Psyllid ID: psy4521

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220---
Protein Sequence
MVNTETKTLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVIEEEN
Secondary Structure (PSIPRED)
cccccccEEEEEEEEccccEEEEEEEcccccEEEcccccccccccccccccccEEEEEccHHHHHHHHHHccccEEEEccccccccccHHHHHHHcccEEEEEccccHHHHHHHHHHHccccEEEEEccccccccHHHHHccccHHHHHHHcccccccccccHHHHHHHHHHHHHcHHHHHHHHccccccccccccccccEEccccccccccHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccEEEEEEEcccccEEEEEEEccccEEEccccccccEEccccccccccEEEEEccHHHHHHHHHHHccccEEEcccccccccHHHHHHHHHHcEEEEEccccHHHHHHHHHHHccccEEEEccccccccHHHHHHccccHHHHHHHcccccccHEccHHHHHHHHHHHHHcHHHHHHHHHHHcccEEEEcccccEEEEcccccccccHHHHHHHHHcc
Coil and Loop (DISEMBL)
mvntetktlyMPLVNYANEVVGYKQVHKSiestvptkqcqgvlhcppykkktdsAVLVQRLVDFLTLCNAHlnynviclphgltclpqeilpCLEEYNKLYLwfgkdhestrvFSSKLNEKRCFLIretenqplpteskakgldlnriiesasplchpaiitYDVLQEDVLADLQNVTLLLLRTMYCRRMCwltykttnrfkvsngnafrlcPEFWEVIEEEN
Flexible Loop (DISEMBL)
mvntetktlymplVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLiretenqplpteskakglDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTtnrfkvsngnafrlCPEFWEVIEEEN
Low Complexity Region (SEG)
MVNTETKTLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVIEEEN
Disordered region (IsUnstruct)
*******TLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIR***************LDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVI****
Disordered Region (DISOPRED)
****ETKTLYMPLVNYANEVVGYKQVH******VPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVIE***
Disordered Region (DISEMBL)
MVNTETKTLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVIEEEN
Disordered Region (DISPRO)
****ETKTLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVIEEEN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVNTETKTLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGNAFRLCPEFWEVIEEEN
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	223	2.2.26 [Sep-21-2011]
Q96RR1	684	Twinkle protein, mitochon	yes	N/A	0.654	0.213	0.377	3e-23
Q8CIW5	685	Twinkle protein, mitochon	yes	N/A	0.645	0.210	0.354	3e-21
Q5ZIW1	669	Twinkle protein, mitochon	yes	N/A	0.641	0.213	0.348	2e-18

>sp|Q96RR1|PEO1_HUMAN Twinkle protein, mitochondrial OS=Homo sapiens GN=PEO1 PE=1 SV=1

 Score =  108 bits (270), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 57/151 (37%), Positives = 86/151 (56%), Gaps = 5/151 (3%)

Query: 31  ESTVPTKQCQGVLHCPPYKKKTDS-AVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQE 89
           E+T+P       L   P   + D+  VL  R +D L L N       + LP G TCLP  
Sbjct: 235 ETTIPRPSAYHNLFGLPLISRRDAEVVLTSRELDSLAL-NQSTGLPTLTLPRGTTCLPPA 293

Query: 90  ILPCLEEYNKLYLWFGKD---HESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLN 146
           +LP LE++ ++  W G D    E+ ++F+ KLN KRCFL+R  + QP P E+   G +L+
Sbjct: 294 LLPYLEQFRRIVFWLGDDLRSWEAAKLFARKLNPKRCFLVRPGDQQPRPLEALNGGFNLS 353

Query: 147 RIIESASPLCHPAIITYDVLQEDVLADLQNV 177
           RI+ +A P  H +I+++  L+E+VL +L NV
Sbjct: 354 RILRTALPAWHKSIVSFRQLREEVLGELSNV 384

Involved in mitochondrial DNA (mtDNA) metabolism. Could function as an adenine nucleotide-dependent DNA helicase. Function inferred to be critical for lifetime maintenance of mtDNA integrity. In vitro, forms in combination with POLG, a processive replication machinery, which can use double-stranded DNA (dsDNA) as template to synthesize single-stranded DNA (ssDNA) molecules. May be a key regulator of mtDNA copy number in mammals.
Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|Q8CIW5|PEO1_MOUSE Twinkle protein, mitochondrial OS=Mus musculus GN=Peo1 PE=2 SV=1

 Score =  102 bits (253), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 55/155 (35%), Positives = 85/155 (54%), Gaps = 11/155 (7%)

Query: 30  IESTVPTKQCQGVLH----CPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTC 85
           +E+T+P     GV H     P   ++    V+  R +D L L  +      + LP G  C
Sbjct: 235 VETTIPRP---GVYHNLFGLPLISRRDTEVVVTSRELDSLALSQS-TGLPTLSLPRGTVC 290

Query: 86  LPQEILPCLEEYNKLYLWFGKD---HESTRVFSSKLNEKRCFLIRETENQPLPTESKAKG 142
           LP  +LP LE++ ++  W G D    E+ ++F+ KLN KRC L+R    QP P E+  +G
Sbjct: 291 LPPALLPYLEQFRRIVFWLGDDLRSWEAAKLFARKLNPKRCSLVRPGNQQPRPLEALNQG 350

Query: 143 LDLNRIIESASPLCHPAIITYDVLQEDVLADLQNV 177
           L L RI+ +A P  H +I+++  L+E+VL +L NV
Sbjct: 351 LSLPRILRTALPAWHKSIVSFRQLREEVLGELSNV 385

Involved in mitochondrial DNA (mtDNA) metabolism. Could function as an adenine nucleotide-dependent DNA helicase. Function infered to be critical for lifetime maintenance of mtDNA integrity. May be a key regulator of mtDNA copy number in mammals.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q5ZIW1|PEO1_CHICK Twinkle protein, mitochondrial OS=Gallus gallus GN=PEO1 PE=2 SV=1

 Score = 92.4 bits (228), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 84/152 (55%), Gaps = 9/152 (5%)

Query: 31  ESTVPTKQC-QGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICL--PHGLTCLP 87
           E T+P     + +   P   ++    VL    +D L L   H    V CL  P G T LP
Sbjct: 241 EETLPRFDAYRNLFGLPLIGRRDAEVVLTGSELDALAL---HQATGVPCLALPRGATILP 297

Query: 88  QEILPCLEEYNKLYLWFGKD---HESTRVFSSKLNEKRCFLIRETENQPLPTESKAKGLD 144
             +LP LE++ ++ LW G D    E++++F+ KLN KRC L++  + QP P E+  +GL+
Sbjct: 298 PALLPYLEQFRRVTLWLGDDLRSWEASKLFARKLNPKRCSLVQPGDLQPRPLEALNRGLN 357

Query: 145 LNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
           L +I+ +A P  H AI+++  L+E+V  +L N
Sbjct: 358 LTKILRAALPAGHKAIVSFRQLREEVFGELAN 389


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.321    0.136    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 81,527,726
Number of Sequences: 539616
Number of extensions: 3205723
Number of successful extensions: 6223
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 6217
Number of HSP's gapped (non-prelim): 3
length of query: 223
length of database: 191,569,459
effective HSP length: 113
effective length of query: 110
effective length of database: 130,592,851
effective search space: 14365213610
effective search space used: 14365213610
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (27.3 bits)

Involved in mitochondrial DNA (mtDNA) metabolism. Could function as an adenine nucleotide-dependent DNA helicase. Function inferred to be critical for lifetime maintenance of mtDNA integrity.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	223
345490046	623	PREDICTED: twinkle protein, mitochondria	0.865	0.309	0.383	1e-32
383862285	555	PREDICTED: twinkle protein, mitochondria	0.847	0.340	0.391	3e-32
307166665	940	Twinkle protein, mitochondrial [Camponot	0.834	0.197	0.391	1e-31
350422873	622	PREDICTED: twinkle protein, mitochondria	0.856	0.307	0.397	1e-31
193685982	574	PREDICTED: twinkle protein, mitochondria	0.784	0.304	0.384	3e-31
340715527	629	PREDICTED: twinkle protein, mitochondria	0.780	0.276	0.422	3e-30
328789280	452	PREDICTED: twinkle protein, mitochondria	0.757	0.373	0.405	4e-30
307213491	479	Twinkle protein, mitochondrial [Harpegna	0.816	0.379	0.378	4e-29
170065465	660	pom1 [Culex quinquefasciatus] gi|1678825	0.843	0.284	0.363	6e-29
380019396	447	PREDICTED: twinkle protein, mitochondria	0.856	0.427	0.372	3e-28

>gi|345490046|ref|XP_001604051.2| PREDICTED: twinkle protein, mitochondrial-like [Nasonia vitripennis]

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 79/206 (38%), Positives = 119/206 (57%), Gaps = 13/206 (6%)

Query: 1   MVNTETKTLYMPLVNYANEVVGYKQV--HKSIESTVPTKQCQGVLHCPPYKKKTD-SAVL 57
           + N  T++LY P++ +   +VGYK +    S+  T+P     GV+       K+D +AVL
Sbjct: 173 LYNESTQSLYFPILTFRGLIVGYKSLSADSSLTKTIPATNTSGVIIYKQKNLKSDGTAVL 232

Query: 58  VQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDH---ESTRVF 114
           V  + D L + +      +ICLP+GL  +PQ+ILP LE Y KL LWFG D    +S R F
Sbjct: 233 VPNVEDLLAVASKKAANLIICLPYGLQNIPQQILPNLESYKKLILWFGNDEPSWDSARHF 292

Query: 115 SSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADL 174
           + KL+EKRC  +R T+ QP P  +   G DL  II++A+P+ H +I T+  L++DVL+DL
Sbjct: 293 AKKLDEKRCHFVRPTDYQPQPKIAAHLGYDLKEIIQNATPIWHKSITTFQSLRQDVLSDL 352

Query: 175 QNVTLLLLRTMYCRRMCWLTYKTTNR 200
           QN+  +       + + W  Y T N+
Sbjct: 353 QNIDKV-------QGIKWSRYPTLNK 371

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862285|ref|XP_003706614.1| PREDICTED: twinkle protein, mitochondrial-like [Megachile rotundata]

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 79/202 (39%), Positives = 115/202 (56%), Gaps = 13/202 (6%)

Query: 5   ETKTLYMPLVNYANEVVGYKQV--HKSIESTVPTKQCQGVLHCPPYKKKTD-SAVLVQRL 61
           ET  LY+PL+   N +VGYK +      E T+P+    G +     K K+D +AV+V  +
Sbjct: 109 ETNKLYLPLIGLKNSIVGYKVLTPEPGKEQTIPSSGISGCIKYKNNKNKSDNTAVVVGMV 168

Query: 62  VDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES---TRVFSSKL 118
            D L L +  L   +ICL + L  LPQ++LP +E + KL LWFG D  S    R F+ KL
Sbjct: 169 DDLLALMSKQLTNTIICLSYNLKNLPQQLLPFMESFKKLILWFGNDETSWHTARHFAKKL 228

Query: 119 NEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVT 178
           NEKRC+ IR  ++QP P  +   G D   I+++A P+ H +IIT+  ++EDVL+DLQN+ 
Sbjct: 229 NEKRCYFIRPIDSQPRPKLAVEIGYDFKSILQNAQPVWHKSIITFQEIREDVLSDLQNIE 288

Query: 179 LLLLRTMYCRRMCWLTYKTTNR 200
            +       + + W  Y T NR
Sbjct: 289 KV-------QGVKWKRYPTLNR 303

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307166665|gb|EFN60662.1| Twinkle protein, mitochondrial [Camponotus floridanus]

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/199 (39%), Positives = 109/199 (54%), Gaps = 13/199 (6%)

Query: 9   LYMPLVNYANEVVGYKQV--HKSIESTVPTKQCQGVLHCPPYKKKTD-SAVLVQRLVDFL 65
           LY PL+ + N  VGYK +     +E TVP     G +       + D +AV+V  + D L
Sbjct: 499 LYFPLIAFGNITVGYKTLSSESGLEQTVPICNVGGFISYKQKSTRADGTAVIVPTIHDLL 558

Query: 66  TLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES---TRVFSSKLNEKR 122
            L +      +ICLP+ L  LPQ++LP LE + KL LWFG D  S    R F+ KLNEKR
Sbjct: 559 ALASQKAANMIICLPYNLQNLPQQLLPSLEGFKKLILWFGNDEPSWYTARQFAKKLNEKR 618

Query: 123 CFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTLLLL 182
           C+ +R  + QP P  +K KG DL  I+ +A P+ H +I T+D L++DVL DLQN+  +  
Sbjct: 619 CYFVRPIDTQPRPKLAKDKGYDLKSILANAQPIWHKSITTFDDLRQDVLCDLQNIDKV-- 676

Query: 183 RTMYCRRMCWLTYKTTNRF 201
                + + W  Y   NR 
Sbjct: 677 -----QGVKWKKYPALNRI 690

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350422873|ref|XP_003493311.1| PREDICTED: twinkle protein, mitochondrial-like [Bombus impatiens]

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 81/204 (39%), Positives = 112/204 (54%), Gaps = 13/204 (6%)

Query: 3   NTETKTLYMPLVNYANEVVGYK--QVHKSIESTVPTKQCQGVLHCPPYKKKTD-SAVLVQ 59
           N  T  LY PLV   N +VGYK   ++   E TVP     G +    Y  K D SAV+V 
Sbjct: 174 NKATNVLYFPLVGLNNSIVGYKTHSINPEKEGTVPVSGVSGCIQYKQYHSKNDNSAVVVG 233

Query: 60  RLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES---TRVFSS 116
            + D L L +      +ICLP+ L  LPQ++LP +E + KL LWFG D  S    + F+ 
Sbjct: 234 TIDDLLALISKKSASLIICLPYNLRNLPQQLLPYMESFKKLILWFGNDEISWYTAKQFAK 293

Query: 117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
           K NEKRC+ IR T++QP P  +     +LN I+++A PL H +IIT+  L+E++L DLQN
Sbjct: 294 KFNEKRCYFIRPTDSQPRPKLAAEMNYNLNNILQNAQPLWHKSIITFQDLKEEILCDLQN 353

Query: 177 VTLLLLRTMYCRRMCWLTYKTTNR 200
              +       + + W  Y T NR
Sbjct: 354 NDKV-------QGVKWKRYSTLNR 370

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193685982|ref|XP_001942891.1| PREDICTED: twinkle protein, mitochondrial-like [Acyrthosiphon pisum]

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 70/182 (38%), Positives = 111/182 (60%), Gaps = 7/182 (3%)

Query: 2   VNTETKTLYMPLVNYANEVVGYKQV---HKSIESTVPTKQCQGVLHCPPY-KKKTDSAVL 57
           VN+E  +LY+ ++     VVGYK++   +   + TVP   C G+   PP+    + SA++
Sbjct: 140 VNSENSSLYLTMLLDNKIVVGYKEIELENSLNQKTVPDDCCWGIAQVPPFTSNHSQSAII 199

Query: 58  VQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDH---ESTRVF 114
           V      L L     ++++ICLPHG+  LPQE+LP LE +N+L LWFG D     S R F
Sbjct: 200 VDDFKHLLVLVGHQSSHHIICLPHGVRKLPQELLPSLEYFNRLILWFGNDQIAWNSARTF 259

Query: 115 SSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADL 174
           + KL E RC+ IR T++QP P  +   GL++++I+++A  + HP+II +  ++ +V A+L
Sbjct: 260 AKKLIENRCYFIRPTDDQPSPYLAFKLGLNIDKILKTADKMVHPSIIQFSTIRNEVYAEL 319

Query: 175 QN 176
           QN
Sbjct: 320 QN 321

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340715527|ref|XP_003396263.1| PREDICTED: twinkle protein, mitochondrial-like [Bombus terrestris]

 Score =  137 bits (345), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 76/180 (42%), Positives = 102/180 (56%), Gaps = 6/180 (3%)

Query: 3   NTETKTLYMPLVNYANEVVGYKQVHKS--IESTVPTKQCQGVLHCPPYKKKTD-SAVLVQ 59
           N     LY PLV   N +VGYK    +   E T P     G +    Y  K D SAV+V 
Sbjct: 172 NKTRNVLYFPLVGLNNSIVGYKSFSTNPQNEETFPAFGVSGCIEYKQYHSKNDNSAVVVG 231

Query: 60  RLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES---TRVFSS 116
            L D L L +      +ICLP+ L  LPQ++LP +E + KL LWFG D  S    + F+ 
Sbjct: 232 MLDDMLALISKKSANLIICLPYNLRNLPQQLLPYMESFKKLILWFGNDEISWYTAKQFAK 291

Query: 117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
           K NEKRC+ IR T++QP P  +     +LN I+E+A PL H +IIT+  L+E++L+DLQN
Sbjct: 292 KFNEKRCYFIRPTDSQPRPKLAAEMNYNLNHILENAQPLWHKSIITFQDLKEEILSDLQN 351

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328789280|ref|XP_003251258.1| PREDICTED: twinkle protein, mitochondrial-like [Apis mellifera]

 Score =  137 bits (344), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 71/175 (40%), Positives = 102/175 (58%), Gaps = 6/175 (3%)

Query: 8   TLYMPLVNYANEVVGYK--QVHKSIESTVPTKQCQGVLHCPPY-KKKTDSAVLVQRLVDF 64
            +Y PL+     +VGYK        E TVP  +  G +    Y  K  D+A++V  + D 
Sbjct: 14  AIYFPLIGLNTSIVGYKLFSTKPQKEETVPAFEVSGCIEYKRYYNKNDDTAIIVSSIDDL 73

