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= 000265
(1760 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LLW|A Chain A, Structural Studies On The Synchronization Of Catalytic
Centers In Glutamate Synthase: Complex With
2-Oxoglutarate
pdb|1LLZ|A Chain A, Structural Studies On The Synchronization Of Catalytic
Centers In Glutamate Synthase: Reduced Enzyme
pdb|1LM1|A Chain A, Structural Studies On The Synchronization Of Catalytic
Centers In Glutamate Synthase: Native Enzyme
pdb|1OFD|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate At 2.0 Angstrom Resolution
pdb|1OFD|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate At 2.0 Angstrom Resolution
pdb|1OFE|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
pdb|1OFE|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
Length = 1520
Score = 1190 bits (3079), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 667/1549 (43%), Positives = 903/1549 (58%), Gaps = 92/1549 (5%)
Query: 115 CGVGFVAELSGESSRKTITDALEMLVRMAHRGACGCETNTGDGAGILVALPHDFFKEAAK 174
CGVGF+A L G+ + AL+ L M HRG C + ++GDGAG++ A+P + +
Sbjct: 1 CGVGFIANLRGKPDHTLVEQALKALGCMEHRGGCSADNDSGDGAGVMTAIPRELLAQWFN 60
Query: 175 NVGFQLPPPGEYAVGMFFLPQSENRREESKKVFTKVAESLGHTVLGWRAVPTDNSGLGNS 234
+P VGM FLPQ + RE ++ +V TVLGWR VP ++ LG
Sbjct: 61 TRNLPMPDGDRLGVGMVFLPQEPSAREVARAYVEEVVRLEKLTVLGWREVPVNSDVLGIQ 120
Query: 235 ALQTEPVVEQVFLT-PSLRSKVDFENQMYILRRVSMAAIRESLNLEHGGAKDFYICSLSS 293
A +P +EQ+ +T P + + + ++YI R + I + L A+DFY+CS S
Sbjct: 121 AKNNQPHIEQILVTCPEGCAGDELDRRLYIARSI----IGKKL------AEDFYVCSFSC 170
Query: 294 RTVVYKGQLKPIQMKDYYYADLGNERFTSYMALIHSRFSTNTFPSWDRAQPMRILGHNGE 353
RT+VYKG ++ I + ++Y DL N +TS A+ H RFSTNT P W AQPMR+LGHNGE
Sbjct: 171 RTIVYKGMVRSIILGEFYL-DLKNPGYTSNFAVYHRRFSTNTMPKWPLAQPMRLLGHNGE 229
Query: 354 INTLRGNVNWMKAREGLLKCKELGLSKDEMKKLLPIVDVSSSDSGAFDGVLELLVRAGRS 413
INTL GN+NWM ARE L+ G +K E++ L PIV+ ++SDS D LELLVR GRS
Sbjct: 230 INTLLGNINWMAAREKELEVS--GWTKAELEALTPIVNQANSDSYNLDSALELLVRTGRS 287
