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= psy17703
(720 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm:
Functional Insights For An Aaa+ Hexameric Helicase
Length = 595
Score = 204 bits (519), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 111/264 (42%), Positives = 159/264 (60%), Gaps = 16/264 (6%)
Query: 344 AEINILLCGDPGTSKSQLLSYVYDLVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTG 403
+I+IL+ GDPGT+KSQ+L ++ + PR+ YT+GKGS+A GLTA + ++ T + L+ G
Sbjct: 326 GDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAG 385
Query: 404 ALVLADSGVCCIDEFDKMSDTTRSILHEVMEQQTLSIAKAGIICQLNARTSILAAANPCD 463
ALVLAD G+ IDE DKM D R +HE MEQQT+SIAKAGI+ +LNAR +++AA NP
Sbjct: 386 ALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKF 445
Query: 464 SQWNTSKTIIDNIRLPHTXXXXXXXXXXXXXPQSEQFDARLARH-------------LDI 510
++ + + + DNI LP T EQ D LA + +DI
Sbjct: 446 GRYISERPVSDNINLPPTILSRFDLIFILKDQPGEQ-DRELANYILDVHSGKSTKNIIDI 504
Query: 511 TVLRDYIAYAQEHLSPTLSEEASQRLIQTYVDMRKLGAGR--GRISAYPRQLESLIRLSE 568
LR YIAYA+++++P ++ EA + +V+MRK + I PRQLE+LIR+SE
Sbjct: 505 DTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRISE 564
Query: 569 AHAKMRYSETVEVQDVDEAWRLHR 592
A+AKM V +D + A + R
Sbjct: 565 AYAKMALKAEVTREDAERAINIMR 588
Score = 86.3 bits (212), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 38/59 (64%), Positives = 46/59 (77%)
Query: 655 GALVLADSGVCCIDEFDKMSDTTRSILHEVMEQQTLSIAKAGIICQLNARTSILAAANP 713
GALVLAD G+ IDE DKM D R +HE MEQQT+SIAKAGI+ +LNAR +++AA NP
Sbjct: 385 GALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNP 443
Score = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 47/137 (34%), Positives = 79/137 (57%), Gaps = 16/137 (11%)
Query: 1 MPAGQTPHSVVLFTYNDLVDSIQPGDRVTVTGIYRAVPLQVNPRMRSVKSVYKTHIDV-- 58
+P+GQ P + + +DLVDS +PGDRV VTGI Q +P R ++V+ ++ V
Sbjct: 198 VPSGQLPRQLEIILEDDLVDSARPGDRVKVTGILDI--KQDSPVKRGSRAVFDIYMKVSS 255
Query: 59 --VHFRKIDATRLYKQDEKEHKFPPERVELLKSLSRKPDIYERLTSAICPSIYGYEDVKK 116
V + +D + ++DEK+ +K L++ P I +R+ S+I PSIYG+ ++K+
Sbjct: 256 IEVSQKVLDEVIISEEDEKK----------IKDLAKDPWIRDRIISSIAPSIYGHWELKE 305
Query: 117 GIMLQMFGGTKKTFDET 133
+ L +FGG K ++T
Sbjct: 306 ALALALFGGVPKVLEDT 322
Score = 56.2 bits (134), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 35/172 (20%), Positives = 78/172 (45%), Gaps = 6/172 (3%)
Query: 181 RIRQIFSLEDPVLNVNLAHLAKFDSQLCQQLVCYPQEVIPILDMGVNEYFFERHPAAVLE 240
RI ++ + L + + + F+ L +++ + ++PIL+ + ++ + P +
Sbjct: 27 RINELVAYRKKSLIIEFSDVLSFNENLAYEIINNTKIILPILEGALYDHILQLDPTYQRD 86
Query: 241 -HQIQVRPFNAKKTRNLRHLNPEDIDQLITINGMVIRTSNIIPEMREAFFRCIVCNYSTT 299
++ VR + LR + DI +LITI+G++++ + + + +A ++ I +
Sbjct: 87 IEKVHVRIVGIPRVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQE 146
Query: 300 VEIDRGR-----IHEPTLCTNCSTNHCFSLVHNRSHFTDKQLVRLQETPAEI 346
E + PT+C C F L+ ++ D Q +QE P E+
Sbjct: 147 FEWPEDEEMPEVLEMPTICPKCGKPGQFRLIPEKTKLIDWQKAVIQERPEEV 198
>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog
From Methanopyrus Kandleri
Length = 506
Score = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 96/278 (34%), Positives = 141/278 (50%), Gaps = 24/278 (8%)
Query: 346 INILLCGDPGTSKSQLLSYVYD-LVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTGA 404
+++LL G P S++L +V D L PR Y + + LTA + +D R L+ GA
