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J recombination, double-strand break repair; 2.50A {Saccharomyces cerevisiae} SCOP: d.157.1.10

Probab=99.60  E-value=1.2e-15  Score=134.39  Aligned_cols=94  Identities=20%  Similarity=0.278  Sum_probs=76.1

Q ss_pred             eeEEEEccccc-------hhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHh----hcCCCCCCCEEEeChh
Q psy9123          23 KIAVLLHSDLN-------NITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHL----DNSSLTQIPMFFISPV   91 (118)
Q Consensus        23 ~~~~~~~~~~~-------~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~----~~~~Lp~iPIyldSPm   91 (118)
                      ++|+|+.....       .+..++|++.|.+++++||+||||+|++||+|||+++|.++|    +++.++++|||++||+
T Consensus       206 ~~D~LI~EsTy~~~~h~~~~~~~~l~~~i~~~l~~~G~VlIp~fa~gR~qell~~l~~~~~~~~~~~~~~~~pI~l~g~~  285 (717)
T 2i7x_A          206 RPSAIITTLDRFGSSQPFKKRSKIFKDTLKKGLSSDGSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYA  285 (717)
T ss_dssp             SCSEEEECCSCCCCSSCHHHHHHHHHHHHHHHTSTTCEEEEEECTTTHHHHHHHHHHHHHTTC-------CCCEEEECTT
T ss_pred             CCcEEEEcCCCCCCCCCCHHHHHHHHHHHHHHHhCCCeEEEEeccchHHHHHHHHHHHhhhhhhccccCCCceEEEECHH
Confidence            67888753221       135678999999999999999999999999999999999998    3567889999999999


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHhhhh
Q psy9123          92 ADISLAYSNILAEWNTKVEVQILSK  116 (118)
Q Consensus        92 A~~al~~~~~~~Ewl~~~~~~~L~~  116 (118)
                      +.+++++++.|.+||++..++.+..
T Consensus       286 a~~~~~i~~~~~e~l~~~~~~~~~~  310 (717)
T 2i7x_A          286 RGRTLTYAKSMLEWLSPSLLKTWEN  310 (717)
T ss_dssp             TTHHHHHHHTCGGGSCHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHhChHHHHHHhc
Confidence            9999999999999999887655543

>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp family, KH domain, ribonuclease, ME beta-lactamase superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB: 3af6_A*

Probab=99.58  E-value=4.5e-15  Score=128.54  Aligned_cols=91  Identities=11%  Similarity=0.138  Sum_probs=80.1

Q ss_pred             ceeEEEEc----------cccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChh
Q psy9123          22 SKIAVLLH----------SDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPV   91 (118)
Q Consensus        22 ~~~~~~~~----------~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPm   91 (118)
                      .+.|+|++          ..-.....++|.++|.+++++||+||||+|++||+|||++.|.++++++++| +|||+|| |
T Consensus       384 ~~~DvLI~EsT~~~~~~~h~s~~~~~~~l~~~i~~~l~~~g~vlIp~favgR~qell~~l~~~~~~~~l~-~~I~~dg-~  461 (651)
T 3af5_A          384 PRLETLVMESTYGGANDIQMPREEAEKRLIEVIHNTIKRGGKVLIPAMAVGRAQEVMMVLEEYARIGGIE-VPIYLDG-M  461 (651)
T ss_dssp             SSCSEEEEECTTCSTTCCCCCHHHHHHHHHHHHHHHHHTTCEEEEECCTTTHHHHHHHHHHHHHTTTCCC-SCEEEES-S
T ss_pred             CCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHhCCCEEEEeccCccHHHHHHHHHHHhhhhcCCC-CcEEEec-h
Confidence            46899986          1123445688999999999999999999999999999999999999999998 9999999 9


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHhh
Q psy9123          92 ADISLAYSNILAEWNTKVEVQIL  114 (118)
Q Consensus        92 A~~al~~~~~~~Ewl~~~~~~~L  114 (118)
                      +.++++++..|.+|+++..++.+
T Consensus       462 a~~~~~~~~~~~~~l~~~~~~~~  484 (651)
T 3af5_A          462 IWEATAIHTAYPEYLSRRLREQI  484 (651)
T ss_dssp             HHHHHHHHHTCGGGSCHHHHHHT
T ss_pred             HHHHHHHHHHhHHhcCHHHHHHH
Confidence            99999999999999999866443

>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor; hydrolase, KH, metallo-beta-lactamase; 3.10A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.54  E-value=1.8e-14  Score=124.36  Aligned_cols=92  Identities=15%  Similarity=0.205  Sum_probs=80.4

Q ss_pred             ceeEEEEcc-c---------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChh
Q psy9123          22 SKIAVLLHS-D---------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPV   91 (118)
Q Consensus        22 ~~~~~~~~~-~---------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPm   91 (118)
                      .++|+|++- +         ......++|.+++.+++++||+||||+|++||+|||++++.++++++++|++|||+|| |
T Consensus       369 ~~~D~LI~EsT~~~~~~~h~s~~~~~~~l~~~i~~~~~~~g~vlIp~fa~GR~qell~~l~~~~~~~~~~~~~V~~dg-~  447 (636)
T 2ycb_A          369 PRIETLVMESTYGGHEDVQPSRNRAEKELVKTIYSTLRRGGKILIPVFAVGRAQELMIVLEEYIRTGIIDEVPVYIDG-M  447 (636)
T ss_dssp             SCCSEEEEECTTCSGGGCCCCHHHHHHHHHHHHHHHHHHTCCEEEECCTTTHHHHHHHHHHHHHHTTSSCCCCEEEEH-H
T ss_pred             CCCeEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEECCCcHHHHHHHHHHHHHHhCCCCCCeEEEeh-H
Confidence            478999851 1         1234567899999999999999999999999999999999999999999999999998 9


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHhh
Q psy9123          92 ADISLAYSNILAEWNTKVEVQIL  114 (118)
Q Consensus        92 A~~al~~~~~~~Ewl~~~~~~~L  114 (118)
                      +.++++++..|.+|+++..++.+
T Consensus       448 ~~~~~~~~~~~~~~l~~~~~~~~  470 (636)
T 2ycb_A          448 IWEANAIHTARPEYLSKDLRDQI  470 (636)
T ss_dssp             HHHHHHHHHHSGGGSCHHHHHHH
T ss_pred             HHHHHHHHHHhHHhhCHHHHHHH
Confidence            99999999999999999865433

>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit; hydrolase, metallo-beta-lactamase, beta-CAsp, RNA processing; 2.59A {Methanosarcina mazei}

Probab=99.52  E-value=1.4e-14  Score=125.31  Aligned_cols=90  Identities=9%  Similarity=0.155  Sum_probs=72.6