Query: 414 LPEAVMMMIPEAWQNDKNMD--PQRKALYEYFSALMEPWDGPALISFTDGRYLGATLDRN 471
EA M+++PEA++N + P+ ++Y+S L EPWDGPAL+ F+DG+ +GA LDRN
Sbjct: 288 PLEAAMILVPEAYKNQPALKDYPEISDFHDYYSGLQEPWDGPALLVFSDGKIVGAGLDRN 347
Query: 472 GLRPGRFYITHSGRVIMASEVGVVDIPPEDVLRKGRLNPGMMLLVDFEKRIVVDDEALKQ 531
GLRP R+ IT +++ SE GVVD+P D++ KGRL PG M+ VD ++ ++ + +KQ
Sbjct: 348 GLRPARYCITKDDYIVLGSEAGVVDLPEVDIVEKGRLAPGQMIAVDLAEQKILKNYQIKQ 407
Query: 532 QYSLARPYGEWL--QRQKIELKNIVESIHKSERVSPGIAGVLPASNDDDNMENMGIHGLL 589
Q + PYGEW+ QRQ + + E ND +L
Sbjct: 408 QAAQKYPYGEWIKIQRQTVASDSFAEKT---------------LFNDAQT--------VL 444
Query: 590 APLKAFGYTVEALEMLMLPMAKDGTEALGSMGNDAPLAVMSNREKLTFEYFKQMFAQVTN 649
AFGYT E +EM+++PMA G E MG+D PLAV+S++ +L ++YFKQ FAQVTN
Sbjct: 445 QQQAAFGYTAEDVEMVVVPMASQGKEPTFCMGDDTPLAVLSHKPRLLYDYFKQRFAQVTN 504
Query: 650 PPIDPIREKIVTSMECMIGPEGVLTETTEEQCHRLSLKGPLLSIEEMEAIKRMNYRGWRS 709
PPIDP+RE +V S+ +G G L E E + L+ PL++ E++AIK +
Sbjct: 505 PPIDPLRENLVMSLAMFLGKRGNLLEPKAESARTIKLRSPLVNEVELQAIKTGQLQVAEV 564
Query: 710 KVLDITYSKDHGRRGLEETLDRICAEARDAIKEGYTLLVLSDR----AFSSKRXXXXXXX 765
L Y D G LE+ L + A ++ G +LVL+DR + +
Sbjct: 565 STL---YDLD-GVNSLEDALTNLVKTAIATVQAGAEILVLTDRPNGAILTENQSFIPPLL 620
Query: 766 XXXXXHHHLVKNLERTRIGLIVESAEPREVHHFCTLVGFGADAICPYLATEAIWRLQVDG 825
HHHL++ R + LIV++A+ HHF LVG+GA AICPYLA E++ + +D
Sbjct: 621 AVGAVHHHLIRAGLRLKASLIVDTAQCWSTHHFACLVGYGASAICPYLALESVRQWWLDE 680
Query: 826 KIPP-KASGEFHSKD--ELVKKYFKASNYGMMKVLAKMGISTLASYKGAQIFEALGLSSE 882
K +G D +K Y ++ G+ K+L+KMGIS LASY GAQIFEA+GL +E
Sbjct: 681 KTQKLMENGRLDRIDLPTALKNYRQSVEAGLFKILSKMGISLLASYHGAQIFEAIGLGAE 740
Query: 883 VIEKCFAGTPSRVDGATFEVLASDALHLHELAFPTRILPPGSAEAVALPNPGDYHWRKGG 942
++E FAGT SRV G T +A + + H +AFP A L N G ++R GG
Sbjct: 741 LVEYAFAGTTSRVGGLTIADVAGEVMVFHGMAFPEM--------AKKLENFGFVNYRPGG 792
Query: 943 EIHLNDP-------LAIAKLQEAARGNSVAAYKEYSKRIQELNK--TCNLRGLLKFKEAD 993
E H+N P A+A + GN+ AY Y Q L LR LL F
Sbjct: 793 EYHMNSPEMSKSLHKAVAAYKVGGNGNNGEAYDHYELYRQYLKDRPVTALRDLLDFNADQ 852
