BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy14498
(171 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EQQ|A Chain A, Single Stranded Dna Binding Protein And Ssdna Complex
pdb|1EQQ|B Chain B, Single Stranded Dna Binding Protein And Ssdna Complex
pdb|1EQQ|C Chain C, Single Stranded Dna Binding Protein And Ssdna Complex
pdb|1EQQ|D Chain D, Single Stranded Dna Binding Protein And Ssdna Complex
Length = 178
Score = 152 bits (385), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 68/116 (58%), Positives = 93/116 (80%), Gaps = 5/116 (4%)
Query: 1 MAS--VNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITF 58
MAS VNKVI++GNLG+DPE RYM NG AV N+++AT+E+WRDK +GE +E TEWHR+
Sbjct: 1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVL 60
Query: 59 YRKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIAD---NMQMLGSR 111
+ KLA++ +YL+KGSQ+YIEG+L+TRKWT++ G ++Y TEV+ + MQMLG R
Sbjct: 61 FGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 116
>pdb|1KAW|A Chain A, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|B Chain B, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|C Chain C, Structure Of Single Stranded Dna Binding Protein (Ssb)
pdb|1KAW|D Chain D, Structure Of Single Stranded Dna Binding Protein (Ssb)
Length = 135
Score = 150 bits (380), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 65/112 (58%), Positives = 89/112 (79%), Gaps = 3/112 (2%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
VNKVI++GNLG+DPE RYM NG AV N+++AT+E+WRDK +GE +E TEWHR+ + KL
Sbjct: 4 GVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKL 63
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEV---IADNMQMLGSR 111
A++ +YL+KGSQ+YIEG+L+TRKWT++ G ++Y TEV + MQMLG R
Sbjct: 64 AEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 115
>pdb|1QVC|A Chain A, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
pdb|1QVC|B Chain B, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
pdb|1QVC|C Chain C, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
pdb|1QVC|D Chain D, Crystal Structure Analysis Of Single Stranded Dna Binding
Protein (Ssb) From E.Coli
Length = 145
Score = 150 bits (380), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 65/112 (58%), Positives = 90/112 (80%), Gaps = 3/112 (2%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
VNKVI++GNLG+DPE RYM NG AV N+++AT+E+WRDK +GE +E TEWHR+ + KL
Sbjct: 4 GVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKL 63
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIAD---NMQMLGSR 111
A++ +YL+KGSQ+YIEG+L+TRKWT++ G ++Y TEV+ + MQMLG R
Sbjct: 64 AEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 115
>pdb|1EYG|A Chain A, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|B Chain B, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|C Chain C, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
pdb|1EYG|D Chain D, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
Bound To Two 35-Mer Single Strand Dnas
Length = 116
Score = 150 bits (380), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 68/116 (58%), Positives = 93/116 (80%), Gaps = 5/116 (4%)
Query: 1 MAS--VNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITF 58
MAS VNKVI++GNLG+DPE RYM NG AV N+++AT+E+WRDK +GE +E TEWHR+
Sbjct: 1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVL 60
Query: 59 YRKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIAD---NMQMLGSR 111
+ KLA++ +YL+KGSQ+YIEG+L+TRKWT++ G ++Y TEV+ + MQMLG R
