Psyllid ID: psy13391

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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------
Protein Sequence
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNLKSR
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccHHHHHHHHHHHcccHHHHHHHHHHHHHcHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHcccEEEEcccccHHHHHHHHHHcHHcc
Coil and Loop (DISEMBL)
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGrkkaglkdCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIErfhsereffirpsfdedlqgKAIKSNLKSR
Flexible Loop (DISEMBL)
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFirpsfdedlqgkaiksnlksr
Low Complexity Region (SEG)
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNLKSR
Disordered region (IsUnstruct)
********DAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRP******************
Disordered Region (DISOPRED)
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQ***********
Disordered Region (DISEMBL)
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNLKSR
Disordered Region (DISPRO)
*KQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSN****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNLKSR
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	146	2.2.26 [Sep-21-2011]
Q3MHE4	934	DNA mismatch repair prote	yes	N/A	0.910	0.142	0.432	2e-24
P43247	935	DNA mismatch repair prote	yes	N/A	0.910	0.142	0.425	1e-23
Q5XXB5	933	DNA mismatch repair prote	N/A	N/A	0.910	0.142	0.417	6e-23
P43246	934	DNA mismatch repair prote	yes	N/A	0.910	0.142	0.417	6e-23
P54275	933	DNA mismatch repair prote	yes	N/A	0.910	0.142	0.425	9e-23
O13396	937	DNA mismatch repair prote	N/A	N/A	0.917	0.143	0.375	3e-19
O74773	982	DNA mismatch repair prote	yes	N/A	0.897	0.133	0.358	4e-14
P25847	964	DNA mismatch repair prote	yes	N/A	0.972	0.147	0.317	5e-14
Q553L4	937	DNA mismatch repair prote	yes	N/A	0.952	0.148	0.337	5e-14
P43248	917	DNA mismatch repair prote	no	N/A	0.883	0.140	0.296	6e-11

>sp|Q3MHE4|MSH2_BOVIN DNA mismatch repair protein Msh2 OS=Bos taurus GN=MSH2 PE=2 SV=1

 Score =  110 bits (276), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 83/134 (61%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R NL E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQNLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKYEGKHQALFLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When bound, heterodimers bend the DNA helix and shields approximately 20 base pairs. MutS alpha recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. MutS beta recognizes larger insertion-deletion loops up to 13 nucleotides long. After mismatch binding, MutS alpha or beta forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. The ATPase activity associated with MutS alpha regulates binding similar to a molecular switch: mismatched DNA provokes ADP-->ATP exchange, resulting in a discernible conformational transition that converts MutS alpha into a sliding clamp capable of hydrolysis-independent diffusion along the DNA backbone. This transition is crucial for mismatch repair. MutS alpha may also play a role in DNA homologous recombination repair. In melanocytes may modulate both UV-B-induced cell cycle regulation and apoptosis.
Bos taurus (taxid: 9913)

>sp|P43247|MSH2_MOUSE DNA mismatch repair protein Msh2 OS=Mus musculus GN=Msh2 PE=2 SV=1

 Score =  108 bits (269), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 57/134 (42%), Positives = 84/134 (62%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V ++E R +L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDRNRIEERLNLVEAFVEDSELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPSVIQALEKYEGRHQALLLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When bound, heterodimers bend the DNA helix and shields approximately 20 base pairs. MutS alpha recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. MutS beta recognizes larger insertion-deletion loops up to 13 nucleotides long. After mismatch binding, MutS alpha or beta forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. The ATPase activity associated with MutS alpha regulates binding similar to a molecular switch: mismatched DNA provokes ADP-->ATP exchange, resulting in a discernible conformational transition that converts MutS alpha into a sliding clamp capable of hydrolysis-independent diffusion along the DNA backbone. This transition is crucial for mismatch repair. MutS alpha may also play a role in DNA homologous recombination repair. In melanocytes may modulate both UV-B-induced cell cycle regulation and apoptosis.

Mus musculus (taxid: 10090)

>sp|Q5XXB5|MSH2_CHLAE DNA mismatch repair protein Msh2 OS=Chlorocebus aethiops GN=MSH2 PE=2 SV=1

 Score =  106 bits (264), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 56/134 (41%), Positives = 81/134 (60%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When bound, heterodimers bend the DNA helix and shields approximately 20 base pairs. MutS alpha recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. MutS beta recognizes larger insertion-deletion loops up to 13 nucleotides long. After mismatch binding, MutS alpha or beta forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. The ATPase activity associated with MutS alpha regulates binding similar to a molecular switch: mismatched DNA provokes ADP-->ATP exchange, resulting in a discernible conformational transition that converts MutS alpha into a sliding clamp capable of hydrolysis-independent diffusion along the DNA backbone. This transition is crucial for mismatch repair. MutS alpha may also play a role in DNA homologous recombination repair. In melanocytes may modulate both UV-B-induced cell cycle regulation and apoptosis.

Chlorocebus aethiops (taxid: 9534)

>sp|P43246|MSH2_HUMAN DNA mismatch repair protein Msh2 OS=Homo sapiens GN=MSH2 PE=1 SV=1

 Score =  106 bits (264), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 56/134 (41%), Positives = 81/134 (60%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When bound, heterodimers bend the DNA helix and shields approximately 20 base pairs. MutS alpha recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. MutS beta recognizes larger insertion-deletion loops up to 13 nucleotides long. After mismatch binding, MutS alpha or beta forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. The ATPase activity associated with MutS alpha regulates binding similar to a molecular switch: mismatched DNA provokes ADP-->ATP exchange, resulting in a discernible conformational transition that converts MutS alpha into a sliding clamp capable of hydrolysis-independent diffusion along the DNA backbone. This transition is crucial for mismatch repair. MutS alpha may also play a role in DNA homologous recombination repair. In melanocytes may modulate both UV-B-induced cell cycle regulation and apoptosis.

Homo sapiens (taxid: 9606)

>sp|P54275|MSH2_RAT DNA mismatch repair protein Msh2 OS=Rattus norvegicus GN=Msh2 PE=2 SV=1

 Score =  105 bits (262), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 57/134 (42%), Positives = 81/134 (60%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V ++E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDSELRRALQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+GV QLP +I  LE      +A  L   ++ L  L +D +KFQE IETT+D+++  +
Sbjct: 406 RLYQGVKQLPNVIQALEKYQGRHQALLLAVFVTPLTDLRSDFSKFQEKIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When bound, heterodimers bend the DNA helix and shields approximately 20 base pairs. MutS alpha recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. MutS beta recognizes larger insertion-deletion loops up to 13 nucleotides long. After mismatch binding, MutS alpha or beta forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. The ATPase activity associated with MutS alpha regulates binding similar to a molecular switch: mismatched DNA provokes ADP-->ATP exchange, resulting in a discernible conformational transition that converts MutS alpha into a sliding clamp capable of hydrolysis-independent diffusion along the DNA backbone. This transition is crucial for mismatch repair. MutS alpha may also play a role in DNA homologous recombination repair. In melanocytes may modulate both UV-B-induced cell cycle regulation and apoptosis.

Rattus norvegicus (taxid: 10116)

>sp|O13396|MSH2_NEUCR DNA mismatch repair protein msh-2 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=msh-2 PE=3 SV=1

 Score = 94.0 bits (232), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 51/136 (37%), Positives = 80/136 (58%), Gaps = 2/136 (1%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL + + I +R   V    N+TE R ++ E  LR +PD+  L+ R  R KA L+D  
Sbjct: 335 LKQPLMNAEEIEKRQQLVEAFANDTELRQSMQEEHLRSIPDLYRLSKRFQRGKATLEDVV 394

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSS-LQSLSNDLAKFQEMIETTIDIERFH 119
           R Y+ V +LP  I  LE ++       L+ + ++ L+ LS+ L K QEM+ETT+D++   
Sbjct: 395 RAYQVVIRLPGFIGTLEGVMDEAYRDPLDEVYTNKLRELSDSLVKLQEMVETTVDLDALD 454

Query: 120 SEREFFIRPSFDEDLQ 135
           +  EF I+P FD+ L+
Sbjct: 455 N-HEFIIKPEFDDSLR 469

Involved in post-replicative DNA-mismatch repair. Binds to mismatch-containing DNA.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

>sp|O74773|MSH2_SCHPO DNA mismatch repair protein msh2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=msh2 PE=3 SV=2

 Score = 76.6 bits (187), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/134 (35%), Positives = 75/134 (55%), Gaps = 3/134 (2%)

Query: 3   QPLKDLDAIVERHAAVNILVNNTEAR--MNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           QPL D  +I  RH  V+ LV + EAR  +   ++ LR +PD+  L  R+ R  A L+D  
Sbjct: 362 QPLLDAKSIERRHDLVSALVEDAEARQLLLDDDHLLRSIPDIPKLCRRLTRGSASLEDVV 421

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+    LPK++++L+SL    +        + L +   +L K  E++ETTID+E   S
Sbjct: 422 RIYQMAKALPKIVTVLDSLTSEHKDLVDKVYTNVLNNHCKNLEKLIELVETTIDLEALDS 481

Query: 121 EREFFIRPSFDEDL 134
             ++ IR  FDE+L
Sbjct: 482 -HQYIIRAEFDEEL 494

Involved in post-replicative DNA-mismatch repair. Binds to mismatch-containing DNA. Required for correct termination of copy synthesis during mating-type switching. Also required for proper chromosome organization during meiosis.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P25847|MSH2_YEAST DNA mismatch repair protein MSH2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MSH2 PE=1 SV=2

 Score = 76.6 bits (187), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 91/151 (60%), Gaps = 9/151 (5%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL ++D I +RH  V+ L++  E R  L    L  +PD++ L  ++  K+  L+D  
Sbjct: 358 LKQPLTNIDEINKRHDLVDYLIDQIELRQMLTSEYLPMIPDIRRLTKKL-NKRGNLEDVL 416

Query: 61  RVYEGVSQLPKLISILESLVQNVEASN-LNTILSS--LQSLSND---LAKFQEMIETTID 114
           ++Y+   ++P+++ +  S +++   +  +N ++ S  L  LS+    L+KF+EM+ETT+D
Sbjct: 417 KIYQFSKRIPEIVQVFTSFLEDDSPTEPVNELVRSVWLAPLSHHVEPLSKFEEMVETTVD 476

Query: 115 IERFHSEREFFIRPSFDEDLQGKAIKSNLKS 145
           ++ +    EF I+  F+E+L GK I+S L +
Sbjct: 477 LDAYEENNEFMIKVEFNEEL-GK-IRSKLDT 505

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (MSH2-MSH6 heterodimer) and MutS beta (MSH2-MSH3 heterodimer), which bind to DNA mismatches thereby initiating DNA repair. MSH2 seems to act as a scaffold for the other MutS homologs that provide substrate-binding and substrate-specificity. When bound, heterodimers bend the DNA helix and shield approximately 20 base pairs. MutS alpha acts mainly to repair base-base and single insertion-deletion mismatches that occur during replication, but can also repair longer insertion-deletion loops (IDLs), although with decreasing efficiency as the size of the extrahelical loop increases. MutS beta acts mainly to repair IDLs from 2 to 13 nucleotides in size, but can also repair base-base and single insertion-deletion mismatches. After mismatch binding, MutS alpha or beta form a ternary complex with a MutL heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. Both subunits bind ATP, but with differing affinities, and their ATPase kinetics are also very different. MSH6 binds and hydrolyzes ATP rapidly, whereas MSH2 catalyzes ATP at a substantially slower rate. Binding to a mismatched base pair suppresses MSH6-catalyzed ATP hydrolysis, but not the activity of MSH2. ATP binding to both subunits is necessary to trigger a change in MutS alpha interaction with mismatched DNA, converting MutS alpha into a sliding clamp capable of hydrolysis-independent movement along DNA, and also facilitates formation of ternary complexes containing MutS and MutL proteins and the mismatch. MutS beta also has a role in regulation of heteroduplex formation during mitotic and meiotic recombination. MutS beta binds to DNA flap structures predicted to form during recombination, and is required for 3' non-homologous tail removal (NHTR). MutS beta-binding alters the DNA conformation of its substrate at the ds/ssDNA junction and may facilitate its recognition and/or cleavage by the downstream nucleotide excision repair (NER) RAD1-RAD10 endonuclease.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q553L4|MSH2_DICDI DNA mismatch repair protein Msh2 OS=Dictyostelium discoideum GN=msh2 PE=3 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 49/145 (33%), Positives = 82/145 (56%), Gaps = 6/145 (4%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL + + I  R   V    N+ E R +L    L+ + D+  L+ ++  +KA L+DC 
Sbjct: 380 VKQPLLNAEEIEARLNFVEAFYNDLELRQSLRSNDLKKIGDLDRLSKKLHGQKATLEDCV 439

Query: 61  RVYEGVSQLPKLISIL---ESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIER 117
            +Y  V++LP ++  L    S+ Q +   N    + SL+S+ +D AKF  M+E TID++ 
Sbjct: 440 NLYGIVTRLPVVLQSLNNHSSIHQELIKVNF---IESLESIISDFAKFCAMVEKTIDLDL 496

Query: 118 FHSEREFFIRPSFDEDLQGKAIKSN 142
            + + E+ IR SFDE L+G  +K +
Sbjct: 497 ANDKHEYVIRSSFDETLRGIQLKKD 521

Component of the post-replicative DNA mismatch repair system (MMR). Forms two different heterodimers: MutS alpha (msh2-msh6 heterodimer) and MutS beta (msh2-msh3 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. When bound, heterodimers bend the DNA helix. MutS alpha recognizes single base mismatches and dinucleotide insertion-deletion loops (IDL) in the DNA. MutS beta recognizes larger insertion-deletion loops. After mismatch binding, MutS alpha or beta forms a ternary complex with the MutL alpha heterodimer, which is thought to be responsible for directing the downstream MMR events, including strand discrimination, excision, and resynthesis. ATP binding and hydrolysis play a pivotal role in mismatch repair functions. The ATPase activity associated with MutS alpha regulates binding similar to a molecular switch: mismatched DNA provokes ADP-->ATP exchange, resulting in a discernible conformational transition that converts MutS alpha into a sliding clamp capable of hydrolysis-independent diffusion along the DNA backbone. This transition is crucial for mismatch repair. MutS alpha may also play a role in DNA homologous recombination repair.

