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= 019696
(337 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 185 bits (469), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/306 (35%), Positives = 166/306 (54%), Gaps = 28/306 (9%)
Query: 47 AGDFTKIQDAIDSLPFINLVRVVIKVHAGVYKEKVNIPPFKSFITIEGAGADKTIVQWGD 106
+GD+ + +A+ + P + R VI++ AGVY+E V++P K I G G TI+
Sbjct: 16 SGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTSTIITASK 75
Query: 107 TAQTRGPRGQPIGTWASATFAVNAPYFIAKNITFKNTTPVPAPGAVGKQAVAFRISADTA 166
Q T+ SAT A F+A++ITF+NT GA QAVA R+ +D +
Sbjct: 76 NVQDGST------TFNSATVAAVGAGFLARDITFQNTA-----GAAKHQAVALRVGSDLS 124
Query: 167 TFWGCKFLGAQDTLYDHVGRHYYKDCYIEGSVDFIFGNALSLFEGCHVHAIAQYTG---A 223
F+ C L QD+LY H R ++ +C+I G+VDFIFGNA + + C +HA +G
Sbjct: 125 AFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPGSGQKNM 184
Query: 224 LTAQGRSSLLEDTGFSFVNCKVTGSGAL---------YLGRAWGPFSRVVFAYTYMDNII 274
+TAQGR+ ++TG ++ + L YLGR W +SR V + + N+I
Sbjct: 185 VTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQSSITNVI 244
Query: 275 IPKGWYNWGDPNREM-TVFYGQYKCKGPGASFAGRVSWA--RELTDE-EAKPFISLSFID 330
P GW+ W D N + T++YG+Y+ G GA+ +GRV+W + +T EA+ F SFI
Sbjct: 245 NPAGWFPW-DGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQGFTPGSFIA 303
Query: 331 GSEWIK 336
G W+K
Sbjct: 304 GGSWLK 309
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 148/313 (47%), Gaps = 30/313 (9%)
Query: 41 VAKNPAAGDFTKIQDAIDSLPFINLVRVVIKVHAGVYKEKVNIPPFKSFITIEGAGADKT 100
V GD+ + +A+ + P + R VI V G YKE V + K + I G G T
Sbjct: 6 VVAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYAT 65
Query: 101 IVQWGDTAQTRGPRGQPIGTWASATFAVNAPYFIAKNITFKNTTPVPAPGAVGKQAVAFR 160
+ G G T+ SAT A FI ++I +NT G QAVA R
Sbjct: 66 TIT-GSLNVVDGST-----TFRSATLAAVGQGFILQDICIQNTA-----GPAKDQAVALR 114
Query: 161 ISADTATFWGCKFLGAQDTLYDHVGRHYYKDCYIEGSVDFIFGNALSLFEGCHVHAIAQY 220
+ AD + C+ QDTLY H R +Y+D Y+ G+VDFIFGNA +F+ C + +A+
Sbjct: 115 VGADMSVINRCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQL--VARK 172
Query: 221 TG-----ALTAQGRSSLLEDTGFSFVNCKVTGSGAL---------YLGRAWGPFSRVVFA 266
G +TAQGR+ + TG S C + S L YLGR W +SR V
Sbjct: 173 PGKYQQNMVTAQGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVM 232
Query: 267 YTYMDNIIIPKGWYNWGDPNREMTVFYGQYKCKGPGASFAGRVSWA--RELTD-EEAKPF 323
+Y+ +I P GW W T++YG++ GPGA + RV W +TD +A PF
Sbjct: 233 ESYLGGLINPAGWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPF 292
Query: 324 ISLSFIDGSEWIK 336
I G W++
Sbjct: 293 TVAKLIQGGSWLR 305
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 118 bits (295), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 106/333 (31%), Positives = 154/333 (46%), Gaps = 57/333 (17%)
Query: 37 YTLTVAKNPAAGDFTKIQDAIDSLPFINLVRVVIKVHAGVYKEKVNIPPFKSFITIEGAG 96
Y V+ P +F+ I A+ S P + +I + GVY E++ + +S +T++G
Sbjct: 31 YNAVVSTTPQGDEFSSINAALKSAP-KDDTPFIIFLKNGVYTERLEVA--RSHVTLKGEN 87
Query: 97 ADKTIVQWGDTAQTRGPRGQPIGTWASATFAVNAPYFIAKNITFKNTTPVPA-------- 148