Q ss_pred             ceeEEEEc-cc---------cchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChh
Q psy9123          22 SKIAVLLH-SD---------LNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPV   91 (118)
Q Consensus        22 ~~~~~~~~-~~---------~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPm   91 (118)
                      .+.|+|++ |+         ...++.++|.+.|.+++++||+||||+|++||+||+++.|.++++++++|++|||+|| |
T Consensus       372 ~~~DvLi~EsT~g~~~~~h~s~~~~~~~l~~~i~~~~~~~g~vlIp~favGR~qell~~l~~~~~~~~~~~~~V~~dg-~  450 (640)
T 2xr1_A          372 PRVETVISEATYGNANAFQPALKDAEKHLQMVVKNTIERGGIAVIPAFAVGRSQEVMIVLEESIRKGLIPEVPVYLDG-M  450 (640)
T ss_dssp             SCCSEEEEECTTCSTTCCCCCHHHHHHHHHHHC--------CEEEECCTTTHHHHHHHHHHHHHHHTSSCCCCEEEES-S
T ss_pred             CCCcEEEECCCCCCCccCCCCHHHHHHHHHHHHHHHHhcCCeEEEEecccchHHHHHHHHHHHHHhCCCCCCcEEEEh-H
Confidence            47899987 22         2244678999999999999999999999999999999999999999999999999999 9


Q ss_pred             HHHHHHHHHHHHhhhhHHHHH
Q psy9123          92 ADISLAYSNILAEWNTKVEVQ  112 (118)
Q Consensus        92 A~~al~~~~~~~Ewl~~~~~~  112 (118)
                      +.++++++..|.+|+++..++
T Consensus       451 a~~~~~~~~~~~~~l~~~~~~  471 (640)
T 2xr1_A          451 IWEATAIHATHPEYLNNDLRK  471 (640)
T ss_dssp             HHHHHHHHHHCGGGSCHHHHH
T ss_pred             HHHHHHHHHHhHhhhcHHHHH
Confidence            999999999999999998654

>3zq4_A Ribonuclease J 1, RNAse J1; hydrolase, RNA maturation; 3.00A {Bacillus subtilis}

Probab=98.39  E-value=7.5e-07  Score=76.14  Aligned_cols=74  Identities=8%  Similarity=0.094  Sum_probs=60.6

Q ss_pred             ceeEEEEccccc------hhhHHHHHHHHHHHHhc-CCeEEEcCCc--hHHHHHHHHHHHHHhhcCCCCCCCEEEeChhH
Q psy9123          22 SKIAVLLHSDLN------NITCDEKWMRDIKNQNE-SGSVLVPCYP--SGVIYDLFECLSSHLDNSSLTQIPMFFISPVA   92 (118)
Q Consensus        22 ~~~~~~~~~~~~------~~~~~eL~~~I~~Tl~~-GG~VLIPaFa--vGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA   92 (118)
                      .+.|+|++-.-+      ..+.+++.+.+.+++++ +|+|+||+|+  +||+|++++.+.++       ..|||+++++.
T Consensus       187 ~~~d~Li~esT~~~~~~~~~se~~v~~~i~~~~~~~~grvii~~fasnv~R~q~il~~a~~~-------gr~v~v~grs~  259 (555)
T 3zq4_A          187 EGVLCLLSDSTNSENPEFTMSERRVGESIHDIFRKVDGRIIFATFASNIHRLQQVIEAAVQN-------GRKVAVFGRSM  259 (555)
T ss_dssp             TCEEEEEEECTTTTCCSCCCCHHHHHHHHHHHHHHCCSCEEEECCTTCHHHHHHHHHHHHTT-------TCEEEEESHHH
T ss_pred             cCCcEEEecCcccCCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEChhHHHHHHHHHHHHHHH-------CCEEEEeCHHH
Confidence            357888753322      34578899999999987 9999999999  99999999998765       24799999999


Q ss_pred             HHHHHHHHHH
Q psy9123          93 DISLAYSNIL  102 (118)
Q Consensus        93 ~~al~~~~~~  102 (118)
                      .+++++++.+
T Consensus       260 ~~~~~~~~~~  269 (555)
T 3zq4_A          260 ESAIEIGQTL  269 (555)
T ss_dssp             HHHHHHHHGG
T ss_pred             HHHHHHHHHc
Confidence            9998887766

>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease, exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A {Thermus thermophilus} PDB: 3bk1_A* 3t3o_A* 3t3n_A*

Probab=97.61  E-value=0.00011  Score=62.59  Aligned_cols=76  Identities=11%  Similarity=-0.050  Sum_probs=55.2

Q ss_pred             eeEEEEccccc------hhhHHHHHHHHHHHHh-cCCeEEEcCCc--hHHHHHHHHHHHHHhhcCCCCCCCEEE-eChhH
Q psy9123          23 KIAVLLHSDLN------NITCDEKWMRDIKNQN-ESGSVLVPCYP--SGVIYDLFECLSSHLDNSSLTQIPMFF-ISPVA   92 (118)
Q Consensus        23 ~~~~~~~~~~~------~~~~~eL~~~I~~Tl~-~GG~VLIPaFa--vGRtqELL~~L~~l~~~~~Lp~iPIyl-dSPmA   92 (118)
                      +.|+|++-.-.      ..+..++.+.+.++++ .+|+|+||+|+  +||+|++++.+.++.       .|||+ .++|+
T Consensus       204 ~~d~Li~EsT~~~~~g~~~~e~~v~~~l~~~~~~~~grvii~~fas~~~r~q~il~~a~~~~-------r~V~v~g~s~~  276 (562)
T 3bk2_A          204 GVLLLIADATNAERPGYTPSEMEIAKELDRVIGRAPGRVFVTTFASHIHRIQSVIWAAEKYG-------RKVAMEGRSML  276 (562)
T ss_dssp             CCSEEEEECTTTTCCSCCCCHHHHHHHHHHHHHHCSSCEEEECCTTCHHHHHHHHHHHHHTT-------CEEEEECHHHH
T ss_pred             CCCEEEecccCCCCCCCCChHHHHHHHHHHHHHhCCCEEEEEEccccchHHHHHHHHHHHhC-------CEEEEEChHHH
Confidence            46777763221      2345677778888875 68999999999  999999999987652       37887 77776


Q ss_pred             HHHHHHHHHHHhhhh
Q psy9123          93 DISLAYSNILAEWNT  107 (118)
Q Consensus        93 ~~al~~~~~~~Ewl~  107 (118)
                       +++++++.. +|+.
T Consensus       277 -~~~~~~~~~-g~l~  289 (562)
T 3bk2_A          277 -KFSRIALEL-GYLK  289 (562)
T ss_dssp             -HHHHHHHHT-TSCC
T ss_pred             -HHHHHHHhc-Cccc
Confidence             787777643 5654

>3zdk_A 5' exonuclease apollo; hydrolase; HET: TLA; 2.16A {Homo sapiens}

Probab=97.01  E-value=0.00072  Score=54.49  Aligned_cols=55  Identities=13%  Similarity=0.001  Sum_probs=37.5

Q ss_pred             CCceeEEEEccccchh------hHHHHHHHHHHHHhc--CCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          20 GQSKIAVLLHSDLNNI------TCDEKWMRDIKNQNE--SGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        20 ~~~~~~~~~~~~~~~~------~~~eL~~~I~~Tl~~--GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      +..++|+|+.-....+      +.++..+.+.+.+++  ||+|+||+|++||+|++++...++
T Consensus       136 ~~~~vD~Li~DsT~~~~~~~~pse~~v~~~l~~~i~~~~~g~vii~~f~vgR~q~i~~~a~~~  198 (336)
T 3zdk_A          136 LGKQIHTLYLDNTNCNPALVLPSRQEAAHQIVQLIRKHPQHNIKIGLYSLGKESLLEQLALEF  198 (336)
T ss_dssp             SCCCCSEEEECCTBCCTTCCCCCHHHHHHHHHHHHHTCTTSEEEEEECSSSCHHHHHHHHHHH
T ss_pred             ccCCccEEEEecCCCCCCCCCCCHHHHHHHHHHHHHhCCCCcEEEeecchHHHHHHHHHHHHc
Confidence            3567888886333222      334444455555443  789999999999999999988654