Sbjct: 240 LHVLLAGYPVVC-SEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKED---RGWALRAGA 295
Query: 405 LVLADSGVCCIDEFDKMSDTTRSILHEVMEQQTLSIAKAGIICQLNARTSILAAANPCDS 464
VLAD G+ +D + + R L E M++ T+++ GI LNAR ++LAA NP +
Sbjct: 296 AVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVD--GI--ALNARCAVLAAINPGE- 350
Query: 465 QWNTSKTI----IDNIRLPHTXXXXXXXXXXXXXPQSEQFDARLARHLDITVLRDYIAYA 520
QW + I +D L H EQ D + + T+LR Y+ YA
Sbjct: 351 QWPSDPPIARIDLDQDFLSHFDLIAFLGVDPRPGEPEEQ-DTEVPSY---TLLRRYLLYA 406
Query: 521 -QEHLSPTLSEEASQRLIQTYVDMRK-----LGAGRGRISAYPRQLESLIRLSEAHAKMR 574
+EH +P L+EEA +RL Y R+ LG G + RQLES+ RL++AHA+MR
Sbjct: 407 IREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMR 466
Query: 575 YSETVEVQDVDEAWRLHREALKQSATDPLSGKIDVSIL 612
S+ VE +DVD A L L+ + P +I +S L
Sbjct: 467 LSDDVEPEDVDIAAELVDWYLETAMQIPGGDEIRISSL 504
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 5/66 (7%)
Query: 655 GALVLADSGVCCIDEFDKMSDTTRSILHEVMEQQTLSIAKAGIICQLNARTSILAAANPC 714
GA VLAD G+ +D + + R L E M++ T+++ GI LNAR ++LAA NP
Sbjct: 294 GAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTV--DGI--ALNARCAVLAAINPG 349
Query: 715 DSQWNT 720
+ QW +
Sbjct: 350 E-QWPS 354
>pdb|1LTL|A Chain A, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|B Chain B, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|C Chain C, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|D Chain D, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|E Chain E, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|F Chain F, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
Length = 279
Score = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 71/170 (41%), Gaps = 15/170 (8%)
Query: 193 LNVNLAHLAKFDSQLCQQLVCYPQEVIPILDMGVNEYFFERHPAAVLEHQIQVRPFNAKK 252
+ V+ L FD L L+ P +VI + +R V + +R
Sbjct: 44 IEVDYLDLEMFDPDLADLLIEKPDDVIRAAQQAIRN--IDRLRKNV---DLNIRFSGISN 98
Query: 253 TRNLRHLNPEDIDQLITINGMVIRTSNIIPEMREAFFRCIVCNYSTTVEIDRGRIHEPTL 312
LR L + I + + ++G+V +T I P + +A F C C V I EP+L
Sbjct: 99 VIPLRELRSKFIGKFVAVDGIVRKTDEIRPRIVKAVFECRGCMRHHAVTQSTNMITEPSL 158
Query: 313 CTNCSTNHCFSLVHNRSHFTDKQLVRLQ---------ETPAEINILLCGD 353
C+ C F L+ + S F D Q ++LQ E P +I ++L D
Sbjct: 159 CSECG-GRSFRLLQDESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDD 207
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 49/100 (49%), Gaps = 13/100 (13%)
Query: 1 MPAGQTPHSVVLFTYNDLVDSIQPGDRVTVTGIYRAVPLQVNPRMRSVKSVYKTHIDVVH 60
+ G+ P + + +DLVD++ PGD V VTG R V + R + K+ +
Sbjct: 191 LSGGEQPRQITVVLEDDLVDTLTPGDIVRVTGTLRTVR---DERTKRFKNFIYGNYTEFL 247
Query: 61 FRKIDATRLYKQDEKEHKFPPERVELLKSLSRKPDIYERL 100
++ + ++ ++DE E +K L+ P+IYE++
Sbjct: 248 EQEFEELQISEEDE----------EKIKELAGDPNIYEKI 277
>pdb|2VL6|A Chain A, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
pdb|2VL6|B Chain B, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
pdb|2VL6|C Chain C, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
Length = 268
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 35/172 (20%), Positives = 78/172 (45%), Gaps = 6/172 (3%)
Query: 181 RIRQIFSLEDPVLNVNLAHLAKFDSQLCQQLVCYPQEVIPILDMGVNEYFFERHPAAVLE 240
RI ++ + L + + + F+ L +++ + ++PIL+ + ++ + P +
Sbjct: 33 RINELVAYRKKSLIIEFSDVLSFNENLAYEIINNTKIILPILEGALYDHILQLDPTYQRD 92
Query: 241 -HQIQVRPFNAKKTRNLRHLNPEDIDQLITINGMVIRTSNIIPEMREAFFRCIVCNYSTT 299