Query: 65  LTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDH---ESTRVFSSKLNEK 121
           L + +      +ICLP+ L  LPQ++LP +E + KL LWFG D     S R F+ KLNEK
Sbjct: 74  LAIMSKQSANVIICLPYNLRSLPQQLLPYMESFKKLILWFGNDEVSWYSARHFAKKLNEK 133

Query: 122 RCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
           RC+LIR T++QP PT +     + N I+ +A PL H +IIT++ L+E++L DLQN
Sbjct: 134 RCYLIRPTDSQPRPTLAAKMNYNFNNILMNAQPLWHKSIITFNDLKEEILIDLQN 188

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307213491|gb|EFN88900.1| Twinkle protein, mitochondrial [Harpegnathos saltator]

 Score =  133 bits (335), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 109/201 (54%), Gaps = 19/201 (9%)

Query: 9   LYMPLVNYANEVVGYKQV--HKSIESTVPTKQCQGVLHCPPYKKKT----DSAVLVQRLV 62
           LY PL+ + N VVGYK +     ++ T+PT    G   C  Y++K      +AV+V  + 
Sbjct: 40  LYFPLIAFGNNVVGYKIISSESELDQTLPTSNVGG---CVIYRQKNTRNDGTAVVVPTIH 96

Query: 63  DFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES---TRVFSSKLN 119
           D L L        +ICLP+ L  LPQ++LP LE + KL LWFG D  S    + F+ KLN
Sbjct: 97  DLLALVFQKAANTIICLPYNLQYLPQQLLPSLENFKKLILWFGNDEPSWYTAKQFAKKLN 156

Query: 120 EKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNVTL 179
           EKRC  +R    QP P  +  K  +L  I+ +A P+ H +I T+D L++D+L DLQN+  
Sbjct: 157 EKRCSFVRPIGTQPRPKLAADKDYNLKNILTNAQPIWHKSITTFDDLRQDILCDLQNIDR 216

Query: 180 LLLRTMYCRRMCWLTYKTTNR 200
           +       + + W  Y T NR
Sbjct: 217 V-------QGVKWKRYPTLNR 230

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170065465|ref|XP_001867950.1| pom1 [Culex quinquefasciatus] gi|167882528|gb|EDS45911.1| pom1 [Culex quinquefasciatus]

 Score =  133 bits (334), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 77/212 (36%), Positives = 111/212 (52%), Gaps = 24/212 (11%)

Query: 7   KTLYMPLVNYANEVVGYK----QVHKSIESTVPTKQCQGVLH----------CPPYKKKT 52
           K LY+PLV+  + VVGYK    + ++ +E TVP   C G+++               K  
Sbjct: 205 KHLYVPLVDVESAVVGYKVLSIEKNELVERTVPDTNCSGLIYLKCLAESKTVASAKSKDQ 264

Query: 53  DSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES-- 110
            SA+LV  + D L L  A +N   ICLPH L  LPQ+ LP LE + KL LWF  D     
Sbjct: 265 SSAILVLNVWDLLALSTAKINAIAICLPHDLKSLPQQCLPGLERFQKLTLWFNYDTAGWD 324

Query: 111 -TRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQED 169
             R ++ KL E+RC  +R T+  P P ++   GLDL  I   A P+ H +I T+  L++D
Sbjct: 325 IARNYARKLEERRCMFVRPTDAHPTPAKALGLGLDLKLIYGKAQPILHQSITTFHSLRQD 384

Query: 170 VLADLQNVTLLLLRTMYCRRMCWLTYKTTNRF 201
           VL++LQN+  +       + + W  Y T N+ 
Sbjct: 385 VLSELQNIDKV-------QGVKWRRYPTLNKL 409

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380019396|ref|XP_003693593.1| PREDICTED: twinkle protein, mitochondrial-like [Apis florea]

 Score =  130 bits (328), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 107/204 (52%), Gaps = 13/204 (6%)

Query: 3   NTETKTLYMPLVNYANEVVGYK--QVHKSIESTVPTKQCQGVLHCPPY-KKKTDSAVLVQ 59
           N     +Y PL+     +VGYK        E TVPT +  G +    Y  K  D+A++V 
Sbjct: 9   NKTMNIIYFPLIGLNTSIVGYKLLSTKPQKEETVPTFEVSGCIEYRRYHSKNNDTAIIVS 68

Query: 60  RLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHES---TRVFSS 116
            + D L +        +ICLP+ L  LPQ++LP +E + KL LWF  D  S    R F+ 
Sbjct: 69  TIDDLLAIMLKQSANIIICLPYNLRSLPQQLLPYMESFKKLILWFDNDEVSWYTARHFAK 128

Query: 117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
           KLNEKRC+LIR T+ QP P  +     + N I+++A PL H +IIT+  L+E++L DLQN
Sbjct: 129 KLNEKRCYLIRPTDLQPRPKLAAEMNYNFNSILKNAQPLWHKSIITFQDLKEEILIDLQN 188

Query: 177 VTLLLLRTMYCRRMCWLTYKTTNR 200
                      + + W  Y T NR
Sbjct: 189 -------NDKVQGVKWKRYTTLNR 205

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

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	223
UNIPROTKB|Q16JS5	671	AAEL013237 "AAEL013237-PA" [Ae	0.663	0.220	0.433	2.4e-28
UNIPROTKB|B4KJD8	620	GI24377 "GI24377" [Drosophila	0.757	0.272	0.379	1.2e-24
UNIPROTKB|Q29ND4	614	GA19233 "GA19233" [Drosophila	0.762	0.276	0.386	1.5e-24
UNIPROTKB|B4JE32	616	GH10441 "GH10441" [Drosophila	0.766	0.277	0.373	3.2e-24
UNIPROTKB|B3MP19	614	GF15234 "GF15234" [Drosophila	0.762	0.276	0.359	5.2e-24
UNIPROTKB|B0XE78	660	CpipJ_CPIJ017385 "Pom1" [Culex	0.663	0.224	0.391	6.3e-24
UNIPROTKB|B4LRC5	641	GJ21636 "GJ21636" [Drosophila	0.780	0.271	0.362	7.5e-24
UNIPROTKB|B3N8J2	613	GG24002 "GG24002" [Drosophila	0.762	0.277	0.370	1.1e-23
UNIPROTKB|B4HWB5	613	GM12211 "GM12211" [Drosophila	0.762	0.277	0.370	1.4e-23
UNIPROTKB|B4NYN0	613	GE10270 "GE10270" [Drosophila	0.766	0.278	0.368	1.8e-23

UNIPROTKB|Q16JS5 AAEL013237 "AAEL013237-PA" [Aedes aegypti (taxid:7159)]

 Score = 324 (119.1 bits), Expect = 2.4e-28, P = 2.4e-28
 Identities = 69/159 (43%), Positives = 94/159 (59%)

Query:    30 IESTVPTKQCQGVLH--CPP------YKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPH 81
             IE T+P   C G++H  C          K   +AVLV  ++D L L  A LN   ICLPH
Sbjct:   244 IERTIPEANCSGLVHLKCSSGTATKASAKDQSTAVLVLNVLDLLALSAAKLNVTAICLPH 303

Query:    82 GLTCLPQEILPCLEEYNKLYLWFGKDH---ESTRVFSSKLNEKRCFLIRETENQPLPTES 138
              L  LPQ+ LP LE YNKL LWF  D    ++ R ++ KL+E+RC  +R T+  P P ++
Sbjct:   304 DLKSLPQQCLPGLERYNKLTLWFNYDTAGWDTARNYAKKLDERRCTFVRPTDAHPTPAKA 363

Query:   139 KAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNV 177
              A GLDL  I+  A P+ H +I T+  L++DVL+DLQN+
Sbjct:   364 LALGLDLKAILSKAQPILHQSITTFHSLRQDVLSDLQNI 402

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4KJD8 GI24377 "GI24377" [Drosophila mojavensis (taxid:7230)]

 Score = 289 (106.8 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 69/182 (37%), Positives = 105/182 (57%)

Query:     5 ETKTLYMPLVNYANEVVGYKQVHKSIESTVPTKQCQ---GVL-HCPPYKKKTDSAVLVQR 60
             E K L+  L N ++++VG K +H    S   T QC    G+L H    K K   AVLV  
Sbjct:   178 EQKLLHFRLRNASHKIVGEKVLHLGDRSE-QTFQCSSSSGLLIHGSGNKTK---AVLVSN 233

Query:    61 LVDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKDH----ESTRVFS 115
             L+DF+ L   ++  + +ICLP+ +  LPQE LP LE + +L  W   D     ++   F+
Sbjct:   234 LLDFIVLATQNIETHCIICLPYAMQQLPQECLPGLERFKELVFWLHYDATPSWDAASAFA 293

Query:   116 SKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQ 175
              K++EKRC LIR TE +P P  +  K L++  I+  A+P+ H AI T++ L+ D+L++LQ
Sbjct:   294 QKMDEKRCLLIRPTETEPAPHVALKKRLNIRHILAKATPVRHKAITTFNALRNDILSELQ 353

Query:   176 NV 177
             N+
Sbjct:   354 NI 355

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|Q29ND4 GA19233 "GA19233" [Drosophila pseudoobscura pseudoobscura (taxid:46245)]

 Score = 288 (106.4 bits), Expect = 1.5e-24, P = 1.5e-24
 Identities = 70/181 (38%), Positives = 101/181 (55%)

Query:     5 ETKTLYMPLVNYANEVVGYKQVHKSI--ESTVPTKQCQGVL-HCPPYKKKTDSAVLVQRL 61
             E   L+  L N A  VVG K +H S   E T       G+L H    K K   AVLV  L
Sbjct:   175 EQNLLHFKLRNTAQLVVGEKVLHLSDRHEETFQGTSMSGLLIHGVGNKSK---AVLVSNL 231

Query:    62 VDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKD--H--ESTRVFSS 116
             +DF+ L   ++  + ++CLP+ L  LPQE LP LE + +L  W   D  H  ++ R F+ 
Sbjct:   232 LDFIVLATQNIETHCIVCLPYELKMLPQECLPGLERFKELVFWLHYDSSHNWDAARAFAQ 291

Query:   117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
             K+ EKRC LIR TE +P P  +  + L+L  I+  A+P+ H AI T+  ++ D+L++LQN
Sbjct:   292 KIEEKRCLLIRATETEPAPHLALRRRLNLRHILAKATPVRHKAITTFGAMRNDILSELQN 351

Query:   177 V 177
             +
Sbjct:   352 I 352

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4JE32 GH10441 "GH10441" [Drosophila grimshawi (taxid:7222)]

 Score = 285 (105.4 bits), Expect = 3.2e-24, P = 3.2e-24
 Identities = 68/182 (37%), Positives = 103/182 (56%)

Query:     4 TETKTLYMPLVNYANEVVGYKQVHKSIES--TVPTKQCQGVL-HCPPYKKKTDSAVLVQR 60
             +E   L+  L N    VVG K ++ S  S  T       G+L H    K K   AVLV  
Sbjct:   173 SEQHLLHFALRNATQTVVGEKVLNLSDRSELTFQGSVSSGLLIHGAANKSK---AVLVSN 229

Query:    61 LVDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKD--H--ESTRVFS 115
             L+DF+ L   ++  + ++CLP+ L  LPQE LP LE + +L  W   D  H  ++ R F+
Sbjct:   230 LLDFIVLATQNIETHCIVCLPYALQVLPQECLPGLERFKELVFWLHYDATHSWDAARAFA 289

Query:   116 SKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQ 175
              K++EKRC LIR TE +P P  +  + L++  I+  A+P+ H AI T++ L+ D+L++LQ
Sbjct:   290 QKMDEKRCLLIRPTETEPAPHVALRRRLNMRHILAKATPVRHKAITTFNALRNDILSELQ 349

Query:   176 NV 177
             N+
Sbjct:   350 NI 351

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B3MP19 GF15234 "GF15234" [Drosophila ananassae (taxid:7217)]

 Score = 283 (104.7 bits), Expect = 5.2e-24, P = 5.2e-24
 Identities = 65/181 (35%), Positives = 104/181 (57%)

Query:     5 ETKTLYMPLVNYANEVVGYKQVH--KSIESTVPTKQCQGVL-HCPPYKKKTDSAVLVQRL 61
             + + L+  L N A+ VVG K +H     E T       G+L H    K K   AV+V  L
Sbjct:   172 QQQILHFQLRNAAHHVVGEKVLHLGSRSEETFQDGSSSGILIHGVGNKSK---AVIVSNL 228

Query:    62 VDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLW--FGKDH--ESTRVFSS 116
             +DF+ L   +L  + ++CLP+ +  LPQE LP LE + +L  W  +  +H  ++ R F+ 
Sbjct:   229 MDFIVLATQNLETHCIVCLPYEVKMLPQECLPGLERFKELVFWLHYDSNHSWDAARSFAQ 288

Query:   117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
             K++E+RC LIR TE +P P  +  K L+L  I+  A+P+ H +I T+  ++ D+L++LQN
Sbjct:   289 KMDERRCLLIRPTETEPAPHIALRKRLNLRHILAKATPVRHRSITTFGAMRNDILSELQN 348

Query:   177 V 177
             +
Sbjct:   349 I 349

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B0XE78 CpipJ_CPIJ017385 "Pom1" [Culex quinquefasciatus (taxid:7176)]

 Score = 283 (104.7 bits), Expect = 6.3e-24, P = 6.3e-24
 Identities = 63/161 (39%), Positives = 88/161 (54%)

Query:    30 IESTVPTKQCQGVLH--C--------PPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICL 79
             +E TVP   C G+++  C            K   SA+LV  + D L L  A +N   ICL
Sbjct:   232 VERTVPDTNCSGLIYLKCLAESKTVASAKSKDQSSAILVLNVWDLLALSTAKINAIAICL 291

Query:    80 PHGLTCLPQEILPCLEEYNKLYLWFGKDH---ESTRVFSSKLNEKRCFLIRETENQPLPT 136
             PH L  LPQ+ LP LE + KL LWF  D    +  R ++ KL E+RC  +R T+  P P 
Sbjct:   292 PHDLKSLPQQCLPGLERFQKLTLWFNYDTAGWDIARNYARKLEERRCMFVRPTDAHPTPA 351

Query:   137 ESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQNV 177
             ++   GLDL  I   A P+ H +I T+  L++DVL++LQN+
Sbjct:   352 KALGLGLDLKLIYGKAQPILHQSITTFHSLRQDVLSELQNI 392

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4LRC5 GJ21636 "GJ21636" [Drosophila virilis (taxid:7244)]

 Score = 282 (104.3 bits), Expect = 7.5e-24, P = 7.5e-24
 Identities = 67/185 (36%), Positives = 105/185 (56%)

Query:     1 MVNTETKTLYMPLVNYANEVVGYKQVHKS--IESTVPTKQCQGVL-HCPPYKKKTDSAVL 57
             M   + + L+  L N A+ VVG K +  S   E T       G+L H    K K   AVL
Sbjct:   195 MYEPDQQLLHFKLRNAAHLVVGEKVLRLSDRSEQTFQGSSSSGLLIHGTGNKSK---AVL 251

Query:    58 VQRLVDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKD--H--ESTR 112
             V  L+DF+ L   ++  + ++CLP+ L  LPQE LP LE + +L  W   D  H  ++ R
Sbjct:   252 VSNLLDFIVLATQNIETHCIVCLPYALHLLPQECLPGLERFKELVFWLHYDATHSWDAAR 311

Query:   113 VFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLA 172
              F+ K++E+RC LIR TE +P P  +  + L++  I+  A+P+ H +I T++ L+ D+L+
Sbjct:   312 AFAQKMDERRCLLIRPTETEPAPHLALKRRLNVRHILAKATPVRHKSITTFNALRNDILS 371

Query:   173 DLQNV 177
             +LQN+
Sbjct:   372 ELQNI 376

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B3N8J2 GG24002 "GG24002" [Drosophila erecta (taxid:7220)]

 Score = 280 (103.6 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 67/181 (37%), Positives = 102/181 (56%)

Query:     5 ETKTLYMPLVNYANEVVGYKQVH--KSIESTVPTKQCQGVL-HCPPYKKKTDSAVLVQRL 61
             + + L+  L N A  VVG K ++     E    +    G+L H    K K   AVLV  L
Sbjct:   174 QQQLLHFKLRNAAQVVVGEKVLYLCDQREEVYQSSSSSGLLIHGATNKTK---AVLVSNL 230

Query:    62 VDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKD--H--ESTRVFSS 116
             +DF+ L   ++  + V+CLP+ L  LPQE LP LE + +L  W   D  H  ++ R F+ 
Sbjct:   231 LDFIVLATQNIETHCVVCLPYELKTLPQECLPALERFKELIFWLHYDASHSWDAARAFAL 290

Query:   117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
             KL+E+RC LIR TE +P P  +  + L+L  I+  A+P+ H AI T+  ++ D+L++LQN
Sbjct:   291 KLDERRCLLIRPTETEPAPHLALRRRLNLRHILAKATPVQHKAITTFGAMRNDILSELQN 350

Query:   177 V 177
             +
Sbjct:   351 I 351

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4HWB5 GM12211 "GM12211" [Drosophila sechellia (taxid:7238)]

 Score = 279 (103.3 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 67/181 (37%), Positives = 102/181 (56%)

Query:     5 ETKTLYMPLVNYANEVVGYKQVHKSI--ESTVPTKQCQGVL-HCPPYKKKTDSAVLVQRL 61
             + + L+  L N A  VVG K ++     E    +    G+L H    K K   AVLV  L
Sbjct:   174 QQQLLHFKLRNAAQVVVGEKVLYLGDRREEIFQSSSSSGLLIHGAMNKTK---AVLVSNL 230

Query:    62 VDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKD--H--ESTRVFSS 116
             +DF+ L   ++  + V+CLP+ L  LPQE LP LE + +L  W   D  H  ++ R F+ 
Sbjct:   231 IDFIVLATQNIETHCVVCLPYELKTLPQECLPALERFKELIFWLHYDASHSWDAARAFAL 290