Sbjct: 61 FGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 116
>pdb|3TQY|A Chain A, Structure Of A Single-Stranded Dna-Binding Protein (Ssb),
From Coxiella Burnetii
pdb|3TQY|B Chain B, Structure Of A Single-Stranded Dna-Binding Protein (Ssb),
From Coxiella Burnetii
pdb|3TQY|C Chain C, Structure Of A Single-Stranded Dna-Binding Protein (Ssb),
From Coxiella Burnetii
pdb|3TQY|D Chain D, Structure Of A Single-Stranded Dna-Binding Protein (Ssb),
From Coxiella Burnetii
Length = 158
Score = 146 bits (369), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 65/105 (61%), Positives = 85/105 (80%)
Query: 4 VNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKLA 63
VNKVI+IGNLG+DPE RY NG+AV NV++AT+ WRDK +GE +E TEWHRI F+ +LA
Sbjct: 8 VNKVILIGNLGQDPEVRYTPNGNAVANVTLATSTTWRDKQTGELQERTEWHRIAFFNRLA 67
Query: 64 QIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
+IV +YL+KGS+IYIEG L+TRKW +K GV++Y TE+IA+ L
Sbjct: 68 EIVGEYLRKGSKIYIEGSLRTRKWQDKNGVDRYTTEIIANEXHXL 112
>pdb|1SRU|A Chain A, Crystal Structure Of Full Length E. Coli Ssb Protein
pdb|1SRU|B Chain B, Crystal Structure Of Full Length E. Coli Ssb Protein
pdb|1SRU|C Chain C, Crystal Structure Of Full Length E. Coli Ssb Protein
pdb|1SRU|D Chain D, Crystal Structure Of Full Length E. Coli Ssb Protein
Length = 113
Score = 146 bits (368), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 66/113 (58%), Positives = 91/113 (80%), Gaps = 5/113 (4%)
Query: 1 MAS--VNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITF 58
MAS VNKVI++GNLG+DPE RYM NG AV N+++AT+E+WRDK +GE +E TEWHR+
Sbjct: 1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVL 60
Query: 59 YRKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIAD---NMQML 108
+ KLA++ +YL+KGSQ+YIEG+L+TRKWT++ G ++Y TEV+ + MQML
Sbjct: 61 FGKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQML 113
>pdb|3PGZ|A Chain A, Crystal Structure Of A Single Strand Binding Protein (Ssb)
From Bartonella Henselae
pdb|3PGZ|B Chain B, Crystal Structure Of A Single Strand Binding Protein (Ssb)
From Bartonella Henselae
Length = 193
Score = 130 bits (328), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 62/115 (53%), Positives = 86/115 (74%), Gaps = 5/115 (4%)
Query: 2 ASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRIT-FYR 60
S+NKVI+IGNLG DPE R +++GD V N+ IAT+E+WRD+N+ E++E TEWH I F
Sbjct: 24 GSLNKVILIGNLGADPEIRRLNSGDQVANLRIATSESWRDRNTNERKERTEWHNIVIFNE 83
Query: 61 KLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIAD----NMQMLGSR 111
L ++V+QYLKKGS+IYIEG+LQTRKW ++ G ++Y TE++ +QML R
Sbjct: 84 NLVKVVEQYLKKGSKIYIEGQLQTRKWQDQNGNDRYTTEIVLQKYRGELQMLDGR 138
>pdb|3LGJ|A Chain A, Crystal Structure Of Single-Stranded Binding Protein (Ssb)
From Bartonella Henselae
pdb|3LGJ|B Chain B, Crystal Structure Of Single-Stranded Binding Protein (Ssb)
From Bartonella Henselae
Length = 169
Score = 107 bits (266), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 49/99 (49%), Positives = 72/99 (72%), Gaps = 1/99 (1%)
Query: 4 VNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHR-ITFYRKL 62
+NKV++IG LG DPE++ M++G V N +AT E++ +KN+ +K E TEWH + F
Sbjct: 23 LNKVMLIGYLGDDPESKTMTSGAEVVNFRMATFESYMNKNTHQKVEKTEWHSVVVFNPHF 82
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVI 101
A+I QYL KGS++YIEG+LQTRKW +K G ++Y TE++
Sbjct: 83 AKIALQYLHKGSKVYIEGKLQTRKWQDKNGHDRYTTEIV 121
>pdb|3ULP|A Chain A, Plasmodium Falciparum Ssb Complex With Ssdna
pdb|3ULP|B Chain B, Plasmodium Falciparum Ssb Complex With Ssdna