++ VR + LR + DI +LITI+G++++ + + + +A ++ I +
Sbjct: 93 IEKVHVRIVGIPRVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQE 152
Query: 300 VEIDRGR-----IHEPTLCTNCSTNHCFSLVHNRSHFTDKQLVRLQETPAEI 346
E + PT+C C F L+ ++ D Q +QE P E+
Sbjct: 153 FEWPEDEEMPEVLEMPTICPKCGKPGQFRLIPEKTKLIDWQKAVIQERPEEV 204
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 1 MPAGQTPHSVVLFTYNDLVDSIQPGDRVTVTGIYRAVPLQVNPRMRSVKSVYKTHIDV 58
+P+GQ P + + +DLVDS +PGDRV VTGI Q +P R ++V+ ++ V
Sbjct: 204 VPSGQLPRQLEIILEDDLVDSARPGDRVKVTGILDI--KQDSPVKRGSRAVFDIYMKV 259
>pdb|1UIU|A Chain A, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Unliganded Form)
pdb|1UIU|B Chain B, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Unliganded Form)
pdb|1UIV|A Chain A, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Liganded Form)
pdb|1UIV|B Chain B, Crystal Structures Of The Liganded And Unliganded Nickel
Binding Protein Nika From Escherichia Coli (Nickel
Liganded Form)
Length = 502
Score = 32.3 bits (72), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 13/115 (11%)
Query: 366 YDLVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTG--ALVLADSGVCCIDEFDKMSD 423
YD+ R++ G+ + +T + DP TR + +TG L+ + G+ +D F + S
Sbjct: 175 YDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQ 234
Query: 424 TT--RSILHEVMEQQTLSIAKA-GIICQLNARTSILAAANPCDSQWNTSKTIIDN 475
+ L + +E L++ A +L R ++ A N K++IDN
Sbjct: 235 NPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVN--------KKSLIDN 281
>pdb|1ZLQ|A Chain A, Crystallographic And Spectroscopic Evidence For High
Affinity Binding Of Fe Edta (h2o)- To The Periplasmic
Nickel Transporter Nika
pdb|1ZLQ|B Chain B, Crystallographic And Spectroscopic Evidence For High
Affinity Binding Of Fe Edta (h2o)- To The Periplasmic
Nickel Transporter Nika
pdb|3DP8|A Chain A, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Nickel Butane-1,2,4- Tricarboxylate Form)
pdb|3DP8|B Chain B, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Nickel Butane-1,2,4- Tricarboxylate Form)
pdb|3DP8|C Chain C, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Nickel Butane-1,2,4- Tricarboxylate Form)
pdb|3E3K|A Chain A, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Butane-1,2,4-Tricarboxylate Without Nickel Form)
pdb|3E3K|B Chain B, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Butane-1,2,4-Tricarboxylate Without Nickel Form)
pdb|3E3K|C Chain C, Structural Characterization Of A Putative Endogenous Metal
Chelator In The Periplasmic Nickel Transporter Nika
(Butane-1,2,4-Tricarboxylate Without Nickel Form)
pdb|3MVW|A Chain A, X-Ray Structure Of A "nika+iron Complex" Hybrid, Nika1
pdb|3MVW|B Chain B, X-Ray Structure Of A "nika+iron Complex" Hybrid, Nika1
pdb|3MVX|A Chain A, X-Ray Structure Of The Reduced Nika1 HYBRID, NIKA1-Red
pdb|3MVX|B Chain B, X-Ray Structure Of The Reduced Nika1 HYBRID, NIKA1-Red
pdb|3MVY|A Chain A, X-Ray Structure Of The Diatomic Oxo-Intermediate
Nika1-Int', Prior Hydroxylation
pdb|3MVY|B Chain B, X-Ray Structure Of The Diatomic Oxo-Intermediate
Nika1-Int', Prior Hydroxylation
pdb|3MVZ|A Chain A, X-Ray Structure Of The (Hydro)peroxo Intermediate
Nika1-Int", After Monohydroxylation Of The Iron Complex
pdb|3MVZ|B Chain B, X-Ray Structure Of The (Hydro)peroxo Intermediate
Nika1-Int", After Monohydroxylation Of The Iron Complex