>2az4_A Hypothetical protein EF2904; structural genomics, PSI, protein STR initiative, midwest center for structural genomics, MCSG, U function; 2.00A {Enterococcus faecalis} SCOP: d.157.1.10

Probab=96.91  E-value=0.0017  Score=52.19  Aligned_cols=54  Identities=6%  Similarity=-0.071  Sum_probs=42.6

Q ss_pred             hHHHHHHHHHHHHhcC-CeEEEcCCc---hHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHHHHHHHH
Q psy9123          36 TCDEKWMRDIKNQNES-GSVLVPCYP---SGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYS   99 (118)
Q Consensus        36 ~~~eL~~~I~~Tl~~G-G~VLIPaFa---vGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~~al~~~   99 (118)
                      +.+++.+.+.++++++ |+++||.+.   ++|+|++      ..+.+    -|||++++++.++++++
T Consensus       236 s~~~~~~~i~~~~~~~~~rlil~h~~~~~~~r~~~~------a~~~g----r~v~~~g~~~~~~~~~~  293 (429)
T 2az4_A          236 SEEDLVQHLVRLELENPNRQITFNGYPANVERFAKI------IEKSP----RTVVLEANMAALLLEVF  293 (429)
T ss_dssp             SHHHHHHHHHHHHHTCSSSCEEEEECTTCHHHHHHH------HHHCS----SEEEEEHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCcEEEEEeccchHHHHHHH------HHHhC----CEEEEEChhHHHHHhhc
Confidence            4678888888888775 559999988   9999999      22333    38999999999997764

>4b87_A DNA cross-LINK repair 1A protein; dclre1A, DCLRE, interstrand crosslink repair, hydrolase, NIT mustard, cancer, chemotherapy, PSO2 homolog,; HET: DNA; 2.16A {Homo sapiens}

Probab=95.96  E-value=0.0053  Score=49.86  Aligned_cols=53  Identities=8%  Similarity=-0.029  Sum_probs=38.7

Q ss_pred             ceeEEEEccccc----------hhhHHHHHHHHHHHHhcCCeE--EEcCCchHHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLN----------NITCDEKWMRDIKNQNESGSV--LVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        22 ~~~~~~~~~~~~----------~~~~~eL~~~I~~Tl~~GG~V--LIPaFavGRtqELL~~L~~l   74 (118)
                      .++|+|+.-...          ++..+++.+.+.++++++|++  ++|+|++||+|++++++.++
T Consensus       157 ~~~D~Li~EsTy~~~~~~~ps~~~~~~~~~~~i~~~~~~~g~~~v~~~a~~igr~q~ll~ia~~~  221 (367)
T 4b87_A          157 QKVHMLYLDTTYCSPEYTFPSQQEVIRFAINTAFEAVTLNPHALVVCGTYSIGKEKVFLAIADVL  221 (367)
T ss_dssp             SCCCEEEECCTTCSTTCCCCCHHHHHHHHHHHHHHHHHHCTTEEEEEEESSSCCHHHHHHHHHHT
T ss_pred             CCCCEEEEecccCCCCCCCCCHHHHHHHHHHHHHHHHHhCCCeEEEEccchhHHHHHHHHHHHHh
Confidence            467888764322          223344677788888888875  48999999999999998764

>3dou_A Ribosomal RNA large subunit methyltransferase J; cell division, structural genomics, protein structure initiative, PSI; HET: SAM; 1.45A {Thermoplasma volcanium} SCOP: c.66.1.0

Probab=91.47  E-value=0.24  Score=35.79  Aligned_cols=40  Identities=10%  Similarity=0.230  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          38 DEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        38 ~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      +...+...+.++.||.+++-.|..+...+++..+.+++.+
T Consensus       119 ~~~l~~a~~~LkpGG~lv~k~~~~~~~~~~~~~l~~~F~~  158 (191)
T 3dou_A          119 QRVMEIAVRYLRNGGNVLLKQFQGDMTNDFIAIWRKNFSS  158 (191)
T ss_dssp             HHHHHHHHHHEEEEEEEEEEEECSTHHHHHHHHHGGGEEE
T ss_pred             HHHHHHHHHHccCCCEEEEEEcCCCCHHHHHHHHHHhcCE
Confidence            4555666778999999999999999999999999888765

>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.76A {Homo sapiens}

Probab=90.97  E-value=0.24  Score=34.40  Aligned_cols=40  Identities=13%  Similarity=0.062  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          38 DEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        38 ~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      +++.+.+.+.++.||.+++-.+......+++..+..++..
T Consensus       125 ~~~l~~~~~~LkpgG~lv~~~~~~~~~~~~~~~l~~~f~~  164 (196)
T 2nyu_A          125 LTLLSVTPDILQPGGTFLCKTWAGSQSRRLQRRLTEEFQN  164 (196)
T ss_dssp             HHHHHHHHHHEEEEEEEEEEECCSGGGHHHHHHHHHHEEE
T ss_pred             HHHHHHHHHHhcCCCEEEEEecCCccHHHHHHHHHHHhcc
Confidence            4667777888999999999999888888999888877654

>1ej0_A FTSJ; methyltransferase, adoMet, adenosyl methionine, heat shock proteins, 23S ribosomal RNA; HET: SAM; 1.50A {Escherichia coli} SCOP: c.66.1.2 PDB: 1eiz_A*

Probab=90.15  E-value=0.28  Score=32.56  Aligned_cols=56  Identities=13%  Similarity=0.052  Sum_probs=42.5

Q ss_pred             ceeEEEEccccc-------hhhH------HHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          22 SKIAVLLHSDLN-------NITC------DEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        22 ~~~~~~~~~~~~-------~~~~------~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      .+||+++.....       .+..      .++.+.+.+.++.||.+++-.+..+...+++..+.++|..
T Consensus        87 ~~~D~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~gG~l~~~~~~~~~~~~~~~~~~~~~~~  155 (180)
T 1ej0_A           87 SKVQVVMSDMAPNMSGTPAVDIPRAMYLVELALEMCRDVLAPGGSFVVKVFQGEGFDEYLREIRSLFTK  155 (180)
T ss_dssp             CCEEEEEECCCCCCCSCHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEESSTTHHHHHHHHHHHEEE
T ss_pred             CceeEEEECCCccccCCCccchHHHHHHHHHHHHHHHHHcCCCcEEEEEEecCCcHHHHHHHHHHhhhh
Confidence            479998873321       1111      5677788889999999999888888889999988887765

>3hm2_A Precorrin-6Y C5,15-methyltransferase; alpha-beta-sandwich, structural genomics, PSI-2, protein structure initiative; 2.21A {Corynebacterium diphtheriae}

Probab=89.74  E-value=0.35  Score=32.80  Aligned_cols=51  Identities=8%  Similarity=-0.022  Sum_probs=40.9