pdb|3ULP|C Chain C, Plasmodium Falciparum Ssb Complex With Ssdna
pdb|3ULP|D Chain D, Plasmodium Falciparum Ssb Complex With Ssdna
Length = 124
Score = 91.3 bits (225), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 70/102 (68%), Gaps = 3/102 (2%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFY-RK 61
S+NK+++IG +G +P+ + ++ GD V S+AT E WRD+N+ E + T+WHRI Y +
Sbjct: 5 SLNKIMLIGRVGCEPDIKILNGGDKVATFSLATNEFWRDRNTNELKSKTDWHRIVVYDQN 64
Query: 62 LAQIVKQYLKKGSQIYIEGRLQTRKW-TNKEGVE-KYITEVI 101
+ ++ +YL+KG ++Y++G L TRKW TN + K ITE+I
Sbjct: 65 IVDLIDKYLRKGRRVYVQGSLHTRKWHTNDMNSQPKQITEII 106
>pdb|3VDY|A Chain A, B. Subtilis SsbbSSDNA
pdb|3VDY|B Chain B, B. Subtilis SsbbSSDNA
Length = 116
Score = 82.8 bits (203), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 40/104 (38%), Positives = 68/104 (65%), Gaps = 3/104 (2%)
Query: 5 NKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKLAQ 64
N+V+++G L +DP+ RY S G AV +V++A ++++ SGE ++ T +RK A+
Sbjct: 6 NQVMLVGRLTKDPDLRYTSAGAAVAHVTLAVNRSFKNA-SGEIE--ADYVNCTLWRKTAE 62
Query: 65 IVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
Y +KGS + + GR+QTR + N+EGV Y+TEV+AD ++ +
Sbjct: 63 NTALYCQKGSLVGVSGRIQTRSYENEEGVNVYVTEVLADTVRFM 106
>pdb|2DUD|A Chain A, Crystal Structure Of Human Mitochondrial Single-Stranded
Dna-Binding Protein(Hmtssb)
pdb|2DUD|B Chain B, Crystal Structure Of Human Mitochondrial Single-Stranded
Dna-Binding Protein(Hmtssb)
Length = 133
Score = 80.9 bits (198), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 69/112 (61%), Gaps = 6/112 (5%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNS-----GEKRELTEWHRIT 57
S+N+V ++G +G+DP R + + VT S+AT E WR +S G+ + T WHRI+
Sbjct: 14 SLNRVHLLGRVGQDPVLRQVEGKNPVTIFSLATNEMWRSGDSEVYQLGDVSQKTTWHRIS 73
Query: 58 FYRK-LAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
+R L + QY+KKGS+IY+EG++ ++ +K V + T +IADN+ L
Sbjct: 74 VFRPGLRDVAYQYVKKGSRIYLEGKIDYGEYMDKNNVRRQATTIIADNIIFL 125
>pdb|3ULL|A Chain A, Human Mitochondrial Single-Stranded Dna Binding Protein
pdb|3ULL|B Chain B, Human Mitochondrial Single-Stranded Dna Binding Protein
pdb|1S3O|A Chain A, Human Mitochondrial Single Strand Dna Binding Protein
(Hmssb)
pdb|1S3O|B Chain B, Human Mitochondrial Single Strand Dna Binding Protein
(Hmssb)
Length = 132
Score = 80.9 bits (198), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 69/112 (61%), Gaps = 6/112 (5%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNS-----GEKRELTEWHRIT 57
S+N+V ++G +G+DP R + + VT S+AT E WR +S G+ + T WHRI+
Sbjct: 13 SLNRVHLLGRVGQDPVLRQVEGKNPVTIFSLATNEMWRSGDSEVYQLGDVSQKTTWHRIS 72
Query: 58 FYRK-LAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
+R L + QY+KKGS+IY+EG++ ++ +K V + T +IADN+ L
Sbjct: 73 VFRPGLRDVAYQYVKKGSRIYLEGKIDYGEYMDKNNVRRQATTIIADNIIFL 124
>pdb|3UDG|A Chain A, Structure Of Deinococcus Radiodurans Ssb Bound To Ssdna
pdb|3UDG|B Chain B, Structure Of Deinococcus Radiodurans Ssb Bound To Ssdna
pdb|3UDG|C Chain C, Structure Of Deinococcus Radiodurans Ssb Bound To Ssdna
Length = 301
Score = 80.1 bits (196), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 42/107 (39%), Positives = 70/107 (65%), Gaps = 2/107 (1%)
Query: 2 ASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRK 61
++N+V+++GN+ RDPE RY GDAV ++SIA EN++D+ G+++E + T +R
Sbjct: 127 GAMNEVLVLGNVTRDPEIRYTPAGDAVLSLSIAVNENYQDR-QGQRQEKVHYIDATLWRD 185
Query: 62 LAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
LA+ +K+ L+KG + I GRL WT+K+G ++ T V A ++ L