pdb|3MW0|A Chain A, X-Ray Structure Of The Doubly Hydroxylated Iron
Complex-Nika Species, Nika1O2
pdb|3MW0|B Chain B, X-Ray Structure Of The Doubly Hydroxylated Iron
Complex-Nika Species, Nika1O2
pdb|3MZ9|A Chain A, X-Ray Structure Of Nika In Complex With Hbed
pdb|3MZ9|B Chain B, X-Ray Structure Of Nika In Complex With Hbed
pdb|4DCX|A Chain A, X-Ray Structure Of Nika In Complex With
Fe(1r,2r)-N,N'-Bis(2-
Pyridylmethyl)-N,N'-Dicarboxymethyl-1,
2-Cyclohexanediamine
pdb|4DCX|B Chain B, X-Ray Structure Of Nika In Complex With
Fe(1r,2r)-N,N'-Bis(2-
Pyridylmethyl)-N,N'-Dicarboxymethyl-1,
2-Cyclohexanediamine
pdb|4DCY|A Chain A, X-Ray Structure Of Nika In Complex With
Fe(1s,2s)-N,N-Kappa-Bis(2-
Pyridylmethyl)-N-Carboxymethyl-N-Kappa-Methyl-1,
2-Cyclohexanediamine
pdb|4DCY|B Chain B, X-Ray Structure Of Nika In Complex With
Fe(1s,2s)-N,N-Kappa-Bis(2-
Pyridylmethyl)-N-Carboxymethyl-N-Kappa-Methyl-1,
2-Cyclohexanediamine
pdb|4I8C|A Chain A, X-ray Structure Of Nika In Complex With Ni-(l-his)2
pdb|4I8C|B Chain B, X-ray Structure Of Nika In Complex With Ni-(l-his)2
pdb|4I8C|C Chain C, X-ray Structure Of Nika In Complex With Ni-(l-his)2
Length = 502
Score = 32.3 bits (72), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 13/115 (11%)
Query: 366 YDLVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTG--ALVLADSGVCCIDEFDKMSD 423
YD+ R++ G+ + +T + DP TR + +TG L+ + G+ +D F + S
Sbjct: 175 YDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQ 234
Query: 424 TT--RSILHEVMEQQTLSIAKA-GIICQLNARTSILAAANPCDSQWNTSKTIIDN 475
+ L + +E L++ A +L R ++ A N K++IDN
Sbjct: 235 NPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVN--------KKSLIDN 281
>pdb|3R5T|A Chain A, Crystal Structure Of Holo-Viup
Length = 305
Score = 32.3 bits (72), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 18/104 (17%)
Query: 511 TVLRDYIAYAQEHLSPTLS-----EEASQRLIQTYV-------DMRKLGAGRGRISAY-- 556
T+L DY + L+ L EE ++R I + D+ L GR I +Y
Sbjct: 113 TILVDYSDQTWQSLAQQLGLATGLEEQAERTIHNFEQWTKQVRDVLDLPKGRANIVSYHG 172
Query: 557 PRQLESLIRLSEAHAKMRYSETVEVQDVDEAWR----LHREALK 596
P + ++ + AHA++ S V +++ D AW+ +HR+ L+
Sbjct: 173 PGVVNAVAKAQSAHAQLLQSVGVVLEEPDPAWQAGSIVHRDFLR 216
>pdb|3R5S|A Chain A, Crystal Structure Of Apo-Viup
Length = 305
Score = 32.3 bits (72), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 18/104 (17%)
Query: 511 TVLRDYIAYAQEHLSPTLS-----EEASQRLIQTYV-------DMRKLGAGRGRISAY-- 556
T+L DY + L+ L EE ++R I + D+ L GR I +Y
Sbjct: 113 TILVDYSDQTWQSLAQQLGLATGLEEQAERTIHNFEQWTKQVRDVLDLPKGRANIVSYHG 172
Query: 557 PRQLESLIRLSEAHAKMRYSETVEVQDVDEAWR----LHREALK 596
P + ++ + AHA++ S V +++ D AW+ +HR+ L+
Sbjct: 173 PGVVNAVAKAQSAHAQLLQSVGVVLEEPDPAWQAGSIVHRDFLR 216
>pdb|3QIM|A Chain A, Histidine 416 Of The Periplamsic Binding Protein Nika Is
Essential For Nickel Uptake In Escherichia Coli
pdb|3QIM|B Chain B, Histidine 416 Of The Periplamsic Binding Protein Nika Is
Essential For Nickel Uptake In Escherichia Coli
Length = 502
Score = 32.3 bits (72), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 13/115 (11%)
Query: 366 YDLVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTG--ALVLADSGVCCIDEFDKMSD 423
YD+ R++ G+ + +T + DP TR + +TG L+ + G+ +D F + S
Sbjct: 175 YDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQ 234
