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= 007434
(604 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2C2A|A Chain A, Structure Of The Entire Cytoplasmic Portion Of A Sensor
Histidine Kinase Protein
Length = 258
Score = 89.4 bits (220), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 78/238 (32%), Positives = 117/238 (49%), Gaps = 26/238 (10%)
Query: 346 DFLAVMNHEMRTPMHAIIALSSL----LQETELTPEQRLMVETILKSSNLLATLINDVLD 401
+F+A ++HE+RTP+ AI A + L E +L+ + + E I+ SN L L+N++LD
Sbjct: 22 EFIANISHELRTPLTAIKAYAETIYNSLGELDLSTLKEFL-EVIIDQSNHLENLLNELLD 80
Query: 402 LSRLEDGSLQLQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAVGDEKRLM 461
SRLE SLQ+ +L + +N IK AS + V P A D R+
Sbjct: 81 FSRLERKSLQINREKVDLCDLVESAVNAIKEFASSHNVNVLFESNVPCPVEAYIDPTRIR 140
Query: 462 QTLLNVVGNAVKFTKEGNISITGFVAKSESLRDSRAPEFFPVPI--ENHFYLRVQVKDSG 519
Q LLN++ N VK++K+ AP+ + I E + + V+D+G
Sbjct: 141 QVLLNLLNNGVKYSKKD------------------APDKYVKVILDEKDGGVLIIVEDNG 182
Query: 520 SGISPQDIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIESEGLGKGC 577
GI +F +F + + G+GLGLAI K V L G IW+ESE +GKG
Sbjct: 183 IGIPDHAKDRIFEQFYRVDSSLTYEVPGTGLGLAITKEIVELHGGRIWVESE-VGKGS 239
>pdb|3DGE|A Chain A, Structure Of A Histidine Kinase-response Regulator Complex
Reveals Insights Into Two-component Signaling And A
Novel Cis- Autophosphorylation Mechanism
pdb|3DGE|B Chain B, Structure Of A Histidine Kinase-response Regulator Complex
Reveals Insights Into Two-component Signaling And A
Novel Cis- Autophosphorylation Mechanism
Length = 258
Score = 89.4 bits (220), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 78/238 (32%), Positives = 117/238 (49%), Gaps = 26/238 (10%)
Query: 346 DFLAVMNHEMRTPMHAIIALSSL----LQETELTPEQRLMVETILKSSNLLATLINDVLD 401
+F+A ++HE+RTP+ AI A + L E +L+ + + E I+ SN L L+N++LD
Sbjct: 22 EFIANISHELRTPLTAIKAYAETIYNSLGELDLSTLKEFL-EVIIDQSNHLENLLNELLD 80
Query: 402 LSRLEDGSLQLQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAVGDEKRLM 461
SRLE SLQ+ +L + +N IK AS + V P A D R+
Sbjct: 81 FSRLERKSLQINREKVDLCDLVESAVNAIKEFASSHNVNVLFESNVPCPVEAYIDPTRIR 140
Query: 462 QTLLNVVGNAVKFTKEGNISITGFVAKSESLRDSRAPEFFPVPI--ENHFYLRVQVKDSG 519
Q LLN++ N VK++K+ AP+ + I E + + V+D+G
Sbjct: 141 QVLLNLLNNGVKYSKKD------------------APDKYVKVILDEKDGGVLIIVEDNG 182
Query: 520 SGISPQDIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIESEGLGKGC 577
GI +F +F + + G+GLGLAI K V L G IW+ESE +GKG
Sbjct: 183 IGIPDHAKDRIFEQFYRVDSSLTYEVPGTGLGLAITKEIVELHGGRIWVESE-VGKGS 239
>pdb|4EW8|A Chain A, Crystal Structure Of A C-Terminal Part Of Tyrosine Kinase
(Divl) From Caulobacter Crescentus Cb15 At 2.50 A
Resolution
pdb|4EW8|B Chain B, Crystal Structure Of A C-Terminal Part Of Tyrosine Kinase
(Divl) From Caulobacter Crescentus Cb15 At 2.50 A
Resolution
Length = 268
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 66/235 (28%), Positives = 112/235 (47%), Gaps = 30/235 (12%)