Query:   117 KLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQN 176
             KL+E+RC LIR TE +P P  +  + L+L  I+  A+P+ H AI T+  ++ D+L++LQN
Sbjct:   291 KLDERRCLLIRPTETEPAPHLALRRRLNLRHILAKATPVQHKAITTFGAMRNDILSELQN 350

Query:   177 V 177
             +
Sbjct:   351 I 351

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

UNIPROTKB|B4NYN0 GE10270 "GE10270" [Drosophila yakuba (taxid:7245)]

 Score = 278 (102.9 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 67/182 (36%), Positives = 103/182 (56%)

Query:     4 TETKTLYMPLVNYANEVVGYKQVHKSI--ESTVPTKQCQGVL-HCPPYKKKTDSAVLVQR 60
             ++ + L+  L N A  VVG K ++     E    +    G+L H    K K   AVLV  
Sbjct:   173 SQQQLLHFKLRNAAQVVVGEKVLYLGDRREEIYQSSSSSGLLIHGAMNKTK---AVLVSN 229

Query:    61 LVDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKD--H--ESTRVFS 115
             L+DF+ L   ++  + V+CLP+ L  LPQE LP LE + +L  W   D  H  ++ R F+
Sbjct:   230 LLDFIVLATQNIETHCVVCLPYELKTLPQECLPALERFKELIFWLHYDASHSWDAARAFA 289

Query:   116 SKLNEKRCFLIRETENQPLPTESKAKGLDLNRIIESASPLCHPAIITYDVLQEDVLADLQ 175
              KL+E+RC LIR TE +P P  +  + L+L  I+  A+P+ H AI T+  ++ D+L++LQ
Sbjct:   290 LKLDERRCLLIRPTETEPAPHLALRRRLNLRHILAKATPVQHKAITTFGAMRNDILSELQ 349

Query:   176 NV 177
             N+
Sbjct:   350 NI 351

GO:0003697 "single-stranded DNA binding" evidence=ISS

GO:0006264 "mitochondrial DNA replication" evidence=ISS

GO:0042645 "mitochondrial nucleoid" evidence=ISS

GO:0043139 "5'-3' DNA helicase activity" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by 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	223
KOG2373|consensus	514		100.0
TIGR01391	415	dnaG DNA primase, catalytic core. This protein con	99.67
TIGR00646	218	MG010 DNA primase-related protein. The DNA primase	99.64
PRK07078	759	hypothetical protein; Validated	99.53
PRK05667	580	dnaG DNA primase; Validated	99.52
PF13155	96	Toprim_2: Toprim-like	99.33
cd03364	79	TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The top	99.25
PF13662	81	Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B	99.24
PHA02415	930	DNA primase domain-containing protein	99.18
COG0358	568	DnaG DNA primase (bacterial type) [DNA replication	99.13
cd01029	79	TOPRIM_primases TOPRIM_primases: The topoisomerase	99.1
PF13362	96	Toprim_3: Toprim domain	98.97
PHA02540	337	61 DNA primase; Provisional	98.87
PHA02031	266	putative DnaG-like primase	98.82
smart00493	76	TOPRIM topoisomerases, DnaG-type primases, OLD fam	98.76
PRK08624	373	hypothetical protein; Provisional	98.67
PF12965	130	DUF3854: Domain of unknown function (DUF3854); Int	98.38
cd00188	83	TOPRIM Topoisomerase-primase domain. This is a nuc	98.23
cd01027	81	TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The to	97.98
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	97.77
PRK04031	408	DNA primase; Provisional	97.63
TIGR00334	174	5S_RNA_mat_M5 ribonuclease M5. This family of orth	96.41
PF01751	100	Toprim: Toprim domain; InterPro: IPR006171 This is	96.29
COG4643	366	Uncharacterized protein conserved in bacteria [Fun	94.81
COG1658	127	Small primase-like proteins (Toprim domain) [DNA r	91.53
PRK04017	132	hypothetical protein; Provisional	89.29
PF13707	183	RloB: RloB-like protein	84.18

>KOG2373|consensus

Probab=100.00  E-value=1.4e-40  Score=305.01  Aligned_cols=192  Identities=30%  Similarity=0.523  Sum_probs=170.8

Q ss_pred             eEEEe---eecCCC-cEEEEEEeec---ccc-ccccCC------CC-ccccccCCCCCCCCeEEEeCChhHHHHHhhhhc
Q psy4521           8 TLYMP---LVNYAN-EVVGYKQVHK---SIE-STVPTK------QC-QGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHL   72 (223)
Q Consensus         8 ~lvfP---~~~~~g-~lvg~K~r~~---~ke-k~~p~~------~~-~glFG~~~~~~~~~~iVItEGE~Dalav~q~~~   72 (223)
                      +++||   ++++.+ .+.|+|.+..   ..+ ..++..      ++ .|+||.|+......++|||.+|+|++|++|+ +
T Consensus        63 ~~~FP~~~~~tp~~~~~~GlK~l~e~~~~~~g~~ye~~~~~~~r~a~~~~fGL~l~~rrd~~vVltsne~D~lal~~~-t  141 (514)
T KOG2373|consen   63 AILFPRYRGMTPRLRIPMGLKLLREVGDRMEGENYELPDETSVRQAFNGVFGLHLATRRDRSVVLTSNERDALALYEA-T  141 (514)
T ss_pred             ccccccccccCccchhhhhhHHHHHhhhccccccCCCCcccchhhhhcceeceeecccccceEEEeecchhHHHHhhh-c
Confidence            78999   666653 6889994432   111 133222      22 5999999986655599999999999999997 4


Q ss_pred             CceEEEcCCCCCCCCcccccccccCceEEEEcCCChH---HHHHHHhhcCCCceEEEecCCCCCChhHHHhCCchHHHHH
Q psy4521          73 NYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCFLIRETENQPLPTESKAKGLDLNRII  149 (223)
Q Consensus        73 g~p~VSlP~Ga~slp~~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~iV~~~~~~kdane~L~~g~~l~~~i  149 (223)
                      +.++++||+|...+|+.+|||||+|++||+|+..|..   +|+.||++|+..||.+|||.+..+.|.+||..+..++.|+
T Consensus       142 ~~~t~~LP~g~~~lP~~~LPyLE~F~~i~fWl~~d~~sw~aAk~fa~kLn~~rClLvrp~e~~p~p~~al~~rlnl~~il  221 (514)
T KOG2373|consen  142 KALTFALPHGEILLPQLVLPYLEEFDKIYFWLPVDHVSWSAAKDFASKLNTLRCLLVRPEERPPEPVRALDHRLNLNSIL  221 (514)
T ss_pred             CceEEEcccccccCcHHHHHHHHhhheEEEEecccccchHHHHHHHhhcCcceEEEECCCCCCcchhhhhcccccHHHHH
Confidence            7999999999999999999999999999999999998   9999999999999999999999999999999999999999


Q ss_pred             HhcCCCCCCcccchhHHHHHHHHhhhhhHHHHHhhcccCCccccCChhhHhhhcccch
Q psy4521         150 ESASPLCHPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNGN  207 (223)
Q Consensus       150 ~~A~~~~~~~I~tf~dlre~V~~el~n~~~~~~~~~~~~Gv~w~~fp~Ln~~lkG~~~  207 (223)
                      .+|.|++|++|+||.|+|++|.+||+|.+++.       |++|+|||.||++|||+|-
T Consensus       222 ~~a~p~~hk~i~sf~~mRe~ilseL~N~e~v~-------G~~WkRFpvLNk~LkGhR~  272 (514)
T KOG2373|consen  222 NSAVPMRHKGIRSFTDMREGILSELLNTERVV-------GFQWKRFPVLNKYLKGHRP  272 (514)
T ss_pred             hhhchhhhhhhhhHHHHHHHHHHHHhhhhhhh-------ceeehhhhHHHHHhccCCC
Confidence            99999999999999999999999999999999       9999999999999999984

>TIGR01391 dnaG DNA primase, catalytic core

Probab=99.67  E-value=3.2e-16  Score=147.43  Aligned_cols=145  Identities=19%  Similarity=0.292  Sum_probs=109.1

Q ss_pred             ceEEEeeecCCCcEEEEEEeecc--ccc--cccCC---C-CccccccCCCC---CCCCeEEEeCChhHHHHHhhhhcCce
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHKS--IES--TVPTK---Q-CQGVLHCPPYK---KKTDSAVLVQRLVDFLTLCNAHLNYN   75 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~~--kek--~~p~~---~-~~glFG~~~~~---~~~~~iVItEGE~Dalav~q~~~g~p   75 (223)
                      ..++||++|.+|++||+.-|...  .-|  +-|..   + ...|||+|...   ..++++|||||++||||++|+  |++
T Consensus       201 ~RiifPi~d~~G~vvgf~gR~~~~~~pKYlNspet~~f~K~~~lygl~~a~~~~~~~~~viivEG~~Daisl~~~--G~~  278 (415)
T TIGR01391       201 NRIMFPIHDPKGRVVGFGGRALGDEKPKYLNSPETPLFKKSELLYGLHKARKEIRKEKELILVEGYMDVIALHQA--GIK  278 (415)
T ss_pred             CeEEEEEECCCCCEEEEEeeecCCCCCceeCCCCCCCccCCccccCHhHHHHhhccCCcEEEEecHHHHHHHHHC--CCC
Confidence            36899999999999999999862  111  11211   1 24678887532   346799999999999999986  566


Q ss_pred             -EEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhhcCCC--ceEEEecCCCCCChhHHHhC-C-chHH
Q psy4521          76 -VICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSKLNEK--RCFLIRETENQPLPTESKAK-G-LDLN  146 (223)
Q Consensus        76 -~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~kLg~~--RC~iV~~~~~~kdane~L~~-g-~~l~  146 (223)
                       +|+++ |++ +....+..|.++ ++||||+|+|.+   +|...+++|...  .|+++.+|+ .+||+|.|++ | .++.
T Consensus       279 ~aVA~~-Gta-lt~~~~~~l~r~~~~vvl~~D~D~aG~~aa~r~~~~l~~~g~~v~v~~lp~-gkDpdd~l~~~g~~~~~  355 (415)
T TIGR01391       279 NAVASL-GTA-LTEEHIKLLKRYADEIILCFDGDKAGRKAALRAIELLLPLGINVKVIKLPG-GKDPDEYLRKEGVEALK  355 (415)
T ss_pred             cEEECC-CCC-CcHHHHHHHHhhCCeEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEECCC-CCCHHHHHHHhCHHHHH
Confidence             78776 443 566677777765 589999999999   777777777543  588888875 7999999965 6 5799


Q ss_pred             HHHHhcCCCC
Q psy4521         147 RIIESASPLC  156 (223)
Q Consensus       147 ~~i~~A~~~~  156 (223)
                      ++|++|.++.
T Consensus       356 ~~l~~a~~~~  365 (415)
T TIGR01391       356 KLLENSKSLI  365 (415)
T ss_pred             HHHhcCCCHH
Confidence            9999987763

This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751).

>TIGR00646 MG010 DNA primase-related protein

Probab=99.64  E-value=1.6e-15  Score=132.08  Aligned_cols=145  Identities=16%  Similarity=0.233  Sum_probs=107.6

Q ss_pred             CCcceEEEeeecCCCcEEEEEEeecc-ccc--cccCCC----CccccccCCCCCCCCeEEEeCChhHHHHHhhhhcCc-e
Q psy4521           4 TETKTLYMPLVNYANEVVGYKQVHKS-IES--TVPTKQ----CQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNY-N   75 (223)
Q Consensus         4 ~~~~~lvfP~~~~~g~lvg~K~r~~~-kek--~~p~~~----~~glFG~~~~~~~~~~iVItEGE~Dalav~q~~~g~-p   75 (223)
                      ....-++||.+|..|++||..=|.++ ..|  +-|...    ..-|||.+......+++|||||-+|++|++|+  |+ .
T Consensus        55 ~~~~RimFPI~d~~G~vvgFgGR~l~~~~KYlNspet~~f~K~~~Lygl~~~~~k~~~vilvEGymDVIsl~qa--Gi~n  132 (218)
T TIGR00646        55 GEKEWLNLPLYNFDGNLIGFLNRKVGFEKEFLYLPFNKPPSKSEAFLGLKELPIEDNSIYLVEGDFDWLAFRKA--GILN  132 (218)
T ss_pred             ccCCEEEEEEECCCCCEEEEeccCCCCCCCcccCCCCCCcccchhhcCcchhhcCCCEEEEEecHHHHHHHHHC--CCCe
Confidence            34567899999999999999988772 222  222211    14677887665656799999999999999996  44 4


Q ss_pred             EEEcCCCCCCCCcccccccccC--ceEEEEcCCChH---HHHHHHhhcCC--CceEEEecCCCCCChhHHHhC-CchHHH
Q psy4521          76 VICLPHGLTCLPQEILPCLEEY--NKLYLWFGKDHE---STRVFSSKLNE--KRCFLIRETENQPLPTESKAK-GLDLNR  147 (223)
Q Consensus        76 ~VSlP~Ga~slp~~~lp~Le~F--~~IiLw~D~D~~---~a~e~A~kLg~--~RC~iV~~~~~~kdane~L~~-g~~l~~  147 (223)
                      +| -+.|.. +-.+.+..|.+.  ++|+||+|+|.|   |+...++.|-.  -+|+++.+|+..||+||.|+. +..-.+
T Consensus       133 aV-AslGTA-LT~~q~~lLkr~~~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~lP~~~KDwNEllk~~~~~w~~  210 (218)
T TIGR00646       133 CL-PLCGLT-ISDKQMKFFKQKKIEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIEIKAAAKDWNDLFLLNNKNWAA  210 (218)
T ss_pred             EE-EcCchH-hHHHHHHHHhccCCCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeCCCcCCChhHHHHHhhhhHHH
Confidence            55 566665 555556667774  799999999999   77777777732  358899998889999999965 555666


Q ss_pred             HHHhc
Q psy4521         148 IIESA  152 (223)
Q Consensus       148 ~i~~A  152 (223)
                      +|.++
T Consensus       211 ~l~~~  215 (218)
T TIGR00646       211 ALRDH  215 (218)
T ss_pred             HHHhh
Confidence            66664

The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.

>PRK07078 hypothetical protein; Validated

Probab=99.53  E-value=1.8e-13  Score=137.41  Aligned_cols=143  Identities=13%  Similarity=0.145  Sum_probs=114.3

Q ss_pred             ceEEEeeecCCCcEEEEEEeec---cccccccCCC---------CccccccCCCCCCCCeEEEeCChhHHHHHhhhhcCc
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHK---SIESTVPTKQ---------CQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNY   74 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~---~kek~~p~~~---------~~glFG~~~~~~~~~~iVItEGE~Dalav~q~~~g~   74 (223)
                      .+...||+|.+|+++++-+|..   +++...|..+         ...|||++.+. .++.|+|||||.||+|+.+.  |+
T Consensus       134 ~~~~~~Y~D~~G~~~~~v~R~~~~~~~K~fr~~~g~~~~~~~~~~~pLy~lp~l~-~a~~V~lvEGEk~adal~~~--g~  210 (759)
T PRK07078        134 ATAKWDYLDAAGKLIAVVYRYDPPGRRKEFRPWDAKRRKMAPPEPRPLYNQPGLL-SAEQVVLVEGEKCAQALIDA--GV  210 (759)
T ss_pred             ceeEEEEECCCCCEEEEEEeecCCCCCceeecccCCcceecCCCCcCCcCchhhh-cCCeEEEEeChHHHHHHHhc--CC
Confidence            4567899999999999888865   2222444333         13689998774 36799999999999999874  79


Q ss_pred             eEEEcCCCCCCCC-cccccccccCceEEEEcCCChH---HHHHHHhhc---CCCceEEEecCC---CCCChhHHHhCCch
Q psy4521          75 NVICLPHGLTCLP-QEILPCLEEYNKLYLWFGKDHE---STRVFSSKL---NEKRCFLIRETE---NQPLPTESKAKGLD  144 (223)
Q Consensus        75 p~VSlP~Ga~slp-~~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kL---g~~RC~iV~~~~---~~kdane~L~~g~~  144 (223)
                      +|+|.|.||++.+ ...+.-|.. .+|+||.|+|++   .|+++|+.|   |...|.++.|++   ...|++|++..|.+
T Consensus       211 ~att~~~Ga~~~~~~~d~~~L~g-~~VvI~pD~D~~G~~~a~~va~~l~~~g~~~~~v~~p~~~~~~~~D~aD~~~~G~~  289 (759)
T PRK07078        211 VATTAMHGANAPVDKTDWSPLAG-KAVLIWPDRDKPGWEYADRAAQAILSAGASSCAVLLPPEDLPEGWDAADAIAEGFD  289 (759)
T ss_pred             eEEecCCCCCCCcccccccccCC-CEEEEEcCCChHHHHHHHHHHHHHHhcCCeEEEEEecCcccCcCCCHHHHHHcCCC
Confidence            9999999998763 344444888 599999999999   999999998   888999997752   45799999999988


Q ss_pred             HHHHHHhcC
Q psy4521         145 LNRIIESAS  153 (223)
Q Consensus       145 l~~~i~~A~  153 (223)
                      +.++|....
T Consensus       290 ~~~~~~~~~  298 (759)
T PRK07078        290 VAGFLAHGE  298 (759)
T ss_pred             HHHHHhhcc
Confidence            888887755

>PRK05667 dnaG DNA primase; Validated

Probab=99.52  E-value=7.7e-14  Score=136.48  Aligned_cols=145  Identities=17%  Similarity=0.266  Sum_probs=107.7