Dictyostelium discoideum (taxid: 44689)

>sp|P43248|MSH2_DROME DNA mismatch repair protein spellchecker 1 OS=Drosophila melanogaster GN=spel1 PE=3 SV=4

 Score = 66.2 bits (160), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 40/135 (29%), Positives = 73/135 (54%), Gaps = 6/135 (4%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL+  + + +RH  V  L+ + +    L    L+ +PD+  L  ++ R+KA L+D +
Sbjct: 347 VKQPLRSRNILNDRHNIVQCLLESPDTMETLSLDYLKRIPDILMLTKKLMRRKANLQDLF 406

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+ + + PK++ +L  L  +   S    I +  +S   DL   ++M+E  +D E    
Sbjct: 407 RIYQVILRTPKILKVLHELDNSTIES---VICAPFKSFLKDLTGLKQMVEQVVDFEAI-- 461

Query: 121 ER-EFFIRPSFDEDL 134
           ER E+ ++ SFD  L
Sbjct: 462 ERGEYLVKASFDSRL 476

Involved in postreplication mismatch repair. Binds specifically to DNA containing mismatched nucleotides thus providing a target for the excision repair processes characteristic of postreplication mismatch repair.

Drosophila melanogaster (taxid: 7227)

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	146
357626320	877	putative mutS-like protein 2 [Danaus ple	0.897	0.149	0.365	9e-24
328713533	697	PREDICTED: DNA mismatch repair protein M	0.890	0.186	0.426	3e-23
440906160	934	DNA mismatch repair protein Msh2 [Bos gr	0.910	0.142	0.432	1e-22
77736115	934	DNA mismatch repair protein Msh2 [Bos ta	0.910	0.142	0.432	1e-22
351695603	934	DNA mismatch repair protein Msh2 [Hetero	0.910	0.142	0.432	2e-22
149050462	933	mutS homolog 2 (E. coli) [Rattus norvegi	0.910	0.142	0.432	3e-22
426223711	935	PREDICTED: LOW QUALITY PROTEIN: DNA mism	0.910	0.142	0.432	3e-22
328792194	920	PREDICTED: DNA mismatch repair protein M	0.890	0.141	0.441	5e-22
322785419	895	hypothetical protein SINV_12798 [Solenop	0.897	0.146	0.441	8e-22
726086	935	MutS homolog 2 [Mus musculus]	0.910	0.142	0.425	8e-22

>gi|357626320|gb|EHJ76450.1| putative mutS-like protein 2 [Danaus plexippus]

 Score =  114 bits (286), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 97/164 (59%), Gaps = 33/164 (20%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           ++QPL+D++ I ER   + +LV++++ R+ LHE  LR +PD+Q+LA R+ RKKAGL+DCY
Sbjct: 278 LRQPLRDINLINERLDIIQLLVSSSQMRLQLHEDHLRRMPDLQALARRLARKKAGLQDCY 337

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSS-LQSLSNDLAKFQEMIETTIDIERFH 119
           R+Y+ ++++P L+  L           ++++L   +  L+NDL KFQ+MIETTID+E   
Sbjct: 338 RIYQAINRIPVLLKCLSEF----NDPTIHSVLCEPIAELNNDLEKFQQMIETTIDLEAVD 393

Query: 120 SER----------------------------EFFIRPSFDEDLQ 135
            +R                            +F ++PSFDE+LQ
Sbjct: 394 RDRALNLHLGCKSQALLELLSLQRWTRRPNGDFLVKPSFDEELQ 437

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328713533|ref|XP_001949991.2| PREDICTED: DNA mismatch repair protein Msh2 [Acyrthosiphon pisum]

 Score =  113 bits (282), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 58/136 (42%), Positives = 89/136 (65%), Gaps = 6/136 (4%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           ++QPL+DL+ I ER   V  LV +T+ R  LH+  LR +PD+Q+L  +I RKKA L+DCY
Sbjct: 144 IRQPLRDLNKINERLDIVETLVTDTDIRQQLHDQHLRTIPDLQALMRKIQRKKANLQDCY 203

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSS-LQSLSNDLAKFQEMIETTIDIERFH 119
           R+Y+ + +LP L+  L     N +   LN+++++ L+ L ND+ K+Q MIE TID+ +  
Sbjct: 204 RIYQAIQKLPDLVQTLS----NSDDKTLNSVITTPLKELVNDMNKYQAMIEETIDL-KLV 258

Query: 120 SEREFFIRPSFDEDLQ 135
              EF I+  FD++LQ
Sbjct: 259 ERGEFLIQSGFDDELQ 274

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|440906160|gb|ELR56461.1| DNA mismatch repair protein Msh2 [Bos grunniens mutus]

 Score =  110 bits (276), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 83/134 (61%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R NL E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQNLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKYEGKHQALFLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Source: Bos grunniens mutus

Species: Bos grunniens

Genus: Bos

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|77736115|ref|NP_001029756.1| DNA mismatch repair protein Msh2 [Bos taurus] gi|85701144|sp|Q3MHE4.1|MSH2_BOVIN RecName: Full=DNA mismatch repair protein Msh2; AltName: Full=MutS protein homolog 2 gi|75775312|gb|AAI05269.1| MutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) [Bos taurus] gi|296482595|tpg|DAA24710.1| TPA: DNA mismatch repair protein Msh2 [Bos taurus]

 Score =  110 bits (276), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 83/134 (61%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R NL E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQNLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKYEGKHQALFLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Source: Bos taurus

Species: Bos taurus

Genus: Bos

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|351695603|gb|EHA98521.1| DNA mismatch repair protein Msh2 [Heterocephalus glaber]

 Score =  110 bits (274), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 83/134 (61%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R NL E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDVELRQNLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKYEGRHQALLLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Source: Heterocephalus glaber

Species: Heterocephalus glaber

Genus: Heterocephalus

Family: Bathyergidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|149050462|gb|EDM02635.1| mutS homolog 2 (E. coli) [Rattus norvegicus] gi|171846747|gb|AAI61846.1| Msh2 protein [Rattus norvegicus]

 Score =  110 bits (274), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 84/134 (62%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V ++E R +L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDSELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+GV+QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGVNQLPNVIQALEKYQGRHQALLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Source: Rattus norvegicus

Species: Rattus norvegicus

Genus: Rattus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|426223711|ref|XP_004006017.1| PREDICTED: LOW QUALITY PROTEIN: DNA mismatch repair protein Msh2 [Ovis aries]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 58/134 (43%), Positives = 83/134 (61%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R +L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 347 IKQPLMDKNRIEERLNLVEAFVEDAELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 406

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+E+  +
Sbjct: 407 RLYQGINQLPNVIQALEKYEGKHQALLLAVFVTPLIDLRSDFSKFQEMIETTLDMEQVEN 466

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 467 -HEFLVKPSFDPNL 479

Source: Ovis aries

Species: Ovis aries

Genus: Ovis

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|328792194|ref|XP_001121207.2| PREDICTED: DNA mismatch repair protein Msh2 [Apis mellifera]

 Score =  108 bits (271), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 60/136 (44%), Positives = 89/136 (65%), Gaps = 6/136 (4%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           ++QPLKDL  I ERH  V +LVN+ E R NL+E  LR +PD+Q LA ++ RKKA L+DCY
Sbjct: 346 IRQPLKDLSLIKERHDIVEVLVNDNELRSNLNEDHLRRIPDLQVLAKKLARKKATLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSS-LQSLSNDLAKFQEMIETTIDIERFH 119
           ++Y  +S LP L+   + L  N+ A  L T+ +  L     D+ KFQ+M+E TID++   
Sbjct: 406 KIYTCMSHLPILLE--QFLKINIIA--LKTMFTDPLSEFIKDMDKFQQMVEQTIDLDS-A 460

Query: 120 SEREFFIRPSFDEDLQ 135
            + +F +RP FD++L+
Sbjct: 461 EKGDFLVRPEFDDELK 476

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322785419|gb|EFZ12092.1| hypothetical protein SINV_12798 [Solenopsis invicta]

 Score =  108 bits (270), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 60/136 (44%), Positives = 87/136 (63%), Gaps = 5/136 (3%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           ++QPL+DL  I ERH  V +LV N E R  L +  L+ +PD+Q LA ++ RKK+ L+DCY
Sbjct: 319 VRQPLRDLSLIKERHDIVELLVQNNELRSILSDDYLKRIPDLQQLAKKLARKKSVLQDCY 378

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNT-ILSSLQSLSNDLAKFQEMIETTIDIERFH 119
           ++Y  VS LPKL   LE L Q    + L T I+  L+ L ND+ KFQ+++E TID++   
Sbjct: 379 KIYLCVSYLPKL---LEQLSQEENVTALKTMIIDPLKELVNDMDKFQQLVEQTIDLDA-A 434

Query: 120 SEREFFIRPSFDEDLQ 135
            + EF + P F +DL+
Sbjct: 435 EKGEFMVNPGFADDLK 450

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|726086|gb|AAA75027.1| MutS homolog 2 [Mus musculus]

 Score =  108 bits (269), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 57/134 (42%), Positives = 84/134 (62%), Gaps = 1/134 (0%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V ++E R +L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDRNRIEERLNLVEAFVEDSELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPSVIQALEKYEGRHQALLLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

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	146
UNIPROTKB|Q3MHE4	934	MSH2 "DNA mismatch repair prot	0.993	0.155	0.408	5.5e-23
MGI|MGI:101816	935	Msh2 "mutS homolog 2 (E. coli)	0.910	0.142	0.425	1.9e-22
UNIPROTKB|E9PHA6	921	MSH2 "DNA mismatch repair prot	0.993	0.157	0.394	6.3e-22
UNIPROTKB|F1PM37	934	MSH2 "Uncharacterized protein"	0.993	0.155	0.394	6.4e-22
UNIPROTKB|P43246	934	MSH2 "DNA mismatch repair prot	0.993	0.155	0.394	6.4e-22
RGD|620786	933	Msh2 "mutS homolog 2 (E. coli)	0.910	0.142	0.425	1.3e-21
UNIPROTKB|F1SQH6	584	LOC100739713 "Uncharacterized	0.952	0.238	0.382	2.2e-20
UNIPROTKB|F1NV33	861	MSH2 "Uncharacterized protein"	0.965	0.163	0.380	2.1e-19
UNIPROTKB|F1NFH4	866	MSH2 "Uncharacterized protein"	0.965	0.162	0.380	2.1e-19
ZFIN|ZDB-GENE-040426-2932	936	msh2 "mutS homolog 2 (E. coli)	0.910	0.142	0.395	2.4e-19

UNIPROTKB|Q3MHE4 MSH2 "DNA mismatch repair protein Msh2" [Bos taurus (taxid:9913)]

 Score = 277 (102.6 bits), Expect = 5.5e-23, P = 5.5e-23
 Identities = 60/147 (40%), Positives = 89/147 (60%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V + E R NL E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   346 IKQPLMDKNRIEERLNLVEAFVEDAELRQNLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct:   406 RLYQGINQLPNVIQALEKYEGKHQALFLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query:   121 EREFFIRPSFDEDLQG-KAIKSNLKSR 146
               EF ++PSFD +L   + I  +L+ +
Sbjct:   466 H-EFLVKPSFDPNLSELREIMDDLEKK 491

GO:0045190 "isotype switching" evidence=IBA

GO:0045128 "negative regulation of reciprocal meiotic recombination" evidence=IBA

GO:0043570 "maintenance of DNA repeat elements" evidence=IBA

GO:0042771 "intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator" evidence=IBA

GO:0032302 "MutSbeta complex" evidence=IBA

GO:0032301 "MutSalpha complex" evidence=IBA

GO:0032138 "single base insertion or deletion binding" evidence=IBA

GO:0032137 "guanine/thymine mispair binding" evidence=IBA

GO:0031573 "intra-S DNA damage checkpoint" evidence=IBA

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IBA

GO:0010224 "response to UV-B" evidence=IBA

GO:0010165 "response to X-ray" evidence=IBA

GO:0008094 "DNA-dependent ATPase activity" evidence=IBA

GO:0006311 "meiotic gene conversion" evidence=IBA

GO:0006302 "double-strand break repair" evidence=IBA

GO:0006301 "postreplication repair" evidence=IBA

GO:0003684 "damaged DNA binding" evidence=IBA

GO:0000710 "meiotic mismatch repair" evidence=IBA

GO:0000406 "double-strand/single-strand DNA junction binding" evidence=IBA

GO:0000404 "loop DNA binding" evidence=IBA

GO:0000403 "Y-form DNA binding" evidence=IBA

GO:0000400 "four-way junction DNA binding" evidence=IBA

GO:0000228 "nuclear chromosome" evidence=IBA

GO:0051096 "positive regulation of helicase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043524 "negative regulation of neuron apoptotic process" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0032357 "oxidized purine DNA binding" evidence=IEA