Query: 346 DFLAVMNHEMRTPMHAIIALSSLLQETELTPEQ-RLMVETILKSSNLLATLINDVLDLSR 404
DF+ +++E+RTP+ II S LL+ + E+ R V + ++ LA I+DVLD+++
Sbjct: 42 DFVGNVSYELRTPLTTIIGYSELLERADGISERGRNHVAAVRAAATQLARSIDDVLDMAQ 101
Query: 405 LEDGSLQLQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAVGDEKRLMQTL 464
++ G + L+I + + A + + +A+ D+ GD KRL QTL
Sbjct: 102 IDAGEMALEIEDIRVSDLLLNAQERALKDAQLGGVTLAVECEEDVG-LIRGDGKRLAQTL 160
Query: 465 LNVVGNAVKFTKEGN-ISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGIS 523
++V NA++ T G ++++ A E +R+ V D+G G+
Sbjct: 161 DHLVENALRQTPPGGRVTLSARRALGE--------------------VRLDVSDTGRGVP 200
Query: 524 PQDIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIESEGLGKGCT 578
++F +F R+ G GLGLA+ K V L G + +ESE G G T
Sbjct: 201 FHVQAHIFDRFVG------RDRGGPGLGLALVKALVELHGGWVALESE-PGNGST 248
>pdb|3SL2|A Chain A, Atp Forms A Stable Complex With The Essential Histidine
Kinase Walk (yycg) Domain
Length = 177
Score = 65.9 bits (159), Expect = 6e-11, Method: Composition-based stats.
Identities = 44/138 (31%), Positives = 66/138 (47%), Gaps = 20/138 (14%)
Query: 447 PDLPEYAVGDEKRLMQTLLNVVGNAVKFTKEG-NISITGFVAKSESLRDSRAPEFFPVPI 505
PD Y D+ ++ Q L N++ NA+K++ EG +++ + V + E L
Sbjct: 31 PDRDLYVEIDQDKITQVLDNIISNALKYSPEGGHVTFSIDVNEEEEL------------- 77
Query: 506 ENHFYLRVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEGH 565
L + VKD G GI +D+ +F +F + R G+GLGLAI K V G
Sbjct: 78 -----LYISVKDEGIGIPKKDVEKVFDRFYRVDKARTRKLGGTGLGLAIAKEMVQAHGGD 132
Query: 566 IWIESEGLGKGCTAIFIV 583
IW +S GKG T F +
Sbjct: 133 IWADSIE-GKGTTITFTL 149
>pdb|3D36|A Chain A, How To Switch Off A Histidine Kinase: Crystal Structure Of
Geobacillus Stearothermophilus Kinb With The Inhibitor
Sda
pdb|3D36|B Chain B, How To Switch Off A Histidine Kinase: Crystal Structure Of
Geobacillus Stearothermophilus Kinb With The Inhibitor
Sda
Length = 244
Score = 59.3 bits (142), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 53/231 (22%), Positives = 108/231 (46%), Gaps = 33/231 (14%)
Query: 349 AVMNHEMRTPMHAIIALSSLLQETELTPEQRLMVETI-LKSSNLLATLINDVLDLSRLED 407
A ++HE+R P+ A L++E L ++R I ++ + +I D L ++
Sbjct: 19 ASISHEIRNPLTAARGFIQLIEEQPLAADKRRQYARIAIEELDRAEAIITDYLTFAKPAP 78
Query: 408 GSLQLQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAVGDEKRLMQTLLNV 467
+ + N+ V+++++P+A++ + + LAP +G+ ++ Q LLNV
Sbjct: 79 ETPE----KLNVKLEIERVIDILRPLANMSCVDIQATLAPF---SVIGEREKFRQCLLNV 131
Query: 468 VGNAVKFTKEGNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQDI 527
+ NA++ G ++ +V+ I+N L +++ D+G G++ + +
Sbjct: 132 MKNAIEAMPNGG-TLQVYVS-----------------IDNGRVL-IRIADTGVGMTKEQL 172
Query: 528 PNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIESEGLGKGCT 578
L + + + G+GLG+ + R + M G I IESE + KG T
Sbjct: 173 ERLGEPYFTTKGV-----KGTGLGMMVVYRIIESMNGTIRIESE-IHKGTT 217