Q ss_pred             ceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      .+||+++...-...  .++.+.+.+.++.||.+++-.+......++...+.++
T Consensus        93 ~~~D~i~~~~~~~~--~~~l~~~~~~L~~gG~l~~~~~~~~~~~~~~~~~~~~  143 (178)
T 3hm2_A           93 DNPDVIFIGGGLTA--PGVFAAAWKRLPVGGRLVANAVTVESEQMLWALRKQF  143 (178)
T ss_dssp             SCCSEEEECC-TTC--TTHHHHHHHTCCTTCEEEEEECSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEECCcccH--HHHHHHHHHhcCCCCEEEEEeeccccHHHHHHHHHHc
Confidence            57999887765554  6677888889999999999888888888888877765

>1dus_A MJ0882; hypothetical protein, methanococcus jannaschii, structural genomics, BSGC structure funded by NIH; 1.80A {Methanocaldococcus jannaschii} SCOP: c.66.1.4

Probab=88.71  E-value=0.87  Score=30.84  Aligned_cols=57  Identities=9%  Similarity=0.024  Sum_probs=44.0

Q ss_pred             CceeEEEEccccc---hhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          21 QSKIAVLLHSDLN---NITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        21 ~~~~~~~~~~~~~---~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      ..+||+++.....   .+...++.+.+.+.++.||.+++=........++...+.+.+..
T Consensus       117 ~~~~D~v~~~~~~~~~~~~~~~~l~~~~~~L~~gG~l~~~~~~~~~~~~~~~~l~~~~~~  176 (194)
T 1dus_A          117 DRKYNKIITNPPIRAGKEVLHRIIEEGKELLKDNGEIWVVIQTKQGAKSLAKYMKDVFGN  176 (194)
T ss_dssp             TSCEEEEEECCCSTTCHHHHHHHHHHHHHHEEEEEEEEEEEESTHHHHHHHHHHHHHHSC
T ss_pred             cCCceEEEECCCcccchhHHHHHHHHHHHHcCCCCEEEEEECCCCChHHHHHHHHHHhcc
Confidence            4579999875532   24456778888889999999999888877777888888887643

>3e05_A Precorrin-6Y C5,15-methyltransferase (decarboxyla; porphyrin metabolism, S-adenosyl-methionine; 1.80A {Geobacter metallireducens} SCOP: c.66.1.0

Probab=88.60  E-value=0.82  Score=32.19  Aligned_cols=52  Identities=10%  Similarity=0.080  Sum_probs=41.9

Q ss_pred             ceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      .+||+++...-.. ...++.+.+.+.++.||.+++-........++...+.+.
T Consensus       107 ~~~D~i~~~~~~~-~~~~~l~~~~~~LkpgG~l~~~~~~~~~~~~~~~~l~~~  158 (204)
T 3e05_A          107 PDPDRVFIGGSGG-MLEEIIDAVDRRLKSEGVIVLNAVTLDTLTKAVEFLEDH  158 (204)
T ss_dssp             CCCSEEEESCCTT-CHHHHHHHHHHHCCTTCEEEEEECBHHHHHHHHHHHHHT
T ss_pred             CCCCEEEECCCCc-CHHHHHHHHHHhcCCCeEEEEEecccccHHHHHHHHHHC
Confidence            4699988776544 456778888999999999999888888888888887754

>1l3i_A Precorrin-6Y methyltransferase/putative decarboxylase; structural genomics, beta barrel, rossmann fold, tetramer; HET: SAH; 1.95A {Methanothermobacterthermautotrophicus} SCOP: c.66.1.22 PDB: 1kxz_A 1l3b_A 1f38_A 1l3c_A*

Probab=87.61  E-value=0.81  Score=30.95  Aligned_cols=51  Identities=14%  Similarity=0.178  Sum_probs=40.6

Q ss_pred             eeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          23 KIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        23 ~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      +||+++....... ..++.+.+.+.++.||.+++-.+......++...+.++
T Consensus       100 ~~D~v~~~~~~~~-~~~~l~~~~~~l~~gG~l~~~~~~~~~~~~~~~~l~~~  150 (192)
T 1l3i_A          100 DIDIAVVGGSGGE-LQEILRIIKDKLKPGGRIIVTAILLETKFEAMECLRDL  150 (192)
T ss_dssp             CEEEEEESCCTTC-HHHHHHHHHHTEEEEEEEEEEECBHHHHHHHHHHHHHT
T ss_pred             CCCEEEECCchHH-HHHHHHHHHHhcCCCcEEEEEecCcchHHHHHHHHHHC
Confidence            7999987765443 47778888899999999999888777777777777654

>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Plasmodium falciparum}

Probab=86.64  E-value=0.5  Score=32.95  Aligned_cols=39  Identities=15%  Similarity=0.037  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          39 EKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        39 eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      ++...+.+.++.||.+++-.+......+++..+..++..
T Consensus       135 ~~l~~~~~~LkpgG~lv~~~~~~~~~~~l~~~l~~~f~~  173 (201)
T 2plw_A          135 SITHFMEQYINIGGTYIVKMYLGSQTNNLKTYLKGMFQL  173 (201)
T ss_dssp             HHHHHHHHHEEEEEEEEEEEECSTTHHHHHHHHHTTEEE
T ss_pred             HHHHHHHHHccCCCEEEEEEeCCCCHHHHHHHHHHHHhe
Confidence            356677888999999999888877788888888776644

>3lpm_A Putative methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; 2.40A {Listeria monocytogenes}

Probab=86.29  E-value=0.76  Score=34.00  Aligned_cols=37  Identities=8%  Similarity=0.113  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHH
Q psy9123          36 TCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSS   73 (118)
Q Consensus        36 ~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~   73 (118)
                      ..+++.+.+.+.++.||.+++ +++..+..+++..+.+
T Consensus       154 ~~~~~l~~~~~~LkpgG~l~~-~~~~~~~~~~~~~l~~  190 (259)
T 3lpm_A          154 TLEDTIRVAASLLKQGGKANF-VHRPERLLDIIDIMRK  190 (259)
T ss_dssp             HHHHHHHHHHHHEEEEEEEEE-EECTTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHccCCcEEEE-EEcHHHHHHHHHHHHH
Confidence            356788888899999999999 6777888888888875

>3njr_A Precorrin-6Y methylase; methyltransferase, decarboxylase, transferase; HET: SAH PG4; 2.70A {Rhodobacter capsulatus}

Probab=85.62  E-value=1.3  Score=31.94  Aligned_cols=50  Identities=6%  Similarity=-0.110  Sum_probs=40.4

Q ss_pred             ceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      .+||+++...-.  ..+ +.+.+.+.++.||.+++-+...+...+++..+.++
T Consensus       121 ~~~D~v~~~~~~--~~~-~l~~~~~~LkpgG~lv~~~~~~~~~~~~~~~l~~~  170 (204)
T 3njr_A          121 PLPEAVFIGGGG--SQA-LYDRLWEWLAPGTRIVANAVTLESETLLTQLHARH  170 (204)
T ss_dssp             CCCSEEEECSCC--CHH-HHHHHHHHSCTTCEEEEEECSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEECCcc--cHH-HHHHHHHhcCCCcEEEEEecCcccHHHHHHHHHhC
Confidence            368988865422  234 78888899999999999999999999999988765

>3ijw_A Aminoglycoside N3-acetyltransferase; anthrax, COA, acyltransferase, structural genom center for structural genomics of infectious diseases; HET: MSE ACO; 1.90A {Bacillus anthracis} SCOP: c.140.1.0 PDB: 3slf_A* 3n0s_A* 3slb_A* 3n0m_A* 3kzl_A* 3e4f_A*