GO:0032181 "dinucleotide repeat insertion binding" evidence=IEA

GO:0032143 "single thymine insertion binding" evidence=IEA

GO:0032142 "single guanine insertion binding" evidence=IEA

GO:0030183 "B cell differentiation" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0019237 "centromeric DNA binding" evidence=IEA

GO:0008584 "male gonad development" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0007281 "germ cell development" evidence=IEA

GO:0007050 "cell cycle arrest" evidence=IEA

GO:0006119 "oxidative phosphorylation" evidence=IEA

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

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0000287 "magnesium ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

MGI|MGI:101816 Msh2 "mutS homolog 2 (E. coli)" [Mus musculus (taxid:10090)]

 Score = 272 (100.8 bits), Expect = 1.9e-22, P = 1.9e-22
 Identities = 57/134 (42%), Positives = 84/134 (62%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V ++E R +L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   346 IKQPLMDRNRIEERLNLVEAFVEDSELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+G++QLP +I  LE      +A  L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct:   406 RLYQGINQLPSVIQALEKYEGRHQALLLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query:   121 EREFFIRPSFDEDL 134
               EF ++PSFD +L
Sbjct:   466 H-EFLVKPSFDPNL 478

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IBA

GO:0000400 "four-way junction DNA binding" evidence=IBA

GO:0000403 "Y-form DNA binding" evidence=IBA

GO:0000404 "loop DNA binding" evidence=IBA

GO:0000406 "double-strand/single-strand DNA junction binding" evidence=IBA

GO:0000710 "meiotic mismatch repair" evidence=IBA

GO:0001701 "in utero embryonic development" evidence=IGI

GO:0002204 "somatic recombination of immunoglobulin genes involved in immune response" evidence=IGI

GO:0003677 "DNA binding" evidence=ISO;IMP

GO:0003684 "damaged DNA binding" evidence=IMP

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;IC;IDA

GO:0006119 "oxidative phosphorylation" evidence=IMP

GO:0006200 "ATP catabolic process" evidence=ISO;IMP

GO:0006281 "DNA repair" evidence=ISO;IMP

GO:0006298 "mismatch repair" evidence=IGI;ISO;IDA;IMP

GO:0006301 "postreplication repair" evidence=ISO;IMP

GO:0006302 "double-strand break repair" evidence=IMP

GO:0006311 "meiotic gene conversion" evidence=IBA

GO:0006915 "apoptotic process" evidence=IGI;IMP

GO:0006974 "response to DNA damage stimulus" evidence=IMP

GO:0007049 "cell cycle" evidence=IEA

GO:0007050 "cell cycle arrest" evidence=IMP

GO:0007281 "germ cell development" evidence=IMP

GO:0008022 "protein C-terminus binding" evidence=ISO

GO:0008094 "DNA-dependent ATPase activity" evidence=IBA

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0008584 "male gonad development" evidence=IMP

GO:0010165 "response to X-ray" evidence=IMP

GO:0010224 "response to UV-B" evidence=IMP

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IGI;IMP

GO:0016447 "somatic recombination of immunoglobulin gene segments" evidence=IGI;IMP

GO:0016887 "ATPase activity" evidence=IMP

GO:0019237 "centromeric DNA binding" evidence=IDA

GO:0019724 "B cell mediated immunity" evidence=IMP

GO:0019899 "enzyme binding" evidence=ISO

GO:0019901 "protein kinase binding" evidence=ISO

GO:0030183 "B cell differentiation" evidence=IMP

GO:0030983 "mismatched DNA binding" evidence=IMP

GO:0031573 "intra-S DNA damage checkpoint" evidence=IGI

GO:0032137 "guanine/thymine mispair binding" evidence=ISO;IDA

GO:0032138 "single base insertion or deletion binding" evidence=IBA

GO:0032301 "MutSalpha complex" evidence=ISO;IDA

GO:0032302 "MutSbeta complex" evidence=ISO;IBA

GO:0042771 "intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator" evidence=IBA

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0043524 "negative regulation of neuron apoptotic process" evidence=IMP

GO:0043570 "maintenance of DNA repeat elements" evidence=ISO;IBA

GO:0045128 "negative regulation of reciprocal meiotic recombination" evidence=IBA

GO:0045190 "isotype switching" evidence=IMP

GO:0045910 "negative regulation of DNA recombination" evidence=ISO;IMP

GO:0051096 "positive regulation of helicase activity" evidence=ISO

UNIPROTKB|E9PHA6 MSH2 "DNA mismatch repair protein Msh2" [Homo sapiens (taxid:9606)]

 Score = 267 (99.0 bits), Expect = 6.3e-22, P = 6.3e-22
 Identities = 58/147 (39%), Positives = 88/147 (59%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct:   406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465

Query:   121 EREFFIRPSFDEDLQG-KAIKSNLKSR 146
               EF ++PSFD +L   + I ++L+ +
Sbjct:   466 H-EFLVKPSFDPNLSELREIMNDLEKK 491

GO:0005524 "ATP binding" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0030983 "mismatched DNA binding" evidence=IEA

GO:0032301 "MutSalpha complex" evidence=IEA

GO:0032302 "MutSbeta complex" evidence=IEA

UNIPROTKB|F1PM37 MSH2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 267 (99.0 bits), Expect = 6.4e-22, P = 6.4e-22
 Identities = 58/147 (39%), Positives = 88/147 (59%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V + E R +L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   346 IKQPLMDKNRIEERLNLVEAFVEDAELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct:   406 RLYQGINQLPNVIRALEKYEGKHQGLLLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVEN 465

Query:   121 EREFFIRPSFDEDLQG-KAIKSNLKSR 146
               EF ++PSFD +L   + I  +L+ +
Sbjct:   466 H-EFLVKPSFDPNLSELREIMDDLEKK 491

GO:0032302 "MutSbeta complex" evidence=IEA

GO:0032301 "MutSalpha complex" evidence=IEA

GO:0030983 "mismatched DNA binding" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|P43246 MSH2 "DNA mismatch repair protein Msh2" [Homo sapiens (taxid:9606)]

 Score = 267 (99.0 bits), Expect = 6.4e-22, P = 6.4e-22
 Identities = 58/147 (39%), Positives = 88/147 (59%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct:   406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465

Query:   121 EREFFIRPSFDEDLQG-KAIKSNLKSR 146
               EF ++PSFD +L   + I ++L+ +
Sbjct:   466 H-EFLVKPSFDPNLSELREIMNDLEKK 491

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0006119 "oxidative phosphorylation" evidence=IEA

GO:0007050 "cell cycle arrest" evidence=IEA

GO:0007281 "germ cell development" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IEA

GO:0019237 "centromeric DNA binding" evidence=IEA

GO:0000228 "nuclear chromosome" evidence=IBA

GO:0000403 "Y-form DNA binding" evidence=IBA

GO:0000404 "loop DNA binding" evidence=IBA

GO:0000406 "double-strand/single-strand DNA junction binding" evidence=IBA

GO:0000710 "meiotic mismatch repair" evidence=IBA

GO:0006302 "double-strand break repair" evidence=IBA

GO:0006311 "meiotic gene conversion" evidence=IBA

GO:0008094 "DNA-dependent ATPase activity" evidence=IBA

GO:0010165 "response to X-ray" evidence=ISS;IBA

GO:0010224 "response to UV-B" evidence=ISS;IBA

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IBA

GO:0031573 "intra-S DNA damage checkpoint" evidence=IBA

GO:0042771 "intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator" evidence=IBA

GO:0045128 "negative regulation of reciprocal meiotic recombination" evidence=IBA

GO:0045190 "isotype switching" evidence=ISS;IBA

GO:0005515 "protein binding" evidence=IPI

GO:0019901 "protein kinase binding" evidence=IPI

GO:0006298 "mismatch repair" evidence=IDA

GO:0006301 "postreplication repair" evidence=IDA

GO:0008022 "protein C-terminus binding" evidence=IPI

GO:0019899 "enzyme binding" evidence=IPI

GO:0003677 "DNA binding" evidence=IDA

GO:0032137 "guanine/thymine mispair binding" evidence=IDA;IMP

GO:0032405 "MutLalpha complex binding" evidence=IDA

GO:0032301 "MutSalpha complex" evidence=IDA

GO:0000287 "magnesium ion binding" evidence=IDA

GO:0032302 "MutSbeta complex" evidence=IDA

GO:0030983 "mismatched DNA binding" evidence=IDA

GO:0032139 "dinucleotide insertion or deletion binding" evidence=IDA

GO:0032143 "single thymine insertion binding" evidence=IDA

GO:0032181 "dinucleotide repeat insertion binding" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IDA

GO:0032142 "single guanine insertion binding" evidence=IDA

GO:0032357 "oxidized purine DNA binding" evidence=IDA

GO:0016887 "ATPase activity" evidence=IDA

GO:0043570 "maintenance of DNA repeat elements" evidence=IMP

GO:0005524 "ATP binding" evidence=IDA

GO:0043531 "ADP binding" evidence=IDA

GO:0000400 "four-way junction DNA binding" evidence=IDA

GO:0003690 "double-stranded DNA binding" evidence=IDA

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

GO:0019724 "B cell mediated immunity" evidence=ISS

GO:0008584 "male gonad development" evidence=ISS

GO:0016447 "somatic recombination of immunoglobulin gene segments" evidence=ISS

GO:0030183 "B cell differentiation" evidence=ISS

GO:0043524 "negative regulation of neuron apoptotic process" evidence=ISS

GO:0045910 "negative regulation of DNA recombination" evidence=ISS;IDA

GO:0006281 "DNA repair" evidence=IDA

GO:0051096 "positive regulation of helicase activity" evidence=IDA

GO:0006200 "ATP catabolic process" evidence=IDA

RGD|620786 Msh2 "mutS homolog 2 (E. coli)" [Rattus norvegicus (taxid:10116)]

 Score = 264 (98.0 bits), Expect = 1.3e-21, P = 1.3e-21
 Identities = 57/134 (42%), Positives = 81/134 (60%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V ++E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   346 IKQPLMDKNRIEERLNLVEAFVEDSELRRALQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+GV QLP +I  LE      +A  L   ++ L  L +D +KFQE IETT+D+++  +
Sbjct:   406 RLYQGVKQLPNVIQALEKYQGRHQALLLAVFVTPLTDLRSDFSKFQEKIETTLDMDQVEN 465

Query:   121 EREFFIRPSFDEDL 134
               EF ++PSFD +L
Sbjct:   466 H-EFLVKPSFDPNL 478

GO:0000228 "nuclear chromosome" evidence=IBA

GO:0000287 "magnesium ion binding" evidence=IEA;ISO

GO:0000400 "four-way junction DNA binding" evidence=IEA;ISO;IBA

GO:0000403 "Y-form DNA binding" evidence=IBA

GO:0000404 "loop DNA binding" evidence=IBA

GO:0000406 "double-strand/single-strand DNA junction binding" evidence=IBA

GO:0000710 "meiotic mismatch repair" evidence=IBA

GO:0001701 "in utero embryonic development" evidence=IEA;ISO

GO:0002204 "somatic recombination of immunoglobulin genes involved in immune response" evidence=ISO

GO:0003677 "DNA binding" evidence=ISO;ISS

GO:0003684 "damaged DNA binding" evidence=ISO;IBA

GO:0003697 "single-stranded DNA binding" evidence=IEA;ISO

GO:0005524 "ATP binding" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0006119 "oxidative phosphorylation" evidence=IEA;ISO

GO:0006200 "ATP catabolic process" evidence=ISO

GO:0006281 "DNA repair" evidence=ISO

GO:0006298 "mismatch repair" evidence=IEA;ISO

GO:0006301 "postreplication repair" evidence=ISO;ISS;IBA

GO:0006302 "double-strand break repair" evidence=IEA;ISO;IBA

GO:0006311 "meiotic gene conversion" evidence=IBA

GO:0006915 "apoptotic process" evidence=IEA;ISO

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0007050 "cell cycle arrest" evidence=IEA;ISO