>pdb|3A0R|A Chain A, Crystal Structure Of Histidine Kinase Thka (Tm1359) In
Complex With Response Regulator Protein Trra (Tm1360)
Length = 349
Score = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 60/230 (26%), Positives = 105/230 (45%), Gaps = 35/230 (15%)
Query: 349 AVMNHEMRTPMHAIIALSSLLQETELTPEQ-RLMVETILKSSNLLATLINDVLDLSRLED 407
A + HE+R P+ I +++ PE + + I + L T++ ++L+ S+
Sbjct: 137 ARVAHEIRNPITIIGGFIMRMKKHLDDPETLKKYINIITNELSRLETIVKEILEYSKERQ 196
Query: 408 GSLQLQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAV-GDEKRLMQTLLN 466
L+ FNL+ + REV L + ++K+ + D + V D R+ Q L+N
Sbjct: 197 ---VLEFTEFNLNELIREVYVLFE--EKIRKMNIDFCFETDNEDLRVEADRTRIKQVLIN 251
Query: 467 VVGNAVKFTKE-GNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQ 525
+V NA++ T E G I IT SE + + +RV V +SG I +
Sbjct: 252 LVQNAIEATGENGKIKIT-----SEDM---------------YTKVRVSVWNSGPPIPEE 291
Query: 526 DIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFV-NLMEGHIWIESEGLG 574
+F+ F + + G+GLGL+IC++ + + G IW E+ G
Sbjct: 292 LKEKIFSPFFTTK------TQGTGLGLSICRKIIEDEHGGKIWTENRENG 335
>pdb|3A0T|A Chain A, Catalytic Domain Of Histidine Kinase Thka (Tm1359) In
Complex With Adp And Mg Ion (Trigonal)
pdb|3A0W|A Chain A, Catalytic Domain Of Histidine Kinase Thka (Tm1359) For Mad
Phasing (Nucleotide Free Form 2, Orthorombic)
pdb|3A0W|B Chain B, Catalytic Domain Of Histidine Kinase Thka (Tm1359) For Mad
Phasing (Nucleotide Free Form 2, Orthorombic)
pdb|3A0X|A Chain A, Catalytic Domain Of Histidine Kinase Thka (Tm1359)
(Nucleotide Free Form 1: Ammomium Phosphate, Monoclinic)
pdb|3A0Y|A Chain A, Catalytic Domain Of Histidine Kinase Thka (Tm1359)
(Nucleotide Free Form 3: 1,2-Propanediol, Orthorombic)
pdb|3A0Y|B Chain B, Catalytic Domain Of Histidine Kinase Thka (Tm1359)
(Nucleotide Free Form 3: 1,2-Propanediol, Orthorombic)
pdb|3A0Z|A Chain A, Catalytic Domain Of Histidine Kinase Thka (Tm1359)
(Nucleotide Free Form 4: Isopropanol, Orthorombic)
pdb|3A0Z|B Chain B, Catalytic Domain Of Histidine Kinase Thka (Tm1359)
(Nucleotide Free Form 4: Isopropanol, Orthorombic)
Length = 152
Score = 49.7 bits (117), Expect = 5e-06, Method: Composition-based stats.
Identities = 45/162 (27%), Positives = 76/162 (46%), Gaps = 31/162 (19%)
Query: 412 LQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAV-GDEKRLMQTLLNVVGN 470
++ FNL+ + REV L + ++K+ + D + V D R+ Q L+N+V N
Sbjct: 1 MEFTEFNLNELIREVYVLFE--EKIRKMNIDFCFETDNEDLRVEADRTRIKQVLINLVQN 58
Query: 471 AVKFTKE-GNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQDIPN 529
A++ T E G I IT SE + + +RV V +SG I +
Sbjct: 59 AIEATGENGKIKIT-----SEDM---------------YTKVRVSVWNSGPPIPEELKEK 98
Query: 530 LFTKFAQNQAIALRNSSGSGLGLAICKRFV-NLMEGHIWIES 570
+F+ F + + G+GLGL+IC++ + + G IW E+
Sbjct: 99 IFSPFFTTK------TQGTGLGLSICRKIIEDEHGGKIWTEN 134
>pdb|1BXD|A Chain A, Nmr Structure Of The Histidine Kinase Domain Of The E.