Query: 994 VKIPLEEVEPASEIVKRFCTGAMSYGSISLEAHTTLATAMNKIGGKSNTGEGGEQPSRME 1053
I LEEVE IVKRFCTG MS G++S EAH TLA AMN++G KSN+GEGGE R
Sbjct: 853 PAISLEEVESVESIVKRFCTGGMSLGALSREAHETLAIAMNRLGAKSNSGEGGEDVVRYL 912
Query: 1054 PLSD--------------GSMN--PKRSAIKQVASGRFGVSSYYLTNADELQIKMAQGAK 1097
L D G N SAIKQ+ASGRFGV+ YL + +L+IKMAQGAK
Sbjct: 913 TLDDVDSEGNSPTLPHLHGLQNGDTANSAIKQIASGRFGVTPEYLMSGKQLEIKMAQGAK 972
Query: 1098 PGEGGELPGHKVIGDIAVTRNSTAGVGLISPPPHHDIYSIEDLAQLIYDLKNANPGARIS 1157
PGEGG+LPG KV IA+ R S GV LISPPPHHDIYSIEDLAQLIYDL NP A++S
Sbjct: 973 PGEGGQLPGKKVSEYIAMLRRSKPGVTLISPPPHHDIYSIEDLAQLIYDLHQINPEAQVS 1032
Query: 1158 VKLVSEAGVGVIASGVVKGHADHVLISGHDGGTGASRWTGIKNAGLPWELGLAETHQTLV 1217
VKLV+E G+G IA+GV K +AD + ISGHDGGTGAS + IK+AG PWELG+ E H+ L+
Sbjct: 1033 VKLVAEIGIGTIAAGVAKANADIIQISGHDGGTGASPLSSIKHAGSPWELGVTEVHRVLM 1092
Query: 1218 ANDLRGRTILQTDGQLKTGRDVAIAALLGAEEFGFSTAPLITLGCIMMRKCHKNTCPVGI 1277
N LR R +L+ DG LKTG DV +AAL+GAEE+GF + +I GCIM R CH N CPVG+
Sbjct: 1093 ENQLRDRVLLRADGGLKTGWDVVMAALMGAEEYGFGSIAMIAEGCIMARVCHTNNCPVGV 1152
Query: 1278 ATQDPVLREKFAGEPEHVINFFFMLAEELREIMSQLGFRTITEMIGRSDMLEVDKEVTKT 1337
ATQ LR++F G P V+NFF+ +AEE+R +++ LG+R++ ++IGR+D+L+V +V +
Sbjct: 1153 ATQQERLRQRFKGVPGQVVNFFYFIAEEVRSLLAHLGYRSLDDIIGRTDLLKVRSDVQLS 1212
Query: 1338 NEKLENIDLSLLLRPAADLRPEAAQYCVQKQDHGLDMALDQKLIKLS--KAALEKALPVY 1395
K +N+ L LL D + + Q+ + H LD ++ + A+
Sbjct: 1213 --KTQNLTLDCLLN-LPDTK-QNRQWLNHEPVHSNGPVLDDDILADPDIQEAINHQTTAT 1268
Query: 1396 IETPVCNVNRAVGTMLSHEVTKRYHLVGLPADTIHIKLTGSAGQSVGAFLCPGILLELEG 1455
+ N +R VGT LS + K+Y G + I + G+AGQS GAF G+ L L+G
Sbjct: 1269 KTYRLVNTDRTVGTRLSGAIAKKYGNNGFEGN-ITLNFQGAAGQSFGAFNLDGMTLHLQG 1327
Query: 1456 DSNDYVGKGLSGGKIVAYPPKGSLFDPKVNIVIGNVALYGATSGEAYFNGMAAERFCVRN 1515
++NDYVGKG++GG+IV P + F P+ N++IGN LYGAT G Y NG A ERF VRN
Sbjct: 1328 EANDYVGKGMNGGEIVIVPHPQASFAPEDNVIIGNTCLYGATGGNLYANGRAGERFAVRN 1387
Query: 1516 SGARAVVEGVGDHGCEYMXXXXXXXXXXXXRNFAAGMSGGIAYVLDVDGKFRSRCNPXXX 1575
S +AV+EG GDH CEYM RN AGM+GG+AY LD G + NP