Probab=83.93  E-value=1.1  Score=35.45  Aligned_cols=37  Identities=24%  Similarity=0.363  Sum_probs=30.3

Q ss_pred             EEEEccccchh-----hHHHHHHHHHHHHhcCCeEEEcCCch
Q psy9123          25 AVLLHSDLNNI-----TCDEKWMRDIKNQNESGSVLVPCYPS   61 (118)
Q Consensus        25 ~~~~~~~~~~~-----~~~eL~~~I~~Tl~~GG~VLIPaFav   61 (118)
                      -|+|||.+..-     -.+.+.+++.+++...|.+++|+|+.
T Consensus        34 ~llVHsSl~~lG~v~gg~~~vi~AL~~~vg~~GTLvmPt~t~   75 (268)
T 3ijw_A           34 TVIVHSSLSSIGWISGGAVAVVEALMEVITEEGTIIMPTQSS   75 (268)
T ss_dssp             EEEEEECTGGGCCBTTHHHHHHHHHHHHHCTTSEEEEECCCG
T ss_pred             EEEEEechHHhCCCCCCHHHHHHHHHHHhCCCCeEEEecccc
Confidence            47889988443     35788899999999999999999964

>2yxd_A Probable cobalt-precorrin-6Y C(15)-methyltransfer [decarboxylating]; alpha and beta protein (A/B) class; HET: MES; 2.30A {Methanocaldococcus jannaschii}

Probab=83.85  E-value=2.2  Score=28.60  Aligned_cols=49  Identities=4%  Similarity=-0.100  Sum_probs=38.2

Q ss_pred             ceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHH
Q psy9123          22 SKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSH   74 (118)
Q Consensus        22 ~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l   74 (118)
                      .+||+++....  ....++.+.+.+.  .||.+++-....+...+++..+.++
T Consensus        99 ~~~D~i~~~~~--~~~~~~l~~~~~~--~gG~l~~~~~~~~~~~~~~~~l~~~  147 (183)
T 2yxd_A           99 LEFNKAFIGGT--KNIEKIIEILDKK--KINHIVANTIVLENAAKIINEFESR  147 (183)
T ss_dssp             CCCSEEEECSC--SCHHHHHHHHHHT--TCCEEEEEESCHHHHHHHHHHHHHT
T ss_pred             CCCcEEEECCc--ccHHHHHHHHhhC--CCCEEEEEecccccHHHHHHHHHHc
Confidence            47999988776  4445666666666  9999999998888888888888764

>2nyg_A YOKD protein; PFAM02522, NYSGXRC, aminoglycoside 3-N- acetyltransferase, PSI-2, structural genomics, protein structure initiative; HET: COA; 2.60A {Bacillus subtilis} SCOP: c.140.1.2

Probab=83.71  E-value=1.2  Score=35.20  Aligned_cols=37  Identities=27%  Similarity=0.369  Sum_probs=30.0

Q ss_pred             EEEEccccchh-----hHHHHHHHHHHHHhcCCeEEEcCCch
Q psy9123          25 AVLLHSDLNNI-----TCDEKWMRDIKNQNESGSVLVPCYPS   61 (118)
Q Consensus        25 ~~~~~~~~~~~-----~~~eL~~~I~~Tl~~GG~VLIPaFav   61 (118)
                      -|+|||.+..-     ..+.+.+++.+++...|++++|+|+.
T Consensus        32 ~llVHsSl~~lG~v~gg~~~vi~AL~~~vg~~GTLvmPtft~   73 (273)
T 2nyg_A           32 TVLVHSSLSSIGWVNGGAVAVIQALIDVVTEEGTIVMPSQSV   73 (273)
T ss_dssp             EEEEEECSGGGCCBTTHHHHHHHHHHHHHTTTSEEEEECCCT
T ss_pred             EEEEEechHHhCCCCCCHHHHHHHHHHHhCCCCeEEEecccc
Confidence            47888887543     36788999999999999999999864

>3sma_A FRBF; N-acetyl transferase, acetyl COA binding, transferase; HET: ACO; 2.00A {Streptomyces rubellomurinus}

Probab=81.14  E-value=1  Score=36.18  Aligned_cols=37  Identities=14%  Similarity=0.378  Sum_probs=30.3

Q ss_pred             EEEEccccchh-----hHHHHHHHHHHHHhcCCeEEEcCCch
Q psy9123          25 AVLLHSDLNNI-----TCDEKWMRDIKNQNESGSVLVPCYPS   61 (118)
Q Consensus        25 ~~~~~~~~~~~-----~~~eL~~~I~~Tl~~GG~VLIPaFav   61 (118)
                      -|+|||.+..-     -.+.+.+++.+++...|++++|+|+.
T Consensus        41 ~llVHsSL~~lG~v~Gga~~vi~AL~~~vg~~GTLvmPt~t~   82 (286)
T 3sma_A           41 VLLVHASLSALGWVCGGAQAVVLALQDAVGKEGTLVMPTFSG   82 (286)
T ss_dssp             EEEEEECSTTSCEETTHHHHHHHHHHHHHCTTCEEEEECCCT
T ss_pred             EEEEEechHHhCCCCCCHHHHHHHHHHHhcCCCEEEEeccCc
Confidence            47888887543     35778999999999999999999864

>3evf_A RNA-directed RNA polymerase NS5; NS5 methyltransferase, RNA CAP binding, binding, capsid protein; HET: GTA SAH; 1.45A {Yellow fever virus} SCOP: c.66.1.0 PDB: 3evb_A* 3evc_A* 3evd_A* 3eve_A* 3eva_A*

Probab=80.93  E-value=3.6  Score=32.84  Aligned_cols=70  Identities=14%  Similarity=0.154  Sum_probs=52.2

Q ss_pred             CCceeEEEEccccchh----hHH-----HHHHHHHHHHhcC-CeEEEcCCc--hHHHHHHHHHHHHHhhcCCC-------
Q psy9123          20 GQSKIAVLLHSDLNNI----TCD-----EKWMRDIKNQNES-GSVLVPCYP--SGVIYDLFECLSSHLDNSSL-------   80 (118)
Q Consensus        20 ~~~~~~~~~~~~~~~~----~~~-----eL~~~I~~Tl~~G-G~VLIPaFa--vGRtqELL~~L~~l~~~~~L-------   80 (118)
                      .+.++|+++. |..+.    ..+     +|++.+.+.++.| |+.++=+|.  -+-+.+++..|.++|.....       
T Consensus       137 ~~~~~DlVls-D~apnsG~~~~D~~rs~~LL~~a~~~LkpG~G~FV~KVf~pyg~~~~~l~~~lk~~F~~V~~~KPaSR~  215 (277)
T 3evf_A          137 EPVKCDTLLC-DIGESSSSSVTEGERTVRVLDTVEKWLACGVDNFCVKVLAPYMPDVLEKLELLQRRFGGTVIRNPLSRN  215 (277)
T ss_dssp             CCCCCSEEEE-CCCCCCSCHHHHHHHHHHHHHHHHHHHTTCCSEEEEEESCTTSHHHHHHHHHHHHHHCCEEECCTTSCT
T ss_pred             CCCCccEEEe-cCccCcCchHHHHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCccHHHHHHHHHHhcCCEEEEeCCCCC
Confidence            3568998765 66443    222     3567888999999 999999999  88899999999999987442       