GO:0007281 "germ cell development" evidence=IEA;ISO

GO:0007283 "spermatogenesis" evidence=IEP

GO:0008022 "protein C-terminus binding" evidence=IEA;ISO

GO:0008094 "DNA-dependent ATPase activity" evidence=IBA

GO:0008340 "determination of adult lifespan" evidence=IEA;ISO

GO:0008584 "male gonad development" evidence=IEA;ISO

GO:0010165 "response to X-ray" evidence=IEA;ISO;IBA

GO:0010224 "response to UV-B" evidence=IEA;ISO;IBA

GO:0014070 "response to organic cyclic compound" evidence=IEP

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IEA;ISO;IBA

GO:0016447 "somatic recombination of immunoglobulin gene segments" evidence=ISO

GO:0016887 "ATPase activity" evidence=IEA;ISO

GO:0019237 "centromeric DNA binding" evidence=IEA;ISO

GO:0019724 "B cell mediated immunity" evidence=ISO

GO:0019899 "enzyme binding" evidence=ISO

GO:0019901 "protein kinase binding" evidence=IEA;ISO

GO:0030183 "B cell differentiation" evidence=IEA;ISO

GO:0030983 "mismatched DNA binding" evidence=ISO

GO:0031573 "intra-S DNA damage checkpoint" evidence=IEA;ISO;IBA

GO:0032137 "guanine/thymine mispair binding" evidence=IEA;ISO;IBA

GO:0032138 "single base insertion or deletion binding" evidence=IBA

GO:0032142 "single guanine insertion binding" evidence=IEA;ISO

GO:0032143 "single thymine insertion binding" evidence=IEA;ISO

GO:0032181 "dinucleotide repeat insertion binding" evidence=IEA;ISO

GO:0032301 "MutSalpha complex" evidence=IEA;ISO;IBA

GO:0032302 "MutSbeta complex" evidence=IEA;ISO;IBA

GO:0032357 "oxidized purine DNA binding" evidence=IEA;ISO

GO:0032405 "MutLalpha complex binding" evidence=IEA;ISO

GO:0042493 "response to drug" evidence=IEP

GO:0042771 "intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator" evidence=IBA

GO:0042803 "protein homodimerization activity" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=ISO

GO:0043200 "response to amino acid stimulus" evidence=IEP

GO:0043524 "negative regulation of neuron apoptotic process" evidence=IEA;ISO

GO:0043531 "ADP binding" evidence=IEA;ISO

GO:0043570 "maintenance of DNA repeat elements" evidence=IEA;ISO;IBA

GO:0045128 "negative regulation of reciprocal meiotic recombination" evidence=IBA

GO:0045190 "isotype switching" evidence=IEA;ISO;IBA

GO:0045910 "negative regulation of DNA recombination" evidence=IEA;ISO

GO:0051096 "positive regulation of helicase activity" evidence=IEA;ISO

GO:0003690 "double-stranded DNA binding" evidence=ISO

GO:0032139 "dinucleotide insertion or deletion binding" evidence=ISO

UNIPROTKB|F1SQH6 LOC100739713 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 249 (92.7 bits), Expect = 2.2e-20, P = 2.2e-20
 Identities = 54/141 (38%), Positives = 84/141 (59%)

Query:     7 DLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGV 66
             D + I ER   V   V + E R +L E  LR  PD+  LA +  R+ A L+DCYR+Y+G+
Sbjct:     2 DKNRIEERLNLVEAFVEDAELRQSLQEDLLRRFPDLNRLAKKFQRQAANLQDCYRLYQGI 61

Query:    67 SQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFI 126
             +QLP +I  +E      +A  L   ++ L  L +D +KFQEMIETT+D+++  +  EF +
Sbjct:    62 NQLPNVIQAMEKYEGQHQALLLAVFVTPLIDLRSDFSKFQEMIETTLDMDQVENH-EFLV 120

Query:   127 RPSFDEDLQG-KAIKSNLKSR 146
             +PSFD +L   + I  +L+ +
Sbjct:   121 KPSFDPNLSELREIMDDLEKK 141

GO:0030983 "mismatched DNA binding" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1NV33 MSH2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 243 (90.6 bits), Expect = 2.1e-19, P = 2.1e-19
 Identities = 54/142 (38%), Positives = 81/142 (57%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V +TE R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   274 IKQPLMDKNRIEERLNLVEAFVVDTELRQGLQEDLLRRFPDLNRLAKKFQRQAATLQDCY 333

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+ ++QLP ++  LE      +   L   ++ L  + +D +KF EMIETT+D+++  +
Sbjct:   334 RMYQAINQLPNVVQALEKHEGAHQMLLLAVFITPLNDIHSDFSKFLEMIETTLDMDKVEN 393

Query:   121 EREFFIRPSFDEDLQGKAIKSN 142
               EF ++ SFD +L     K N
Sbjct:   394 H-EFLVKASFDPNLTELREKMN 414

GO:0005524 "ATP binding" evidence=IEA

GO:0032302 "MutSbeta complex" evidence=IEA

GO:0000287 "magnesium ion binding" evidence=IEA

GO:0000400 "four-way junction DNA binding" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

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

GO:0006119 "oxidative phosphorylation" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007050 "cell cycle arrest" evidence=IEA

GO:0007281 "germ cell development" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IEA

GO:0008584 "male gonad development" evidence=IEA

GO:0010165 "response to X-ray" evidence=IEA

GO:0010224 "response to UV-B" evidence=IEA

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0019237 "centromeric DNA binding" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0030183 "B cell differentiation" evidence=IEA

GO:0031573 "intra-S DNA damage checkpoint" evidence=IEA

GO:0032137 "guanine/thymine mispair binding" evidence=IEA

GO:0032142 "single guanine insertion binding" evidence=IEA

GO:0032143 "single thymine insertion binding" evidence=IEA

GO:0032181 "dinucleotide repeat insertion binding" evidence=IEA

GO:0032301 "MutSalpha complex" evidence=IEA

GO:0032357 "oxidized purine DNA binding" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0043524 "negative regulation of neuron apoptotic process" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043570 "maintenance of DNA repeat elements" evidence=IEA

GO:0045190 "isotype switching" evidence=IEA

GO:0045910 "negative regulation of DNA recombination" evidence=IEA

GO:0051096 "positive regulation of helicase activity" evidence=IEA

UNIPROTKB|F1NFH4 MSH2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 243 (90.6 bits), Expect = 2.1e-19, P = 2.1e-19
 Identities = 54/142 (38%), Positives = 81/142 (57%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V +TE R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct:   279 IKQPLMDKNRIEERLNLVEAFVVDTELRQGLQEDLLRRFPDLNRLAKKFQRQAATLQDCY 338

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             R+Y+ ++QLP ++  LE      +   L   ++ L  + +D +KF EMIETT+D+++  +
Sbjct:   339 RMYQAINQLPNVVQALEKHEGAHQMLLLAVFITPLNDIHSDFSKFLEMIETTLDMDKVEN 398

Query:   121 EREFFIRPSFDEDLQGKAIKSN 142
               EF ++ SFD +L     K N
Sbjct:   399 H-EFLVKASFDPNLTELREKMN 419

GO:0005524 "ATP binding" evidence=IEA

GO:0032302 "MutSbeta complex" evidence=IEA

GO:0000287 "magnesium ion binding" evidence=IEA

GO:0000400 "four-way junction DNA binding" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

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

GO:0006119 "oxidative phosphorylation" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA

GO:0006302 "double-strand break repair" evidence=IEA

GO:0006915 "apoptotic process" evidence=IEA

GO:0007050 "cell cycle arrest" evidence=IEA

GO:0007281 "germ cell development" evidence=IEA

GO:0008022 "protein C-terminus binding" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IEA

GO:0008584 "male gonad development" evidence=IEA

GO:0010165 "response to X-ray" evidence=IEA

GO:0010224 "response to UV-B" evidence=IEA

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0019237 "centromeric DNA binding" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0030183 "B cell differentiation" evidence=IEA

GO:0031573 "intra-S DNA damage checkpoint" evidence=IEA

GO:0032137 "guanine/thymine mispair binding" evidence=IEA

GO:0032142 "single guanine insertion binding" evidence=IEA

GO:0032143 "single thymine insertion binding" evidence=IEA

GO:0032181 "dinucleotide repeat insertion binding" evidence=IEA

GO:0032301 "MutSalpha complex" evidence=IEA

GO:0032357 "oxidized purine DNA binding" evidence=IEA

GO:0032405 "MutLalpha complex binding" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0043524 "negative regulation of neuron apoptotic process" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043570 "maintenance of DNA repeat elements" evidence=IEA

GO:0045190 "isotype switching" evidence=IEA

GO:0045910 "negative regulation of DNA recombination" evidence=IEA

GO:0051096 "positive regulation of helicase activity" evidence=IEA

ZFIN|ZDB-GENE-040426-2932 msh2 "mutS homolog 2 (E. coli)" [Danio rerio (taxid:7955)]

 Score = 243 (90.6 bits), Expect = 2.4e-19, P = 2.4e-19
 Identities = 53/134 (39%), Positives = 76/134 (56%)

Query:     1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
             +KQPL D + I ER   V   V ++E R +  E  LR  PD+  +A +  R+ + L+DCY
Sbjct:   346 IKQPLIDKNKIEERLDLVETFVEDSELRKSCQEDLLRRFPDLNRMAKKFQRQSSNLQDCY 405

Query:    61 RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
             RVY+ V QLP ++  LE      +       +S L  L +D +KFQEMIETT+D+ +   
Sbjct:   406 RVYQSVGQLPNVVLALERYSGKHQVLLHAAFISPLNDLISDFSKFQEMIETTLDMNQVE- 464

Query:   121 EREFFIRPSFDEDL 134
               EF ++PSFD  L
Sbjct:   465 HHEFLVKPSFDPTL 478

GO:0030983 "mismatched DNA binding" evidence=IEA

GO:0032301 "MutSalpha complex" evidence=IEA;IBA

GO:0005524 "ATP binding" evidence=IEA

GO:0006298 "mismatch repair" evidence=IEA;ISS

GO:0032302 "MutSbeta complex" evidence=IEA;IBA

GO:0032137 "guanine/thymine mispair binding" evidence=IGI;IDA

GO:0006200 "ATP catabolic process" evidence=IBA

GO:0010224 "response to UV-B" evidence=IBA

GO:0031573 "intra-S DNA damage checkpoint" evidence=IBA

GO:0006301 "postreplication repair" evidence=IBA

GO:0045190 "isotype switching" evidence=IBA

GO:0008094 "DNA-dependent ATPase activity" evidence=IBA

GO:0010165 "response to X-ray" evidence=IBA

GO:0045128 "negative regulation of reciprocal meiotic recombination" evidence=IBA

GO:0000400 "four-way junction DNA binding" evidence=IBA

GO:0032138 "single base insertion or deletion binding" evidence=IBA

GO:0003684 "damaged DNA binding" evidence=IBA

GO:0000403 "Y-form DNA binding" evidence=IBA

GO:0000404 "loop DNA binding" evidence=IBA

GO:0042771 "intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator" evidence=IBA

GO:0006302 "double-strand break repair" evidence=IBA

GO:0000710 "meiotic mismatch repair" evidence=IBA

GO:0000228 "nuclear chromosome" evidence=IBA

GO:0000406 "double-strand/single-strand DNA junction binding" evidence=IBA

GO:0006311 "meiotic gene conversion" evidence=IBA

GO:0016446 "somatic hypermutation of immunoglobulin genes" evidence=IBA

GO:0043570 "maintenance of DNA repeat elements" evidence=IMP

---

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

ID	Length	Definition	E-value
Query	146
smart00533	308	smart00533, MUTSd, DNA-binding domain of DNA misma	1e-19
PRK05399	854	PRK05399, PRK05399, DNA mismatch repair protein Mu	7e-15
pfam05192	290	pfam05192, MutS_III, MutS domain III	2e-14
COG0249	843	COG0249, MutS, Mismatch repair ATPase (MutS family	3e-13
TIGR01070	840	TIGR01070, mutS1, DNA mismatch repair protein MutS	2e-07

>gnl|CDD|214710 smart00533, MUTSd, DNA-binding domain of DNA mismatch repair MUTS family

 Score = 82.0 bits (203), Expect = 1e-19
 Identities = 44/146 (30%), Positives = 66/146 (45%), Gaps = 8/146 (5%)

Query: 2   KQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYR 61
            QPL DL  I ER  AV  LV N E R  L +  L+ +PD++ L  RI R +A  +D  R
Sbjct: 25  LQPLLDLKEINERLDAVEELVENPELRQKLRQL-LKRIPDLERLLSRIERGRASPRDLLR 83

Query: 62  VYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSE 121
           +Y+ +  L ++  +LESL   +    L  IL  L  L       + ++E   D +     
Sbjct: 84  LYDSLEGLKEIRQLLESLDGPLLGLLLKVILEPLLEL------LELLLELLNDDDPLEVN 137

Query: 122 REFFIRPSFDEDLQG-KAIKSNLKSR 146
               I+  FD +L   +     L+  
Sbjct: 138 DGGLIKDGFDPELDELREKLEELEEE 163

Length = 308

>gnl|CDD|235444 PRK05399, PRK05399, DNA mismatch repair protein MutS; Provisional

 Score = 70.1 bits (173), Expect = 7e-15
 Identities = 37/133 (27%), Positives = 64/133 (48%), Gaps = 10/133 (7%)

Query: 3   QPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRV 62
           +PL+D +AI  R  AV  L+ +   R +L E  L+G+ D++ L  RI   +A  +D   +
Sbjct: 309 RPLRDREAIEARLDAVEELLEDPLLREDLREL-LKGVYDLERLLSRIALGRANPRDLAAL 367

Query: 63  YEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSER 122
            + +  LP+L  +L  L    ++  L  +   L  L  +LA   +++E  I  E     R
Sbjct: 368 RDSLEALPELKELLAEL----DSPLLAELAEQLDPLE-ELA---DLLERAIVEEPPLLIR 419

Query: 123 E-FFIRPSFDEDL 134
           +   I   +D +L
Sbjct: 420 DGGVIADGYDAEL 432

