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= 008852
(551 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NMU|A Chain A, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|B Chain B, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|A Chain A, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|C Chain C, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
Length = 379
Score = 176 bits (445), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 101/258 (39%), Positives = 153/258 (59%), Gaps = 4/258 (1%)
Query: 143 SLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILY 202
+L+R +++ + D M+IQAI LDD+DK +N R+REWY HFPEL +++ + Y
Sbjct: 124 ALTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQY 183
Query: 203 AKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLS 261
VK +G R N + E+ L EE ++ EA +MG + D+ +++L +++
Sbjct: 184 VAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEIDR 243
Query: 262 LAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEK 321
L + R +L DY+ M+ VAPNL ALVG + ARLI+ G L LA P ST+Q+LGAEK
Sbjct: 244 LYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQVLGAEK 303
Query: 322 ALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSM 381
ALFR L+T PK+G+IY + ++ +GKI+R+LA K A+A R D +
Sbjct: 304 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS---GEYI 360
Query: 382 GLENRAKLEARLRNLEGK 399
E + +LEAR+R ++ K
Sbjct: 361 AEELKKELEARIREIKEK 378
>pdb|2NNW|A Chain A, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|C Chain C, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
Length = 376
Score = 174 bits (442), Expect = 9e-44, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 151/255 (59%), Gaps = 4/255 (1%)
Query: 143 SLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILY 202
+L+R +++ + D M+IQAI LDD+DK +N R+REWY HFPEL +++ + Y
Sbjct: 124 ALTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQY 183
Query: 203 AKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLS 261
VK +G R N + E+ L EE ++ EA +MG + D+ +++L +++
Sbjct: 184 VAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEIDR 243
Query: 262 LAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEK 321
L + R +L DY+ M+ VAPNL ALVG + ARLI+ G L LA P ST+Q+LGAEK
Sbjct: 244 LYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQVLGAEK 303
Query: 322 ALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSM 381
ALFR L+T PK+G+IY + ++ +GKI+R+LA K A+A R D +
Sbjct: 304 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS---GEYI 360
Query: 382 GLENRAKLEARLRNL 396
E + +LEAR+R +
Sbjct: 361 AEELKKELEARIREI 375
>pdb|3NVK|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|F Chain F, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 376
Score = 174 bits (440), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 100/253 (39%), Positives = 150/253 (59%), Gaps = 4/253 (1%)
Query: 143 SLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILY 202
+L+R +++ + D M+IQAI LDD+DK +N R+REWY HFPEL +++ + Y
Sbjct: 124 ALTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQY 183
Query: 203 AKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLS 261
VK +G R N + E+ L EE ++ EA +MG + D+ +++L +++
Sbjct: 184 VAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEIDR 243
Query: 262 LAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEK 321
L + R +L DY+ M+ VAPNL ALVG + ARLI+ G L LA P ST+Q+LGAEK
Sbjct: 244 LYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQVLGAEK 303
Query: 322 ALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSM 381
ALFR L+T PK+G+IY + ++ +GKI+R+LA K A+A R D +
Sbjct: 304 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS---GEYI 360
Query: 382 GLENRAKLEARLR 394
E + +LEAR+R
Sbjct: 361 AEELKKELEARIR 373