Sbjct: 1388 SVGKAVIEGAGDHCCEYMTGGVIVVLGPVGRNVGAGMTGGLAYFLDEVGDLPEKINPEII 1447
Query: 1576 XXXXXXXXXXIITLRMMIQQHQRYTNSQLAKEVLADFENLLPKFIKVFP 1624
L+ +I H +T S K +LA++ + L KF + P
Sbjct: 1448 TLQRITASKGEEQLKSLITAHVEHTGSPKGKAILANWSDYLGKFWQAVP 1496
>pdb|1EA0|A Chain A, Alpha Subunit Of A. Brasilense Glutamate Synthase
pdb|1EA0|B Chain B, Alpha Subunit Of A. Brasilense Glutamate Synthase
Length = 1479
Score = 1189 bits (3077), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 655/1519 (43%), Positives = 915/1519 (60%), Gaps = 65/1519 (4%)
Query: 115 CGVGFVAELSGESSRKTITDALEMLVRMAHRGACGCETNTGDGAGILVALPHDFFKEAAK 174
CGVGF+A + G+ R + +E L + HRGA + TGDGAGI VA+P FFK+ K
Sbjct: 1 CGVGFIAAIDGKPRRSVVEKGIEALKAVWHRGAVDADGKTGDGAGIHVAVPQKFFKDHVK 60
Query: 175 NVGFQLPPPGEYAVGMFFLPQ-SENRREESKKVFTKVAESLGHTVLGWRAVPTDNSGLGN 233
+G + P + AVG FLP+ S + +E + + + G+ + GWR VP + +G
Sbjct: 61 VIGHR-APDNKLAVGQVFLPRISLDAQEACRCIVETEILAFGYYIYGWRQVPINVDIIGE 119
Query: 234 SALQTEPVVEQVFLTPSLR-SKVDFENQMYILRRVSMAAIR-ESLNLEHGGAKDFYICSL 291
A T P +EQ+ + + S FE +YI+RR A++ E +N DFYICSL
Sbjct: 120 KANATRPEIEQIIVGNNKGVSDEQFELDLYIIRRRIEKAVKGEQIN-------DFYICSL 172
Query: 292 SSRTVVYKGQLKPIQMKDYYYADLGNERFTSYMALIHSRFSTNTFPSWDRAQPMRILGHN 351
S+R+++YKG Q+ +Y DL +ERF S A+ H R+STNTFP+W AQP R+L HN
Sbjct: 173 SARSIIYKGMFLAEQLTTFY-PDLLDERFESDFAIYHQRYSTNTFPTWPLAQPFRMLAHN 231
Query: 352 GEINTLRGNVNWMKAREGLLKCKELGLSKDEMKKLLPIVDVSSSDSGAFDGVLELLVRAG 411
GEINT++GNVNWMKA E ++ G M+ L P++ V SDSG+ D V E++VRAG
Sbjct: 232 GEINTVKGNVNWMKAHETRMEHPAFGT---HMQDLKPVIGVGLSDSGSLDTVFEVMVRAG 288
Query: 412 RSLPEAVMMMIPEAWQNDKNMDPQRKALYEYFSALMEPWDGPALISFTDGRYLGATLDRN 471
R+ P MM++P+A + + KAL +Y +++MEPWDGPA ++ TDGR++ +DRN
Sbjct: 289 RTAPMVKMMLVPQALTSSQTTPDNHKALIQYCNSVMEPWDGPAALAMTDGRWVVGGMDRN 348
Query: 472 GLRPGRFYITHSGRVIMASEVGVVDIPPEDVLRKGRLNPGMMLLVDFEKRIVVDDEALKQ 531
GLRP R+ IT G +I SE G+V I V+ KGRL PG M+ VD + + D LK
Sbjct: 349 GLRPMRYTITTDGLIIGGSETGMVKIDETQVIEKGRLGPGEMIAVDLQSGKLYRDRELKD 408