Coli Osmosensor Envz
Length = 161
Score = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 514 QVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEG 564
QV+D G GI+P+ +LF F + + R SG+GLGLAI +R V+ G
Sbjct: 81 QVEDDGPGIAPEQRKHLFQPFVRGDSA--RTISGTGLGLAIVQRIVDNHNG 129
>pdb|1R62|A Chain A, Crystal Structure Of The C-terminal Domain Of The
Two-component System Transmitter Protein Nrii (ntrb)
Length = 160
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/157 (26%), Positives = 66/157 (42%), Gaps = 20/157 (12%)
Query: 416 TFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAVGDEKRLMQTLLNVVGNAVKF- 474
T ++H V V+ L+ + + + + P LPE A D ++ Q LLN+V NA++
Sbjct: 7 TESIHKVAERVVTLVS-MELPDNVRLIRDYDPSLPELA-HDPDQIEQVLLNIVRNALQAL 64
Query: 475 -TKEGNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQDIPNLFTK 533
+ G I + A +L R R+ V+D+G GI P LF
Sbjct: 65 GPEGGEIILRTRTAFQLTLHGERY----------RLAARIDVEDNGPGIPPHLQDTLFYP 114
Query: 534 FAQNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIES 570
+ G+GLGL+I + ++ G I S
Sbjct: 115 MVSGR------EGGTGLGLSIARNLIDQHSGKIEFTS 145
>pdb|3JZ3|A Chain A, Structure Of The Cytoplasmic Segment Of Histidine Kinase
Qsec
pdb|3JZ3|B Chain B, Structure Of The Cytoplasmic Segment Of Histidine Kinase
Qsec
Length = 222
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 50/216 (23%), Positives = 95/216 (43%), Gaps = 28/216 (12%)
Query: 347 FLAVMNHEMRTPMHAIIALSSLLQETELTPEQRLMVETILKSSNLLAT-LINDVLDLSRL 405
F + HE+R+P+ A+ + + Q ++ P+ R L S AT L++ +L LSRL
Sbjct: 5 FTSDAAHELRSPLTALKVQTEVAQLSDDDPQARKKALLQLHSGIDRATRLVDQLLTLSRL 64
Query: 406 EDGSLQLQIGTFNLHAVFREVLNLIKPIASVKKLLVALNLAPDLPEYAVGDEKRLMQTLL 465
+ + L + + + I A K+ V L L + G L +
Sbjct: 65 DSLDNLQDVAEIPLEDLLQSSVXDIYHTAQQAKIDVRLTLNAHSIKR-TGQPLLLSLLVR 123
Query: 466 NVVGNAVKFTKEGNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQ 525
N++ NAV+++ +G++ A ++F V+D+G G++P+
Sbjct: 124 NLLDNAVRYSPQGSVVDVTLNA-------------------DNFI----VRDNGPGVTPE 160
Query: 526 DIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNL 561
+ + +F + + ++GSGLGL+I +R L
Sbjct: 161 ALARIGERFYRPPG---QTATGSGLGLSIVQRIAKL 193
>pdb|3CGY|A Chain A, Crystal Structure Of Salmonella Sensor Kinase Phoq
Catalytic Domain In Complex With Radicicol
pdb|3CGY|B Chain B, Crystal Structure Of Salmonella Sensor Kinase Phoq
Catalytic Domain In Complex With Radicicol
pdb|3CGY|C Chain C, Crystal Structure Of Salmonella Sensor Kinase Phoq
Catalytic Domain In Complex With Radicicol
pdb|3CGZ|A Chain A, Crystal Structure Of Salmonella Sensor Kinase Phoq
Catalytic Domain
pdb|3CGZ|B Chain B, Crystal Structure Of Salmonella Sensor Kinase Phoq
Catalytic Domain
pdb|3CGZ|C Chain C, Crystal Structure Of Salmonella Sensor Kinase Phoq
Catalytic Domain
Length = 157
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 68/159 (42%), Gaps = 30/159 (18%)
Query: 419 LHAVFREVLNLIKPIASV---KKLLVALNLAPDLPEYAVGDEKRLMQTLLNVVGNAVKFT 475
LH V + NLI + V K + ++++++P++ VG++ ++ + NV+ NA K+
Sbjct: 8 LHPVAPLLDNLISALNKVYQRKGVNISMDISPEIS--FVGEQNDFVEVMGNVLDNACKYC 65
Query: 476 KEGNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQDIPNLFTKFA 535