Q ss_pred             ceEEEeeecCCCcEEEEEEeecc--ccc--cccCC---C-CccccccCCCC---CCCCeEEEeCChhHHHHHhhhhcCce
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHKS--IES--TVPTK---Q-CQGVLHCPPYK---KKTDSAVLVQRLVDFLTLCNAHLNYN   75 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~~--kek--~~p~~---~-~~glFG~~~~~---~~~~~iVItEGE~Dalav~q~~~g~p   75 (223)
                      ..++||.+|..|++||+.-|..+  .-|  +-|..   . ...|||+|...   ...+++|||||++|+||++|+  |++
T Consensus       197 ~RimfPI~d~~G~vigF~GR~l~~~~pKYlNSpet~iF~K~~~LYgl~~a~~~i~~~~~viivEG~~Dvisl~q~--Gi~  274 (580)
T PRK05667        197 NRIMFPIRDLRGRVIGFGGRVLGDDKPKYLNSPETPLFHKGRVLYGLDEARKAIAKKKQVIVVEGYMDVIALHQA--GIT  274 (580)
T ss_pred             CeEEEEEECCCCcEEEEEeeecCCCCCeeeCCCCCCCccCCccccCccHHHHhcccCCeEEEEeeHHHHHHHHHc--CCC
Confidence            46899999999999999999762  111  11211   1 24678887543   235699999999999999997  454


Q ss_pred             -EEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhh---cCC--CceEEEecCCCCCChhHHHhC-C-c
Q psy4521          76 -VICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSK---LNE--KRCFLIRETENQPLPTESKAK-G-L  143 (223)
Q Consensus        76 -~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~k---Lg~--~RC~iV~~~~~~kdane~L~~-g-~  143 (223)
                       ||+.. |+ ++..+.+..|.++ .+||||||+|.+   +|...++.   |-.  ..|++|.+|+ .+||+|.+++ | .
T Consensus       275 naVA~l-Gt-alt~~~~~~L~r~~~~vil~~D~D~AG~~aa~r~~~~~~~l~~~g~~v~vv~lp~-gkDpdd~l~~~G~~  351 (580)
T PRK05667        275 NAVASL-GT-ALTEEHLKLLRRLTDEVILCFDGDKAGRKAALRALELALPLLKDGRQVRVAFLPD-GKDPDDLVRKEGPE  351 (580)
T ss_pred             cEEEeC-CC-CCCHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHHHHhCCceEEEEECCC-CCChHHHHHHhCHH
Confidence             77665 54 3667777777775 589999999999   77666666   422  2678999875 6999999975 6 5


Q ss_pred             hHHHHHHhcCCCC
Q psy4521         144 DLNRIIESASPLC  156 (223)
Q Consensus       144 ~l~~~i~~A~~~~  156 (223)
                      .+.++|.+|.|+.
T Consensus       352 ~~~~~i~~a~~~~  364 (580)
T PRK05667        352 AFRALLEQAIPLS  364 (580)
T ss_pred             HHHHHHHcCCCHH
Confidence            6999999988764

>PF13155 Toprim_2: Toprim-like

Probab=99.33  E-value=9.7e-13  Score=98.73  Aligned_cols=83  Identities=17%  Similarity=0.223  Sum_probs=64.6

Q ss_pred             EEeCChhHHHHHhhhhcCc-e--EEEcCCCCCCCCccccccc--ccCceEEEEcCCChH---HHHHHHhhcCCC-----c
Q psy4521          56 VLVQRLVDFLTLCNAHLNY-N--VICLPHGLTCLPQEILPCL--EEYNKLYLWFGKDHE---STRVFSSKLNEK-----R  122 (223)
Q Consensus        56 VItEGE~Dalav~q~~~g~-p--~VSlP~Ga~slp~~~lp~L--e~F~~IiLw~D~D~~---~a~e~A~kLg~~-----R  122 (223)
                      |||||++||||++|..... .  .+||+.|.....+....+|  .+.++|+|+||||.+   +++++++.|...     +
T Consensus         1 ~v~Eg~iDaLS~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~~~~~~   80 (96)
T PF13155_consen    1 VVFEGPIDALSYYQLGKENIKDNSLSLAGGGTLSEKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEGFPNIK   80 (96)
T ss_pred             cEEeCHHHHHHHHHhCchhcCCceEEEECCchHHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhCCCcce
Confidence            6999999999999974211 1  2789888886667778888  445789999999999   899999888754     4


Q ss_pred             eEEEecCCCCCChhHHH
Q psy4521         123 CFLIRETENQPLPTESK  139 (223)
Q Consensus       123 C~iV~~~~~~kdane~L  139 (223)
                      ..+..++.. ||.||+|
T Consensus        81 ~~~~~~~~~-KD~Nd~L   96 (96)
T PF13155_consen   81 VRIEDPPDG-KDWNDYL   96 (96)
T ss_pred             eeecCCCCC-cCchhhC
Confidence            555556554 9999986

>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG

Probab=99.25  E-value=1.4e-11  Score=90.28  Aligned_cols=72  Identities=18%  Similarity=0.165  Sum_probs=56.8

Q ss_pred             CeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhhcCCC--ceEEE
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSKLNEK--RCFLI  126 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~kLg~~--RC~iV  126 (223)
                      ++++||||++||||++|.. ..++|+++.+..+  ...+++|.++ ++|++|+|+|.+   ++++++++|...  +++++
T Consensus         1 ~~v~i~EG~~D~ls~~~~g-~~~~va~~G~~~~--~~~~~~L~~~~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~~   77 (79)
T cd03364           1 KKVILVEGYMDVIALHQAG-IKNVVASLGTALT--EEQAELLKRLAKEVILAFDGDEAGQKAALRALELLLKLGLNVRVL   77 (79)
T ss_pred             CeEEEEeCHHHHHHHHHcC-CCCEEECCCccCc--HHHHHHHHhcCCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEEE
Confidence            4799999999999999963 3568888866443  3567888887 999999999999   888999988643  45554


Q ss_pred             e
Q psy4521         127 R  127 (223)
Q Consensus       127 ~  127 (223)
                      .
T Consensus        78 ~   78 (79)
T cd03364          78 T   78 (79)
T ss_pred             e
Confidence            3

Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.

>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A

Probab=99.24  E-value=4.8e-12  Score=93.22  Aligned_cols=70  Identities=23%  Similarity=0.278  Sum_probs=48.7

Q ss_pred             CeEEEeCChhHHHHHhhhhcCc-eEEEcCCCCC-CCCccccccccc-CceEEEEcCCChH---HHHHHHhhcCCCceE
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLNY-NVICLPHGLT-CLPQEILPCLEE-YNKLYLWFGKDHE---STRVFSSKLNEKRCF  124 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g~-p~VSlP~Ga~-slp~~~lp~Le~-F~~IiLw~D~D~~---~a~e~A~kLg~~RC~  124 (223)
                      +++||||||+|+|+++|+  |+ .++++..|+. +.++...+.+.. +++||||+|+|.+   ++++++++|....+.
T Consensus         1 k~viIvEG~~D~~~l~~~--g~~~~v~~~g~~~~~~~~~~~~~~~~~~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~   76 (81)
T PF13662_consen    1 KEVIIVEGEFDAIALEQA--GYKNVVAVLGGNLSPLDQILREKLEKKVKEVIIAFDNDKAGEKAAQKIAKKLLPLGIR   76 (81)
T ss_dssp             --EEEESSHHHHHHHHHT--T-TTEEEESSSS---HHHHHHHHHH---SEEEEEEESSHHHHHHHHHHHHHHG-----
T ss_pred             CEEEEECCHHHHHHHHHh--CCCeEEEECCCCCChHHHhChHhhhccCceEEEEeCcCHHHHHHHHHHHHHHHhhccc
Confidence            579999999999999997  45 5788877766 344444455655 8999999999999   999999988655443

>PHA02415 DNA primase domain-containing protein

Probab=99.18  E-value=7.1e-11  Score=118.04  Aligned_cols=148  Identities=11%  Similarity=0.100  Sum_probs=110.8

Q ss_pred             eEEEeeecCCCcEEEEEEeec-----cccc-cccCCCCccccccCCCCCC---CCeEEEeCChhHHHHHhhhhcCceEEE
Q psy4521           8 TLYMPLVNYANEVVGYKQVHK-----SIES-TVPTKQCQGVLHCPPYKKK---TDSAVLVQRLVDFLTLCNAHLNYNVIC   78 (223)
Q Consensus         8 ~lvfP~~~~~g~lvg~K~r~~-----~kek-~~p~~~~~glFG~~~~~~~---~~~iVItEGE~Dalav~q~~~g~p~VS   78 (223)
                      ++||| |+.+|+++..|.|..     +..| .++  |++..|||+....+   +++|.||||+|||||++|.  |+++++
T Consensus       170 AFIVp-f~rdGtvv~v~~Rg~d~afkG~vKanf~--Gs~~G~gW~~p~~~L~~a~eVwIvEGiIDAISL~q~--Gi~avA  244 (930)
T PHA02415        170 AFIVR-EPADGRVVAVDMRYVDPALNGGVKTQTQ--GDKAGYGWTADARRLDKAKRVFIVESAINALSIDTC--AMPGAA  244 (930)
T ss_pred             EEEec-ccCCceEEEeeeccccccccCCccccCC--CCCCCCccCCCccccCCCCEEEEEechHhHHHHHHc--CchhHH
Confidence            46899 677999999999875     2232 233  46788999986532   5799999999999999986  677655


Q ss_pred             c--CCCCCCCCcccccccccCceEEEEcCCChH---------------HHHHHHhhc---CCCceEEEecCC--------
Q psy4521          79 L--PHGLTCLPQEILPCLEEYNKLYLWFGKDHE---------------STRVFSSKL---NEKRCFLIRETE--------  130 (223)
Q Consensus        79 l--P~Ga~slp~~~lp~Le~F~~IiLw~D~D~~---------------~a~e~A~kL---g~~RC~iV~~~~--------  130 (223)
                      .  =.|..+.+...+|.| .-++|+|++|||+|               +|.++.++|   |+. |++|...+        
T Consensus       245 aVAL~GLan~~~iD~~~l-~~KrVvlcLDNDea~~~~~~~~g~rpG~eAA~~l~e~lta~~i~-~~lvd~~~w~~~~~~~  322 (930)
T PHA02415        245 ALALRGLANVDAIDFSSL-RGKQVVICLDNDEPFEDGHPRAGHRPGPEAAWALYERLASLNIS-AVLVDQAGWLADLADG  322 (930)
T ss_pred             HHHHcCcCCCchhhchhh-cCceEEEEecCCccccccCcccccCccHHHHHHHHHHHhhcCCc-eEEeehhhhhhhcccc
Confidence            5  578888776666766 67799999999996               566666666   443 67776432        


Q ss_pred             -----CCCChhHHHhC-C-chHHHHHHhcCCCCCCcccc
Q psy4521         131 -----NQPLPTESKAK-G-LDLNRIIESASPLCHPAIIT  162 (223)
Q Consensus       131 -----~~kdane~L~~-g-~~l~~~i~~A~~~~~~~I~t  162 (223)
                           .-.|-||.|++ | .++...++.=+|+-..|+-.
T Consensus       323 ~~~~~~~~d~nd~l~~~g~~~~~~~l~~~~~wli~g~~g  361 (930)
T PHA02415        323 ETKQQPINDVNDYLQLRGPEELARALEQLEPWLIAGLAG  361 (930)
T ss_pred             cccccccccHHHHHHHhCHHHHHHHHHhccccccCCCCC
Confidence                 11378999975 7 57999999999988777643

>COG0358 DnaG DNA primase (bacterial type) [DNA replication, recombination, and repair]

Probab=99.13  E-value=1.8e-10  Score=112.36  Aligned_cols=145  Identities=20%  Similarity=0.317  Sum_probs=103.5

Q ss_pred             CCCcceEEEeeecCCCcEEEEEEeecccc----ccccCCC----CccccccCCCCCC---CCeEEEeCChhHHHHHhhhh
Q psy4521           3 NTETKTLYMPLVNYANEVVGYKQVHKSIE----STVPTKQ----CQGVLHCPPYKKK---TDSAVLVQRLVDFLTLCNAH   71 (223)
Q Consensus         3 ~~~~~~lvfP~~~~~g~lvg~K~r~~~ke----k~~p~~~----~~glFG~~~~~~~---~~~iVItEGE~Dalav~q~~   71 (223)
                      |.-+.-++||-++..|.++|.-=|....+    .+-|..-    ..-|||.+.....   +++||||||.+|++|++|+ 
T Consensus       187 drFr~RImfPI~d~~g~vigFggR~l~~~~~KYlNspet~if~Kg~~Lyg~~~a~~~~~~~~~iivVEGymDViaL~~a-  265 (568)
T COG0358         187 DRFRNRIMFPIRDLRGDVIGFGGRVLGDDKPKYLNSPETELFKKGEELYGLDPARKKIAKADQIIVVEGYMDVIALHKA-  265 (568)
T ss_pred             ehhcCeeEEeccCCCCCEEeeeccccCCCCCcccCCCCCcCccCcHHhhCHHHHHHhhccCCeEEEEechHHHHHHHHc-
Confidence            44456789999999999999988876211    1222211    1356777754444   6799999999999999997 


Q ss_pred             cCc-eEEEcCCCCCCCCcccccccccCce-EEEEcCCChH---H---HHHHHhhcCCCceEEEecCCCCCChhHHHhC-C
Q psy4521          72 LNY-NVICLPHGLTCLPQEILPCLEEYNK-LYLWFGKDHE---S---TRVFSSKLNEKRCFLIRETENQPLPTESKAK-G  142 (223)
Q Consensus        72 ~g~-p~VSlP~Ga~slp~~~lp~Le~F~~-IiLw~D~D~~---~---a~e~A~kLg~~RC~iV~~~~~~kdane~L~~-g  142 (223)
                       |+ +||+ +-|++ +-++.+..|-++.+ ||||||+|.+   +   |-+.+..++..-.+++..|++ +||.|.+++ |
T Consensus       266 -Gi~naVA-~lGTa-lt~ehi~~L~r~~~~vil~fDgD~AG~~Aa~ral~~~~~~~~~~v~v~~~P~G-kDpDel~~k~g  341 (568)
T COG0358         266 -GIKNAVA-SLGTA-LTEEHIKLLSRGKKKVILCFDGDRAGRKAAKRALQLVLPLDFVGVFVILLPDG-KDPDELIRKEG  341 (568)
T ss_pred             -CCcceee-ccccc-CCHHHHHHHHhcCCCEEEEeCChHHHHHHHHHHHHHhhhhccCCeEEEECCCC-CChHHHHHHhC
Confidence             55 4544 56666 66777777777766 9999999999   6   444444444333899998876 999999965 7


Q ss_pred             c-hHHHHHHhc
Q psy4521         143 L-DLNRIIESA  152 (223)
Q Consensus       143 ~-~l~~~i~~A  152 (223)
                      . .+...+.++
T Consensus       342 ~~al~~~l~~~  352 (568)
T COG0358         342 AEALRKKLPNE  352 (568)
T ss_pred             hHHHHHHHHhC
Confidence            5 468888775

>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs

Probab=99.10  E-value=1.3e-10  Score=84.42  Aligned_cols=65  Identities=25%  Similarity=0.298  Sum_probs=49.3

Q ss_pred             CeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhhcCC
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSKLNE  120 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~kLg~  120 (223)
                      ++++||||++|+||++|.. ..+++++. |++..+ ..++.|.++ ++|++|+|||.+   +++...++|-.
T Consensus         1 ~~v~i~EG~~Dals~~~~~-~~~~~~~~-g~~~~~-~~~~~l~~~~~~vii~~D~D~~G~~~~~~~~~~~~~   69 (79)
T cd01029           1 DEVIIVEGYMDVLALHQAG-IKNVVAAL-GTANTE-EQLRLLKRFARTVILAFDNDEAGKKAAARALELLLA   69 (79)
T ss_pred             CEEEEEeCHHHHHHHHHcC-CCCEEECC-CccCcH-HHHHHHHhcCCEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            4789999999999999863 34655555 555444 566677776 999999999999   66677666654

Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.