Query: 532 QYSLARPYGEWLQRQKIELKNIVESIHKSERVSPGIAGVLPASNDDDNMENMGIHGLLAP 591
+ +P+ +W+Q + H E V A + +D D E L
Sbjct: 409 HLATLKPWDKWVQ----------NTTHLDELVK--TASLKGEPSDMDKAE------LRRR 450
Query: 592 LKAFGYTVEALEMLMLPMAKDGTEALGSMGNDAPLAVMSNREKLTFEYFKQMFAQVTNPP 651
+AFG T+E +E+++ PM +DG EA+GSMG+D+P+AV+S++ + +F+Q F+QVTNPP
Sbjct: 451 QQAFGLTMEDMELILHPMVEDGKEAIGSMGDDSPIAVLSDKYRGLHHFFRQNFSQVTNPP 510
Query: 652 IDPIREKIVTSMECMIGPEGVLTETTEEQCHRLSLKGPLLSIEEMEAIKRMNYRGWRSKV 711
ID +RE+ V S++ +G G + + E Q L L+ P+L+ E A++ +Y G +
Sbjct: 511 IDSLRERRVMSLKTRLGNLGNILDEDETQTRLLQLESPVLTTAEFRAMR--DYMGDTAAE 568
Query: 712 LDITYSKDHGRRGLEETLDRICAEARDAIKEGYTLLVLSDRAFSSKRXXXXXXXXXXXXH 771
+D T+ D G L + L RI E DA++ G T ++L+D A R H
Sbjct: 569 IDATFPVDGGPEALRDALRRIRQETEDAVRGGATHVILTDEAMGPARAAIPAILATGAVH 628
Query: 772 HHLVKNLERTRIGLIVESAEPREVHHFCTLVGFGADAICPYLATEAI---WRLQVDGKIP 828
HL+++ RT L V +AE + H+F L+G GA + YLA EAI R + G +P
Sbjct: 629 THLIRSNLRTFTSLNVRTAEGLDTHYFAVLIGVGATTVNAYLAQEAIAERHRRGLFGSMP 688
Query: 829 PKASGEFHSKDELVKKYFKASNYGMMKVLAKMGISTLASYKGAQIFEALGLSSEVIEKCF 888
+ + Y KA + G++K+++KMGIS ++SY+G FEA+GLS ++ + F
Sbjct: 689 LEKG---------MANYKKAIDDGLLKIMSKMGISVISSYRGGGNFEAIGLSRALVAEHF 739
Query: 889 AGTPSRVDGATFEVLASDALHLHELAFPTRILPPGSAEAVALPNPGDYHWRKGGEIHLND 948
SR+ G + L H A+ + E VALP G Y +RK G+ H +
Sbjct: 740 PAMVSRISGIGLNGIQKKVLEQHATAY--------NEEVVALPVGGFYRFRKSGDRHGWE 791
Query: 949 PLAIAKLQEAARGNSVAAYKEYSKRIQELNKTCNLRGLLKFKEADVKIPLEEVEPASEIV 1008
I LQ+A +S +K+YS+++ + LR LL+ + +P++EVE + I
Sbjct: 792 GGVIHTLQQAVTNDSYTTFKKYSEQVNK-RPPMQLRDLLELRSTKAPVPVDEVESITAIR 850
Query: 1009 KRFCTGAMSYGSISLEAHTTLATAMNKIGGKSNTGEGGEQPSRMEPLSDGSMNPKRSAIK 1068
KRF T MS G++S EAH TL AMN+IG KS++GEGGE P+R P +G + SAIK
Sbjct: 851 KRFITPGMSMGALSPEAHGTLNVAMNRIGAKSDSGEGGEDPARFRPDKNG--DNWNSAIK 908
Query: 1069 QVASGRFGVSSYYLTNADELQIKMAQGAKPGEGGELPGHKVIGDIAVTRNSTAGVGLISP 1128
QVASGRFGV++ YL EL+IK+AQGAKPGEGG+LPG KV IA R+ST GV LISP