D T++ A P+G+ GT S+T VNAP F A+N+T +N PA
Sbjct: 88 RDGTVIGANTAAGMLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTD 147
Query: 149 PGAV-GKQAVAFRIS--ADTATFWGCKFLGAQDTLYDHVG-RHYYKDCYIEGSVDFIFGN 204
P + QAVA ++ +D A F K G QDTLY G R Y+ DC I G VDFIFG+
Sbjct: 148 PTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGS 207
Query: 205 ALSLFEGCHVHA-----IAQYTGALTAQGRSSLLEDT-GFSFVNCKVTG-----SGALYL 253
+++F+ C++ A I G +TA S+L G F+N ++T + + L
Sbjct: 208 GITVFDNCNIVARDRSDIEPPYGYITAP--STLTTSPYGLIFINSRLTKEPGVPANSFAL 265
Query: 254 GRAWGP--------------FSRVVFAYTYMDNIIIPKGWYNWG--DPNREMTVFYGQ-- 295
GR W P + VF T MD+ I GW D E FY Q
Sbjct: 266 GRPWHPTTTFADGRYADPAAIGQSVFINTTMDDHIY--GWDKMSGKDKQGEKIWFYPQDS 323
Query: 296 ----YKCKGPGASF-AGRVSWARELTDEEAKPF 323
+GPGA+ GR R+L+ E+ K F
Sbjct: 324 RFFEANSQGPGAAINEGR----RQLSAEQLKAF 352
>pdb|2NTB|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTB|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTP|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTP|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTQ|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
pdb|2NTQ|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
Length = 342
Score = 91.7 bits (226), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 99/339 (29%), Positives = 148/339 (43%), Gaps = 66/339 (19%)
Query: 37 YTLTVAKNPAAGD-FTKIQDAIDSLPFINLVRVVIKVHAGVYKEKVNIPPFKSFITIEGA 95
Y V+K+ + G F I DAI S P VI + GVY E++ I ++ + ++G
Sbjct: 4 YNAVVSKSSSDGKTFKTIADAIASAP-AGSTPFVILIKNGVYNERLTIT--RNNLHLKGE 60
Query: 96 GADKTIVQWGDTAQTRGPRGQPIGTWASATFAVNAPYFIAKNITFKNTTPVPAPGAVGK- 154
+ ++ A T G GT S+T ++A F A+++T +N PA A
Sbjct: 61 SRNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDS 120
Query: 155 --------QAVAFRI--SADTATFWGCKFLGAQDTLYDHVGRHYYKDCYIEGSVDFIFGN 204
QAVA + S D A F +G QDTLY GR ++ DC I G+VDFIFG+
Sbjct: 121 DSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGD 180
Query: 205 ALSLFEGCHVHAIAQY---------TGALTAQGRSSLLEDTGFSFVNCKVTGSG------ 249
+LF C + +++Y +G LTA +++ + G N +V
Sbjct: 181 GTALFNNCDL--VSRYRADVKSGNVSGYLTAPS-TNINQKYGLVITNSRVIRESDSVPAK 237
Query: 250 ALYLGRAWGP--------------FSRVVFAYTYMDNIIIPKGWYN-----------WGD 284
+ LGR W P + VF T MDN I GW W +
Sbjct: 238 SYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHIY--GWDKMSGKDKNGNTIWFN 295
Query: 285 PNREMTVFYGQYKCKGPGASFAGRVSWARELTDEEAKPF 323
P E + F+ +YK G GA+ + R+LTD +A +
Sbjct: 296 P--EDSRFF-EYKSYGAGATVSKD---RRQLTDAQAAEY 328
>pdb|1QJV|A Chain A, Pectin Methylesterase Pema From Erwinia Chrysanthemi
pdb|1QJV|B Chain B, Pectin Methylesterase Pema From Erwinia Chrysanthemi
Length = 342
Score = 91.7 bits (226), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 99/339 (29%), Positives = 148/339 (43%), Gaps = 66/339 (19%)
Query: 37 YTLTVAKNPAAGD-FTKIQDAIDSLPFINLVRVVIKVHAGVYKEKVNIPPFKSFITIEGA 95
Y V+K+ + G F I DAI S P VI + GVY E++ I ++ + ++G
Sbjct: 4 YNAVVSKSSSDGKTFKTIADAIASAP-AGSTPFVILIKNGVYNERLTIT--RNNLHLKGE 60