Length = 854

>gnl|CDD|218489 pfam05192, MutS_III, MutS domain III

 Score = 67.8 bits (166), Expect = 2e-14
 Identities = 36/133 (27%), Positives = 59/133 (44%), Gaps = 15/133 (11%)

Query: 3   QPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRV 62
           +PL DLD I  R  AV  L+ +    +      L+G+PD++ L  R+   +A  +D   +
Sbjct: 43  RPLTDLDEINARLDAVEELLEDLREELREA---LKGIPDLERLLSRLALGRASPRDLLAL 99

Query: 63  YEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSER 122
              +  LP L  +L S      A  L  +   L      L +  E++E  ID +   S R
Sbjct: 100 RSSLEALPALRKLLAS------APLLADLADQL-----PLPELLELLERAIDEDPPLSLR 148

Query: 123 E-FFIRPSFDEDL 134
           +   I+  +D +L
Sbjct: 149 DGGVIKDGYDPEL 161

This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam00488, pfam05188, pfam01624 and pfam05190. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. The aligned region corresponds with domain III, which is central to the structure of Thermus aquaticus MutS as characterized in. Length = 290

>gnl|CDD|223327 COG0249, MutS, Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]

 Score = 65.4 bits (160), Expect = 3e-13
 Identities = 41/134 (30%), Positives = 74/134 (55%), Gaps = 5/134 (3%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           + QPL D + I ER  AV  L +N E R  L E  L+ +PD++ L  R+   +A  +D  
Sbjct: 305 LLQPLLDKEEIEERLDAVEELKDNPELREKLREM-LKKVPDLERLLSRLSLGRASPRDLL 363

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+ + + ++P++  +L SL      S+L  +L  ++SL   LA+  E++ET I+ +   +
Sbjct: 364 RLRDSLEKIPEIFKLLSSL---KSESDLLLLLEDIESLDY-LAELLELLETAINEDPPLA 419

Query: 121 EREFFIRPSFDEDL 134
            R+  I+  ++ +L
Sbjct: 420 VRDGIIKEGYNIEL 433

Length = 843

>gnl|CDD|233259 TIGR01070, mutS1, DNA mismatch repair protein MutS

 Score = 48.2 bits (115), Expect = 2e-07
 Identities = 34/135 (25%), Positives = 64/135 (47%), Gaps = 10/135 (7%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           + +PL+D + +  R   V +L+ +   R  L    L+ + D++ LA R+    A  +D  
Sbjct: 293 LHRPLRDREVLEARQDTVEVLLRHFFLREGLRPL-LKEVGDLERLAARVALGNARPRDLA 351

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+   + QLP+L ++LE L            L +L +  +D ++  E++E  +       
Sbjct: 352 RLRTSLEQLPELRALLEELEGPT--------LQALAAQIDDFSELLELLEAALIENPPLV 403

Query: 121 ERE-FFIRPSFDEDL 134
            R+   IR  +DE+L
Sbjct: 404 VRDGGLIREGYDEEL 418

[DNA metabolism, DNA replication, recombination, and repair]. Length = 840

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	146
PRK05399	854	DNA mismatch repair protein MutS; Provisional	99.87
TIGR01070	840	mutS1 DNA mismatch repair protein MutS.	99.87
COG0249	843	MutS Mismatch repair ATPase (MutS family) [DNA rep	99.83
smart00533	308	MUTSd DNA-binding domain of DNA mismatch repair MU	99.78
KOG0219|consensus	902		99.72
KOG0221|consensus	849		99.71
PF05192	204	MutS_III: MutS domain III C-terminus.; InterPro: I	99.62
KOG0217|consensus	1125		99.42
PRK00409	782	recombination and DNA strand exchange inhibitor pr	99.36
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	99.13
KOG0220|consensus	867		98.91
KOG0218|consensus	1070		98.63
COG1193	753	Mismatch repair ATPase (MutS family) [DNA replicat	96.34

>PRK05399 DNA mismatch repair protein MutS; Provisional

Probab=99.87  E-value=3.7e-21  Score=165.65  Aligned_cols=133  Identities=26%  Similarity=0.382  Sum_probs=118.5

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++|++|+++|++|||+|++|.+++.++..++. .|++++|++|+++|+..|+++++||..+++++..++.+++.+....
T Consensus       307 l~~Pl~d~~~I~~R~d~Ve~l~~~~~~~~~l~~-~L~~i~Dlerll~ri~~~~~~~~dl~~l~~~l~~~~~l~~~l~~~~  385 (854)
T PRK05399        307 LHRPLRDREAIEARLDAVEELLEDPLLREDLRE-LLKGVYDLERLLSRIALGRANPRDLAALRDSLEALPELKELLAELD  385 (854)
T ss_pred             HhCcCCCHHHHHHHHHHHHHHHhCHHHHHHHHH-HHhcCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            579999999999999999999999999999999 9999999999999999999999999999999999999999987643


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccc--cccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERF--HSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~--~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                              ...+..+...+..+.++.+.|+++|+++++  ..+| ++|++|||++||++|+.++.
T Consensus       386 --------~~~l~~l~~~l~~~~~l~~~i~~~i~~~~~~~~~~~-~~i~~g~~~~Ld~lr~~~~~  441 (854)
T PRK05399        386 --------SPLLAELAEQLDPLEELADLLERAIVEEPPLLIRDG-GVIADGYDAELDELRALSDN  441 (854)
T ss_pred             --------cHHHHHHHhhcccHHHHHHHHHHHHccCCchhcccC-CEECCCCCHHHHHHHHHHHH
Confidence                    345666666677899999999999998864  2324 59999999999999998764

>TIGR01070 mutS1 DNA mismatch repair protein MutS

Probab=99.87  E-value=5.8e-21  Score=163.95  Aligned_cols=133  Identities=26%  Similarity=0.397  Sum_probs=117.8

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++|++|+++|++|||+|++|.++..++..++. .|++++|++|+++|+..|+++|+||..+++++..++.+++.+....
T Consensus       293 l~~Pl~d~~~I~~Rld~Ve~l~~~~~l~~~l~~-~L~~i~Dlerll~ri~~~~~~~~dl~~l~~~l~~~~~l~~~l~~~~  371 (840)
T TIGR01070       293 LHRPLRDREVLEARQDTVEVLLRHFFLREGLRP-LLKEVGDLERLAARVALGNARPRDLARLRTSLEQLPELRALLEELE  371 (840)
T ss_pred             hhCCCCCHHHHHHHHHHHHHHHhCHHHHHHHHH-HhccCcCHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            579999999999999999999999999999999 9999999999999999999999999999999999999999987643


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccc--cccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERF--HSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~--~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                              ...+..+...+..+..+.+.|+++|+++++  .++| +.|++|||++||++|+.++.
T Consensus       372 --------~~~l~~l~~~l~~~~~l~~~i~~~i~~~~~~~~~~~-~~I~~g~~~~Ld~lr~~~~~  427 (840)
T TIGR01070       372 --------GPTLQALAAQIDDFSELLELLEAALIENPPLVVRDG-GLIREGYDEELDELRAASRE  427 (840)
T ss_pred             --------cHHHHHHHHhcccHHHHHHHHHHHHhcCCccccccC-CeeCCCCCHHHHHHHHHHHH
Confidence                    345566666777889999999999998764  2335 59999999999999998753

>COG0249 MutS Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]

Probab=99.83  E-value=4.1e-20  Score=158.06  Aligned_cols=138  Identities=28%  Similarity=0.409  Sum_probs=114.8

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |.+|++|.++|+.|||+|++|.++..+++.|+. .|++++|++|+++|+..|+++|+||..+++++..++.+.+.+....
T Consensus       305 l~~PL~~~~~I~~Rld~Ve~l~~~~~l~~~L~~-~L~~v~DleRl~~Rl~~~~~~~rDl~~l~~~l~~~~~i~~~l~~~~  383 (843)
T COG0249         305 LLQPLLDKEEIEERLDAVEELKDNPELREKLRE-MLKKVPDLERLLSRLSLGRASPRDLLRLRDSLEKIPEIFKLLSSLK  383 (843)
T ss_pred             hhCcccCHHHHHHHHHHHHHHHhhhHHHHHHHH-HHhcCcCHHHHHHHHHcCCCChhhHHHHHHHHHHHHHHHHHHhccc
Confidence            579999999999999999999999999999999 9999999999999999999999999999999999999999998754


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                      .  +..+ ......+. .++.+.++..+++.+|.++++..-..++|+.||+++||++|..++.
T Consensus       384 ~--~~~l-~~~~~~i~-~~~~~~e~~~ll~~~i~~~~~~~~~~~ii~~g~~~eLd~lr~~~~~  442 (843)
T COG0249         384 S--ESDL-LLLLEDIE-SLDYLAELLELLETAINEDPPLAVRDGIIKEGYNIELDELRDLLNN  442 (843)
T ss_pred             c--chhh-hHHhhhhh-ccccHHHHHHHHHHHhhhcchhhcchhHHhcchhHHHHHHHHHHHH
Confidence            2  0101 12222222 3344668999999999999863212269999999999999998763

>smart00533 MUTSd DNA-binding domain of DNA mismatch repair MUTS family

Probab=99.78  E-value=1.1e-17  Score=128.93  Aligned_cols=135  Identities=31%  Similarity=0.430  Sum_probs=100.5

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      +++|++|.++|++||++|++|.++..++..++. .|++++|++|++.|+..|++++.||..++.++..+..+.+.+....
T Consensus        24 l~~Pl~~~~~I~~R~~~v~~~~~~~~l~~~l~~-~L~~~~Di~~~l~~~~~~~~~~~el~~l~~~l~~~~~l~~~l~~~~  102 (308)
T smart00533       24 LLQPLLDLKEINERLDAVEELVENPELRQKLRQ-LLKRIPDLERLLSRIERGRASPRDLLRLYDSLEGLKEIRQLLESLD  102 (308)
T ss_pred             HHhhCCCHHHHHHHHHHHHHHHhChHHHHHHHH-HHccCCcHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            468999999999999999999999999999999 9999999999999999999999999999999999999999997643


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHh-hhccccccccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIET-TIDIERFHSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~-~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                      ..    .....+..+.   ..+......+.. ..+.+....+.++.|++|+|++||++|+.++.
T Consensus       103 ~~----~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~s~~Ld~lr~~~~~  159 (308)
T smart00533      103 GP----LLGLLLKVIL---EPLLELLELLLELLNDDDPLEVNDGGLIKDGFDPELDELREKLEE  159 (308)
T ss_pred             cH----HHHHHHHhhc---cchHHHHHHHHHHhccCCcccccCCCeeCCCCCHHHHHHHHHHHH
Confidence            10    0011111111   111112222222 22333322213369999999999999998864

>KOG0219|consensus

Probab=99.72  E-value=5.7e-17  Score=135.25  Aligned_cols=137  Identities=39%  Similarity=0.596  Sum_probs=121.1

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      +.+|+++++.|++|||.|+.++++...+..++.+.|..+||+.|++.|+.  +++..|..++|+....++++..+|.+..
T Consensus       335 ~~qpL~~~~ri~~r~d~v~~l~~~~~~rq~L~~~lL~~~pdi~rl~~~l~--~~~L~d~~r~yq~~~~l~~~~~~l~~~~  412 (902)
T KOG0219|consen  335 LKQPLRDIDRINERHDLVEALVEDAEIRQKLRDDLLRRIPDISRLARRLM--KANLQDVNRIYQAAKLLPTVVQVLISLS  412 (902)
T ss_pred             hhcchHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHhhcChhHHHhhhhhh--hcchHHHHHHHHHHHHhHHHHHHHHhhh
Confidence            46899999999999999999999999999999989999999999999999  8899999999999999999999998754


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhccc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNLK  144 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~~~  144 (146)
                      .++..+    ...++......+.++..++++++|+++..+ +.|+||+.||++|.++|+.++.+
T Consensus       413 ~~~~~l----l~~~l~~~~~~~~kf~~~ve~t~D~da~ee-~ey~VR~eFdeeL~eLrq~LdeL  471 (902)
T KOG0219|consen  413 ESHNRL----LKSPLTEHLKKLEKFQEMVETTVDLDAEEE-NEYRVRVDFDEELQELREKLDEL  471 (902)
T ss_pred             hhhhhh----hhhhhhhhhhhHHHHHHHHHHHhhHhHHhc-CcEEEecccCHHHHHHHHHHHHH
Confidence            322222    333666666788999999999999999877 78999999999999999998865

>KOG0221|consensus

Probab=99.71  E-value=2.5e-16  Score=128.49  Aligned_cols=137  Identities=20%  Similarity=0.286  Sum_probs=120.5

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHh--CHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVN--NTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILES   78 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~--~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~   78 (146)
                      +.+|++|.++|..|+++|.+|+.  |.+....|.+ .|++++|+.-+++|+..|+++..+|-.+++++++...|.+++.+
T Consensus       289 f~nPttd~~~l~sR~~~i~~fl~~qNa~~~~~Ls~-~lgr~k~~~~~~~~~~sg~t~l~~W~~~~stv~~~~~i~~~~rs  367 (849)
T KOG0221|consen  289 FTNPTTDLGELSSRLDVIQFFLLPQNADMAQMLSR-LLGRIKNVPLILKRMKSGHTKLSDWQVLYSTVYSALGIRDACRS  367 (849)
T ss_pred             hcCCCCcHHHHHHHHHHHHHHhcchhhHHHHHHHH-HHhhcccHHHHHHHHhcCCceechHHHHHHHHHHHHHHHHHHHh
Confidence            35899999999999999999996  7788999999 99999999999999999999999999999999999999999988