Sbjct: 186 LAENMKE-LRKGDPVMIMGRLVNEGWTDKDGNKRNSTRVEATRVEAL 231
Score = 67.4 bits (163), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 61/110 (55%), Gaps = 2/110 (1%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
+N V +IG L RDPE RY NG AV ++A E+ N G +R L +HR++ K
Sbjct: 4 GMNHVYLIGALARDPELRYTGNGMAVFEATVA-GEDRVIGNDGRERNLPWYHRVSILGKP 62
Query: 63 AQ-IVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQMLGSR 111
A+ ++ LK G + +EG L+ R+W EG ++ V A M+ LG++
Sbjct: 63 AEWQAERNLKGGDAVVVEGTLEYRQWEAPEGGKRSAVNVKALRMEQLGTQ 112
>pdb|1SE8|A Chain A, Structure Of Single-Stranded Dna-Binding Protein (Ssb)
From D. Radiodurans
Length = 301
Score = 79.0 bits (193), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 42/107 (39%), Positives = 68/107 (63%), Gaps = 2/107 (1%)
Query: 2 ASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRK 61
+ N+V+++GN+ RDPE RY GDAV ++SIA EN++D+ G+++E + T +R
Sbjct: 127 GAXNEVLVLGNVTRDPEIRYTPAGDAVLSLSIAVNENYQDR-QGQRQEKVHYIDATLWRD 185
Query: 62 LAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
LA+ K+ L+KG + I GRL WT+K+G ++ T V A ++ L
Sbjct: 186 LAENXKE-LRKGDPVXIXGRLVNEGWTDKDGNKRNSTRVEATRVEAL 231
Score = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 2/108 (1%)
Query: 5 NKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKLAQ 64
N V +IG L RDPE RY NG AV ++A E+ N G +R L +HR++ K A+
Sbjct: 6 NHVYLIGALARDPELRYTGNGXAVFEATVA-GEDRVIGNDGRERNLPWYHRVSILGKPAE 64
Query: 65 -IVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQMLGSR 111
++ LK G + +EG L+ R+W EG ++ V A + LG++
Sbjct: 65 WQAERNLKGGDAVVVEGTLEYRQWEAPEGGKRSAVNVKALRXEQLGTQ 112
>pdb|1Z9F|A Chain A, Crystal Structure Of Single Stranded Dna-Binding Protein
(Tm0604) From Thermotoga Maritima At 2.60 A Resolution
Length = 153
Score = 79.0 bits (193), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/108 (35%), Positives = 64/108 (59%), Gaps = 1/108 (0%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYR 60
M+ NK+I+IG L RDPE RY +G VT +IA R KN+ + + T++ RI +
Sbjct: 13 MSFFNKIILIGRLVRDPEERYTLSGTPVTTFTIAVDRVPR-KNAPDDAQTTDFFRIVTFG 71
Query: 61 KLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
+LA+ + YL KG + +EG ++ R+W G ++ EV+A+ ++ +
Sbjct: 72 RLAEFARTYLTKGRLVLVEGEMRMRRWETPTGEKRVSPEVVANVVRFM 119
>pdb|3AFP|A Chain A, Crystal Structure Of The Single-Stranded Dna Binding
Protein From Mycobacterium Leprae (Form I)
pdb|3AFP|B Chain B, Crystal Structure Of The Single-Stranded Dna Binding
Protein From Mycobacterium Leprae (Form I)
pdb|3AFQ|A Chain A, Crystal Structure Of The Single-Stranded Dna Binding
Protein From Mycobacterium Leprae (Form Ii)
pdb|3AFQ|B Chain B, Crystal Structure Of The Single-Stranded Dna Binding
Protein From Mycobacterium Leprae (Form Ii)
pdb|3AFQ|C Chain C, Crystal Structure Of The Single-Stranded Dna Binding
Protein From Mycobacterium Leprae (Form Ii)
pdb|3AFQ|D Chain D, Crystal Structure Of The Single-Stranded Dna Binding
Protein From Mycobacterium Leprae (Form Ii)
Length = 168
Score = 70.9 bits (172), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 62/106 (58%), Gaps = 1/106 (0%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGE-KRELTEWHRITFY 59
MA + I+GNL DPE R+ S+G AV N ++A+T D+ SGE K + R +
Sbjct: 1 MAGDTTITIVGNLTADPELRFTSSGAAVVNFTVASTPRIYDRQSGEWKDGEALFLRCNIW 60
Query: 60 RKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNM 105
R+ A+ V + L +G+++ + GRL+ R + +EG ++ + EV D +
Sbjct: 61 REAAENVAESLTRGARVIVTGRLKQRSFETREGEKRTVVEVEVDEI 106