>PF13362 Toprim_3: Toprim domain

Probab=98.97  E-value=2.3e-09  Score=80.96  Aligned_cols=87  Identities=9%  Similarity=0.116  Sum_probs=67.0

Q ss_pred             eEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCcccccccccCceEEEEcCCChH-----HHHHHHhhcCCC--ceEEE
Q psy4521          54 SAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHE-----STRVFSSKLNEK--RCFLI  126 (223)
Q Consensus        54 ~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F~~IiLw~D~D~~-----~a~e~A~kLg~~--RC~iV  126 (223)
                      .++|+||..|+||+.++..+.|++++.+. +++.....+  +.+++||||.|+|.+     ++++++++|-..  .+.++
T Consensus         1 tl~i~EG~etals~~~~~~~~~~~a~~~~-~nl~~~~~~--~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~   77 (96)
T PF13362_consen    1 TLIIAEGIETALSIAQQATGVPVVAALGA-GNLKNVAIP--EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIV   77 (96)
T ss_pred             CEEEEEhHHHHHHHHHhcCCCeEEEEECh-hhhhhhcCC--CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEE
Confidence            37999999999999444457899988765 445544444  699999999999998     888888888853  46777


Q ss_pred             ecCCCCCChhHHHhC-Cc
Q psy4521         127 RETENQPLPTESKAK-GL  143 (223)
Q Consensus       127 ~~~~~~kdane~L~~-g~  143 (223)
                      .|+...+|.||+|+. |.
T Consensus        78 ~p~~~g~D~ND~l~~~G~   95 (96)
T PF13362_consen   78 EPGPEGKDWNDLLQARGK   95 (96)
T ss_pred             CCCCCCchHHHHHHhhCC
Confidence            774456799999964 54

>PHA02540 61 DNA primase; Provisional

Probab=98.87  E-value=1.3e-08  Score=94.14  Aligned_cols=136  Identities=16%  Similarity=0.140  Sum_probs=90.7

Q ss_pred             cceEEEeeecCCCcEEEEEEeeccc---cc--cccCCC-CccccccCCCCCCCCeEEEeCChhHHHHHhhhhcCceEEEc
Q psy4521           6 TKTLYMPLVNYANEVVGYKQVHKSI---ES--TVPTKQ-CQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICL   79 (223)
Q Consensus         6 ~~~lvfP~~~~~g~lvg~K~r~~~k---ek--~~p~~~-~~glFG~~~~~~~~~~iVItEGE~Dalav~q~~~g~p~VSl   79 (223)
                      +.-++||.+|.+|+++|.-=|.+..   -|  +-|... ..-|||.+.+. ..+.+|||||=+|++++-      ++|+ 
T Consensus       171 ~~RImFPI~d~~G~vigFgGR~l~~~~~pKYlNSp~f~K~~~LYGl~~a~-~~~~vilvEGYmDvi~i~------naVA-  242 (337)
T PHA02540        171 EPRLVIPIFNKDGKIESFQGRALRKDAPQKYITIKADEEATKIYGLDRID-PGKTVYVVEGPIDSLFLP------NSIA-  242 (337)
T ss_pred             CCeeEEEEECCCCCEEEEEeEECCCCCCCCeeeCCcccccccccChhHhc-cCCEEEEEeCCcceeeec------ccee-
Confidence            4678999999999999999887722   12  223222 25789998764 467999999999998731      3333 


Q ss_pred             CCCCCCCCcccccccccCceEEEEcCCChH--HHHHHHhhcCCCceEEEecCC---CCCChhHHHhC-C---chHHHHHH
Q psy4521          80 PHGLTCLPQEILPCLEEYNKLYLWFGKDHE--STRVFSSKLNEKRCFLIRETE---NQPLPTESKAK-G---LDLNRIIE  150 (223)
Q Consensus        80 P~Ga~slp~~~lp~Le~F~~IiLw~D~D~~--~a~e~A~kLg~~RC~iV~~~~---~~kdane~L~~-g---~~l~~~i~  150 (223)
                      .-|.. |-.+..+|   =++++|++|+|..  ++-.-.++|-..-|.++.++.   ..|||+|.+++ |   .++.+.|+
T Consensus       243 tlGTa-LT~~~~~~---~~~vvl~~D~Da~~~at~r~~~~l~~~g~~v~v~~~~~~~~kDpde~i~~~G~~~~~~~~~i~  318 (337)
T PHA02540        243 ITGGD-LDLNEVPF---KDTRVWVLDNEPRHPDTIKRISKLIDAGEKVVIWDKCPWPSKDINDMIMKGGATPEDIMEYIK  318 (337)
T ss_pred             eCccc-cCHhHhCc---cceEEEEECCchhHHHHHHHHHHHHHCCCeEEEecCCCCCCcCHHHHHHhcCCCHHHHHHHHH
Confidence            23333 23333333   2589999999955  555556666433355555543   35999999965 5   46888877


Q ss_pred             hcC
Q psy4521         151 SAS  153 (223)
Q Consensus       151 ~A~  153 (223)
                      ++.
T Consensus       319 ~n~  321 (337)
T PHA02540        319 SNT  321 (337)
T ss_pred             Hcc
Confidence            753

>PHA02031 putative DnaG-like primase

Probab=98.82  E-value=2.6e-08  Score=89.29  Aligned_cols=135  Identities=10%  Similarity=0.069  Sum_probs=89.1

Q ss_pred             CcceEEEeeecC-CCcEEEEEEeeccccc--cccCCCCccccccCCCCCCCCeEEEeCChhHHHHHhhh-hcCc-eEEEc
Q psy4521           5 ETKTLYMPLVNY-ANEVVGYKQVHKSIES--TVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNA-HLNY-NVICL   79 (223)
Q Consensus         5 ~~~~lvfP~~~~-~g~lvg~K~r~~~kek--~~p~~~~~glFG~~~~~~~~~~iVItEGE~Dalav~q~-~~g~-p~VSl   79 (223)
                      -+.=++||..|. .|+..+     ...-|  +.|+. +..||+.+......+++|||||=+|+++++++ +.|+ ++|+ 
T Consensus       115 Fr~RimFPI~dgFgGR~l~-----~~~PKYLN~~SP-~~~l~~~~~~~~~~~~vIlvEGYmDVI~l~~a~~aG~~naVA-  187 (266)
T PHA02031        115 RQGRLIFRTDAGWLGRATA-----DQQPKWVGYGYP-APDYVGWPPELSMPRPVVLTEDYLSALKVRWACNKPEVFAVA-  187 (266)
T ss_pred             eCCEEEEeeccccccccCC-----CCCCCcCCCCCC-cHHHhhchhhhccCCeEEEEcCcHHHHHHHHHHhcCcceEEE-
Confidence            355689997762 344432     11111  21111 35788888655556799999999999999764 2354 4554 


Q ss_pred             CCCCCCCCcccccccccC--ceEEEEcCCChH---HHHHHHhh---cCCCceEEEecCCCCCChhHHHhCCchHHHHHHh
Q psy4521          80 PHGLTCLPQEILPCLEEY--NKLYLWFGKDHE---STRVFSSK---LNEKRCFLIRETENQPLPTESKAKGLDLNRIIES  151 (223)
Q Consensus        80 P~Ga~slp~~~lp~Le~F--~~IiLw~D~D~~---~a~e~A~k---Lg~~RC~iV~~~~~~kdane~L~~g~~l~~~i~~  151 (223)
                      +-|.. |-.+.+..|-++  ++|+||||.|.+   ++....+.   +| -.++++..|+ .+||-|.++  ..++++|+.
T Consensus       188 ~LGTA-LT~~q~~~L~r~~~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~-~~v~vv~lP~-g~DPDd~ir--~~i~eal~~  262 (266)
T PHA02031        188 LLGTR-LRDRLAAILLQQTCPRVLIFLDGDPAGVDGSAGAMRRLRPLL-IEGQVIITPD-GFDPKDLER--EQIRELLIG  262 (266)
T ss_pred             CCccc-CCHHHHHHHHhcCCCCEEEEeCCCHHHHHHHHHHHHHHHHcC-CceEEEECCC-CCChHHHHH--HHHHHHHhc
Confidence            56665 777777788887  999999999999   44444443   44 3578888875 699999985  334455543

>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins

Probab=98.76  E-value=8e-09  Score=74.09  Aligned_cols=67  Identities=24%  Similarity=0.246  Sum_probs=48.8

Q ss_pred             CeEEEeCChhHHHHHhhhhcC-ceEEEcCCCCCCCCcccccccccC---ceEEEEcCCChH---HHHHHHhhcCCC
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLN-YNVICLPHGLTCLPQEILPCLEEY---NKLYLWFGKDHE---STRVFSSKLNEK  121 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g-~p~VSlP~Ga~slp~~~lp~Le~F---~~IiLw~D~D~~---~a~e~A~kLg~~  121 (223)
                      ++++|+||..|++++.|.... .+++++ .|.. .+...+..|.++   ++||+|+|+|.+   ++++++++|...
T Consensus         1 ~~l~ivEg~~da~~~~~~~~~~~~~~~~-~G~~-~~~~~~~~l~~~~~~~~Iii~~D~D~~G~~~~~~i~~~l~~~   74 (76)
T smart00493        1 KVLIIVEGPADAIALEKAGGFGGNVVAL-GGHL-LKKEIIKLLKRLAKKKEVILATDPDREGEAIAWKLAELLKPA   74 (76)
T ss_pred             CEEEEEcCHHHHHHHHHhcCCCEEEEEE-eeee-cHHHHHHHHHHHhcCCEEEEEcCCChhHHHHHHHHHHHhhhh
Confidence            479999999999999997421 244444 3443 344455555554   679999999999   888999988764

>PRK08624 hypothetical protein; Provisional

Probab=98.67  E-value=4.3e-08  Score=91.60  Aligned_cols=98  Identities=13%  Similarity=0.157  Sum_probs=70.6

Q ss_pred             ceEEEeeecCCCcEEEEEEeecccc-----ccccCC-C--------CccccccCCCC---CCCCeEEEeCChhHHH---H
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHKSIE-----STVPTK-Q--------CQGVLHCPPYK---KKTDSAVLVQRLVDFL---T   66 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~~ke-----k~~p~~-~--------~~glFG~~~~~---~~~~~iVItEGE~Dal---a   66 (223)
                      .-++||.+|..|++||+.=|....+     |-+|.. +        ..-|||.|...   ...+++|||||.+|++   |
T Consensus       182 ~RImFPI~d~~GrvIGFgGR~l~~~~~~~~KY~p~y~Nst~~~F~Kg~~LYGl~~Ak~~irk~~~vIivEGymDVI~~~a  261 (373)
T PRK08624        182 QRIIIPHRDESGELIGIRGRLLDKELVDKNKYFPIYVNDTGYNHPKGKILYGLWQNKKYIKEKKKVIIVESEKSVLFSDK  261 (373)
T ss_pred             CeeEEEEECCCCCEEEEeCeEcCCCccccccccccCCCCcccccccchhhcCHHHHHHHhccCCeEEEEeccHHHHHHHH
Confidence            4589999999999999999987322     223431 1        14567776322   3467999999999999   6


Q ss_pred             HhhhhcCceEEEcCCCCCCCCcccccccccC--ceEEEEcCCCh
Q psy4521          67 LCNAHLNYNVICLPHGLTCLPQEILPCLEEY--NKLYLWFGKDH  108 (223)
Q Consensus        67 v~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F--~~IiLw~D~D~  108 (223)
                      ++|+  |.++|+ +-| .++-++.+..|-++  ++|+||||+|.
T Consensus       262 ~~~~--G~naVA-~lG-TalT~~q~~lL~r~~~~~Vil~~Dgd~  301 (373)
T PRK08624        262 FYGE--GNFVVA-ICG-SNISEVQAEKLLRLGVEEVTIALDKEY  301 (373)
T ss_pred             HhcC--CCcEEE-CCh-hhCCHHHHHHHHhcCCCcEEEEecCCc
Confidence            6665  445554 344 45778888888888  59999999963

>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences []

Probab=98.38  E-value=1.4e-06  Score=70.61  Aligned_cols=83  Identities=17%  Similarity=0.242  Sum_probs=59.8

Q ss_pred             cCCCCCC-CCeEEEeCChhHHHHHhhhhcCceEEEcC---CCCCC--------CCcccccccccC----ceEEEEcCCCh
Q psy4521          45 CPPYKKK-TDSAVLVQRLVDFLTLCNAHLNYNVICLP---HGLTC--------LPQEILPCLEEY----NKLYLWFGKDH  108 (223)
Q Consensus        45 ~~~~~~~-~~~iVItEGE~Dalav~q~~~g~p~VSlP---~Ga~s--------lp~~~lp~Le~F----~~IiLw~D~D~  108 (223)
                      |+-+..+ .-.|+||||+.=|.|+.++  |+++||||   +|...        .+..++|.|+.|    ++||++||+|.
T Consensus         2 W~~v~~~p~~pi~ItEG~kKA~al~s~--G~~aIalpGV~~~~~~~~~~~~~~~~~~L~p~L~~~~~~gr~v~iaFD~D~   79 (130)
T PF12965_consen    2 WQWVLDDPNIPIWITEGAKKAGALLSQ--GYPAIALPGVNNGYRWPKDEGDKIGKRRLIPELAKLAKPGREVYIAFDADT   79 (130)
T ss_pred             ccceecCCCccEEEEechHHHHHHHcC--CceEEEeCceeccccccccccccccchhcchhHHHhccCCceEEEEecCCC
Confidence            4444344 3489999999999999874  79999999   22211        122567888888    68999999993


Q ss_pred             H---------HHHHHHhhcCCC--ceEEEecC
Q psy4521         109 E---------STRVFSSKLNEK--RCFLIRET  129 (223)
Q Consensus       109 ~---------~a~e~A~kLg~~--RC~iV~~~  129 (223)
                      .         +.+++++.|-..  +++++.++
T Consensus        80 ~~~Tn~~V~~a~~~l~~~L~~~G~~v~~~~w~  111 (130)
T PF12965_consen   80 KPKTNKNVRRAIKRLGKLLKEAGCKVKIITWP  111 (130)
T ss_pred             ccchhHHHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence            1         778888887765  45777765

>cd00188 TOPRIM Topoisomerase-primase domain

Probab=98.23  E-value=2.2e-06  Score=59.78  Aligned_cols=67  Identities=19%  Similarity=0.114  Sum_probs=45.8

Q ss_pred             CeEEEeCChhHHHHHhhhhcC-ceEEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhhcC
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLN-YNVICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSKLN  119 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g-~p~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~kLg  119 (223)
                      +.+|||||+.|++++.|.... .+++++.......+...+..+.++ .+|++|+|+|.+   .+....+++.
T Consensus         1 ~~viivEg~~d~~~l~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~v~i~~D~D~~g~~~~~~~~~~~~   72 (83)
T cd00188           1 KKLIIVEGPSDALALAQAGGYGGAVVALGGHALNKTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLK   72 (83)
T ss_pred             CEEEEEecHHHHHHHHHHcCCCEEEEEEccEEcHHHHHHHHHHhcCCCEEEEEcCCChhHHHHHHHHHHHHH
Confidence            468999999999999997432 355555544443244555555554 999999999999   3444544443

This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.

>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea

Probab=97.98  E-value=8.4e-06  Score=60.84  Aligned_cols=66  Identities=15%  Similarity=0.248  Sum_probs=51.0

Q ss_pred             CeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCccccccccc-CceEEEEcCCChH---HHHHHHhhcCC
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEE-YNKLYLWFGKDHE---STRVFSSKLNE  120 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~-F~~IiLw~D~D~~---~a~e~A~kLg~  120 (223)
                      +.+||+||..|+.++.|+.....+|+. +|.. ++++.+..+.+ .++|||.+|.|.+   .++.+.+.|+.
T Consensus         2 ~~vIiVEG~~D~~~l~~~g~~~~~i~t-~Gt~-~~~~~~~~l~~~~~~VIiltD~D~aG~~i~~~~~~~l~~   71 (81)
T cd01027           2 GEVIIVEGKNDTESLKKLGIEAEIIET-NGSI-INKETIELIKKAYRGVIILTDPDRKGEKIRKKLSEYLSG   71 (81)
T ss_pred             CeEEEEEchHHHHHHHHhCCCccEEEE-CCCc-CCHHHHHHHHHhCCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence            579999999999999998321355555 5544 56566665655 6999999999999   88999999964

RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=97.77  E-value=0.00036  Score=77.17  Aligned_cols=130  Identities=12%  Similarity=0.111  Sum_probs=80.7

Q ss_pred             cceEEEeeecCCCcEEEEEEeecc-----ccccc--cC---CCCc-cccccCCCCCCCCeEEEeCChhHHHHHhhhhcC-
Q psy4521           6 TKTLYMPLVNYANEVVGYKQVHKS-----IESTV--PT---KQCQ-GVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLN-   73 (223)
Q Consensus         6 ~~~lvfP~~~~~g~lvg~K~r~~~-----kek~~--p~---~~~~-glFG~~~~~~~~~~iVItEGE~Dalav~q~~~g-   73 (223)
                      .-+++||.+|.+|+++|+-.+-+.     +.+.+  |.   +... +++..+. ...++.++|+||-.|++|++|+..+ 
T Consensus      1720 ~Paliapv~D~~G~i~gv~rt~L~p~~g~~~k~l~~~kr~~G~k~g~~v~l~~-~~~~~~liiaEGiEtaLS~~~a~~~~ 1798 (1960)
T TIGR02760      1720 HPALIAAARNEKGEITGIQITYLDKDDANKDKDMDNNKRVKGSISGQFVVINK-GMQGDRSYIAEGIETGLSIALANPKA 1798 (1960)
T ss_pred             CCeEEEEEECCCCCEEEEEEEEccCCCCCCCccCCCcccccccccCcEEEecC-CCCCCeEEEEcCHHHHHHHHHhCCCC
Confidence            347899999999999999977652     22211  11   1112 2233222 2345689999999999999998542 


Q ss_pred             ceEEEcCCCCCCCCcccccccccCceEEEEcCCCh-----H-HHHHHHhhcCCC--ceEEEecCCCCCChhHHH
Q psy4521          74 YNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDH-----E-STRVFSSKLNEK--RCFLIRETENQPLPTESK  139 (223)
Q Consensus        74 ~p~VSlP~Ga~slp~~~lp~Le~F~~IiLw~D~D~-----~-~a~e~A~kLg~~--RC~iV~~~~~~kdane~L  139 (223)
                      .|++++- |+.++.....|..  -++||||.|+|.     . ++.+++++|...  .|.++.|+|...+..+.+
T Consensus      1799 ~~vvA~l-g~~~l~~i~~~~~--~~~viI~~D~D~~~a~G~~Aa~k~~~~l~~~G~~v~i~~P~Dfnd~g~~~~ 1869 (1960)
T TIGR02760      1799 TVVIAVG-GKNNLSPIIPKFI--PKNVVIVLDNDGEEAKSQRAIEKIINKFKQDNISARIVFPDDWNDIGEEEL 1869 (1960)
T ss_pred             ccEEEEC-CccccccccCCCC--CceEEEEeCCCCcccchHHHHHHHHHHHHhCCCeeEEeCCchhhhhhHHHH
Confidence            4566554 3333333333322  379999999993     2 677888887432  478887754333344443

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>PRK04031 DNA primase; Provisional

Probab=97.63  E-value=0.00012  Score=69.40  Aligned_cols=97  Identities=14%  Similarity=0.246  Sum_probs=67.4