Query: 96 GADKTIVQWGDTAQTRGPRGQPIGTWASATFAVNAPYFIAKNITFKNTTPVPAPGAVGK- 154
+ ++ A T G GT S+T ++A F A+++T +N PA A
Sbjct: 61 SRNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDS 120
Query: 155 --------QAVAFRI--SADTATFWGCKFLGAQDTLYDHVGRHYYKDCYIEGSVDFIFGN 204
QAVA + S D A F +G QDTLY GR ++ DC I G+VDFIFG+
Sbjct: 121 DSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGD 180
Query: 205 ALSLFEGCHVHAIAQY---------TGALTAQGRSSLLEDTGFSFVNCKVTGSG------ 249
+LF C + +++Y +G LTA +++ + G N +V
Sbjct: 181 GTALFNNCDL--VSRYRADVKSGNVSGYLTAPS-TNINQKYGLVITNSRVIRESDSVPAK 237
Query: 250 ALYLGRAWGP--------------FSRVVFAYTYMDNIIIPKGWYN-----------WGD 284
+ LGR W P + VF T MDN I GW W +
Sbjct: 238 SYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHIY--GWDKMSGKDKNGNTIWFN 295
Query: 285 PNREMTVFYGQYKCKGPGASFAGRVSWARELTDEEAKPF 323
P E + F+ +YK G GA+ + R+LTD +A +
Sbjct: 296 P--EDSRFF-EYKSYGAGAAVSKD---RRQLTDAQAAEY 328
>pdb|2NSP|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NSP|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NST|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NST|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NT6|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT6|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT9|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
pdb|2NT9|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
Length = 342
Score = 88.6 bits (218), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 98/339 (28%), Positives = 147/339 (43%), Gaps = 66/339 (19%)
Query: 37 YTLTVAKNPAAGD-FTKIQDAIDSLPFINLVRVVIKVHAGVYKEKVNIPPFKSFITIEGA 95
Y V+K+ + G F I DAI S P VI + GVY E++ I ++ + ++G
Sbjct: 4 YNAVVSKSSSDGKTFKTIADAIASAP-AGSTPFVILIKNGVYNERLTIT--RNNLHLKGE 60
Query: 96 GADKTIVQWGDTAQTRGPRGQPIGTWASATFAVNAPYFIAKNITFKNTTPVPAPGAVGK- 154
+ ++ A T G GT S+T ++A F A+++T +N PA A
Sbjct: 61 SRNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDS 120
Query: 155 --------QAVAFRI--SADTATFWGCKFLGAQDTLYDHVGRHYYKDCYIEGSVDFIFGN 204
QAVA + S D A F +G Q TLY GR ++ DC I G+VDFIFG+
Sbjct: 121 DSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGD 180
Query: 205 ALSLFEGCHVHAIAQY---------TGALTAQGRSSLLEDTGFSFVNCKVTGSG------ 249
+LF C + +++Y +G LTA +++ + G N +V
Sbjct: 181 GTALFNNCDL--VSRYRADVKSGNVSGYLTAPS-TNINQKYGLVITNSRVIRESDSVPAK 237
Query: 250 ALYLGRAWGP--------------FSRVVFAYTYMDNIIIPKGWYN-----------WGD 284
+ LGR W P + VF T MDN I GW W +
Sbjct: 238 SYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHIY--GWDKMSGKDKNGNTIWFN 295
Query: 285 PNREMTVFYGQYKCKGPGASFAGRVSWARELTDEEAKPF 323
P E + F+ +YK G GA+ + R+LTD +A +
Sbjct: 296 P--EDSRFF-EYKSYGAGATVSKD---RRQLTDAQAAEY 328
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 60/255 (23%), Positives = 85/255 (33%), Gaps = 52/255 (20%)
Query: 51 TKIQDAIDSLPFINL-VRVVIKVHAGVYKEKVNIPPFKSFITIEGAGADKTIVQWG---- 105
T IQ A+D+ R I V G Y+ V +P IT+ G G V+ G