>pdb|3ID5|A Chain A, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|E Chain E, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|A Chain A, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|B Chain B, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|K Chain K, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 388
Score = 167 bits (422), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 91/217 (41%), Positives = 135/217 (62%), Gaps = 1/217 (0%)
Query: 140 LSHSLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDN 199
LS +R KL+ +A K D + IQA+ +DD+DK +N ++ R+REWY HFPEL K+I+D+
Sbjct: 120 LSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDH 179
Query: 200 ILYAKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQ 258
YA V GDR E+ E+ ++ +AA S+G ++S+ DL ++ + +
Sbjct: 180 EEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANT 239
Query: 259 VLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILG 318
+L L R L +YL+ M VAPN+TALVG +GARL++ GSL LAK P ST+Q+LG
Sbjct: 240 ILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPASTIQVLG 299
Query: 319 AEKALFRALKTKHATPKYGLIYHASLVGQAAPKHKGK 355
AEKALFRAL++ PK+G+I+ + + +GK
Sbjct: 300 AEKALFRALRSGGRPPKHGIIFQYPAIHTSPRWQRGK 336
>pdb|3NVM|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 371
Score = 161 bits (408), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 98/258 (37%), Positives = 149/258 (57%), Gaps = 12/258 (4%)
Query: 143 SLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILY 202
+L+R +++ + D M+IQAI LDD+ N R+REWY HFPEL +++ + Y
Sbjct: 124 ALTRMRIQEQSGARDKMVIQAIEALDDI----NLLVARLREWYSLHFPELDELLPKHPQY 179
Query: 203 AKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLS 261
VK +G R N + E+ L EE ++ EA +MG + D+ +++L +++
Sbjct: 180 VAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEI-- 237
Query: 262 LAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEK 321
+ R +L DY+ M+ VAPNL ALVG + ARLI+ G L LA P ST+Q+LGAEK
Sbjct: 238 --QLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQVLGAEK 295
Query: 322 ALFRALKTKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSM 381
ALFR L+T PK+G+IY + ++ +GKI+R+LA K A+A R D +
Sbjct: 296 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFS---GEYI 352
Query: 382 GLENRAKLEARLRNLEGK 399
E + +LEAR+R ++ K
Sbjct: 353 AEELKKELEARIREIKEK 370
>pdb|3ICX|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|C Chain C, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
Length = 255
Score = 159 bits (402), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 85/202 (42%), Positives = 126/202 (62%), Gaps = 1/202 (0%)
Query: 155 KVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSN 214
K D + IQA+ +DD+DK +N ++ R+REWY HFPEL K+I+D+ YA V GDR
Sbjct: 2 KRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGF 61
Query: 215 AAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYL 273
E+ E+ ++ +AA S+G ++S+ DL ++ + + +L L R L +YL
Sbjct: 62 LTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNYL 121
Query: 274 KSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHAT 333
+ M VAPN+TALVG +GARL++ GSL LAK P ST+Q+LGAEKALFRAL++
Sbjct: 122 EGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPASTIQVLGAEKALFRALRSGGRP 181
Query: 334 PKYGLIYHASLVGQAAPKHKGK 355
PK+G+I+ + + +GK
Sbjct: 182 PKHGIIFQYPAIHTSPRWQRGK 203
>pdb|3SIU|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIU|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIV|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|H Chain H, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|K Chain K, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
Length = 254
Score = 116 bits (290), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 66/237 (27%), Positives = 125/237 (52%), Gaps = 2/237 (0%)
Query: 159 MIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAAK- 217
+I+ A L +++ ELN +R+ Y FPEL ++ + + Y + VK +G+ + K