Q ss_pred             CCCCEEEeCh
Q psy9123          81 TQIPMFFISP   90 (118)
Q Consensus        81 p~iPIyldSP   90 (118)
                      ...=+|+.+-
T Consensus       216 ~S~E~Y~V~~  225 (277)
T 3evf_A          216 STHEMYYVSG  225 (277)
T ss_dssp             TCCCEEEESS
T ss_pred             CCCceEEEEe
Confidence            1345788763

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=80.91  E-value=2.1  Score=31.77  Aligned_cols=53  Identities=19%  Similarity=0.218  Sum_probs=32.9

Q ss_pred             CCCCchhHHHHhhcccCCCceeEEEEccccchhh---HHHHHHHHHHHHhcCCeEEEcCC
Q psy9123           3 QNGDNLDSLIASTASSNGQSKIAVLLHSDLNNIT---CDEKWMRDIKNQNESGSVLVPCY   59 (118)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~eL~~~I~~Tl~~GG~VLIPaF   59 (118)
                      +.|+.+..-|   ...-.+|++.|+|.|.--..+   .+||..++. ..+.+|.++||+|
T Consensus        47 ~~G~~i~~~l---~~aIe~Sri~IvV~S~ny~~S~WCl~EL~~i~~-~~~~~~~~ViPIf  102 (176)
T 3jrn_A           47 ENGQRFSPEL---KSPIEVSRFAVVVVSENYAASSWCLDELVTIMD-FEKKGSITVMPIF  102 (176)
T ss_dssp             ---------------CCTTEEEEEEEECTTTTTCHHHHHHHHHHHH-HHHTTSCEEEEEE
T ss_pred             cCCCchHHHH---HHHHHhCCEEEEEecCCcCCChhHHHHHHHHHh-hhccCCCEEEEEE
Confidence            3455554322   233468999999999877665   678887665 4588999999998

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	118
d2i7xa1	514	d.157.1.10 (A:1-422,A:626-717) Cleavage factor two	5e-05

>d2i7xa1 d.157.1.10 (A:1-422,A:626-717) Cleavage factor two protein 2, CFT2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 514

class: Alpha and beta proteins (a+b)
fold: Metallo-hydrolase/oxidoreductase
superfamily: Metallo-hydrolase/oxidoreductase
family: beta-CASP RNA-metabolising hydrolases
domain: Cleavage factor two protein 2, CFT2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.6 bits (89), Expect = 5e-05
 Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 4/58 (6%)

Query: 52  GSVLVPCYPSG----VIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEW 105
           GSV++P   SG    +   + E L      ++ TQ+P+  +S     +L Y+  + EW
Sbjct: 242 GSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYARGRTLTYAKSMLEW 299

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	118
d2i7xa1	514	Cleavage factor two protein 2, CFT2 {Baker's yeast	99.74
d2dkfa1	431	Putative RNA-degradation protein TTHA0252 {Thermus	99.4
d2i7ta1	451	Cleavage and polyadenylation specificity factor su	98.43
d1fcda2	141	Flavocytochrome c sulfide dehydrogenase, FCSD, fla	89.99
d2nyga1	270	Uncharacterized protein YokD {Bacillus subtilis [T	86.45
d1tk9a_	188	Phosphoheptose isomerase GmhA1 {Campylobacter jeju	84.19
d1zuna1	211	Sulfate adenylyltransferase subunit 2, CysD {Pseud	83.53
d1l3ia_	186	Precorrin-6Y methyltransferase (CbiT) {Archaeon Me	82.68
d1ej0a_	180	RNA methyltransferase FtsJ {Escherichia coli [TaxI	82.08
d1dusa_	194	Hypothetical protein MJ0882 {Archaeon Methanococcu	81.56

>d2i7xa1 d.157.1.10 (A:1-422,A:626-717) Cleavage factor two protein 2, CFT2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Metallo-hydrolase/oxidoreductase
superfamily: Metallo-hydrolase/oxidoreductase
family: beta-CASP RNA-metabolising hydrolases
domain: Cleavage factor two protein 2, CFT2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.74  E-value=8.3e-19  Score=145.60  Aligned_cols=82  Identities=24%  Similarity=0.313  Sum_probs=72.8

Q ss_pred             hhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcC----CCCCCCEEEeChhHHHHHHHHHHHHhhhhHHH
Q psy9123          35 ITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNS----SLTQIPMFFISPVADISLAYSNILAEWNTKVE  110 (118)
Q Consensus        35 ~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~----~Lp~iPIyldSPmA~~al~~~~~~~Ewl~~~~  110 (118)
                      ...++|++.|.+++++||+||||+||+||+|||++.|.++|++.    +++++|||++||||.+++++++.|+|||+++.
T Consensus       225 ~~~~~l~~~i~~~~~~gG~VlIP~fa~gR~QEil~~l~~~~~~~~~~~~~~~~pI~~~~~~~~~~~~~~~~~~e~~~~~~  304 (514)
T d2i7xa1         225 KRSKIFKDTLKKGLSSDGSVIIPVDMSGKFLDLFTQVHELLFESTKINAHTQVPVLILSYARGRTLTYAKSMLEWLSPSL  304 (514)
T ss_dssp             HHHHHHHHHHHHHTSTTCEEEEEECTTTHHHHHHHHHHHHHTTC-------CCCEEEECTTTTHHHHHHHTCGGGSCHHH
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEcCchHHHHHHHHHHHHHHHHHhhccCCCceEEEEChHHHHHHHHHHHhHhhcCHHH
Confidence            34678999999999999999999999999999999999999764    46789999999999999999999999999998


Q ss_pred             HHhhhh
Q psy9123         111 VQILSK  116 (118)
Q Consensus       111 ~~~L~~  116 (118)
                      +..+.+
T Consensus       305 ~~~~~~  310 (514)
T d2i7xa1         305 LKTWEN  310 (514)
T ss_dssp             HHHHHS
T ss_pred             HHHHhh
Confidence            877653

>d2dkfa1 d.157.1.10 (A:1-431) Putative RNA-degradation protein TTHA0252 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Metallo-hydrolase/oxidoreductase
superfamily: Metallo-hydrolase/oxidoreductase
family: beta-CASP RNA-metabolising hydrolases
domain: Putative RNA-degradation protein TTHA0252
species: Thermus thermophilus [TaxId: 274]

Probab=99.40  E-value=3.1e-13  Score=106.89  Aligned_cols=78  Identities=19%  Similarity=0.225  Sum_probs=70.3

Q ss_pred             hhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCCCCCCEEEeChhHHHHHHHHHHHHhhhhHHHHHhh
Q psy9123          35 ITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSLTQIPMFFISPVADISLAYSNILAEWNTKVEVQIL  114 (118)
Q Consensus        35 ~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~Lp~iPIyldSPmA~~al~~~~~~~Ewl~~~~~~~L  114 (118)
                      ..+.++.+.|.+++++||+||||+|++||+||++..|++++...  +.+|||++++++.+++++++.+.+|++++.+...
T Consensus       199 ~~~~~~~~~i~~~~~~~g~vli~~fa~gr~qeil~~l~~~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  276 (431)
T d2dkfa1         199 ETVREFLEILEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRL--PRAPIYLDSPMAGRVLSLYPRLVRYFSEEVQAHF  276 (431)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEECTTHHHHHHHHHHHTTTTSS--CCCCEEEECHHHHHHHHHGGGGGGGSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEeccchHHHHHHHHHHHhcccc--CCccEEEechhHHHHHHHHHhhhhhcCHHHHhhh
Confidence            34668999999999999999999999999999999999887654  5799999999999999999999999999876544