Sbjct: 90 TTIQAAVDAAIIKRTNKRQYIAVMPGEYQGTVYVPAAPGGITLYGTGEKPIDVKIGLSLD 149
Query: 106 ----------------------------DTAQTRGPRGQPIGTWASATFAVNAPYFIAKN 137
D+ Q++ R IG SA F +N
Sbjct: 150 GGMSPADWRHDVNPRGKYMPGKPAWYMYDSCQSK--RSDSIGVLCSAVFWSQNNGLQLQN 207
Query: 138 ITFKNTTPVPAPGAVGKQAVAFRISADTATFWGCKFLGAQDTLY------------DHVG 185
+T +NT + A AVA R D LG Q+T + +
Sbjct: 208 LTIENTLG-DSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQP 266
Query: 186 RHYYKDCYIEGSVDFIFGNALSLFEGCHVHAIAQYTGALTAQGRSSLLEDT--GFSFVNC 243
R + YIEG VD + G +F+ + T + L + GF VN
Sbjct: 267 RTLVTNSYIEGDVDIVSGRGAVVFDNTEFRVVNSRTQQEAYVFAPATLSNIYYGFLAVNS 326
Query: 244 KVT--GSGALYLGRA 256
+ G G LGR+
Sbjct: 327 RFNAFGDGVAQLGRS 341
>pdb|1NW1|A Chain A, Crystal Structure Of Choline Kinase
pdb|1NW1|B Chain B, Crystal Structure Of Choline Kinase
Length = 429
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 217 IAQYTGALTAQGRSSLLEDTGFSFVNCKVTGSGALYLGRAWGPFSRVVFAYTYMD----N 272
+ Q TG + A+ R L E+ G S VNC + + L RA S+ + + D N
Sbjct: 202 LKQLTGTVDAEHRFDLPEECGVSSVNC-LDLARELEFLRAHISLSKSPVTFCHNDLQEGN 260
Query: 273 IIIPKG 278
I++PK
Sbjct: 261 ILLPKA 266
>pdb|4DOP|A Chain A, Crystal Structure Of The Cusba Heavy-Metal Efflux Complex
From Escherichia Coli, R Mutant
Length = 1054
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 48 GDFTKIQDAIDSLPFINLVRVVIKVH-----AGVYKEKVNIPPFKSFITIEGAGADKTIV 102
G +T I +D+LP ++ V+V+IK + + +V P + +++ GA +
Sbjct: 34 GTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQIVENQVTYPLTTTMLSVPGAKTVRGFS 93
Query: 103 QWGDT 107
Q+GD+
Sbjct: 94 QFGDS 98
>pdb|3K07|A Chain A, Crystal Structure Of Cusa
pdb|3KSO|A Chain A, Structure And Mechanism Of The Heavy Metal Transporter
Cusa
pdb|3KSS|A Chain A, Structure And Mechanism Of The Heavy Metal Transporter
Cusa
pdb|3K0I|A Chain A, Crystal Structure Of Cu(I)cusa
Length = 1055
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 48 GDFTKIQDAIDSLPFINLVRVVIKVH-----AGVYKEKVNIPPFKSFITIEGAGADKTIV 102
G +T I +D+LP ++ V+V+IK + + +V P + +++ GA +
Sbjct: 35 GTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQIVENQVTYPLTTTMLSVPGAKTVRGFS 94
Query: 103 QWGDT 107
Q+GD+
Sbjct: 95 QFGDS 99
>pdb|4DNR|A Chain A, Crystal Structure Of The Cusba Heavy-metal Efflux Complex
From Escherichia Coli, E716f Mutant
Length = 1054
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 48 GDFTKIQDAIDSLPFINLVRVVIKVH-----AGVYKEKVNIPPFKSFITIEGAGADKTIV 102
G +T I +D+LP ++ V+V+IK + + +V P + +++ GA +
Sbjct: 34 GTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQIVENQVTYPLTTTMLSVPGAKTVRGFS 93
Query: 103 QWGDT 107
Q+GD+
Sbjct: 94 QFGDS 98
>pdb|4DNT|A Chain A, Crystal Structure Of The Cusba Heavy-Metal Efflux Complex
From Escherichia Coli, Mutant
Length = 1054
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 48 GDFTKIQDAIDSLPFINLVRVVIKVH-----AGVYKEKVNIPPFKSFITIEGAGADKTIV 102
G +T I +D+LP ++ V+V+IK + + +V P + +++ GA +
Sbjct: 34 GTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQIVENQVTYPLTTTMLSVPGAKTVRGFS 93