Q ss_pred             CCCCeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCcccccccccCceEEEEcCCChH---HHHHHHhhcCCCceEEE
Q psy4521          50 KKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCFLI  126 (223)
Q Consensus        50 ~~~~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~iV  126 (223)
                      ...+++||+||-+|.++++|+. -.++|++ .|. ++|......+. -++|++++|.|.+   ..+++.+ . ..-.|+.
T Consensus       167 ~k~~~iIVVEG~~DVi~L~~aG-i~nvVAt-~GT-~l~~~i~~l~k-~~~Vil~~DgD~aGe~I~k~l~~-v-~~~d~Va  240 (408)
T PRK04031        167 DDSDAIIVVEGRADVLNLLRYG-IKNAIAV-EGT-NVPETIIELSK-KKTVTAFLDGDRGGELILKELLQ-V-ADIDYVA  240 (408)
T ss_pred             ccCCeEEEEeCHHHHHHHHhcc-cceEEEe-CCc-ccHHHHHHHhc-CCCEEEEECCCHHHHHHHHHHHh-h-cceeEEe
Confidence            3467999999999999999973 2456654 555 46776554444 8899999999999   5555554 2 3455788


Q ss_pred             ecCCCCCChhHHHhCCchHHHHHHhcCCC
Q psy4521         127 RETENQPLPTESKAKGLDLNRIIESASPL  155 (223)
Q Consensus       127 ~~~~~~kdane~L~~g~~l~~~i~~A~~~  155 (223)
                      +.|++ +++-++-  ..++.++|.+|.|+
T Consensus       241 raP~G-~dVE~ls--~eeI~kAL~~~~p~  266 (408)
T PRK04031        241 RAPPG-KEVEELT--KKEIAKALRNKVPV  266 (408)
T ss_pred             cCCCC-CChhhCC--HHHHHHHHHhcCCH
Confidence            87754 5654442  35677777766655

>TIGR00334 5S_RNA_mat_M5 ribonuclease M5

Probab=96.41  E-value=0.011  Score=50.30  Aligned_cols=111  Identities=15%  Similarity=0.223  Sum_probs=73.4

Q ss_pred             CeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCccccccc---ccCceEEEEcCCChH---HHHHHHhhcC-CCceEE
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCL---EEYNKLYLWFGKDHE---STRVFSSKLN-EKRCFL  125 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~L---e~F~~IiLw~D~D~~---~a~e~A~kLg-~~RC~i  125 (223)
                      ++||||||--|...+-++- ...+|+ -+|.. ++.+.+..+   .+-+-||+..|.|.+   -.+.+.+.++ ...||+
T Consensus         3 kevIVVEGK~D~~~lk~~~-d~~~I~-T~Gs~-i~~~~i~~i~~~~~~rgVIIfTDpD~~GekIRk~i~~~vp~~khafi   79 (174)
T TIGR00334         3 KEIIVVEGKDDQARIKQAF-DVDVIE-TNGSA-LKDETINLIKKAQKKQGVIILTDPDFPGEKIRKKIEQHLPGYENCFI   79 (174)
T ss_pred             CeEEEEecchHHHHHHHhc-CceEEE-ECCCc-cCHHHHHHHHHHhhcCCEEEEeCCCCchHHHHHHHHHHCCCCeEEee
Confidence            6899999999999998762 223343 34543 677666554   566779999999999   7888888898 566777


Q ss_pred             EecCCCCCChhHHH---hC-CchHHHHHHhcCCCCCC--cccchhHHHH
Q psy4521         126 IRETENQPLPTESK---AK-GLDLNRIIESASPLCHP--AIITYDVLQE  168 (223)
Q Consensus       126 V~~~~~~kdane~L---~~-g~~l~~~i~~A~~~~~~--~I~tf~dlre  168 (223)
                      -+-- ..+.... +   .+ -.+++++|+++.....+  .-+|.+||.+
T Consensus        80 ~~~~-a~~~~~~-iGVE~As~e~I~~AL~~~~~~~~~~~~~it~~dl~~  126 (174)
T TIGR00334        80 PKHL-AKPNKKK-IGVEEASVEAIIAALENVHEETKAQQSDISWEDLLE  126 (174)
T ss_pred             eHHh-cCcCCCC-cccCCCCHHHHHHHHHHhcccccCcccccCHHHHHH
Confidence            6531 1110000 2   12 25699999998875333  3366666655

This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.

>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase

Probab=96.29  E-value=0.013  Score=44.31  Aligned_cols=73  Identities=18%  Similarity=0.208  Sum_probs=45.4

Q ss_pred             eEEEeCChhHHHHHhhhhcCceEEEcC-CCCC-CCCc--------------ccccccccCceEEEEcCCChH---HHHHH
Q psy4521          54 SAVLVQRLVDFLTLCNAHLNYNVICLP-HGLT-CLPQ--------------EILPCLEEYNKLYLWFGKDHE---STRVF  114 (223)
Q Consensus        54 ~iVItEGE~Dalav~q~~~g~p~VSlP-~Ga~-slp~--------------~~lp~Le~F~~IiLw~D~D~~---~a~e~  114 (223)
                      ++||+||--|+-++.++.++.....+| .|-- +++.              .+...+.+.++||+|.|.|..   .+.++
T Consensus         1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~iiiatD~D~EGe~Ia~~i   80 (100)
T PF01751_consen    1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLLKKADEIIIATDPDREGELIAWEI   80 (100)
T ss_dssp             EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHHHSCSEEEEEC-SSHHHHHHHHHH
T ss_pred             CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHhhhccEeeecCCCChHHHHHHHHH
Confidence            589999999999999985423233333 3322 2221              123455778999999999998   44444


Q ss_pred             Hhhc---C---CCceEEE
Q psy4521         115 SSKL---N---EKRCFLI  126 (223)
Q Consensus       115 A~kL---g---~~RC~iV  126 (223)
                      .+.+   +   .+|+++-
T Consensus        81 ~~~~~~~~~~~~~R~~~~   98 (100)
T PF01751_consen   81 IELLGKNNPKLIKRVWFS   98 (100)
T ss_dssp             HHHHHHHSHHHTTEEEEE
T ss_pred             HHHHhHhCCCcCCEEEEe
Confidence            4433   3   3666653

This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....

>COG4643 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.81  E-value=0.056  Score=50.49  Aligned_cols=109  Identities=12%  Similarity=0.143  Sum_probs=70.6

Q ss_pred             ceEEEeeecCCCcEEEEEEeeccccc-cccCCCCcccc---ccCCCCCCCCeEEEeCChhHHHHHhhhhcCceEEEcCCC
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHKSIES-TVPTKQCQGVL---HCPPYKKKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHG   82 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~~kek-~~p~~~~~glF---G~~~~~~~~~~iVItEGE~Dalav~q~~~g~p~VSlP~G   82 (223)
                      .++| |..|.+|++++.-++.....| ..+.+...|.|   |.+.  ..+..+||+||=.-+++++|+. +++++.-=+-
T Consensus       160 ~sli-p~~d~~Gel~~lq~I~~dG~Krf~~Ggr~kg~f~p~~g~~--~~aa~lvi~EGyATal~i~~~~-ga~v~aAi~a  235 (366)
T COG4643         160 GSLI-PLRDADGELTGLQLIQPDGTKRFLKGGRVKGCFIPLGGLA--GPAARLVIAEGYATALSISQAT-GAPVAAAIDA  235 (366)
T ss_pred             cceE-EEEcCCCCEeeeEEEcCCccceeccCCcccceeeecCCCc--ccccceEEeechhHHHHHHHHh-hhhHHhhhhc
Confidence            4566 888999999999999874344 55544445555   3333  2245699999999999999985 6664332211


Q ss_pred             CCCCC--cccccccccCceEEEEcCCChH--------HHHHHHhhcCC
Q psy4521          83 LTCLP--QEILPCLEEYNKLYLWFGKDHE--------STRVFSSKLNE  120 (223)
Q Consensus        83 a~slp--~~~lp~Le~F~~IiLw~D~D~~--------~a~e~A~kLg~  120 (223)
                      .+=++  +..-..+-. ..||++-|+|..        .|++.|+--+-
T Consensus       236 gNll~VA~al~~~~Pd-a~iIIaAD~D~~~~nnpG~t~A~eaA~Avng  282 (366)
T COG4643         236 GNLLAVASALRKKFPD-AQIIIAADDDINTANNPGLTKAEEAAQAVNG  282 (366)
T ss_pred             ccHHHHHHHHHHhCCC-cceEEEeccccccCCCcchHHHHHHHHhhCc
Confidence            11111  111112211 789999999993        88899887653

>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]

Probab=91.53  E-value=0.33  Score=39.44  Aligned_cols=75  Identities=17%  Similarity=0.204  Sum_probs=55.7

Q ss_pred             CCeEEEeCChhHHHHHhhhhcCceEEEcCCCCCC-CCc-ccccccccCceEEEEcCCChH---HHHHHHhhcCC-CceEE
Q psy4521          52 TDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTC-LPQ-EILPCLEEYNKLYLWFGKDHE---STRVFSSKLNE-KRCFL  125 (223)
Q Consensus        52 ~~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~s-lp~-~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~-~RC~i  125 (223)
                      .+++||+||--|.-++-+.. ..+++-+-.++-+ ... +.+-...+.+.+||-+|.|.+   .++.+.+.|+. .-|++
T Consensus         9 ~~~vIVVEGK~D~~~l~~~~-~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D~~Ge~Irk~l~~~l~~~~~~~i   87 (127)
T COG1658           9 LKEVIVVEGKDDTASLKRLG-DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPDRKGERIRKKLKEYLPGAKGAFI   87 (127)
T ss_pred             cCceEEEeCCcHHHHHHHhc-CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCCcchHHHHHHHHHHhcccccccc
Confidence            36899999999999998873 4566666544432 221 333444458889999999999   99999999998 77776


Q ss_pred             Ee
Q psy4521         126 IR  127 (223)
Q Consensus       126 V~  127 (223)
                      -+
T Consensus        88 d~   89 (127)
T COG1658          88 DR   89 (127)
T ss_pred             cH
Confidence            65

>PRK04017 hypothetical protein; Provisional

Probab=89.29  E-value=0.48  Score=38.77  Aligned_cols=66  Identities=12%  Similarity=0.047  Sum_probs=44.1

Q ss_pred             eEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCcccccccccCceEEEEcCCChH---HHHHHHhhcCCC
Q psy4521          54 SAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEK  121 (223)
Q Consensus        54 ~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~  121 (223)
                      .+||+||--|.-++.++.....+|- -+|. ++....---..+.+.||+.+|.|.+   .++.+.+.|...
T Consensus        24 ~vIVVEGk~D~~~L~~lGv~~~iI~-t~g~-~~~~~~e~ia~~~r~VIILTD~D~~GekIr~~l~~~l~~~   92 (132)
T PRK04017         24 APIIVEGKRDVESLRKLGVEGEIIK-VSRT-PLAEIAELIASRGKEVIILTDFDRKGEELAKKLSEYLQGY   92 (132)
T ss_pred             CEEEEeCccHHHHHHHcCCCccEEE-ECCe-ecchHHHHHHhcCCeEEEEECCCcchHHHHHHHHHHHHhC
Confidence            7899999999999998722124443 3333 2333221115688999999999999   666666666543

>PF13707 RloB: RloB-like protein

Probab=84.18  E-value=19  Score=29.48  Aligned_cols=145  Identities=12%  Similarity=0.060  Sum_probs=67.7

Q ss_pred             EEEeCCh------hHHH-HHhhhhcCceEEEcCCCCCCCCccc----cc------ccccCceEEEEcCCC----hH-HHH
Q psy4521          55 AVLVQRL------VDFL-TLCNAHLNYNVICLPHGLTCLPQEI----LP------CLEEYNKLYLWFGKD----HE-STR  112 (223)
Q Consensus        55 iVItEGE------~Dal-av~q~~~g~p~VSlP~Ga~slp~~~----lp------~Le~F~~IiLw~D~D----~~-~a~  112 (223)
                      +|+||||      ++.| .... .....+...|.+..+-|..+    ..      ....|++|++.||.|    .. .-+
T Consensus         2 lI~~EGe~TE~~YF~~l~~~~~-~~~~~i~~~~~~~~~~p~~lv~~a~~~~~~~~~~~~~d~v~~V~D~D~~~~~~~~~~   80 (183)
T PF13707_consen    2 LIVCEGEKTEPNYFKSLRKKRR-RSNLDIKVIPSKGGSDPSSLVEKAKKKRKKKKNDNEYDEVWCVFDRDQNDFEHEKLE   80 (183)
T ss_pred             EEEECCccHHHHHHHHHHHhcC-CCceEEEEeecCCCCCHHHHHHHHHHHHhhhccccCCCEEEEEEeCCCCcCcHHHHH
Confidence            5899999      5555 1111 11234555565541334322    23      345999999999999    22 222


Q ss_pred             HHHhhcCCCceEEEecCCCC---------CChhH--HH-hCCchHHHHHHh-cCCCCCCcccchhHHHHHHHHhhhhhHH
Q psy4521         113 VFSSKLNEKRCFLIRETENQ---------PLPTE--SK-AKGLDLNRIIES-ASPLCHPAIITYDVLQEDVLADLQNVTL  179 (223)
Q Consensus       113 e~A~kLg~~RC~iV~~~~~~---------kdane--~L-~~g~~l~~~i~~-A~~~~~~~I~tf~dlre~V~~el~n~~~  179 (223)
                      +..+.-......++-..+ +         .+...  .. .........+.. ...+.... ..+..+++.+...+.|..+
T Consensus        81 ~~~~~a~~~~i~l~~SnP-cFE~WlLlHf~~~~~~~~~~~~~~~~~~~~~~~~~~y~k~~-~~~~~~~~~~~~Ai~nA~~  158 (183)
T PF13707_consen   81 EAIKKAKRNKINLAVSNP-CFELWLLLHFEDVTSPDNKSKDAAIKKLRLKKYLPDYKKKK-NLYKFLLEKIKEAIKNAKK  158 (183)
T ss_pred             HHHHhccccCeEEEEecC-cHHHHHHHhccCccccccchhhHHHHHHHHHHhcccCCCCC-ccHHHHHHHHHHHHHHHHH
Confidence            222222223455554321 1         01110  00 000111111222 24444444 6677788888888877665


Q ss_pred             HHHhhcccC-CccccCChhhHhhh
Q psy4521         180 LLLRTMYCR-RMCWLTYKTTNRFK  202 (223)
Q Consensus       180 ~~~~~~~~~-Gv~w~~fp~Ln~~l  202 (223)
                      ......-.. .-++++.+.|-+.+
T Consensus       159 l~~~~~~~~~~np~T~v~~li~~l  182 (183)
T PF13707_consen  159 LRKQNEEDKEPNPYTNVHELIEEL  182 (183)
T ss_pred             HHHHhhccCCCCCCCCHHHHHHHh
Confidence            442111111 23555555554444

---

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	223
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 2e-04
 Identities = 33/207 (15%), Positives = 62/207 (29%), Gaps = 43/207 (20%)

Query: 27  HKSIESTVPTKQCQGVLHC--PPYKKKTDSAVLVQRLVDFL--TLCNAHLNYNVICLPHG 82
           H   E+     Q + +L      +    D     + + D     L    ++ ++I     
Sbjct: 6   HMDFETGEHQYQYKDILSVFEDAFVDNFD----CKDVQDMPKSILSKEEID-HIIMSKDA 60

Query: 83  LTCLPQEILPCLEEYNKLYLWFGKDHESTRVF-SSKLNEKRCFLIRETENQPLPTESKAK 141
           ++     +   L    +         E  + F    L     FL+      P+ TE +  
Sbjct: 61  VSGT-LRLFWTLLSKQE---------EMVQKFVEEVLRINYKFLM-----SPIKTEQRQP 105

Query: 142 GLDLNRIIESASPLCH--PAIITYDVLQEDVLADLQNVTLLLLR-----TMYCRRM--C- 191
            +     IE    L +       Y+V +      L+   LL LR      +    +    
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA-LLELRPAKNVLID--GVLGSG 162

Query: 192 --WLTYKTTNRFKVSNGNAFRLCPEFW 216
             W+       +KV     F++   FW
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKI---FW 186

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	223
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	99.95
1nui_A	255	DNA primase/helicase; zinc-biding domain, toprim f	99.88
2au3_A	407	DNA primase; zinc ribbon, toprim, RNA polymerase,	99.72
1dd9_A	338	DNA primase, DNAG; toprim, 3-helix bundle, DNA-bin	99.7
4edg_A	329	DNA primase; catalytic domain, nucleoside triphosp	99.65
1t6t_1	118	Putative protein; structural genomics, PSI, protei	97.57
2fcj_A	119	Small toprim domain protein; structural genomics,	97.47

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=99.95  E-value=1.1e-27  Score=224.97  Aligned_cols=189  Identities=13%  Similarity=0.154  Sum_probs=158.1

Q ss_pred             ceEEEeeecCCCcEEEEEEeecccc-ccccCCCCccccccCCCCCCCCeEEEeCChhHHHHHhhhhc-CceEEEcCCCCC
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHKSIE-STVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHL-NYNVICLPHGLT   84 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~~ke-k~~p~~~~~glFG~~~~~~~~~~iVItEGE~Dalav~q~~~-g~p~VSlP~Ga~   84 (223)
                      .+++|||+|.+|+++|++.|...+. |-.-......+||++... ..+++|||||++|+||++|+.+ .++++|||.|..
T Consensus        42 ~~i~fp~~d~~G~~~g~~~R~~~~~~ky~~~~k~~~lyg~~~~~-~~~~v~i~EG~~D~ls~~~~~g~~~~v~slg~~~~  120 (503)
T 1q57_A           42 MYQVADYRDQNGNIVSQKVRDKDKNFKTTGSHKSDALFGKHLWN-GGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGAS  120 (503)
T ss_dssp             CEEEEEEECTTSCEEEEEEEETTTEEEEEECCCTTCEETGGGCS-SEEEEEEESSHHHHHHHTTTTTTCSCEEEESSTTT
T ss_pred             EEEEEEEECCCCCEEEEEeECCCCCceEecCCCCCceECccccC-CCCEEEEECCHHHHHHHHHhcCCCcEEEECCcccc
Confidence            4799999999999999999975221 211122335899999874 4679999999999999999842 378999999987