>pdb|1X3E|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Smegmatis
pdb|1X3E|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Smegmatis
pdb|1X3F|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Smegmatis
pdb|1X3F|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Smegmatis
pdb|1X3G|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Smegmatis
pdb|1X3G|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Smegmatis
Length = 165
Score = 70.9 bits (172), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 61/106 (57%), Gaps = 1/106 (0%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGE-KRELTEWHRITFY 59
MA + ++GNL DPE R+ +G AV N ++A+T D+ SGE K + R +
Sbjct: 1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRMFDRQSGEWKDGEALFLRCNIW 60
Query: 60 RKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNM 105
R+ A+ V + L +GS++ + GRL+ R + +EG ++ + EV D +
Sbjct: 61 REAAENVAESLTRGSRVIVTGRLKQRSFETREGEKRTVVEVEVDEI 106
>pdb|3A5U|A Chain A, Promiscuity And Specificity In Dna Binding To Ssb:
Insights From The Structure Of The Mycobacterium
Smegmatis Ssb-Ssdna Complex
pdb|3A5U|B Chain B, Promiscuity And Specificity In Dna Binding To Ssb:
Insights From The Structure Of The Mycobacterium
Smegmatis Ssb-Ssdna Complex
Length = 130
Score = 70.1 bits (170), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 36/106 (33%), Positives = 61/106 (57%), Gaps = 1/106 (0%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGE-KRELTEWHRITFY 59
MA + ++GNL DPE R+ +G AV N ++A+T D+ SGE K + R +
Sbjct: 1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRMFDRQSGEWKDGEALFLRCNIW 60
Query: 60 RKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNM 105
R+ A+ V + L +GS++ + GRL+ R + +EG ++ + EV D +
Sbjct: 61 REAAENVAESLTRGSRVIVTGRLKQRSFETREGEKRTVVEVEVDEI 106
>pdb|1UE1|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE1|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE5|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE5|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE6|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE6|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE6|C Chain C, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE6|D Chain D, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE7|A Chain A, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE7|B Chain B, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE7|C Chain C, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
pdb|1UE7|D Chain D, Crystal Structure Of The Single-Stranded Dna-Binding
Protein From Mycobacterium Tuberculosis
Length = 164
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 35/106 (33%), Positives = 61/106 (57%), Gaps = 1/106 (0%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGE-KRELTEWHRITFY 59
MA + I+GNL DPE R+ +G AV N ++A+T D+ +GE K + R +
Sbjct: 1 MAGDTTITIVGNLTADPELRFTPSGAAVANFTVASTPRIYDRQTGEWKDGEALFLRCNIW 60
Query: 60 RKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNM 105
R+ A+ V + L +G+++ + GRL+ R + +EG ++ + EV D +
Sbjct: 61 REAAENVAESLTRGARVIVSGRLKQRSFETREGEKRTVIEVEVDEI 106
>pdb|2VW9|A Chain A, Single Stranded Dna Binding Protein Complex From
Helicobacter Pylori
pdb|2VW9|B Chain B, Single Stranded Dna Binding Protein Complex From
Helicobacter Pylori
Length = 134
Score = 66.6 bits (161), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 57/104 (54%), Gaps = 1/104 (0%)
Query: 5 NKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKLAQ 64