Query: 103 QWGDT 107
Q+GD+
Sbjct: 94 QFGDS 98
>pdb|3T51|A Chain A, Crystal Structures Of The Pre-Extrusion And Extrusion
States Of The Cusba Adaptor-Transporter Complex
pdb|3T53|A Chain A, Crystal Structures Of The Extrusion State Of The Cusba
Adaptor- Transporter Complex
pdb|3T56|A Chain A, Crystal Structure Of The Pre-Extrusion State Of The Cusba
Adaptor- Transporter Complex
Length = 1054
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 48 GDFTKIQDAIDSLPFINLVRVVIKVH-----AGVYKEKVNIPPFKSFITIEGAGADKTIV 102
G +T I +D+LP ++ V+V+IK + + +V P + +++ GA +
Sbjct: 34 GTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQIVENQVTYPLTTTMLSVPGAKTVRGFS 93
Query: 103 QWGDT 107
Q+GD+
Sbjct: 94 QFGDS 98
>pdb|3NE5|A Chain A, Crystal Structure Of The Cusba Heavy-Metal Efflux Complex
From Escherichia Coli
Length = 1054
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 5/65 (7%)
Query: 48 GDFTKIQDAIDSLPFINLVRVVIKVH-----AGVYKEKVNIPPFKSFITIEGAGADKTIV 102
G +T I +D+LP ++ V+V+IK + + +V P + +++ GA +
Sbjct: 34 GTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQIVENQVTYPLTTTMLSVPGAKTVRGFS 93
Query: 103 QWGDT 107
Q+GD+
Sbjct: 94 QFGDS 98
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 16/59 (27%)
Query: 111 RGPRGQPIG---------------TWASATFAVNAPYFIAKNITFKNTTPVPAPGAVGK 154
+GP G PI TW +F N Y +++TFKNTT VP G V +
Sbjct: 247 KGPSGAPIAPATISDNGTYASPNLTWNLTSFINNVSYTFNQSVTFKNTT-VPFSGTVTQ 304
>pdb|2QZX|A Chain A, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
pdb|2QZX|B Chain B, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
Length = 342
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 174 LGAQDTLYDHVGRHYY-KDCYIEGSVDFIFGNALSL 208
+GAQ +D G Y DC G++DF FGN L +
Sbjct: 238 IGAQ-MKFDSAGNKVYVADCKTSGTIDFQFGNNLKI 272
>pdb|1LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus Aureus
pdb|2LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus Aureus
pdb|3LKF|A Chain A, Leukocidin F (Hlgb) From Staphylococcus Aureus With
Phosphocholine Bound
Length = 299
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 23/120 (19%), Positives = 51/120 (42%), Gaps = 14/120 (11%)
Query: 168 FWGCKF---LGAQDT----LYDHVGRHYYKDCYIEGSVDFIFGNALSLFEGCH-----VH 215
+WG K+ + +Q + D+ ++ ++ ++ ++ + FG +S+ G
Sbjct: 77 YWGAKYNVSISSQSNDSVNVVDYAPKNQNEEFQVQNTLGYTFGGDISISNGLSGGLNGNT 136
Query: 216 AIAQYTGALTAQGRSSLLEDTGFSFVNCKVTGSGALYLGRAWGPFSRVVFAYTYMDNIII 275
A ++ R++L +T + V V + G WGP+ R F TY + + +
Sbjct: 137 AFSETINYKQESYRTTLSRNTNYKNVGWGVEAHKIMNNG--WGPYGRDSFHPTYGNELFL 194
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
0.322 0.137 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,667,430
Number of Sequences: 62578
Number of extensions: 459389
Number of successful extensions: 882
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 863
Number of HSP's gapped (non-prelim): 20
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)