Q ss_pred             CCCc---ccccccccCceEEEEcCCChH---HHHHHHhhcCCCceEEEecCCCCCChhHHHhC-C-chHHHHHHhcCCCC
Q psy4521          85 CLPQ---EILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCFLIRETENQPLPTESKAK-G-LDLNRIIESASPLC  156 (223)
Q Consensus        85 slp~---~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~iV~~~~~~kdane~L~~-g-~~l~~~i~~A~~~~  156 (223)
                      ...+   ..+++|++|++|+||+|+|.+   ++++++++|...+|+++.+|  .|||||+|++ | ..+.++|++|.++.
T Consensus       121 ~~~~~l~~~l~~l~~~~~ivl~~D~D~aG~~aa~~~~~~l~~~~~~~~~~p--~kD~nd~l~~~g~~~~~~~i~~a~~~~  198 (503)
T 1q57_A          121 AAKKTCAANYEYFDQFEQIILMFDMDEAGRKAVEEAAQVLPAGKVRVAVLP--CKDANECHLNGHDREIMEQVWNAGPWI  198 (503)
T ss_dssp             THHHHHHTTHHHHHTEEEEEEECCSSHHHHHHHHHHHHHSCGGGEEECCCS--SSSHHHHHTTSCHHHHHHHHTTCCCCC
T ss_pred             hhHHHHHHHHHhhcCCCEEEEEeCCCHHHHHHHHHHHHhcccCcEEEEeCC--CCCHHHHHHhcCHHHHHHHHHhcCCCC
Confidence            5432   357889999999999999999   99999999998899999986  8999999976 5 46999999999999


Q ss_pred             CCcccchhHHHHHHHHhhhhhHHHHHhhcccCCccccCChhhHhhhcccc
Q psy4521         157 HPAIITYDVLQEDVLADLQNVTLLLLRTMYCRRMCWLTYKTTNRFKVSNG  206 (223)
Q Consensus       157 ~~~I~tf~dlre~V~~el~n~~~~~~~~~~~~Gv~w~~fp~Ln~~lkG~~  206 (223)
                      +++++++.|+.+++.+.+ +.....       |+++..|+.|+++|+|+.
T Consensus       199 ~~~i~~~~~~~~~i~~~~-~~~~~~-------~i~t~G~~~LD~~lgGl~  240 (503)
T 1q57_A          199 PDGVVSALSLRERIREHL-SSEESV-------GLLFSGCTGINDKTLGAR  240 (503)
T ss_dssp             CSSEEEGGGGHHHHHHHH-HHSCTT-------CSCCSSCTTHHHHHCCCC
T ss_pred             HHHhcChHHHHHHHHhhh-cccccC-------CccccchhhhhHhhcccC
Confidence            999999999999988876 445666       999867999999998864

>1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA-direct polymerase, primosome, late protein, ATP-binding; HET: DNA; 2.90A {Enterobacteria phage T7} SCOP: e.13.1.2 g.41.3.2

Probab=99.88  E-value=1.7e-22  Score=175.48  Aligned_cols=140  Identities=13%  Similarity=0.170  Sum_probs=112.8

Q ss_pred             eEEEeeecCCCcEEEEEEeecccc-ccccCCCCccccccCCCCCCCCeEEEeCChhHHHHHhhhh-cCceEEEcCCCCCC
Q psy4521           8 TLYMPLVNYANEVVGYKQVHKSIE-STVPTKQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAH-LNYNVICLPHGLTC   85 (223)
Q Consensus         8 ~lvfP~~~~~g~lvg~K~r~~~ke-k~~p~~~~~glFG~~~~~~~~~~iVItEGE~Dalav~q~~-~g~p~VSlP~Ga~s   85 (223)
                      +++||++|.+|+++|++.|...+. |-..+.....+||++... ++++||||||++|+||++|+. .+.+++|+++|...
T Consensus       106 ~i~fp~~d~~G~vvg~~~R~~~~~~Ky~~s~k~~~lyg~~~~~-~~~~v~i~EG~~Dals~~~~~g~~~~v~slg~~~~~  184 (255)
T 1nui_A          106 YQVADYRDQNGNIVSQKVRDKDKNFKTTGSHKSDALFGKHLWN-GGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASA  184 (255)
T ss_dssp             EEEEEEECTTSCEEEEEEECTTCCCEEEECCCTTCCTTGGGCC-CBSCCEEESSHHHHHHHHHHHTTCSCEECCTTTTTT
T ss_pred             EEEEEEECCCCCEEEEEEECCCCCceEecCCCCccccCccccC-CCCEEEEEeCHHHHHHHHHhhCCCcEEEECCCccch
Confidence            599999999999999999975211 111122234789998774 567999999999999999984 35799999988875


Q ss_pred             CCc---ccccccccCceEEEEcCCChH---HHHHHHhhcCCCceEEEecCCCCCChhHHHhC-C-chHHHHHH
Q psy4521          86 LPQ---EILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCFLIRETENQPLPTESKAK-G-LDLNRIIE  150 (223)
Q Consensus        86 lp~---~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~iV~~~~~~kdane~L~~-g-~~l~~~i~  150 (223)
                      ..+   ..+++|.+|++||||+|+|.+   ++++++++|+.++|+++.+|  .||+||+|++ | .+++++||
T Consensus       185 ~~~~l~~~~~~l~~~~~iil~~D~D~aG~~aa~~~~~~l~~~~v~~~~~p--~kD~nd~l~~~g~~~~~~~i~  255 (255)
T 1nui_A          185 AKKTCAANYEYFDQFEQIILMFDMDEAGRKAVEEAAQVLPAGKVRVAVLP--CKDANECHLNGHDREIMEQVW  255 (255)
T ss_dssp             HHHHHHHTHHHHTTBSCEEEECCSSHHHHHHHHHHHHHSCTTTEEECCCS--SSSHHHHHTTTTHHHHHHHHC
T ss_pred             hHHHHHHHHHHhcCCCEEEEEeCCCHHHHHHHHHHHHhccCCCEEEEeCC--CCCHHHHHHhcCHHHHHHHhC
Confidence            322   256788899999999999999   99999999987799999886  8999999976 5 46888875

>2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transf; HET: DNA; 2.00A {Aquifex aeolicus}

Probab=99.72  E-value=8e-18  Score=155.85  Aligned_cols=146  Identities=21%  Similarity=0.316  Sum_probs=112.7

Q ss_pred             cceEEEeeecCCCcEEEEEEe-ec--cccc--cccCC---C-CccccccCCCC---CCCCeEEEeCChhHHHHHhhhhcC
Q psy4521           6 TKTLYMPLVNYANEVVGYKQV-HK--SIES--TVPTK---Q-CQGVLHCPPYK---KKTDSAVLVQRLVDFLTLCNAHLN   73 (223)
Q Consensus         6 ~~~lvfP~~~~~g~lvg~K~r-~~--~kek--~~p~~---~-~~glFG~~~~~---~~~~~iVItEGE~Dalav~q~~~g   73 (223)
                      +..++||++|.+|+++|++-| ..  ..-|  +.|..   . ...|||++...   ...+++|||||++|+||++|+  |
T Consensus       186 ~~ri~fPi~d~~G~vigf~gRr~l~~~~pKylnspet~~f~k~~~lygl~~a~~~i~~~~~viivEG~~Dvlsl~q~--G  263 (407)
T 2au3_A          186 LRRVVIPIKDPRGRVIGFGGRRIVEDKSPKYINSPDSRVFKKGENLFGLYEAKEYIKEEGFAILVEGYFDLLRLFSE--G  263 (407)
T ss_dssp             TTEEEEEEECTTSCEEEEEEEECSCCSSCSEEECCCCSSCCGGGCEETHHHHHHHHHHHTCEEECSSHHHHHHHHHT--T
T ss_pred             CCeEEEEEECCCCCEEEEEEEEecCCCCCeeecCCCCCCCCCCccccChHHHHHHhccCCeEEEEechHhHHHHHHC--C
Confidence            357999999999999999999 44  1122  22221   1 24678877542   235789999999999999996  4


Q ss_pred             c-eEEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhhcCCC--ceEEEecCCCCCChhHHHhC-C-ch
Q psy4521          74 Y-NVICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSKLNEK--RCFLIRETENQPLPTESKAK-G-LD  144 (223)
Q Consensus        74 ~-p~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~kLg~~--RC~iV~~~~~~kdane~L~~-g-~~  144 (223)
                      + ++|+.. |. ++.++.+..|.++ ++|+||+|+|.+   +|..+++.|...  +|+++.+|+ .+||||.|++ | .+
T Consensus       264 ~~n~VA~l-Gt-alt~~~~~~L~r~~~~vil~~D~D~AG~~Aa~r~~~~l~~~g~~~~v~~lP~-gkDpdd~l~~~g~~~  340 (407)
T 2au3_A          264 IRNVVAPL-GT-ALTQNQANLLSKFTKKVYILYDGDDAGRKAMKSAIPLLLSAGVEVYPVYLPE-GYDPDEFIKEFGKEE  340 (407)
T ss_dssp             CCSEEEES-SS-SCCHHHHHHHHTTCSEEEEECCSSHHHHHHHHHHHHHHHHTTCEEEEECCCT-TCCHHHHHHHHCHHH
T ss_pred             CCcEEEcC-cc-cCCHHHHHHHHhcCCeEEEEEcCCHHHHHHHHHHHHHHHhCCCeEEEEECCC-CCChHHHHHhcCHHH
Confidence            5 477766 54 4677778889888 899999999999   888888888654  678888875 7999999975 7 57


Q ss_pred             HHHHHHhcCCCC
Q psy4521         145 LNRIIESASPLC  156 (223)
Q Consensus       145 l~~~i~~A~~~~  156 (223)
                      +.++|++|.|+.
T Consensus       341 ~~~~l~~a~~~~  352 (407)
T 2au3_A          341 LRRLINSSGELF  352 (407)
T ss_dssp             HHHHHHHCCCHH
T ss_pred             HHHHHHcCCCHH
Confidence            999999998753

>1dd9_A DNA primase, DNAG; toprim, 3-helix bundle, DNA-binding protein, RNA polymerase, replication protein, transferase; HET: DNA; 1.60A {Escherichia coli} SCOP: e.13.1.1 PDB: 1dde_A* 1eqn_A* 3b39_A*

Probab=99.70  E-value=3.7e-17  Score=148.97  Aligned_cols=144  Identities=13%  Similarity=0.182  Sum_probs=107.2

Q ss_pred             ceEEEeeecCCCcEEEEEEeecc--ccc--cccCC----CCccccccCCC---CCCCCeEEEeCChhHHHHHhhhhcCc-
Q psy4521           7 KTLYMPLVNYANEVVGYKQVHKS--IES--TVPTK----QCQGVLHCPPY---KKKTDSAVLVQRLVDFLTLCNAHLNY-   74 (223)
Q Consensus         7 ~~lvfP~~~~~g~lvg~K~r~~~--kek--~~p~~----~~~glFG~~~~---~~~~~~iVItEGE~Dalav~q~~~g~-   74 (223)
                      ..++||++|.+|+++|+.-|...  .-|  +-|..    ....|||++..   ....++||||||++|+||++|+  |+ 
T Consensus       107 ~Ri~fPI~d~~G~vigf~gR~l~~~~pKYlnspet~if~K~~~Lygl~~A~~~i~~~~~viIvEG~~Dvlsl~q~--G~~  184 (338)
T 1dd9_A          107 ERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSPETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQY--GIN  184 (338)
T ss_dssp             SEEEEEEECTTSCEEEEEEEESSSCSCSEEECCCCSSCCTTTCCBTHHHHHHTCSSCSCEEEESSHHHHHHHHHT--TCC
T ss_pred             CEEEEEEECCCCcEEEEEEEeCCCCCCceecCCCCcccccCccccCccHHHHhhccCCeEEEEechHhHHHHHHc--CCC
Confidence            46899999999999999999872  222  22221    12467777532   2346799999999999999997  55 


Q ss_pred             eEEEcCCCCCCCCccccccccc-CceEEEEcCCChH---HHHHHHhh---c-CCC-ceEEEecCCCCCChhHHHhC-C-c
Q psy4521          75 NVICLPHGLTCLPQEILPCLEE-YNKLYLWFGKDHE---STRVFSSK---L-NEK-RCFLIRETENQPLPTESKAK-G-L  143 (223)
Q Consensus        75 p~VSlP~Ga~slp~~~lp~Le~-F~~IiLw~D~D~~---~a~e~A~k---L-g~~-RC~iV~~~~~~kdane~L~~-g-~  143 (223)
                      ++|++. |+. +..+.+.+|.+ +++||||||+|.+   ++..+++.   | ..+ +|+++.+|+ .|||||.+.+ | .
T Consensus       185 ~aVA~l-Gta-lt~~~~~~L~r~~~~Vil~~D~D~AG~~Aa~r~~~~~~~l~~~g~~v~v~~lP~-gkDpdd~l~~~G~~  261 (338)
T 1dd9_A          185 YAVASL-GTS-TTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPD-GEDPDTLVRKEGKE  261 (338)
T ss_dssp             CEEECC-C-C-CCHHHHHHHHHHCSEEEEEEESSHHHHHHHHHHHHHHGGGCCTTCEEEEEEECT-TCCHHHHHHHHHHH
T ss_pred             cEEEeC-ccc-cCHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHHHHhCCCEEEEecCCC-CCChHHHHHHhcHH
Confidence            466654 443 56666777665 5899999999999   88888776   3 323 789998875 7999999975 5 5


Q ss_pred             hHHHHHHhcCCC
Q psy4521         144 DLNRIIESASPL  155 (223)
Q Consensus       144 ~l~~~i~~A~~~  155 (223)
                      ++.++|++|.|+
T Consensus       262 ~~~~~l~~a~~~  273 (338)
T 1dd9_A          262 AFEARMEQAMPL  273 (338)
T ss_dssp             HHHHHHTTCEEH
T ss_pred             HHHHHHHcCCCH
Confidence            799999999875

>4edg_A DNA primase; catalytic domain, nucleoside triphosphate, nucleoside polyph protein-ligand complex, transferase; HET: DNA ATP; 2.00A {Staphylococcus aureus} PDB: 4e2k_A* 4edk_A* 4edr_A* 4edt_A* 4edv_A* 4ee1_A*

Probab=99.65  E-value=8.8e-17  Score=146.19  Aligned_cols=145  Identities=20%  Similarity=0.297  Sum_probs=109.6

Q ss_pred             cceEEEeeecCCCcEEEEEEeecc--ccc--cccCC---C-CccccccCCCC---CCCCeEEEeCChhHHHHHhhhhcCc
Q psy4521           6 TKTLYMPLVNYANEVVGYKQVHKS--IES--TVPTK---Q-CQGVLHCPPYK---KKTDSAVLVQRLVDFLTLCNAHLNY   74 (223)
Q Consensus         6 ~~~lvfP~~~~~g~lvg~K~r~~~--kek--~~p~~---~-~~glFG~~~~~---~~~~~iVItEGE~Dalav~q~~~g~   74 (223)
                      +..++||++|.+|+++|+.-|.+.  .-|  +-|..   + ...|||++...   ...+++|||||++|+||++|+  |+
T Consensus        95 r~Ri~fPI~d~~G~vigF~gR~l~~~~pKYlNspet~~f~K~~~Lygl~~a~~~i~~~~~vivvEG~~Dvial~q~--Gi  172 (329)
T 4edg_A           95 RNRIMFPLKNAQGRIVGYSGRTYTGQEPKYLNSPETPIFQKRKLLYNLDKARKSIRKLDEIVLLEGFMDVIKSDTA--GL  172 (329)
T ss_dssp             CSEEEEEEECTTSCEEEEEEECSSSCSSSEEECCCCSSCCTTTCCBTHHHHHHHHHHHTCEEEESCHHHHHHHHHH--TC
T ss_pred             CCEEEEEEECCCCCEEEEEeEECCCCCCeEeCCCCcccccccchhccHHHHHHHhccCCcEEEEecHHHHHHHHHc--CC
Confidence            346899999999999999999872  122  22221   1 23578877543   235799999999999999997  45


Q ss_pred             e-EEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhhcCC--CceEEEecCCCCCChhHHHhC-C-chH
Q psy4521          75 N-VICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSKLNE--KRCFLIRETENQPLPTESKAK-G-LDL  145 (223)
Q Consensus        75 p-~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~kLg~--~RC~iV~~~~~~kdane~L~~-g-~~l  145 (223)
                      + +|+. -|. ++..+.+.+|.++ ++||||||+|.+   ++...++.|..  .+|+++.+|+ .+||+|.+++ | .++
T Consensus       173 ~naVA~-lGT-alt~~~~~~L~r~~~~Vil~~D~D~AG~~Aa~r~~~~l~~~g~~v~v~~lP~-gkDpdd~l~~~G~~~~  249 (329)
T 4edg_A          173 KNVVAT-MGT-QLSDEHITFIRKLTSNITLMFDGDFAGSEATLKTGQHLLQQGLNVFVIQLPS-GMDPDEYIGKYGNDAF  249 (329)
T ss_dssp             CSEEEC-SSS-CCCHHHHHHHHHHCSEEEECCCSSHHHHHHHHHHHHHHHHTTCEEEECCCCT-TCCHHHHHHHHCHHHH
T ss_pred             CeEEEC-Ccc-CCCHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHhcCCeEEEEECCC-CCCHHHHHHHhCHHHH
Confidence            4 7775 455 4777778888886 899999999999   78888888753  2789999875 6999999975 7 568