E FV S D +L + V+D G GI P +L
Sbjct: 66 LE-------FVEISARQTDD--------------HLHIFVEDDGPGI-PHSKRSLVFDRG 103
Query: 536 QNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIESEGLG 574
Q +A LR G G+GLA+ + G I LG
Sbjct: 104 Q-RADTLR--PGQGVGLAVAREITEQYAGQIIASDSLLG 139
>pdb|2ZBK|B Chain B, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|D Chain D, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|F Chain F, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|H Chain H, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
Length = 530
Score = 33.5 bits (75), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 512 RVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSG-SGLGLAICKRFVNLMEGH-IWIE 569
+V V D+G GI PQ++PN F + + R + G GLG+ + + + I IE
Sbjct: 71 KVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIE 130
Query: 570 SEGLGKGCTAIFIVKLGI 587
+ + F +K+ I
Sbjct: 131 TSPVNSKRIYTFKLKIDI 148
>pdb|1Z5A|A Chain A, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5A|B Chain B, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5B|A Chain A, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|1Z5B|B Chain B, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|2HKJ|A Chain A, Topoisomerase Vi-B Bound To Radicicol
Length = 469
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 512 RVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSG-SGLGLAICKRFVNLMEGH-IWIE 569
+V V D+G GI PQ++PN F + + R + G GLG+ + + + I IE
Sbjct: 70 KVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIE 129
Query: 570 SEGLGKGCTAIFIVKLGI 587
+ + F +K+ I
Sbjct: 130 TSPVNSKRIYTFKLKIDI 147
>pdb|1MU5|A Chain A, Structure Of Topoisomerase Subunit
Length = 471
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 512 RVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSG-SGLGLAICKRFVNLMEGH-IWIE 569
+V V D+G GI PQ++PN F + + R + G GLG+ + + + I IE
Sbjct: 72 KVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIE 131
Query: 570 SEGLGKGCTAIFIVKLGI 587
+ + F +K+ I
Sbjct: 132 TSPVNSKRIYTFKLKIDI 149
>pdb|1Z59|A Chain A, Topoisomerase Vi-B, Adp-Bound Monomer Form
pdb|1Z5C|A Chain A, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
pdb|1Z5C|B Chain B, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
Length = 469
Score = 33.1 bits (74), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 512 RVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSGS-GLGL 552
+V V D+G GI PQ++PN F + + R + G GLG+
Sbjct: 70 KVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGXYGLGV 111
>pdb|1MX0|A Chain A, Structure Of Topoisomerase Subunit
pdb|1MX0|B Chain B, Structure Of Topoisomerase Subunit
pdb|1MX0|C Chain C, Structure Of Topoisomerase Subunit
pdb|1MX0|D Chain D, Structure Of Topoisomerase Subunit
pdb|1MX0|E Chain E, Structure Of Topoisomerase Subunit
pdb|1MX0|F Chain F, Structure Of Topoisomerase Subunit
Length = 472
Score = 33.1 bits (74), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 512 RVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSGS-GLGL 552
+V V D+G GI PQ++PN F + + R + G GLG+