>d2i7ta1 d.157.1.10 (A:9-459) Cleavage and polyadenylation specificity factor subunit 3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Metallo-hydrolase/oxidoreductase
superfamily: Metallo-hydrolase/oxidoreductase
family: beta-CASP RNA-metabolising hydrolases
domain: Cleavage and polyadenylation specificity factor subunit 3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.43  E-value=1.3e-07  Score=72.60  Aligned_cols=95  Identities=16%  Similarity=0.160  Sum_probs=55.9

Q ss_pred             CCceeEEEEcccc--------chhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhcCCC-CCCCEEEeCh
Q psy9123          20 GQSKIAVLLHSDL--------NNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDNSSL-TQIPMFFISP   90 (118)
Q Consensus        20 ~~~~~~~~~~~~~--------~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~~~L-p~iPIyldSP   90 (118)
                      ...+.|+|.....        .+....++.+.+..++++|++++||+++.||.||++..|.+++.+... +.+++|..++
T Consensus       186 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~g~~~e~l~~l~~~~~~~~~~~~~~~~~~~~  265 (451)
T d2i7ta1         186 PNIKPDILIIESTYGTHIHEKREEREARFCNTVHDIVNRGGRGLIPVFALGRAQELLLILDEYWQNHPELHDIPIYYASS  265 (451)
T ss_dssp             CSSCCSEEEEECTTTTCCCCCHHHHHHHHHHHHHHHHHTTCEEEEECCSSSSHHHHHHHHHHHHHHCGGGTTSCEEEC--
T ss_pred             cccccceeEeecccCccccccchhHHhhhhHHHhHHHhcCCcEEEEEecchHHHHHHHHHHHHhhccccccceeeeehhH
Confidence            3445566554332        244567888899999999999999999999999999999999998765 6789999999


Q ss_pred             hHHHHHHHHHHHHhhhhHHHHHhh
Q psy9123          91 VADISLAYSNILAEWNTKVEVQIL  114 (118)
Q Consensus        91 mA~~al~~~~~~~Ewl~~~~~~~L  114 (118)
                      ++.++..++..+.+|+++..+...
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~~  289 (451)
T d2i7ta1         266 LAKKCMAVYQTYVNAMNDKIRKQI  289 (451)
T ss_dssp             ------------------------
T ss_pred             HHHHHHHHHHhhhhhhCHHHHHHh
Confidence            999999999999999988776543

>d1fcda2 c.3.1.5 (A:115-255) Flavocytochrome c sulfide dehydrogenase, FCSD, flavin-binding subunit {Purple phototrophic bacterium (Chromatium vinosum) [TaxId: 1049]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD/NAD-linked reductases, N-terminal and central domains
domain: Flavocytochrome c sulfide dehydrogenase, FCSD, flavin-binding subunit
species: Purple phototrophic bacterium (Chromatium vinosum) [TaxId: 1049]

Probab=89.99  E-value=0.33  Score=32.49  Aligned_cols=70  Identities=9%  Similarity=-0.027  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHHhcCCeEEEcCCc----h-HHHHHHHHHHHHHhhcCCCC-CCCEEEeChhHHHHHHHHHHHHhhhh
Q psy9123          37 CDEKWMRDIKNQNESGSVLVPCYP----S-GVIYDLFECLSSHLDNSSLT-QIPMFFISPVADISLAYSNILAEWNT  107 (118)
Q Consensus        37 ~~eL~~~I~~Tl~~GG~VLIPaFa----v-GRtqELL~~L~~l~~~~~Lp-~iPIyldSPmA~~al~~~~~~~Ewl~  107 (118)
                      ..+|.+.+. .++.||++++-.-+    | |=-||.+++++.+|++.++. .+-|.+.+|+....-.+...+.+++.
T Consensus        20 ~~~L~~~l~-~~~~Gg~vv~t~p~~P~kCpgAP~e~a~l~~~~lr~~g~r~kv~i~~~~~~~~~~~~~~~~~~~~~~   95 (141)
T d1fcda2          20 TAILRKQLE-DMADGGTVVIAPPAAPFRCPPGPYERASQVAYYLKAHKPMSKVIILDSSQTFSKQSQFSKGWERLYG   95 (141)
T ss_dssp             HHHHHHHHH-HSCTTCCEEEECCCSSCSSTTHHHHHHHHHHHHHGGGCSCCCEEEECSCSSCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHH-hcccCCeEEEecCCCCccCCchHHHHHHHHHHHHHHcCCCCcEEEEecCCCCccCCcccHHHHHHHH
Confidence            456666663 57789999863322    3 44599999999999888774 68888888875433223344444443

>d2nyga1 c.140.1.2 (A:2-271) Uncharacterized protein YokD {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TTHA0583/YokD-like
superfamily: TTHA0583/YokD-like
family: Aminoglycoside 3-N-acetyltransferase-like
domain: Uncharacterized protein YokD
species: Bacillus subtilis [TaxId: 1423]

Probab=86.45  E-value=0.4  Score=35.87  Aligned_cols=36  Identities=28%  Similarity=0.337  Sum_probs=30.1

Q ss_pred             EEEEccccc-----hhhHHHHHHHHHHHHhcCCeEEEcCCc
Q psy9123          25 AVLLHSDLN-----NITCDEKWMRDIKNQNESGSVLVPCYP   60 (118)
Q Consensus        25 ~~~~~~~~~-----~~~~~eL~~~I~~Tl~~GG~VLIPaFa   60 (118)
                      .|+|||++.     +...+.+.+++.+.+...|++++|+|+
T Consensus        31 ~v~vHssl~~lg~~~~~~~~~i~aL~~~vG~~GTLvmPtft   71 (270)
T d2nyga1          31 TVLVHSSLSSIGWVNGGAVAVIQALIDVVTEEGTIVMPSQS   71 (270)
T ss_dssp             EEEEEECSGGGCCBTTHHHHHHHHHHHHHTTTSEEEEECCC
T ss_pred             EEEEEcChHHhCCcCCCHHHHHHHHHHHhCCCceEEEEecc
Confidence            477888874     344688999999999999999999995

>d1tk9a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: SIS domain
superfamily: SIS domain
family: mono-SIS domain
domain: Phosphoheptose isomerase GmhA1
species: Campylobacter jejuni [TaxId: 197]

Probab=84.19  E-value=3.9  Score=28.36  Aligned_cols=83  Identities=8%  Similarity=-0.054  Sum_probs=52.1

Q ss_pred             cccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc-C--CCCCCCEEEeChhHHHHHHHHHHH--Hh
Q psy9123          30 SDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN-S--SLTQIPMFFISPVADISLAYSNIL--AE  104 (118)
Q Consensus        30 ~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~-~--~Lp~iPIyldSPmA~~al~~~~~~--~E  104 (118)
                      .+...+..+++.+.+.+++++||+|++  +-.|---.+-.++..-+.. -  .-|.+|.+..+.-..-.+++.+-+  -+
T Consensus        21 ~~~~~~~I~~~~~~i~~~l~~ggkI~~--~GnGgSa~~A~h~a~el~~~~~~~r~~l~~i~l~~~~a~~ta~~nd~~~e~   98 (188)
T d1tk9a_          21 SEILKGQIAKVGELLCECLKKGGKILI--CGNGGSAADAQHFAAELSGRYKKERKALAGIALTTDTSALSAIGNDYGFEF   98 (188)
T ss_dssp             GGGGHHHHHHHHHHHHHHHHTTCCEEE--EESTHHHHHHHHHHHHHHSCSSSCCCCCCEEESSCCHHHHHHHHHHTCGGG
T ss_pred             HHHhHHHHHHHHHHHHHHHHcCCEEEE--ECCCCcchhhhHHHHhhcCCccccccccccccCCCccccccccccccCHHH
Confidence            345567889999999999999999998  3333322222222222221 1  125688887777777787887654  45