Sbjct: 909 QVASGRFGVTAEYLNQCRELEIKVAQGAKPGEGGQLPGFKVTEMIARLRHSTPGVMLISP 968
Query: 1129 PPHHDIYSIEDLAQLIYDLKNANPGARISVKLVSEAGVGVIASGVVKGHADHVLISGHDG 1188
PPHHDIYSIEDLAQLIYDLK NP A+++VKLVS +G+G IA+GV K +AD +LISG+ G
Sbjct: 969 PPHHDIYSIEDLAQLIYDLKQINPDAKVTVKLVSRSGIGTIAAGVAKANADIILISGNSG 1028
Query: 1189 GTGASRWTGIKNAGLPWELGLAETHQTLVANDLRGRTILQTDGQLKTGRDVAIAALLGAE 1248
GTGAS T IK AGLPWE+GL+E HQ L N LR R L+TDG LKTGRD+ IAA+LGAE
Sbjct: 1029 GTGASPQTSIKFAGLPWEMGLSEVHQVLTLNRLRHRVRLRTDGGLKTGRDIVIAAMLGAE 1088
Query: 1249 EFGFSTAPLITLGCIMMRKCHKNTCPVGIATQDPVLREKFAGEPEHVINFFFMLAEELRE 1308
EFG TA LI +GCIM+R+CH NTCPVG+ QD LR+KF G PE V+N F LAEE+RE
Sbjct: 1089 EFGIGTASLIAMGCIMVRQCHSNTCPVGVCVQDDKLRQKFVGTPEKVVNLFTFLAEEVRE 1148
Query: 1309 IMSQLGFRTITEMIGRSDMLEVDKEVTKTNEKLENIDLSLLLRPAADLRP-EAAQYCVQK 1367
I++ LGFR++ E+IGR+D+L +V++ E L+++DL+ L A + P E A+YC +
Sbjct: 1149 ILAGLGFRSLNEVIGRTDLLH---QVSRGAEHLDDLDLNPRL---AQVDPGENARYCTLQ 1202
Query: 1368 QDHGLDMALDQKLIKLSKAALEKALPVYIETPVCNVNRAVGTMLSHEVTKRYHLVGLPAD 1427
+ + LD +++ ++ E+ + + N RA+GT LS VT+++ + GL
Sbjct: 1203 GRNEVPDTLDARIVADARPLFEEGEKMQLAYNARNTQRAIGTRLSSMVTRKFGMFGLQPG 1262
Query: 1428 TIHIKLTGSAGQSVGAFLCPGILLELEGDSNDYVGKGLSGGKIVAYPPKGSLFDPKVNIV 1487
I I+L G+AGQS+GAF GI LE+ GD+NDYVGKGLSGG IV P S + N +
Sbjct: 1263 HITIRLRGTAGQSLGAFAVQGIKLEVMGDANDYVGKGLSGGTIVVRPTTSSPLETNKNTI 1322
Query: 1488 IGNVALYGATSGEAYFNGMAAERFCVRNSGARAVVEGVGDHGCEYMXXXXXXXXXXXXRN 1547
IGN LYGAT+G+ + G A ERF VRNSGA VVEG G +GCEYM N
Sbjct: 1323 IGNTVLYGATAGKLFAAGQAGERFAVRNSGATVVVEGCGSNGCEYMTGGTAVILGRVGDN 1382
Query: 1548 FAAGMSGGIAYVLDVDGKFRSRCNPXXXXXXXXXXXXXIITLRMMIQQHQRYTNSQLAKE 1607
FAAGM+GG+AYV D+D N L+ +I++H T S+ A E
Sbjct: 1383 FAAGMTGGMAYVYDLDDSLPLYINDESVIFQRIEVGHYESQLKHLIEEHVTETQSRFAAE 1442
Query: 1608 VLADFENLLPKFIKVFPRD 1626
+L D+ + KF +V P++
Sbjct: 1443 ILNDWAREVTKFWQVVPKE 1461
>pdb|2VDC|A Chain A, The 9.5 A Resolution Structure Of Glutamate Synthase From
Cryo-Electron Microscopy And Its Oligomerization Behavior
In Solution: Functional Implications.