Q ss_pred             HHHH-HhcCCC
Q psy4521         146 NRII-ESASPL  155 (223)
Q Consensus       146 ~~~i-~~A~~~  155 (223)
                      .+.| ++|.|+
T Consensus       250 ~~~i~~~~~~~  260 (329)
T 4edg_A          250 TTFVKNDKKSF  260 (329)
T ss_dssp             HHHHHHCCEEH
T ss_pred             HHHHHhcCCCH
Confidence            8885 667665

>1t6t_1 Putative protein; structural genomics, PSI, protein structur initiative, midwest center for structural genomics, MCSG, U function; 1.80A {Aquifex aeolicus} SCOP: c.136.1.1

Probab=97.57  E-value=5.3e-05  Score=59.50  Aligned_cols=71  Identities=21%  Similarity=0.257  Sum_probs=56.7

Q ss_pred             CeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCcccccccccCce-EEEEcCCChH---HHHHHHhhcCCCceEEEe
Q psy4521          53 DSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILPCLEEYNK-LYLWFGKDHE---STRVFSSKLNEKRCFLIR  127 (223)
Q Consensus        53 ~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp~Le~F~~-IiLw~D~D~~---~a~e~A~kLg~~RC~iV~  127 (223)
                      +++||+||-.|..++.|+.. -++|+. +|.+ +++ ....|.++.+ |||++|.|.+   +++.+++.|+..-|++-+
T Consensus        21 ~~vIvVEGk~D~~~L~~~g~-~~iI~t-~Gta-l~~-~i~~l~~~~~~VIIltD~D~aGe~ir~~i~~~l~~~~~~v~~   95 (118)
T 1t6t_1           21 EAVILVEGKNDKKALSKFSI-KNVIDL-SGKR-YAD-VVDMLEGKWEKVILLFDLDTHGERINQKMKELLSSQGFLVDE   95 (118)
T ss_dssp             TSEEEESSHHHHHHHHTTTC-CCEEEC-TTSC-HHH-HHHHHTTTCSEEEECCCSSHHHHHHHHHHHHHHHHTTCEEEC
T ss_pred             CcEEEEEChHHHHHHHHhCc-CcEEEE-CCCc-HHH-HHHHHHhCCCEEEEEECCChhHHHHHHHHHHhcCccCceecH
Confidence            68999999999999999743 366665 5664 543 5556776677 9999999999   999999999988888754

>2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A*

Probab=97.47  E-value=0.00064  Score=53.38  Aligned_cols=99  Identities=14%  Similarity=0.111  Sum_probs=67.2

Q ss_pred             CCeEEEeCChhHHHHHhhhh-cCceEEEcCCCCCCCCcccc---cccccCceEEEEcCCChH---HHHHHHhhcCCCceE
Q psy4521          52 TDSAVLVQRLVDFLTLCNAH-LNYNVICLPHGLTCLPQEIL---PCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCF  124 (223)
Q Consensus        52 ~~~iVItEGE~Dalav~q~~-~g~p~VSlP~Ga~slp~~~l---p~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~  124 (223)
                      -+++||+||..|.+++.++. ...++|+. +|.  ++++.+   -.+.+-+.||+.+|+|.+   -++.+.+.|+.-  .
T Consensus         4 i~~vIVVEGk~D~~~L~~~~~~~~~iI~t-~Gs--i~~~~l~~I~~~~~~r~VIi~TD~D~~GekIRk~i~~~lp~~--~   78 (119)
T 2fcj_A            4 VEKVIIVEGRSDKQKVAAVLNEPVVIVCT-NGT--ISDARLEELADELEGYDVYLLADADEAGEKLRRQFRRMFPEA--E   78 (119)
T ss_dssp             CCEEEEESSHHHHHHHHHHBSSCCEEEEC-CSC--CCHHHHHHHHHHTTTSEEEEECCSSHHHHHHHHHHHHHCTTS--E
T ss_pred             cCeEEEEechHHHHHHHHhcCCCCCEEEe-CCc--cCHHHHHHHHHHhcCCCEEEEECCCccHHHHHHHHHHHCCCC--c
Confidence            36999999999999999973 13577887 775  777544   344457899999999999   888899999765  3


Q ss_pred             EEecCCCCCChhHHHhCCchHHHHHHhcCCCCC
Q psy4521         125 LIRETENQPLPTESKAKGLDLNRIIESASPLCH  157 (223)
Q Consensus       125 iV~~~~~~kdane~L~~g~~l~~~i~~A~~~~~  157 (223)
                      .+..+..+..-.+|  ...+|.++|.+|.....
T Consensus        79 hafi~r~~~gVE~a--~~~~I~~aL~~~~~~~~  109 (119)
T 2fcj_A           79 HLYIDRAYREVAAA--PIWHLAQVLLRARFDVR  109 (119)
T ss_dssp             EECCCTTTCSTTTS--CHHHHHHHHHHTTCCBC
T ss_pred             EEeccCCccCcccC--CHHHHHHHHHhcccchh
Confidence            33332222211111  12568888888766543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	223
d1nuia1	192	Primase fragment of primase-helicase protein {Bact	99.93
d2fcja1	114	Hypothetical protein RBSTP2199 {Bacillus stearothe	99.56
d1dd9a_	314	DNA primase DnaG catalytic core {Escherichia coli	99.47
d1t6t1_	108	Hypothetical protein aq_2086 {Aquifex aeolicus [Ta	98.98

>d1nuia1 e.13.1.2 (A:64-255) Primase fragment of primase-helicase protein {Bacteriophage T7 [TaxId: 10760]}

class: Multi-domain proteins (alpha and beta)
fold: DNA primase core
superfamily: DNA primase core
family: Primase fragment of primase-helicase protein
domain: Primase fragment of primase-helicase protein
species: Bacteriophage T7 [TaxId: 10760]

Probab=99.93  E-value=1.4e-26  Score=189.73  Aligned_cols=143  Identities=13%  Similarity=0.154  Sum_probs=118.4

Q ss_pred             CcceEEEeeecCCCcEEEEEEeeccccccccC-CCCccccccCCCCCCCCeEEEeCChhHHHHHhhhhcC-ceEEEcCCC
Q psy4521           5 ETKTLYMPLVNYANEVVGYKQVHKSIESTVPT-KQCQGVLHCPPYKKKTDSAVLVQRLVDFLTLCNAHLN-YNVICLPHG   82 (223)
Q Consensus         5 ~~~~lvfP~~~~~g~lvg~K~r~~~kek~~p~-~~~~glFG~~~~~~~~~~iVItEGE~Dalav~q~~~g-~p~VSlP~G   82 (223)
                      ....++||+++.+|.+|++|.|...++..... .....+|+.+.. ..++.|||||||+||||++|+... .+++|+|.|
T Consensus        40 ~~~~~~~p~~d~~G~~v~~~~R~~~k~~~~~~~~~~~~~~~~~~~-~~~~~iiI~EGe~Dals~~q~~~~~~~~~~~~~~  118 (192)
T d1nuia1          40 GVMYQVADYRDQNGNIVSQKVRDKDKNFKTTGSHKSDALFGKHLW-NGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHG  118 (192)
T ss_dssp             TEEEEEEEEECTTSCEEEEEEECTTCCCEEEECCCTTCCTTGGGC-CCBSCCEEESSHHHHHHHHHHHTTCSCEECCTTT
T ss_pred             CeEEEEEeeECCCCCEEEEEcccccccceeccCCCCCcceeeecc-ccCcEEEEECchHHHHHHHHhcCCCcceeecCcc
Confidence            34578999999999999999998754443333 334577877766 457899999999999999998643 578899999


Q ss_pred             CCCCCc---ccccccccCceEEEEcCCChH---HHHHHHhhcCCCceEEEecCCCCCChhHHHhCC--chHHHHHH
Q psy4521          83 LTCLPQ---EILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCFLIRETENQPLPTESKAKG--LDLNRIIE  150 (223)
Q Consensus        83 a~slp~---~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~iV~~~~~~kdane~L~~g--~~l~~~i~  150 (223)
                      +++...   ..+++|++|++|+||+|||++   ++++++++|+..+|+++.++  +||+||+|+++  .++.++||
T Consensus       119 ~~~~~~~~~~~~~~l~~~~~Vvl~~DnD~AG~~aa~~~~~~l~~~~~~~~~~~--~KD~nd~l~~~~~~~~~~~i~  192 (192)
T d1nuia1         119 ASAAKKTCAANYEYFDQFEQIILMFDMDEAGRKAVEEAAQVLPAGKVRVAVLP--CKDANECHLNGHDREIMEQVW  192 (192)
T ss_dssp             TTTHHHHHHHTHHHHTTBSCEEEECCSSHHHHHHHHHHHHHSCTTTEEECCCS--SSSHHHHHTTTTHHHHHHHHC
T ss_pred             hhhhhhHHhHHHHHhcCCCeEEEEcCCCHHHHHHHHHHHHHcCCCcEEEecCC--CcCHHHHHHcCCHHHHHHhhC
Confidence            875443   667899999999999999999   99999999999999999885  79999999774  57888875

>d2fcja1 c.136.1.1 (A:1-114) Hypothetical protein RBSTP2199 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: Toprim domain
superfamily: Toprim domain
family: Toprim domain
domain: Hypothetical protein RBSTP2199
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.56  E-value=2.6e-15  Score=115.28  Aligned_cols=84  Identities=18%  Similarity=0.156  Sum_probs=64.8

Q ss_pred             CCCCeEEEeCChhHHHHHhhhhcCceEEEcCCCCCCCCccccc---ccccCceEEEEcCCChH---HHHHHHhhcCCCce
Q psy4521          50 KKTDSAVLVQRLVDFLTLCNAHLNYNVICLPHGLTCLPQEILP---CLEEYNKLYLWFGKDHE---STRVFSSKLNEKRC  123 (223)
Q Consensus        50 ~~~~~iVItEGE~Dalav~q~~~g~p~VSlP~Ga~slp~~~lp---~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC  123 (223)
                      ++.++|||||||+|+++++|+ +..|++|+|+|+.. ....+.   .+.++++||||+|+|++   ++++++++|+..++
T Consensus         2 k~~~~viIvEG~~D~~~l~~~-g~~~vv~~~~gg~~-~~~~~~~l~~~~~~~~Iii~~D~D~aG~~~a~~l~~~l~~~~~   79 (114)
T d2fcja1           2 RRVEKVIIVEGRSDKQKVAAV-LNEPVVIVCTNGTI-SDARLEELADELEGYDVYLLADADEAGEKLRRQFRRMFPEAEH   79 (114)
T ss_dssp             CCCCEEEEESSHHHHHHHHHH-BSSCCEEEECCSCC-CHHHHHHHHHHTTTSEEEEECCSSHHHHHHHHHHHHHCTTSEE
T ss_pred             CcCCEEEEEcCHHHHHHHHHc-CCCCeEEeCCCccc-cHHHHHHHHHHhCCCcEEEEeCCChHHHHHHHHHHHHCCCCcE
Confidence            357899999999999999998 35789999998863 333333   33457899999999999   99999999988776


Q ss_pred             EEEecCCCCCChhH
Q psy4521         124 FLIRETENQPLPTE  137 (223)
Q Consensus       124 ~iV~~~~~~kdane  137 (223)
                      ..+..  .+++..+
T Consensus        80 ~~i~~--~~~~v~~   91 (114)
T d2fcja1          80 LYIDR--AYREVAA   91 (114)
T ss_dssp             ECCCT--TTCSTTT
T ss_pred             EEecc--cccchhh
Confidence            66553  4555443

>d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: DNA primase core
superfamily: DNA primase core
family: DNA primase DnaG catalytic core
domain: DNA primase DnaG catalytic core
species: Escherichia coli [TaxId: 562]

Probab=99.47  E-value=5e-14  Score=124.81  Aligned_cols=145  Identities=12%  Similarity=0.179  Sum_probs=102.8

Q ss_pred             cceEEEeeecCCCcEEEEEEeecc--ccccccCC------CCccccccCCCC---CCCCeEEEeCChhHHHHHhhhhcCc
Q psy4521           6 TKTLYMPLVNYANEVVGYKQVHKS--IESTVPTK------QCQGVLHCPPYK---KKTDSAVLVQRLVDFLTLCNAHLNY   74 (223)
Q Consensus         6 ~~~lvfP~~~~~g~lvg~K~r~~~--kek~~p~~------~~~glFG~~~~~---~~~~~iVItEGE~Dalav~q~~~g~   74 (223)
                      +..++||++|..|++||.--|...  .-|-.+..      ....|||.+...   ...+++|||||.+|+++++|+  |+
T Consensus        87 ~~ri~fPI~d~~g~~i~f~gR~~~~~~~KY~ns~et~~f~k~~~ly~~~~a~~~~~~~~~~iivEG~~Dvi~l~q~--Gi  164 (314)
T d1dd9a_          87 RERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSPETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQY--GI  164 (314)
T ss_dssp             CSEEEEEEECTTSCEEEEEEEESSSCSCSEEECCCCSSCCTTTCCBTHHHHHHTCSSCSCEEEESSHHHHHHHHHT--TC
T ss_pred             cceeEEEEecccceEEEEeeeecccccccccCCCccccccchhhcccHHHHHhhhccccceEEEechHHHHHHHHc--cc
Confidence            457999999999999999999871  11211111      124677776422   345689999999999999996  56


Q ss_pred             e-EEEcCCCCCCCCcccccccccC-ceEEEEcCCChH---HHHHHHhh---cC--CCceEEEecCCCCCChhHHHhC-Cc
Q psy4521          75 N-VICLPHGLTCLPQEILPCLEEY-NKLYLWFGKDHE---STRVFSSK---LN--EKRCFLIRETENQPLPTESKAK-GL  143 (223)
Q Consensus        75 p-~VSlP~Ga~slp~~~lp~Le~F-~~IiLw~D~D~~---~a~e~A~k---Lg--~~RC~iV~~~~~~kdane~L~~-g~  143 (223)
                      + ||+ |.|.. +-.+.+..|.++ ++|+||||+|++   |+...+..   +.  --.++++.+|+ .+||.|.+.+ |.
T Consensus       165 ~n~Va-~~Gta-~t~~~~~~l~~~~~~i~l~~D~D~AG~~A~~r~~~~~~~~~~~g~~v~v~~lp~-g~DPDe~l~k~G~  241 (314)
T d1dd9a_         165 NYAVA-SLGTS-TTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPD-GEDPDTLVRKEGK  241 (314)
T ss_dssp             CCEEE-CCC-C-CCHHHHHHHHHHCSEEEEEEESSHHHHHHHHHHHHHHGGGCCTTCEEEEEEECT-TCCHHHHHHHHHH
T ss_pred             ccchh-HHhhh-hhhHHHHHHHhcCCceEEEeecCcchhhHHHhHHHHhhHHhcCCCeEEEEeccC-cCCHHHHHHhcCH
Confidence            6 666 77766 555555555554 799999999999   55554444   22  23788899875 7899999964 64


Q ss_pred             -hHHHHHHhcCCC
Q psy4521         144 -DLNRIIESASPL  155 (223)
Q Consensus       144 -~l~~~i~~A~~~  155 (223)
                       .+.++|++|.++
T Consensus       242 e~~~~ll~~a~~~  254 (314)
T d1dd9a_         242 EAFEARMEQAMPL  254 (314)
T ss_dssp             HHHHHHHTTCEEH
T ss_pred             HHHHHHHhcCCCH
Confidence             589988888764

>d1t6t1_ c.136.1.1 (1:) Hypothetical protein aq_2086 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Toprim domain
superfamily: Toprim domain
family: Toprim domain
domain: Hypothetical protein aq 2086
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.98  E-value=1.4e-10  Score=87.86  Aligned_cols=71  Identities=18%  Similarity=0.229  Sum_probs=55.2

Q ss_pred             CCCeEEEeCChhHHHHHhhhhcCce-EEEcCCCCCCCCcccccccccCceEEEEcCCChH---HHHHHHhhcCCCceEE
Q psy4521          51 KTDSAVLVQRLVDFLTLCNAHLNYN-VICLPHGLTCLPQEILPCLEEYNKLYLWFGKDHE---STRVFSSKLNEKRCFL  125 (223)
Q Consensus        51 ~~~~iVItEGE~Dalav~q~~~g~p-~VSlP~Ga~slp~~~lp~Le~F~~IiLw~D~D~~---~a~e~A~kLg~~RC~i  125 (223)
                      +.+.+|||||++|+||++|+  |++ +|++. |.. +..+....+..+++|||+||+|.+   +|+++++.|...-+.+
T Consensus        15 ~~~~viiVEG~~Dv~al~~~--Gi~n~va~~-Gt~-~~~~~~~l~~~~~~vii~~D~D~aG~~aa~kl~~~L~~~g~~v   89 (108)
T d1t6t1_          15 SREAVILVEGKNDKKALSKF--SIKNVIDLS-GKR-YADVVDMLEGKWEKVILLFDLDTHGERINQKMKELLSSQGFLV   89 (108)
T ss_dssp             TTTSEEEESSHHHHHHHHTT--TCCCEEECT-TSC-HHHHHHHHTTTCSEEEECCCSSHHHHHHHHHHHHHHHHTTCEE
T ss_pred             CCCcEEEEechHHHHHHHHh--CCceEEeCC-CCc-cHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHHcCCCC
Confidence            35689999999999999997  565 66665 554 344444455667999999999999   9999999988776554