Q ss_pred             hhhHHHHHhh
Q psy9123         105 WNTKVEVQIL  114 (118)
Q Consensus       105 wl~~~~~~~L  114 (118)
                      |+....+...
T Consensus        99 ~f~~ql~~~~  108 (188)
T d1tk9a_          99 VFSRQVEALG  108 (188)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            6666555444

>d1zuna1 c.26.2.2 (A:1-211) Sulfate adenylyltransferase subunit 2, CysD {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: PAPS reductase-like
domain: Sulfate adenylyltransferase subunit 2, CysD
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=83.53  E-value=1.7  Score=27.83  Aligned_cols=57  Identities=11%  Similarity=-0.116  Sum_probs=38.4

Q ss_pred             hHHHHHHHHHHHHhcCCeEEEcCCchHHH-HHHHHHHHHHhhcCCCCCCCEEEeChhHH
Q psy9123          36 TCDEKWMRDIKNQNESGSVLVPCYPSGVI-YDLFECLSSHLDNSSLTQIPMFFISPVAD   93 (118)
Q Consensus        36 ~~~eL~~~I~~Tl~~GG~VLIPaFavGRt-qELL~~L~~l~~~~~Lp~iPIyldSPmA~   93 (118)
                      -..+-.+.|.++++.++++++ +|+-|.= .-||+++.+.......+-..|++|+..-.
T Consensus        11 l~~~ai~~ir~~~~~~d~i~v-a~SGGKDS~vlL~L~~~~~~~~~~~~~~v~~d~~~~~   68 (211)
T d1zuna1          11 LEAESIHIIREVAAEFDNPVM-LYSIGKDSAVMLHLARKAFFPGKLPFPVMHVDTRWKF   68 (211)
T ss_dssp             HHHHHHHHHHHHHHHCSSEEE-ECCSSHHHHHHHHHHHHHHTTSCCSSCEEEECCSCCC
T ss_pred             HHHHHHHHHHHHHHhcCCEEE-EeCCcHHHHHHHHHHHhhcccccCCeeEEEecCcccc
Confidence            345556788889999999876 6999983 45566666665555555334577776543

>d1l3ia_ c.66.1.22 (A:) Precorrin-6Y methyltransferase (CbiT) {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Precorrin-6Y methyltransferase (CbiT)
domain: Precorrin-6Y methyltransferase (CbiT)
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=82.68  E-value=1  Score=30.40  Aligned_cols=54  Identities=13%  Similarity=0.118  Sum_probs=42.8

Q ss_pred             CceeEEEEccccchhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHh
Q psy9123          21 QSKIAVLLHSDLNNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHL   75 (118)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~   75 (118)
                      ..+||..+...-. ...+++.+.+.+.++.||.+++.....+...+++..+..+.
T Consensus        98 ~~~~D~v~~~~~~-~~~~~~~~~~~~~LkpgG~lvi~~~~~e~~~~~~~~l~~~~  151 (186)
T d1l3ia_          98 IPDIDIAVVGGSG-GELQEILRIIKDKLKPGGRIIVTAILLETKFEAMECLRDLG  151 (186)
T ss_dssp             SCCEEEEEESCCT-TCHHHHHHHHHHTEEEEEEEEEEECBHHHHHHHHHHHHHTT
T ss_pred             cCCcCEEEEeCcc-ccchHHHHHHHHHhCcCCEEEEEeeccccHHHHHHHHHHcC
Confidence            4578987765443 34567788888899999999999999999999888887753

>d1ej0a_ c.66.1.2 (A:) RNA methyltransferase FtsJ {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: RNA methyltransferase FtsJ
domain: RNA methyltransferase FtsJ
species: Escherichia coli [TaxId: 562]

Probab=82.08  E-value=0.51  Score=32.84  Aligned_cols=58  Identities=17%  Similarity=0.193  Sum_probs=42.2

Q ss_pred             CCCceeEEEEccccchhh--------------HHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhhc
Q psy9123          19 NGQSKIAVLLHSDLNNIT--------------CDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLDN   77 (118)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~--------------~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~~   77 (118)
                      ....|+|+++ ||...++              ...-.....+.++.||+.++=.|-..-+.+|++.|..++++
T Consensus        84 ~~~~~~DlVl-SD~ap~~sg~~~~d~~~~~~L~~~~l~~a~~~Lk~gG~fV~K~F~g~~~~~l~~~l~~~F~~  155 (180)
T d1ej0a_          84 VGDSKVQVVM-SDMAPNMSGTPAVDIPRAMYLVELALEMCRDVLAPGGSFVVKVFQGEGFDEYLREIRSLFTK  155 (180)
T ss_dssp             HTTCCEEEEE-ECCCCCCCSCHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEESSTTHHHHHHHHHHHEEE
T ss_pred             ccCcceeEEE-ecccchhcccchhHHHHHHHHHHHHHHhhhhccCCCCcEEEEEecCccHHHHHHHHHhhcCE
Confidence            3556899865 5554333              11223344556899999999999988899999999999876

>d1dusa_ c.66.1.4 (A:) Hypothetical protein MJ0882 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Hypothetical protein MJ0882
domain: Hypothetical protein MJ0882
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=81.56  E-value=1.3  Score=29.87  Aligned_cols=56  Identities=7%  Similarity=0.021  Sum_probs=37.5

Q ss_pred             CceeEEEEcccc---chhhHHHHHHHHHHHHhcCCeEEEcCCchHHHHHHHHHHHHHhh
Q psy9123          21 QSKIAVLLHSDL---NNITCDEKWMRDIKNQNESGSVLVPCYPSGVIYDLFECLSSHLD   76 (118)
Q Consensus        21 ~~~~~~~~~~~~---~~~~~~eL~~~I~~Tl~~GG~VLIPaFavGRtqELL~~L~~l~~   76 (118)
                      ..+||+++...-   ..+..+++.+.+.+.++.||.++|-....-....+.+.+.+.+.
T Consensus       117 ~~~fD~Ii~~~p~~~~~~~~~~~l~~~~~~LkpgG~l~i~~~~~~~~~~~~~~l~~~f~  175 (194)
T d1dusa_         117 DRKYNKIITNPPIRAGKEVLHRIIEEGKELLKDNGEIWVVIQTKQGAKSLAKYMKDVFG  175 (194)
T ss_dssp             TSCEEEEEECCCSTTCHHHHHHHHHHHHHHEEEEEEEEEEEESTHHHHHHHHHHHHHHS
T ss_pred             cCCceEEEEcccEEecchhhhhHHHHHHHhcCcCcEEEEEEeCcCCHHHHHHHHHHhCC
Confidence            458999986543   34456778888889999999987754444444455555555543