pdb|2VDC|B Chain B, The 9.5 A Resolution Structure Of Glutamate Synthase From
Cryo-Electron Microscopy And Its Oligomerization Behavior
In Solution: Functional Implications.
pdb|2VDC|C Chain C, The 9.5 A Resolution Structure Of Glutamate Synthase From
Cryo-Electron Microscopy And Its Oligomerization Behavior
In Solution: Functional Implications.
pdb|2VDC|D Chain D, The 9.5 A Resolution Structure Of Glutamate Synthase From
Cryo-Electron Microscopy And Its Oligomerization Behavior
In Solution: Functional Implications.
pdb|2VDC|E Chain E, The 9.5 A Resolution Structure Of Glutamate Synthase From
Cryo-Electron Microscopy And Its Oligomerization Behavior
In Solution: Functional Implications.
pdb|2VDC|F Chain F, The 9.5 A Resolution Structure Of Glutamate Synthase From
Cryo-Electron Microscopy And Its Oligomerization Behavior
In Solution: Functional Implications
Length = 1472
Score = 1189 bits (3077), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 655/1519 (43%), Positives = 915/1519 (60%), Gaps = 65/1519 (4%)
Query: 115 CGVGFVAELSGESSRKTITDALEMLVRMAHRGACGCETNTGDGAGILVALPHDFFKEAAK 174
CGVGF+A + G+ R + +E L + HRGA + TGDGAGI VA+P FFK+ K
Sbjct: 1 CGVGFIAAIDGKPRRSVVEKGIEALKAVWHRGAVDADGKTGDGAGIHVAVPQKFFKDHVK 60
Query: 175 NVGFQLPPPGEYAVGMFFLPQ-SENRREESKKVFTKVAESLGHTVLGWRAVPTDNSGLGN 233
+G + P + AVG FLP+ S + +E + + + G+ + GWR VP + +G
Sbjct: 61 VIGHR-APDNKLAVGQVFLPRISLDAQEACRCIVETEILAFGYYIYGWRQVPINVDIIGE 119
Query: 234 SALQTEPVVEQVFLTPSLR-SKVDFENQMYILRRVSMAAIR-ESLNLEHGGAKDFYICSL 291
A T P +EQ+ + + S FE +YI+RR A++ E +N DFYICSL
Sbjct: 120 KANATRPEIEQIIVGNNKGVSDEQFELDLYIIRRRIEKAVKGEQIN-------DFYICSL 172
Query: 292 SSRTVVYKGQLKPIQMKDYYYADLGNERFTSYMALIHSRFSTNTFPSWDRAQPMRILGHN 351
S+R+++YKG Q+ +Y DL +ERF S A+ H R+STNTFP+W AQP R+L HN
Sbjct: 173 SARSIIYKGMFLAEQLTTFY-PDLLDERFESDFAIYHQRYSTNTFPTWPLAQPFRMLAHN 231
Query: 352 GEINTLRGNVNWMKAREGLLKCKELGLSKDEMKKLLPIVDVSSSDSGAFDGVLELLVRAG 411
GEINT++GNVNWMKA E ++ G M+ L P++ V SDSG+ D V E++VRAG
Sbjct: 232 GEINTVKGNVNWMKAHETRMEHPAFGT---HMQDLKPVIGVGLSDSGSLDTVFEVMVRAG 288
Query: 412 RSLPEAVMMMIPEAWQNDKNMDPQRKALYEYFSALMEPWDGPALISFTDGRYLGATLDRN 471