Sbjct: 73 KVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGXYGLGV 114
>pdb|1YS3|A Chain A, Crystal Structure Of The Atp Binding Domain Of Prrb From
Mycobacterium Tuberculosis
pdb|1YS3|B Chain B, Crystal Structure Of The Atp Binding Domain Of Prrb From
Mycobacterium Tuberculosis
pdb|1YS3|C Chain C, Crystal Structure Of The Atp Binding Domain Of Prrb From
Mycobacterium Tuberculosis
pdb|1YSR|A Chain A, Crystal Structure Of Atp Binding Domain Of Prrb From
Mycobacterium Tuberculosis
pdb|1YSR|B Chain B, Crystal Structure Of Atp Binding Domain Of Prrb From
Mycobacterium Tuberculosis
pdb|1YSR|C Chain C, Crystal Structure Of Atp Binding Domain Of Prrb From
Mycobacterium Tuberculosis
Length = 150
Score = 33.1 bits (74), Expect = 0.49, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 3/64 (4%)
Query: 511 LRVQVKDSGSGISPQDIPNLFTKFAQNQAIALRNSSGSGLGLAICKRFVNLMEGHIWIES 570
+ + + D+GSG+ + +F +F++ + SGSGLGLA+ + L G +E+
Sbjct: 78 VEIAIDDNGSGVPEGERQVVFERFSRGSTAS---HSGSGLGLALVAQQAQLHGGTASLEN 134
Query: 571 EGLG 574
LG
Sbjct: 135 SPLG 138
>pdb|1ID0|A Chain A, Crystal Structure Of The Nucleotide Bond Conformation Of
Phoq Kinase Domain
Length = 152
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 64/151 (42%), Gaps = 30/151 (19%)
Query: 419 LHAVFREVLNLIKPIASV---KKLLVALNLAPDLPEYAVGDEKRLMQTLLNVVGNAVKFT 475
LH V + NL + V K + ++L+++P++ VG++ ++ + NV+ NA K+
Sbjct: 3 LHPVAPLLDNLTSALNKVYQRKGVNISLDISPEIS--FVGEQNDFVEVMGNVLDNACKYC 60
Query: 476 KEGNISITGFVAKSESLRDSRAPEFFPVPIENHFYLRVQVKDSGSGISPQDIPNLFTKFA 535
E FV S D H Y + V+D G GI +F +
Sbjct: 61 LE-------FVEISARQTDE------------HLY--IVVEDDGPGIPLSKREVIFDR-- 97
Query: 536 QNQAIALRNSSGSGLGLAICKRFVNLMEGHI 566
+ LR G G+GLA+ + EG I
Sbjct: 98 GQRVDTLR--PGQGVGLAVAREITEQYEGKI 126
>pdb|2Q2E|B Chain B, Crystal Structure Of The Topoisomerase Vi Holoenzyme From
Methanosarcina Mazei
Length = 621
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 510 YLRVQVKDSGSGISPQDIPNLFTKFAQNQAI-ALRNSSG-SGLGLAICKRFVNLMEG 564
Y+ V ++D+G GI + IP +F K AL+ S G G+G++ + + G
Sbjct: 73 YVTVIIEDNGPGIVREQIPKVFAKLLYGSRFHALKQSRGQQGIGISAAVLYAQMTAG 129
>pdb|3ECQ|A Chain A, Endo-Alpha-N-Acetylgalactosaminidase From Streptococcus
Pneumoniae: Semet Structure
pdb|3ECQ|B Chain B, Endo-Alpha-N-Acetylgalactosaminidase From Streptococcus
Pneumoniae: Semet Structure
Length = 1531
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 204 GYTVPIQLPVINQVFSSNHAVKISPNCPVARLRPLAGKYM 243
G+T+P Q+ NQVF +NH +I+P ++ +Y+
Sbjct: 321 GHTLPGQVQQFNQVFINNH--RITPEVTYKKINETTAEYL 358
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
0.323 0.136 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,252,362
Number of Sequences: 62578
Number of extensions: 568836
Number of successful extensions: 1147
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1118
Number of HSP's gapped (non-prelim): 25
length of query: 604
length of database: 14,973,337
effective HSP length: 104
effective length of query: 500
effective length of database: 8,465,225
effective search space: 4232612500
effective search space used: 4232612500
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)