Q ss_pred             hhhhhhhhhHHHHHHHHHH-hhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhccc
Q psy13391         79 LVQNVEASNLNTILSSLQS-LSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNLK  144 (146)
Q Consensus        79 ~~~~~~~~l~~~~l~~l~~-~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~~~  144 (146)
                      .+.      ...+...+.+ .+.++.+++.++.++||++.+..+|.+.|.+|+|++|||.|..|+-|
T Consensus       368 lp~------s~~~~~~~~~~~~~~l~eia~~~g~vIdF~~S~~~~r~Tv~~giD~elDE~r~~y~~l  428 (849)
T KOG0221|consen  368 LPQ------SIQLFRDIAQEFSDDLHEIASLIGKVIDFEGSLAENRFTVLPGIDPELDEKRRRYMGL  428 (849)
T ss_pred             Ccc------chhhhhHHHHHHHHHHHHHHHHhhheeccccccccceEEecCCCChHHHHHHHHHccc
Confidence            762      1334444433 34678999999999999998766688999999999999999999865

>PF05192 MutS_III: MutS domain III C-terminus

Probab=99.62  E-value=3.7e-15  Score=108.32  Aligned_cols=110  Identities=26%  Similarity=0.487  Sum_probs=92.7

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      +++|++|+++|++||++|++|.+|+.++..++. .|++++|+++++.|+..|++++.+|..++.++..+..+.+.+...-
T Consensus        42 l~~P~~d~~~I~~R~~~v~~~~~n~~~~~~~~~-~l~~~~di~~~l~~l~~~~~~~~~~~~l~~~l~~~~~i~~~~~~~~  120 (204)
T PF05192_consen   42 LLQPLTDIEEIEKRQDAVEEFLQNEELREELRS-ILKKIPDIERILKRLRSGRASPQDLLKLYKTLRSIIEIKKLLSERL  120 (204)
T ss_dssp             HHS-BS-HHHHHHHHHHHHHHHHTHHHHHHHHH-HHTTC-SHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHCTS
T ss_pred             HhCccchHHHHHHHHHHHHHHHHhhhHhhhhhh-hhhccchHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            368999999999999999999999999999999 9999999999999999999999999999999999999998865432


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhcccc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIER  117 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~  117 (146)
                      ..      .+.+..+.+.++++..+.+.|+.++|++.
T Consensus       121 ~~------~~~L~~l~~~l~~~~~l~~~i~~~id~~~  151 (204)
T PF05192_consen  121 ES------SPLLRKLLSSLPDFSELLDEIESTIDEDK  151 (204)
T ss_dssp             SS------THHHHHHHHHHCSHHHHHHHHHHHBHTS-
T ss_pred             cc------HHHHHHHHHhcccHHHHHHHHHHHHhcCc
Confidence            10      13566666666678999999999999964

; InterPro: IPR007696 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the core domain (domain 3) found in proteins of the MutS family. The core domain of MutS adopts a multi-helical structure comprised of two subdomains, which are interrupted by the clamp domain. Two of the helices in the core domain comprise the levers that extend towards the DNA. This domain is found associated with Pfam:PF00488, Pfam:PF05188, Pfam:PF01624 and Pfam:PF05190. The aligned region corresponds with domain III, which is central to the structure of Thermus aquaticus MutS as characterised in [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2O8F_A 3THW_A 3THX_A 2O8C_A 3THY_A 2O8E_A 2O8B_A 3THZ_A 2O8D_A 1FW6_A ....

>KOG0217|consensus

Probab=99.42  E-value=4.2e-12  Score=108.57  Aligned_cols=141  Identities=21%  Similarity=0.256  Sum_probs=97.4

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCC-HHHHHHHHHHHhhHHHHHHHHHhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAG-LKDCYRVYEGVSQLPKLISILESL   79 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~-~~dl~~l~~~l~~~~~i~~~l~~~   79 (146)
                      +++|++|.+.|++|||+|++|..++..+..+.. .|+++||+||++.|+..+..+ .+++..+..+|..+..+.+++...
T Consensus       583 l~~Pl~~~~~I~~R~dav~~l~~~~~~~~~~~e-~l~klPDlERlL~Rih~~~~~~~k~i~~f~rvLegfk~~~~~~~~~  661 (1125)
T KOG0217|consen  583 LMAPLCDKEDIKQRQDAVDSLGKAPMDRTKVGE-TLKKLPDLERLLVRIHNGGEKNKKKIADFIRVLEGFKEINKLLGSL  661 (1125)
T ss_pred             hhCcCCCHHHHHHHHHHHHHHhcCchhHHHHHH-HHhhCCcHHHHHHHHHhcCccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            579999999999999999999999999999999 999999999999999998877 666667766777776666666554


Q ss_pred             hhhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhc
Q psy13391         80 VQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSN  142 (146)
Q Consensus        80 ~~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~  142 (146)
                      .......-....+..+...++++..=......+++.....++|.+....|||.++|+.-+..+
T Consensus       662 ~~v~~~~~~~~~is~~~~~~p~~~~~i~~~~~af~r~~a~~eg~i~P~~Gfd~eyD~a~k~~~  724 (1125)
T KOG0217|consen  662 INVLKEGEGLRLISELLESMPNLSEEIENWTEAFDRVKAVKEGVIVPLEGFDEEYDEAMKRVD  724 (1125)
T ss_pred             HHHHHhhHHHHHHHHHhcCcchhhHHHHHHHHHHHHHHHhhcCccCCCccccHHHHHHhhHHH
Confidence            311000000122222222222333333444556665443333666667899999998766543

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=99.36  E-value=1.4e-11  Score=105.83  Aligned_cols=128  Identities=16%  Similarity=0.184  Sum_probs=105.5

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCC-CCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          2 KQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKK-AGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         2 ~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~-~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      ++|++|+++|++||+.|+.|..  .+...... .|++++|+++++.|+..|. .+|.|+..+.+++..+..+++.+....
T Consensus        34 l~P~~~~~~i~~~l~~~~e~~~--~~~~~~~~-~l~~~~Di~~~l~r~~~g~~l~~~eL~~i~~~l~~~~~l~~~l~~~~  110 (782)
T PRK00409         34 LDPETDFEEVEELLEETDEAAK--LLRLKGLP-PFEGVKDIDDALKRAEKGGVLSGDELLEIAKTLRYFRQLKRFIEDLE  110 (782)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHH--HHHhcCCC-CCCCCccHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4799999999999999999983  33445566 7999999999999999865 889999999999999999999987531


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                      ..  .  ..+.+..+...+..++.+.+.|..+||++       +.|++|+|++|+.+|+.++.
T Consensus       111 ~~--~--~~~~L~~~~~~l~~~~~l~~~i~~~id~~-------g~i~d~aS~eL~~iR~~~~~  162 (782)
T PRK00409        111 EE--E--ELPILEEWVAKIRTLPELEQEIHNCIDEE-------GEVKDSASEKLRGIRRQLRR  162 (782)
T ss_pred             cc--c--chhHHHHHHHcCcCcHHHHHHHHHHhCCC-------CEECCCCCHHHHHHHHHHHH
Confidence            00  0  03456666666778889999999999874       38999999999999998864

>TIGR01069 mutS2 MutS2 family protein

Probab=99.13  E-value=9.8e-10  Score=94.48  Aligned_cols=122  Identities=16%  Similarity=0.120  Sum_probs=101.9

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCC-CCHHH-HHHHHHHHhhHHHHHHHHHhh
Q psy13391          2 KQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKK-AGLKD-CYRVYEGVSQLPKLISILESL   79 (146)
Q Consensus         2 ~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~-~~~~d-l~~l~~~l~~~~~i~~~l~~~   79 (146)
                      +.|+++.++|++|++.|+.|.....     .- .|++++|+.+++.|+..|. +++.+ +..++.++..+..++..+...
T Consensus        34 l~P~~~~~~i~~~l~~~~e~~~~~~-----~~-~l~~~~di~~~l~r~~~g~~l~~~e~l~~i~~~l~~~~~l~~~l~~~  107 (771)
T TIGR01069        34 LKPPKSVEESKEIIIKLTALGSIEN-----NV-RFFGFEDIRELLKRAELGGIVKGLEYILVIQNALKTVKHLKVLSEHV  107 (771)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhhc-----cC-CcCCCccHHHHHHHHhcCCcCChHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4799999999999999999987432     44 7999999999999999877 78866 999999999999999988653


Q ss_pred             hhhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         80 VQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        80 ~~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                      . .      .+.+..+...+..++.+...|.++||++       +.|+++++++|+++|+..+.
T Consensus       108 ~-~------~~~L~~~~~~l~~~~~l~~~i~~~id~~-------g~i~d~aS~~L~~ir~~~~~  157 (771)
T TIGR01069       108 L-D------LEILFHLRLNLITLPPLENDIIACIDDD-------GKVKDGASEELDAIRESLKA  157 (771)
T ss_pred             c-c------chHHHHHHhcCCCcHHHHHHHHHHhCCC-------CEECCCcCHHHHHHHHHHHH
Confidence            1 0      2445555556677889999999999864       38999999999999998754

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG0220|consensus

Probab=98.91  E-value=2.2e-08  Score=83.75  Aligned_cols=133  Identities=14%  Similarity=0.208  Sum_probs=107.2

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCC---------CCHHHHHHHHHHHhhHHH
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKK---------AGLKDCYRVYEGVSQLPK   71 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~---------~~~~dl~~l~~~l~~~~~   71 (146)
                      +.+|++|...|+.|+++++.+..++.+...++. .+|..+|+++.++++..-.         +.......|+.++..+..
T Consensus       303 ilqpl~d~~ti~~rleaiqeL~a~~~L~~~Lr~-~~k~~~dld~~~s~~~~~~~~~~i~~~~s~I~~~~~Lk~tL~lv~~  381 (867)
T KOG0220|consen  303 ILQPLTDIETINMRLEAIQELLADEELFFGLRS-VIKRFLDLDQLLSVLVQIPTQDTVNAAESKINNLIYLKHTLELVDP  381 (867)
T ss_pred             hcccccchhhhhHHHHHHHHHhcCchHhhhhHH-HHhhhhhHHHHHHHHHhhhhHHhhhcchhHHHHHHHHHHHHHHHHH
Confidence            479999999999999999999999999999999 9999999999999987532         234567788888888888


Q ss_pred             HHHHHHhhhhhhhhhhHHHHHHHHHHhh--hhHHHHHHHHHhhhccccc--------cccCcceeCCCCCHhHHHHHHHh
Q psy13391         72 LISILESLVQNVEASNLNTILSSLQSLS--NDLAKFQEMIETTIDIERF--------HSEREFFIRPSFDEDLQGKAIKS  141 (146)
Q Consensus        72 i~~~l~~~~~~~~~~l~~~~l~~l~~~~--~~~~~l~~~I~~~id~~~~--------~~~~~~~Ik~g~d~~Ld~lr~~~  141 (146)
                      ++..+.+..        ...+....+.+  +.+..+.+.|.+.|+++.+        ..+++|.+|.+.+..||-.|+.|
T Consensus       382 ~~~al~~~~--------s~~~~e~~~~~~~~r~~~i~~~i~e~I~dd~l~a~~~l~~~~qkcyAvks~i~~~LDiaR~ty  453 (867)
T KOG0220|consen  382 LKIALKNCN--------SNLLREYYGSFKDKRFGIILEKIKEVINDDALYAKGCLNLRTQKCYAVKSNINGFLDIARRTY  453 (867)
T ss_pred             HHHHHhhch--------hHHHHHHHHHhcchHHHHHHHHHHHHhhHHHHhccchhhhhccceeeecccccHHHHHHHHHH
Confidence            888776543        23334444433  4578889999999998763        33478999999999999999987


Q ss_pred             c
Q psy13391        142 N  142 (146)
Q Consensus       142 ~  142 (146)
                      -
T Consensus       454 ~  454 (867)
T KOG0220|consen  454 T  454 (867)
T ss_pred             H
Confidence            4

>KOG0218|consensus

Probab=98.63  E-value=2.9e-07  Score=77.49  Aligned_cols=70  Identities=24%  Similarity=0.287  Sum_probs=59.8

Q ss_pred             CCCCCCChHHHHHHHHHHHHHH---hCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCH-HHHHHHHHHHhhHHH
Q psy13391          1 MKQPLKDLDAIVERHAAVNILV---NNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGL-KDCYRVYEGVSQLPK   71 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~---~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~-~dl~~l~~~l~~~~~   71 (146)
                      +.+||+|...|++|+|+|+++.   ++....+.+++ .|.+.||+.|-++||..|+++| +++..+.+++..+..
T Consensus       503 vtkPLvd~~~I~eRLDAVeeitshssnS~vf~si~~-~l~rlpDl~rgL~rIy~~tCtp~~eff~vlk~iy~a~s  576 (1070)
T KOG0218|consen  503 VTKPLVDVHQIEERLDAVEEITSHSSNSIVFESINQ-MLNRLPDLLRGLNRIYYGTCTPRKEFFFVLKQIYSAVS  576 (1070)
T ss_pred             HhcccccHHHHHHHHHHHHHHHhcccchHHHHHHHH-HHHhCcHhHhhHHHHhcccCCcHHHHHHHHHHHHHHHH
Confidence            4689999999999999999994   35558999999 9999999999999999999999 777777666655443