NKVI++G L R+ E +Y+ +G A + +AT+ ++ K G E + + + A+
Sbjct: 3 NKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFK-KQDGTLGEEVCFIDARLFGRTAE 61
Query: 65 IVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQML 108
I QYL KGS + IEGRL W ++ G + + AD++Q +
Sbjct: 62 IANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFM 105
>pdb|2IHF|A Chain A, Crystal Structure Of Deletion Mutant Delta 228-252 R190a
Of The Single-Stranded Dna Binding Protein From Thermus
Aquaticus
Length = 239
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/109 (33%), Positives = 66/109 (60%), Gaps = 2/109 (1%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
+N+V +IG L P+ RY G A+ ++++A + + D+ SG++RE+ +HR+ +
Sbjct: 4 GLNQVFLIGTLTARPDMRYTPGGLAILDLNLAGQDAFTDE-SGQEREVPWYHRVRLLGRQ 62
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQMLGSR 111
A++ L+KG I++EGRL+ R+W K+G +K +V A+ + L R
Sbjct: 63 AEMWGDLLEKGQLIFVEGRLEYRQW-EKDGEKKSEVQVRAEFIDPLEGR 110
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 58/104 (55%), Gaps = 5/104 (4%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
++N+VI++GNL RDP+ RY G AV + +A E + G++ E T + + +R+L
Sbjct: 127 ALNQVILMGNLTRDPDLRYTPQGTAVVRLGLAVNE----RRRGQEEERTHFLEVQAWREL 182
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQ 106
A+ + L KG + + GRL WT+ G ++ T V A ++
Sbjct: 183 AEWASE-LAKGDGLLVIGRLVNDSWTSSSGERRFQTRVEALRLE 225
>pdb|2FXQ|A Chain A, Single-Stranded Dna-Binding Protein From Thermus Aquaticus
pdb|2IHE|A Chain A, Crystal Structure Of Wild-Type Single-Stranded Dna Binding
Protein From Thermus Aquaticus
Length = 264
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/109 (33%), Positives = 66/109 (60%), Gaps = 2/109 (1%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
+N+V +IG L P+ RY G A+ ++++A + + D+ SG++RE+ +HR+ +
Sbjct: 4 GLNQVFLIGTLTARPDMRYTPGGLAILDLNLAGQDAFTDE-SGQEREVPWYHRVRLLGRQ 62
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQMLGSR 111
A++ L+KG I++EGRL+ R+W K+G +K +V A+ + L R
Sbjct: 63 AEMWGDLLEKGQLIFVEGRLEYRQW-EKDGEKKSEVQVRAEFIDPLEGR 110
Score = 53.1 bits (126), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 34/100 (34%), Positives = 57/100 (57%), Gaps = 5/100 (5%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
++N+VI++GNL RDP+ RY G AV + +A E + G++ E T + + +R+L
Sbjct: 127 ALNQVILMGNLTRDPDLRYTPQGTAVVRLGLAVNE----RRRGQEEERTHFLEVQAWREL 182
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIA 102
A+ + L+KG + + GRL WT+ G ++ T V A
Sbjct: 183 AEWASE-LRKGDGLLVIGRLVNDSWTSSSGERRFQTRVEA 221
>pdb|3EIV|A Chain A, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
pdb|3EIV|B Chain B, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
pdb|3EIV|C Chain C, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
pdb|3EIV|D Chain D, Crystal Structure Of Single-Stranded Dna-Binding Protein
From Streptomyces Coelicolor
Length = 199
Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 62/106 (58%), Gaps = 1/106 (0%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGE-KRELTEWHRITFY 59
MA + ++GNL DPE R+ +G AV +A+T D+ + E K + + + +
Sbjct: 1 MAGETVITVVGNLVDDPELRFTPSGAAVAKFRVASTPRTFDRQTNEWKDGESLFLTCSVW 60
Query: 60 RKLAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNM 105
R+ A+ V + L++G ++ ++GRL+ R + ++EGV++ + E+ D +
Sbjct: 61 RQAAENVAESLQRGMRVIVQGRLKQRSYEDREGVKRTVYELDVDEV 106
>pdb|2CWA|A Chain A, Crystal Structure Of The Single-stranded Dna Binding
Protein From Thermus Thermophilus Hb8
Length = 263
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 60/109 (55%), Gaps = 2/109 (1%)