Sbjct: 13 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKN 72
Query: 218 -LDFSEILPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSR 276
+ +IL + A + G ++S+ +L ++E CD L L + ++Y+Y++SR
Sbjct: 73 NENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYEYVESR 132
Query: 277 MNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKY 336
M+ +APNL+ ++G A+++ G L NL+K P + +LGA++ + P
Sbjct: 133 MSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGFSSTSVLPHT 192
Query: 337 GLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEARL 393
G IYH+ +V P + K +R +A+K LA R D+ + + +G E + ++E +
Sbjct: 193 GYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEIERKF 249
>pdb|2OZB|B Chain B, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|2OZB|E Chain E, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
Length = 260
Score = 115 bits (289), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 66/237 (27%), Positives = 125/237 (52%), Gaps = 2/237 (0%)
Query: 159 MIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDNILYAKAVKLMGDRSNAAK- 217
+I+ A L +++ ELN +R+ Y FPEL ++ + + Y + VK +G+ + K
Sbjct: 19 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKN 78
Query: 218 -LDFSEILPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQVLSLAEYRAQLYDYLKSR 276
+ +IL + A + G ++S+ +L ++E CD L L + ++Y+Y++SR
Sbjct: 79 NENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYEYVESR 138
Query: 277 MNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALKTKHATPKY 336
M+ +APNL+ ++G A+++ G L NL+K P + +LGA++ + P
Sbjct: 139 MSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGFSSTSVLPHT 198
Query: 337 GLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEARL 393
G IYH+ +V P + K +R +A+K LA R D+ + + +G E + ++E +
Sbjct: 199 GYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEIERKF 255
>pdb|3GQU|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain
pdb|3GQX|B Chain B, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A
Twinned Crystal Form
pdb|3GQX|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A
Twinned Crystal Form
Length = 169
Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 59/131 (45%), Positives = 82/131 (62%), Gaps = 3/131 (2%)
Query: 269 LYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQILGAEKALFRALK 328
L DY+ M+ VAPNL ALVG +GARLI+ G L LA P ST+Q+LGAEKALFR L+
Sbjct: 22 LEDYIDKAMDDVAPNLKALVGAKLGARLISLAGGLKELAMLPSSTIQVLGAEKALFRHLR 81
Query: 329 TKHATPKYGLIYHASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAK 388
T PK+G+IY + ++ +GKI+R+LA K A+A R D + E + +
Sbjct: 82 TGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDYF---SGEYIAEELKKE 138
Query: 389 LEARLRNLEGK 399
LEAR++ ++ K
Sbjct: 139 LEARIKEIKEK 149
>pdb|3ID6|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5 (1-262)
And Fibrillarin Complex
Length = 268
Score = 90.1 bits (222), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 83/143 (58%), Gaps = 1/143 (0%)
Query: 140 LSHSLSRYKLKFSADKVDTMIIQAIGLLDDLDKELNTYAMRVREWYGWHFPELAKIIQDN 199
LS +R KL+ +A K D + IQA+ +DD+DK +N ++ R+REWY HFPEL K+I+D+
Sbjct: 120 LSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDH 179
Query: 200 ILYAKAVKLMGDRSNAAKLDFSEI-LPEEVEAQLKEAAMISMGTEVSDLDLLNIKELCDQ 258
YA V GDR E+ E+ ++ +AA S+G ++S+ DL ++ + +
Sbjct: 180 EEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANT 239
Query: 259 VLSLAEYRAQLYDYLKSRMNTVA 281
+L L R L +YL+ M VA
Sbjct: 240 ILDLYNIRRNLNNYLEGVMKEVA 262
>pdb|1NT2|B Chain B, Crystal Structure Of FibrillarinNOP5P COMPLEX
Length = 258
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 58/106 (54%), Gaps = 5/106 (4%)
Query: 258 QVLSLAEYRAQLYDYLKSRMNTVAPNLTALVGELVGARLIAHGGSLLNLAKQPGSTVQIL 317
++ L E R + ++ M +APN+T LVG V A+L+ GS+ L + P S +Q++
Sbjct: 116 KIRELRELRRDVEREIEEVMEKIAPNMTELVGAKVAAKLLERAGSMERLVRLPASKIQVI 175