Query: 424 TT--RSILHEVMEQQTLSIAKA-GIICQLNARTSILAAANPCDSQWNTSKTIIDN 475
+ L + +E L++ A +L R ++ A N K++IDN
Sbjct: 235 NPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVN--------KKSLIDN 281
>pdb|3MZB|A Chain A, X-Ray Structure Of Nika In Complex With The Doubly
Hydroxylated Iron Complex, 1-O2
pdb|3MZB|B Chain B, X-Ray Structure Of Nika In Complex With The Doubly
Hydroxylated Iron Complex, 1-O2
Length = 501
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 13/115 (11%)
Query: 366 YDLVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTG--ALVLADSGVCCIDEFDKMSD 423
YD+ R++ G+ + +T + DP TR + +TG L+ + G+ +D F + S
Sbjct: 175 YDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQ 234
Query: 424 TT--RSILHEVMEQQTLSIAKA-GIICQLNARTSILAAANPCDSQWNTSKTIIDN 475
+ L + +E L++ A +L R ++ A N K++IDN
Sbjct: 235 NPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVN--------KKSLIDN 281
>pdb|2NOO|A Chain A, Crystal Structure Of Mutant Nika
Length = 502
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 13/115 (11%)
Query: 366 YDLVPRSQYTSGKGSSAVGLTAYITKDPETRQMVLQTG--ALVLADSGVCCIDEFDKMSD 423
YD+ R++ G+ + +T + DP TR + +TG L+ + G+ +D F + S
Sbjct: 175 YDVFVRNENYWGEKPAIKKITFNVIPDPTTRAVAFETGDIDLLYGNEGLLPLDTFARFSQ 234
Query: 424 TT--RSILHEVMEQQTLSIAKA-GIICQLNARTSILAAANPCDSQWNTSKTIIDN 475
+ L + +E L++ A +L R ++ A N K++IDN
Sbjct: 235 NPAYHTQLSQPIETVMLALNTAKAPTNELAVREALNYAVN--------KKSLIDN 281
>pdb|3TAZ|A Chain A, Crystal Structure Of Nura Bound To Damp And Manganese
pdb|3TAZ|B Chain B, Crystal Structure Of Nura Bound To Damp And Manganese
Length = 471
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 513 LRDYIAYAQEHL-------SPTLSEEASQRLIQTYVDMRKLGAGRGRISA-YPRQ 559
LRD+ +EHL SP L++ ++L + Y+D + + G G++ PR+
Sbjct: 189 LRDHYRKVEEHLEKNGNYDSPILTDNVVEKLRKKYIDTKVIAYGSGKVKVKIPRK 243
>pdb|3TAI|A Chain A, Crystal Structure Of Nura
pdb|3TAI|B Chain B, Crystal Structure Of Nura
pdb|3TAL|A Chain A, Crystal Structure Of Nura With Manganese
pdb|3TAL|B Chain B, Crystal Structure Of Nura With Manganese
Length = 471
Score = 29.6 bits (65), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 513 LRDYIAYAQEHL-------SPTLSEEASQRLIQTYVDMRKLGAGRGRISA-YPRQ 559
LRD+ +EHL SP L++ ++L + Y+D + + G G++ PR+
Sbjct: 189 LRDHYRKVEEHLEKNGNYDSPILTDNVVEKLRKKYIDTKVIAYGSGKVKVKIPRK 243
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 347 NILLCGDPGTSK---SQLLSYVYDLVPRSQYTSGKGSSAVGLT--AYITKDPE---TRQM 398
NILL G G+ K +Q L+ D +P + S A LT Y+ +D E TR +
Sbjct: 74 NILLIGPTGSGKTLMAQTLAKHLD-IPIAI------SDATSLTEAGYVGEDVENILTRLL 126
Query: 399 VLQTGALVLADSGVCCIDEFDKMS------DTTRSILHEVMEQQTLSIAKAGII 446
+ A G+ IDE DK+S TR + E ++Q L I + ++
Sbjct: 127 QASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLV 180
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
0.320 0.134 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,695,646
Number of Sequences: 62578
Number of extensions: 778702
Number of successful extensions: 1844
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1818
Number of HSP's gapped (non-prelim): 24
length of query: 720
length of database: 14,973,337
effective HSP length: 106
effective length of query: 614
effective length of database: 8,340,069
effective search space: 5120802366
effective search space used: 5120802366
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)