>COG1193 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]

Probab=96.34  E-value=0.041  Score=47.92  Aligned_cols=121  Identities=17%  Similarity=0.191  Sum_probs=95.0

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcC-CCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          2 KQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRK-KAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         2 ~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~-~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      +.|.++.+.|+..++-++.+...... ...-  .++++.|+.-.+.|+..| ...+.++..+...+.....++..++...
T Consensus        32 l~p~~~~~~i~~~~~e~~~~~~~~~~-~g~~--~~~~l~~i~~~l~~~e~g~~l~~~el~~i~~~l~~~~~lkr~~~~~e  108 (753)
T COG1193          32 LKPRTDLELIEEELSETAEALDILED-EGLP--PLGGLNDVSEALGRLEKGGRLHVEELLEISDFLRGFRALKRAIKKLE  108 (753)
T ss_pred             cCccccHHHHHHHHHHHHHHHHHHhc-cCCC--CchhhhhhHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            46999999999999999988864332 2222  488899999999999854 4789999999999999999999888754


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHh
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKS  141 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~  141 (146)
                      .       ..  ......+..++.+...|..++|.+       ..|.+..+++|+.+|...
T Consensus       109 ~-------~~--~~~~~~~~~~~~l~~~i~~~id~~-------g~i~d~as~~l~~ir~~l  153 (753)
T COG1193         109 R-------IK--RTLALALIELSDLELEINIPIDDD-------GLIKDRASFELDAIRRQL  153 (753)
T ss_pred             h-------HH--HHHHHhhhcchHHHHHHhhhhccc-------ccccccccHHHHHHHhhh
Confidence            2       11  333445567888889999888864       388889999999998765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	146
2o8b_A	934	Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T M		6e-24
2o8e_A	934	Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR,		6e-24

>pdb|2O8B|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR Length = 934

Iteration: 1
 Score =  106 bits (264), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 56/134 (41%), Positives = 81/134 (60%), Gaps = 1/134 (0%)
Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405
Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465
Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH ADP BOUND TO Msh2 Only Length = 934

Iteration: 1
 Score =  106 bits (264), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 56/134 (41%), Positives = 81/134 (60%), Gaps = 1/134 (0%)
Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405
Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465
Query: 121 EREFFIRPSFDEDL 134
             EF ++PSFD +L
Sbjct: 466 -HEFLVKPSFDPNL 478

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	146
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	3e-33
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	8e-14
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	2e-12
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	3e-12
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	7e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A* Length = 934

 Score =  122 bits (307), Expect = 3e-33
 Identities = 58/146 (39%), Positives = 87/146 (59%), Gaps = 2/146 (1%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +KQPL D + I ER   V   V + E R  L E  LR  PD+  LA +  R+ A L+DCY
Sbjct: 346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCY 405

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           R+Y+G++QLP +I  LE      +   L   ++ L  L +D +KFQEMIETT+D+++  +
Sbjct: 406 RLYQGINQLPNVIQALEKHEGKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN 465

Query: 121 EREFFIRPSFDEDLQG-KAIKSNLKS 145
             EF ++PSFD +L   + I ++L+ 
Sbjct: 466 H-EFLVKPSFDPNLSELREIMNDLEK 490

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B* Length = 918

 Score = 66.5 bits (163), Expect = 8e-14
 Identities = 25/135 (18%), Positives = 54/135 (40%), Gaps = 8/135 (5%)

Query: 3   QPLKDLDAIVERHAAVN-ILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYR 61
           QPL  L  I  R  AV+ +L + +     +  + LR LPD++     I  KK   ++ + 
Sbjct: 366 QPLLKLREINARLDAVSEVLHSESSVFGQIENH-LRKLPDIERGLCSIYHKKCSTQEFFL 424

Query: 62  VYEGVSQLPKLIS-ILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
           + + +  L      I+ ++  ++++  L T++  +  L        E     ++ +    
Sbjct: 425 IVKTLYHLKSEFQAIIPAVNSHIQSDLLRTVILEIPELL-SPV---EHYLKILNEQAAKV 480

Query: 121 EREF-FIRPSFDEDL 134
             +    +   D  L
Sbjct: 481 GDKTELFKDLSDFPL 495

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A* Length = 800

 Score = 62.1 bits (152), Expect = 2e-12
 Identities = 26/133 (19%), Positives = 59/133 (44%), Gaps = 13/133 (9%)

Query: 3   QPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRV 62
            P++D   ++ER   +  L +       L    LR + D++ +  R+  + A  +D  R+
Sbjct: 313 MPVRDTRVLLERQQTIGALQDF---TAGLQP-VLRQVGDLERILARLALRTARPRDLARM 368

Query: 63  YEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSER 122
                QLP+L + LE++    +++ +  +   +   + +L    +++E  I        R
Sbjct: 369 RHAFQQLPELRAQLETV----DSAPVQALREKMGEFA-ELR---DLLERAIIDTPPVLVR 420

Query: 123 E-FFIRPSFDEDL 134
           +   I   ++E+L
Sbjct: 421 DGGVIASGYNEEL 433

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A* Length = 765

 Score = 61.7 bits (151), Expect = 3e-12
 Identities = 32/135 (23%), Positives = 51/135 (37%), Gaps = 19/135 (14%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           ++ PL D   +  R   V   V     R  +    L  L D++ LA R+   +A  KD  
Sbjct: 292 LRHPLLDRGPLEARLDRVEGFVREGALREGVRR-LLYRLADLERLATRLELGRASPKDLG 350

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
            +   +  LP+L ++L       E   L            DL+  +E +E  +  +    
Sbjct: 351 ALRRSLQILPELRALLG------EEVGL-----------PDLSPLKEELEAALVEDPPLK 393

Query: 121 ERE-FFIRPSFDEDL 134
             E   IR  +D DL
Sbjct: 394 VSEGGLIREGYDPDL 408

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B* Length = 1022

 Score = 60.8 bits (148), Expect = 7e-12
 Identities = 28/159 (17%), Positives = 50/159 (31%), Gaps = 28/159 (17%)

Query: 3   QPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRK---------- 52
            PL +  AI +R  A+  L+   +    + E  L+ LPD++ L  +I             
Sbjct: 442 APLCNHYAINDRLDAIEDLMVVPDKISEVVEL-LKKLPDLERLLSKIHNVGSPLKSQNHP 500

Query: 53  -------------KAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLS 99
                        K  + D     EG   + K+I I+E +    ++  L  ++S      
Sbjct: 501 DSRAIMYEETTYSKKKIIDFLSALEGFKVMCKIIGIMEEVADGFKSKILKQVISLQTKNP 560

Query: 100 ND-LAKFQEMIETTIDIERFHSERE---FFIRPSFDEDL 134
                     +            R+      +  FD D 
Sbjct: 561 EGRFPDLTVELNRWDTAFDHEKARKTGLITPKAGFDSDY 599

>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 = 38.3 bits (88), Expect = 5e-04
 Identities = 23/128 (17%), Positives = 51/128 (39%), Gaps = 18/128 (14%)

Query: 11  IVERHAAV-NILVNNTEARMNLHEYALRGLPDMQS---LAMRIGRKKAGLKDCYRVYEGV 66
           +  R   V + L   T   ++L ++    L   +    L   +  +   L       E +
Sbjct: 270 LTTRFKQVTDFLSAATTTHISL-DHHSMTLTPDEVKSLLLKYLDCRPQDLPR-----EVL 323

Query: 67  SQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFI 126
           +  P+ +SI+   +++     L T   + + ++ D  K   +IE+++++      R+ F 
Sbjct: 324 TTNPRRLSIIAESIRD----GLATW-DNWKHVNCD--KLTTIIESSLNVLEPAEYRKMFD 376

Query: 127 RPS-FDED 133
           R S F   
Sbjct: 377 RLSVFPPS 384

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	146
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	99.9
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	99.83
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	99.78
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	99.76
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	99.56

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=99.90  E-value=1.6e-23  Score=180.26  Aligned_cols=141  Identities=40%  Similarity=0.673  Sum_probs=120.6

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++||+|+++|++|||+|++|+++..++..++...|++++|++|+++|+..|+++|+||..+++++..++.+.+.+....
T Consensus       346 l~~Pl~d~~~I~~R~d~Ve~l~~~~~~~~~l~~~~L~~i~DleRl~~ri~~~~~~~~dl~~l~~~l~~~~~l~~~l~~~~  425 (934)
T 3thx_A          346 IKQPLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCYRLYQGINQLPNVIQALEKHE  425 (934)
T ss_dssp             HHSCBCCHHHHHHHHHHHHHHHSCHHHHHHHHTTTGGGCCCHHHHHHHHHTTCCCHHHHHHHHHHHTTHHHHHHHHHHTC
T ss_pred             HhCcCCCHHHHHHHHHHHHHHhhChHHHHHHHHHHhcCCCCHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            46899999999999999999999999999999624999999999999999999999999999999999999999997643


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccccccCcceeCCCCCHhHHHHHHHhc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHSEREFFIRPSFDEDLQGKAIKSN  142 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g~d~~Ld~lr~~~~  142 (146)
                      ...++.+...++.++.+.+..+..+.++|+++||++++.+ |.++|++|||++||++|+.++
T Consensus       426 ~~~~~~l~~~~~~~l~~~~~~l~~~~~~i~~~i~~~~~~~-g~~~i~~g~~~~Ld~lr~~~~  486 (934)
T 3thx_A          426 GKHQKLLLAVFVTPLTDLRSDFSKFQEMIETTLDMDQVEN-HEFLVKPSFDPNLSELREIMN  486 (934)
T ss_dssp             CSSSTTGGGGTHHHHHHHHHHHHHHHHHHHTTBCTTGGGT-TCCCBCTTSSHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcchhhc-CCceeCCCCCHHHHHHHHHHH
Confidence            1112233233456666666788999999999999998755 667999999999999999875

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=99.83  E-value=3.1e-20  Score=158.01  Aligned_cols=130  Identities=20%  Similarity=0.333  Sum_probs=115.0

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++|++|.++|++||++|++|++   ++..++. .|++++|++|+++|+..|+++|+||..+++++..++.+++.+....
T Consensus       311 l~~Pl~d~~~I~~R~~~v~~~~~---~~~~l~~-~L~~~~Dler~l~r~~~~~~~~~dl~~l~~~l~~~~~l~~~l~~~~  386 (800)
T 1wb9_A          311 LHMPVRDTRVLLERQQTIGALQD---FTAGLQP-VLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVD  386 (800)
T ss_dssp             HHSCBCCHHHHHHHHHHHHHTGG---GHHHHHH-HHHTTCSHHHHHHHHHHTCCCHHHHHHHHHHHTTHHHHHHHHHSCC
T ss_pred             hhCCCCCHHHHHHHHHHHHHHHH---HHHHHHH-HhcCCccHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            46899999999999999999998   7889998 9999999999999999999999999999999999999999987643


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccc--cccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERF--HSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~--~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                              .+.+..+...+..++.+.+.|+++|+++++  ..+| ++|++|||++||++|+.++.
T Consensus       387 --------~~~L~~l~~~l~~~~~l~~~i~~~i~~~~~~~~~~~-~~I~~g~~~eLd~lr~~~~~  442 (800)
T 1wb9_A          387 --------SAPVQALREKMGEFAELRDLLERAIIDTPPVLVRDG-GVIASGYNEELDEWRALADG  442 (800)
T ss_dssp             --------CHHHHHHHHHHCCCHHHHHHHHHHBCSSCCSCSTTC-CCBCTTSCHHHHHHHHHHHH
T ss_pred             --------cHHHHHHHHhcccHHHHHHHHHHHhCcCchhhhhcC-CeeCCCCCHHHHHHHHHHHH
Confidence                    345666666778899999999999999863  3335 59999999999999998753

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=99.78  E-value=1.2e-18  Score=147.70  Aligned_cols=124  Identities=25%  Similarity=0.298  Sum_probs=108.1

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++|++|.++|++||++|++|.++..++..++. .|++++|++|+++|+..|+++|+||..+++++..++.++..+. . 
T Consensus       292 l~~Pl~d~~~I~~R~~~V~~l~~~~~~~~~l~~-~L~~~~Dler~l~r~~~~~~~~~dl~~l~~~l~~~~~l~~~l~-l-  368 (765)
T 1ewq_A          292 LRHPLLDRGPLEARLDRVEGFVREGALREGVRR-LLYRLADLERLATRLELGRASPKDLGALRRSLQILPELRALLG-E-  368 (765)
T ss_dssp             HHSCCCCHHHHHHHHHHHHHHHHCHHHHHHHHH-HHTTCCCHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHC-T-
T ss_pred             hhCcCCCHHHHHHHHHHHHHHHhCHHHHHHHHH-HHhcCCCHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHH-H-
Confidence            468999999999999999999999999999999 9999999999999999999999999999999999999887764 1 