Query: 318 GAEKALFRAL-----KTKHATPKYGLIYHASLVGQAAPKHKGKISR 358
GAEK+L++A K PK+G+I+ + +GK++R
Sbjct: 176 GAEKSLYKAFARMKKGKKAKIPKHGIIFLHPFIRTLPKAKRGKMAR 221
>pdb|4EHT|A Chain A, Activator Of The 2-Hydroxyisocaproyl-Coa Dehydratase From
Clostridium Difficile With Bound Adp
pdb|4EHT|B Chain B, Activator Of The 2-Hydroxyisocaproyl-Coa Dehydratase From
Clostridium Difficile With Bound Adp
pdb|4EHU|A Chain A, Activator Of The 2-Hydroxyisocaproyl-Coa Dehydratase From
Clostridium Difficile With Bound Adpnp
pdb|4EHU|B Chain B, Activator Of The 2-Hydroxyisocaproyl-Coa Dehydratase From
Clostridium Difficile With Bound Adpnp
pdb|4EIA|A Chain A, Activator Of The 2-Hydroxyisocaproyl-Coa Dehydratase From
Clostridium Difficile Without Nucleotide
Length = 276
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 44/207 (21%), Positives = 88/207 (42%), Gaps = 38/207 (18%)
Query: 148 KLKFSADKVDTMIIQAIGLLD--DLDKELNTYAMRVREWYGWHF--PELAKIIQDNILYA 203
K + + + +++ G ++ D DK+++ + R G +F PE II A
Sbjct: 49 KTGLAREDIKKVVVTGYGRMNYSDADKQISELSCHAR---GVNFIIPETRTIIDIGGQDA 105
Query: 204 KAVKL----------MGDRSNAAKLDFSEILPEEVEAQLKEAAMISMGTEVSDLDLLNIK 253
K +KL M D+ A F +++ + +E + E ISM ++ + ++I
Sbjct: 106 KVLKLDNNGRLLNFLMNDKCAAGTGRFLDVMAKIIEVDVSELGSISMNSQ----NEVSIS 161
Query: 254 ELC-----DQVLSLAEYRAQLYDYLKSRMNTVAPNLTALVGEL-VGARLIAHGGSLLNLA 307
C +V+S A++ D + +VA +++LV + V ++ GG +A
Sbjct: 162 STCTVFAESEVISHLSENAKIEDIVAGIHTSVAKRVSSLVKRIGVQRNVVMVGG----VA 217
Query: 308 KQPGSTVQILGAEKALFRALKTKHATP 334
+ G +A+ R + T+ P
Sbjct: 218 RNSGIV-------RAMAREINTEIIVP 237
>pdb|3H2D|A Chain A, Crystal Structure Of A Chemotactic Chec-Like Protein
(So_3915) From Shewanella Oneidensis Mr-1 At 1.86 A
Resolution
pdb|3H2D|B Chain B, Crystal Structure Of A Chemotactic Chec-Like Protein
(So_3915) From Shewanella Oneidensis Mr-1 At 1.86 A
Resolution
Length = 155
Score = 29.6 bits (65), Expect = 4.1, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 9/68 (13%)
Query: 342 ASLVGQAAPKHKGKISRSLASKTALAIRYDALGDGQDNSMGLENRAKLEARLRNLEGKEL 401
+ L+G P+ KG +S + K L I + LG EN K+ + +L G+
Sbjct: 44 SGLIGXVGPQTKGSLSITFEQKLVLQIXQNXLG---------ENPGKINEEVTDLVGEIT 94
Query: 402 GRAAGSAK 409
G AK
Sbjct: 95 NXVTGGAK 102
>pdb|1Y0K|A Chain A, Structure Of Protein Of Unknown Function Pa4535 From
Pseudomonas Aeruginosa Strain Pao1, Monooxygenase
Superfamily
Length = 209
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 39/72 (54%), Gaps = 7/72 (9%)
Query: 3 VLFETPAGFALFKVLDEGKLSKVEGLWQEFNSAESARQIVKLKAFSKFENTSEALKAATC 62
VLF+ AGF +F VLDEG+ ++ W+E RQ V L+ + E + + AA
Sbjct: 60 VLFKG-AGFEVFFVLDEGR--RLNEEWRE--ELTRRRQAVSLRQLIRREERPQRIAAAE- 113
Query: 63 LLESKPSKDLRK 74
L+++ + LRK
Sbjct: 114 -LQARLAPTLRK 124
>pdb|3AL0|B Chain B, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 482
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 52/110 (47%), Gaps = 19/110 (17%)
Query: 7 TPAGFA-LFKVLDEGKLS-KV--EGLWQEFNSAESARQIVKLKAFSKFEN---TSEALKA 59
TP FA LFK++DEGK+S K+ E + F + + QIV+ K ++ + E +K
Sbjct: 372 TPQHFADLFKLMDEGKISIKIAKEIFPEVFETGKMPSQIVEEKGLTQINDEKLIEELVKK 431
Query: 60 ATCLLESKPS--KDLRK-------FLRTHCDGETLAVADSKLGNAIKDKL 100
A +E P +D + F + ET A+ +L N I KL
Sbjct: 432 A---MEQNPKAVQDYKSGKKKAAGFFVGYVMRETKGKANPELTNRIIQKL 478
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
0.314 0.131 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,832,987
Number of Sequences: 62578
Number of extensions: 486501
Number of successful extensions: 973
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 949
Number of HSP's gapped (non-prelim): 18
length of query: 551
length of database: 14,973,337
effective HSP length: 104
effective length of query: 447
effective length of database: 8,465,225
effective search space: 3783955575
effective search space used: 3783955575
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)