Query: 3 SVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRKL 62
+N+V +IG L P+ RY G A+ ++++A + N GE RE++ +HR+ +
Sbjct: 4 GLNRVFLIGALATRPDXRYTPAGLAILDLTLAGQDLLLSDNGGE-REVSWYHRVRLLGRQ 62
Query: 63 AQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIADNMQMLGSR 111
A+ L +G +++EGRL+ R+W +EG + ++ AD + L R
Sbjct: 63 AEXWGDLLDQGQLVFVEGRLEYRQW-EREGERRSELQIRADFLDPLDDR 110
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 35/101 (34%), Positives = 55/101 (54%), Gaps = 6/101 (5%)
Query: 2 ASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYRK 61
A++N+V + GNL RDPE RY G AV + +A E + E+R T + + +R
Sbjct: 126 AALNQVFLXGNLTRDPELRYTPQGTAVARLGLAVNER---RQGAEER--THFVEVQAWRD 180
Query: 62 LAQIVKQYLKKGSQIYIEGRLQTRKWTNKEGVEKYITEVIA 102
LA+ + L+KG +++ GRL WT+ G ++ T V A
Sbjct: 181 LAEWAAE-LRKGDGLFVIGRLVNDSWTSSSGERRFQTRVEA 220
>pdb|4DAM|A Chain A, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|B Chain B, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|C Chain C, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|D Chain D, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|E Chain E, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|F Chain F, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|G Chain G, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|H Chain H, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|I Chain I, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|J Chain J, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|K Chain K, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
pdb|4DAM|L Chain L, Crystal Structure Of Small Single-stranded Dna-binding
Protein From Streptomyces Coelicolor
Length = 128
Score = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 10/90 (11%)
Query: 2 ASVNKVII--IGNLGRDPETRYMSNGDAVTNVSIATTENW-RDKNS---GEKRELTEWHR 55
S+N+++I +GN+ P R ++NG +V T W R+KN+ G T W
Sbjct: 11 GSMNEIMICAVGNVATTPVFRDLANGPSVRFRLAVTARYWDREKNAWTDGHTNFFTVWAN 70
Query: 56 ITFYRKLAQIVKQYLKKGSQIYIEGRLQTR 85
R+LA L G + ++GRL+ R
Sbjct: 71 ----RQLATNASGSLAVGDPVVVQGRLKVR 96
>pdb|3BQW|A Chain A, Crystal Structure Of The Putative Capsid Protein Of
Prophage (e.coli Cft073)
Length = 351
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 37/88 (42%), Gaps = 14/88 (15%)
Query: 21 YMSNGDAVTNVSIATTENWRDKNSGEK-RELTEWHRIT------FYRKLAQIV--KQYLK 71
Y NV I E WR S +K REL + R + + L ++V K YL
Sbjct: 196 YADQAGCPANVMIMGAEVWRTLRSFKKFRELYDLSRGSESAAELACKNLGEVVSFKGYLG 255
Query: 72 KGSQIYIEGRLQTRKWTNKEGVEKYITE 99
+ I G K+T+ +G EKY E
Sbjct: 256 DLALIVYSG-----KYTDSDGTEKYFLE 278
>pdb|4DNI|A Chain A, Structure Of Editosome Protein
Length = 257
Score = 27.3 bits (59), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 7/102 (6%)
Query: 1 MASVNKVIIIGNLGRDPETRYMSNGDAVTNVSIATTENWRDKNSGEKRELTEWHRITFYR 60
M SVN V ++G + D ++ ++ DAVT ++ TT + E + H I +
Sbjct: 143 MKSVNSVTLVGVV-HDIQSGFVYE-DAVTQFTLTTTSIDTTHPTQEVVVEKDHHTIRCFG 200
Query: 61 KLAQI-VKQYLKKGSQIYIEGRL----QTRKWTNKEGVEKYI 97
+L VKQ +K+G+ + + GRL Q NK YI
Sbjct: 201 ELFSAEVKQKVKEGNVVCVNGRLRLSPQLEPSCNKHFYFPYI 242
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.131 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,931,425
Number of Sequences: 62578
Number of extensions: 126430
Number of successful extensions: 398
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 339
Number of HSP's gapped (non-prelim): 37
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)