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccc--cccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERF--HSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~--~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                                     .+.+..++.+.+.|+++|+++++  ..+| ++|++|||++||++|+.++.
T Consensus       369 ---------------~~~l~~~~~l~~~i~~~i~~~~~~~~~~~-~~i~~g~~~~Ld~lr~~~~~  417 (765)
T 1ewq_A          369 ---------------EVGLPDLSPLKEELEAALVEDPPLKVSEG-GLIREGYDPDLDALRAAHRE  417 (765)
T ss_dssp             ---------------TSCCCCCHHHHHHHHHHBCSSCCSCTTSS-CCBCTTSCHHHHHHHHHHHH
T ss_pred             ---------------HhccccHHHHHHHHHHHhcccchhhhccC-CccCCCCCHHHHHHHHHHHH
Confidence                           11334577889999999998864  3335 59999999999999987753

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=99.76  E-value=8.5e-19  Score=152.37  Aligned_cols=137  Identities=23%  Similarity=0.267  Sum_probs=103.4

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhc-CCC-------------------CH---H
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGR-KKA-------------------GL---K   57 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~-~~~-------------------~~---~   57 (146)
                      |++||+|+++|++|||+|++|++++.++..++. .|+++||+||+++|+.. |++                   ++   +
T Consensus       440 L~~PL~d~~~I~~RldaVe~l~~~~~~~~~l~~-~L~~i~DlERll~Ri~~~~~~~~~~~~~~~~~i~~~~~~~~~~~l~  518 (1022)
T 2o8b_B          440 LCAPLCNHYAINDRLDAIEDLMVVPDKISEVVE-LLKKLPDLERLLSKIHNVGSPLKSQNHPDSRAIMYEETTYSKKKII  518 (1022)
T ss_dssp             HHSCBCCHHHHHHHHHHHHHHHTCHHHHHHHHH-HHTTCCCHHHHHHHHHHHHCHHHHHHCGGGGCCCSCHHHHHHHHHH
T ss_pred             HhCccCCHHHHHHHHHHHHHHHhChHHHHHHHH-HHhcCccHHHHHHHHHhcCCcccccccchhhhhhhhhhccchhhHH
Confidence            468999999999999999999999999999999 99999999999999998 442                   34   4


Q ss_pred             HHHHHHHHHhhHHHHHHHHHhhhhhhhhhhHHHHHHHHHH--------hhhhHHHHHHHHHhhhccccccccCcceeCCC
Q psy13391         58 DCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQS--------LSNDLAKFQEMIETTIDIERFHSEREFFIRPS  129 (146)
Q Consensus        58 dl~~l~~~l~~~~~i~~~l~~~~~~~~~~l~~~~l~~l~~--------~~~~~~~l~~~I~~~id~~~~~~~~~~~Ik~g  129 (146)
                      |++.+.+++..++.+...+......    ..+..+..+..        .++.+.++...|+++||++...++|.+.+++|
T Consensus       519 ~l~~~l~~l~~~~~i~~~l~~~~~~----~~s~lL~~~~~~~~~~~~~~~~~l~~~~~~~~~~id~~~~~~~g~i~~~~g  594 (1022)
T 2o8b_B          519 DFLSALEGFKVMCKIIGIMEEVADG----FKSKILKQVISLQTKNPEGRFPDLTVELNRWDTAFDHEKARKTGLITPKAG  594 (1022)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTT----CCCHHHHHHTSBTTTSSSSCBCCCHHHHHHHHTTSCHHHHHHSCCCCCTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcc----cCcHHHHHHHHhhccccccchHHHHHHHHHHHHHhCchhhhcCCcEeeCCC
Confidence            5555555577778888777642100    11344555532        23566777778889999887655465556999


Q ss_pred             CCHhHHHHHHHhc
Q psy13391        130 FDEDLQGKAIKSN  142 (146)
Q Consensus       130 ~d~~Ld~lr~~~~  142 (146)
                      ||++||++|+.+.
T Consensus       595 ~~~~ld~~r~~~~  607 (1022)
T 2o8b_B          595 FDSDYDQALADIR  607 (1022)
T ss_dssp             C-CHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999998654

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=99.56  E-value=1.3e-14  Score=125.01  Aligned_cols=77  Identities=23%  Similarity=0.355  Sum_probs=69.2

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHh-CHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHH-HHHHHHHh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVN-NTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLP-KLISILES   78 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~-~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~-~i~~~l~~   78 (146)
                      |++||+|+++|++|||+|++|+. +..++..++. .|++++|+||+++|+..|+++|+|+..++++|..++ .+...+..
T Consensus       364 l~~PL~d~~~I~~R~daVe~l~~~~~~~~~~l~~-~L~~i~DleRll~ri~~~~~~~~dl~~l~~~l~~l~~~l~~~l~~  442 (918)
T 3thx_B          364 VTQPLLKLREINARLDAVSEVLHSESSVFGQIEN-HLRKLPDIERGLCSIYHKKCSTQEFFLIVKTLYHLKSEFQAIIPA  442 (918)
T ss_dssp             HHSCBCCHHHHHHHHHHHHHHHSCCCTHHHHHHH-TTTTCCCHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCcCCCHHHHHHHHHHHHHHHhCCcHHHHHHHH-HHccCccHHHHHHHhccCcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46899999999999999999984 6678999999 999999999999999999999999999999999887 56655543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	146
d1ewqa1	275	a.113.1.1 (A:267-541) DNA repair protein MutS, dom	7e-08
d1wb9a1	297	a.113.1.1 (A:270-566) DNA repair protein MutS, dom	5e-06

>d1ewqa1 a.113.1.1 (A:267-541) DNA repair protein MutS, domain III {Thermus aquaticus [TaxId: 271]} Length = 275

class: All alpha proteins
fold: DNA repair protein MutS, domain III
superfamily: DNA repair protein MutS, domain III
family: DNA repair protein MutS, domain III
domain: DNA repair protein MutS, domain III
species: Thermus aquaticus [TaxId: 271]

 Score = 47.6 bits (112), Expect = 7e-08
 Identities = 31/136 (22%), Positives = 50/136 (36%), Gaps = 19/136 (13%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           ++ PL D   +  R   V   V     R  +    L  L D++ LA R+   +A  KD  
Sbjct: 26  LRHPLLDRGPLEARLDRVEGFVREGALREGVRRL-LYRLADLERLATRLELGRASPKDLG 84

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERFHS 120
            +   +  LP+L ++L   V                    DL+  +E +E  +  +    
Sbjct: 85  ALRRSLQILPELRALLGEEVGL-----------------PDLSPLKEELEAALVEDPPLK 127

Query: 121 ERE-FFIRPSFDEDLQ 135
             E   IR  +D DL 
Sbjct: 128 VSEGGLIREGYDPDLD 143

>d1wb9a1 a.113.1.1 (A:270-566) DNA repair protein MutS, domain III {Escherichia coli [TaxId: 562]} Length = 297

class: All alpha proteins
fold: DNA repair protein MutS, domain III
superfamily: DNA repair protein MutS, domain III
family: DNA repair protein MutS, domain III
domain: DNA repair protein MutS, domain III
species: Escherichia coli [TaxId: 562]

 Score = 42.3 bits (98), Expect = 5e-06
 Identities = 26/134 (19%), Positives = 59/134 (44%), Gaps = 13/134 (9%)

Query: 1   MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCY 60
           +  P++D   ++ER   +  L + T     +    LR + D++ +  R+  + A  +D  
Sbjct: 42  LHMPVRDTRVLLERQQTIGALQDFTAGLQPV----LRQVGDLERILARLALRTARPRDLA 97

Query: 61  RVYEGVSQLPKLISILESLVQNVEASNLNTILSSLQSLSNDLAKFQEMIETTI-DIERFH 119
           R+     QLP+L + LE++         +  + +L+    + A+ ++++E  I D     
Sbjct: 98  RMRHAFQQLPELRAQLETVD--------SAPVQALREKMGEFAELRDLLERAIIDTPPVL 149

Query: 120 SEREFFIRPSFDED 133
                 I   ++E+
Sbjct: 150 VRDGGVIASGYNEE 163

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	146
d1ewqa1	275	DNA repair protein MutS, domain III {Thermus aquat	99.86
d1wb9a1	297	DNA repair protein MutS, domain III {Escherichia c	99.81

>d1ewqa1 a.113.1.1 (A:267-541) DNA repair protein MutS, domain III {Thermus aquaticus [TaxId: 271]}

class: All alpha proteins
fold: DNA repair protein MutS, domain III
superfamily: DNA repair protein MutS, domain III
family: DNA repair protein MutS, domain III
domain: DNA repair protein MutS, domain III
species: Thermus aquaticus [TaxId: 271]

Probab=99.86  E-value=1.8e-21  Score=144.49  Aligned_cols=124  Identities=26%  Similarity=0.315  Sum_probs=104.3

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++|++|+++|++|||+|++|.+++.++..++. .|++++|++|+++|+..|+++|.+|..++.++..+..+...+....
T Consensus        26 l~~Pl~d~~~I~~R~d~Ve~l~~~~~~~~~l~~-~L~~i~Dler~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~  104 (275)
T d1ewqa1          26 LRHPLLDRGPLEARLDRVEGFVREGALREGVRR-LLYRLADLERLATRLELGRASPKDLGALRRSLQILPELRALLGEEV  104 (275)
T ss_dssp             HHSCCCCHHHHHHHHHHHHHHHHCHHHHHHHHH-HHTTCCCHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHCTTS
T ss_pred             HhCccCCHHHHHHHHHHHHHHHhChhhHHHHHH-HHhccchhHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHHhhc
Confidence            468999999999999999999999999999999 9999999999999999999999999999999999999998886532


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccc--cccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERF--HSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~--~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                      .                 .+.+..+.+.|..++..+..  .+++ ++|++|+|++||++++.++.
T Consensus       105 ~-----------------~~~l~~l~~~i~~~i~~~~~~~~~~~-~~i~~g~~~~ld~~~~~~~~  151 (275)
T d1ewqa1         105 G-----------------LPDLSPLKEELEAALVEDPPLKVSEG-GLIREGYDPDLDALRAAHRE  151 (275)
T ss_dssp             C-----------------CCCCHHHHHHHHHHBCSSCCSCTTSS-CCBCTTSCHHHHHHHHHHHH
T ss_pred             c-----------------ccHHHHHHHHHHHHHhhCcHhhcccc-CEeCCCCCHHHHHHHHHHHh
Confidence            1                 11234455667777766542  3324 69999999999999998763

>d1wb9a1 a.113.1.1 (A:270-566) DNA repair protein MutS, domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA repair protein MutS, domain III
superfamily: DNA repair protein MutS, domain III
family: DNA repair protein MutS, domain III
domain: DNA repair protein MutS, domain III
species: Escherichia coli [TaxId: 562]

Probab=99.81  E-value=7.7e-20  Score=136.67  Aligned_cols=131  Identities=20%  Similarity=0.319  Sum_probs=106.3

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhCHHHHHHHHHHhhCCCCCHHHHHHHHhcCCCCHHHHHHHHHHHhhHHHHHHHHHhhh
Q psy13391          1 MKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLV   80 (146)
Q Consensus         1 l~~Pl~d~~~I~~R~d~Ve~f~~~~~l~~~lr~~~Lk~i~DleRi~~ri~~~~~~~~dl~~l~~~l~~~~~i~~~l~~~~   80 (146)
                      |++|++|+++|++|||+|++|.++   ...++. .|++++|++|+++|+..|+++|.+|..++.++..+..+.+.+....
T Consensus        42 Ll~Pl~d~~~I~~R~d~Ve~l~~~---~~~l~~-~L~~l~Dierl~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (297)
T d1wb9a1          42 LHMPVRDTRVLLERQQTIGALQDF---TAGLQP-VLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVD  117 (297)
T ss_dssp             HHSCBCCHHHHHHHHHHHHHTGGG---HHHHHH-HHHTTCSHHHHHHHHHHTCCCHHHHHHHHHHHTTHHHHHHHHHSCC
T ss_pred             HhCccCCHHHHHHHHHHHHHHHHh---HHHHHH-HHhccchHHHHHHHHHHHhhchhHHHHHHHHHHhhhhHHHHhhhcc
Confidence            468999999999999999999865   668998 9999999999999999999999999999999999999988877543


Q ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHhhhccccc-cccCcceeCCCCCHhHHHHHHHhcc
Q psy13391         81 QNVEASNLNTILSSLQSLSNDLAKFQEMIETTIDIERF-HSEREFFIRPSFDEDLQGKAIKSNL  143 (146)
Q Consensus        81 ~~~~~~l~~~~l~~l~~~~~~~~~l~~~I~~~id~~~~-~~~~~~~Ik~g~d~~Ld~lr~~~~~  143 (146)
                      .        ............+..+.+.|+.+|+.+.. ....+++|++|++++||++++.++.
T Consensus       118 ~--------~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~i~~g~~~~ld~l~~~~~~  173 (297)
T d1wb9a1         118 S--------APVQALREKMGEFAELRDLLERAIIDTPPVLVRDGGVIASGYNEELDEWRALADG  173 (297)
T ss_dssp             C--------HHHHHHHHHHCCCHHHHHHHHHHBCSSCCSCSTTCCCBCTTSCHHHHHHHHHHHH
T ss_pred             c--------hhhhhhhccccchhhHHHHHHHHHhccChhhhccCCeeCCCCCchHHHHHHHHHH
Confidence            1        12222223344567788889998876653 2223469999999999999998864