R+ P MM++P+A + + KAL +Y +++MEPWDGPA ++ TDGR++ +DRN
Sbjct: 289 RTAPMVKMMLVPQALTSSQTTPDNHKALIQYCNSVMEPWDGPAALAMTDGRWVVGGMDRN 348
Query: 472 GLRPGRFYITHSGRVIMASEVGVVDIPPEDVLRKGRLNPGMMLLVDFEKRIVVDDEALKQ 531
GLRP R+ IT G +I SE G+V I V+ KGRL PG M+ VD + + D LK
Sbjct: 349 GLRPMRYTITTDGLIIGGSETGMVKIDETQVIEKGRLGPGEMIAVDLQSGKLYRDRELKD 408
Query: 532 QYSLARPYGEWLQRQKIELKNIVESIHKSERVSPGIAGVLPASNDDDNMENMGIHGLLAP 591
+ +P+ +W+Q + H E V A + +D D E L
Sbjct: 409 HLATLKPWDKWVQ----------NTTHLDELVK--TASLKGEPSDMDKAE------LRRR 450
Query: 592 LKAFGYTVEALEMLMLPMAKDGTEALGSMGNDAPLAVMSNREKLTFEYFKQMFAQVTNPP 651
+AFG T+E +E+++ PM +DG EA+GSMG+D+P+AV+S++ + +F+Q F+QVTNPP
Sbjct: 451 QQAFGLTMEDMELILHPMVEDGKEAIGSMGDDSPIAVLSDKYRGLHHFFRQNFSQVTNPP 510
Query: 652 IDPIREKIVTSMECMIGPEGVLTETTEEQCHRLSLKGPLLSIEEMEAIKRMNYRGWRSKV 711
ID +RE+ V S++ +G G + + E Q L L+ P+L+ E A++ +Y G +
Sbjct: 511 IDSLRERRVMSLKTRLGNLGNILDEDETQTRLLQLESPVLTTAEFRAMR--DYMGDTAAE 568
Query: 712 LDITYSKDHGRRGLEETLDRICAEARDAIKEGYTLLVLSDRAFSSKRXXXXXXXXXXXXH 771
+D T+ D G L + L RI E DA++ G T ++L+D A R H
Sbjct: 569 IDATFPVDGGPEALRDALRRIRQETEDAVRGGATHVILTDEAMGPARAAIPAILATGAVH 628
Query: 772 HHLVKNLERTRIGLIVESAEPREVHHFCTLVGFGADAICPYLATEAI---WRLQVDGKIP 828
HL+++ RT L V +AE + H+F L+G GA + YLA EAI R + G +P
Sbjct: 629 THLIRSNLRTFTSLNVRTAEGLDTHYFAVLIGVGATTVNAYLAQEAIAERHRRGLFGSMP 688
Query: 829 PKASGEFHSKDELVKKYFKASNYGMMKVLAKMGISTLASYKGAQIFEALGLSSEVIEKCF 888
+ + Y KA + G++K+++KMGIS ++SY+G FEA+GLS ++ + F
Sbjct: 689 LEKG---------MANYKKAIDDGLLKIMSKMGISVISSYRGGGNFEAIGLSRALVAEHF 739
Query: 889 AGTPSRVDGATFEVLASDALHLHELAFPTRILPPGSAEAVALPNPGDYHWRKGGEIHLND 948
SR+ G + L H A+ + E VALP G Y +RK G+ H +
Sbjct: 740 PAMVSRISGIGLNGIQKKVLEQHATAY--------NEEVVALPVGGFYRFRKSGDRHGWE 791
Query: 949 PLAIAKLQEAARGNSVAAYKEYSKRIQELNKTCNLRGLLKFKEADVKIPLEEVEPASEIV 1008
I LQ+A +S +K+YS+++ + LR LL+ + +P++EVE + I
Sbjct: 792 GGVIHTLQQAVTNDSYTTFKKYSEQVNK-RPPMQLRDLLELRSTKAPVPVDEVESITAIR 850
Query: 1009 KRFCTGAMSYGSISLEAHTTLATAMNKIGGKSNTGEGGEQPSRMEPLSDGSMNPKRSAIK 1068
KRF T MS G++S EAH TL AMN+IG KS++GEGGE P+R P +G + SAIK
Sbjct: 851 KRFITPGMSMGALSPEAHGTLNVAMNRIGAKSDSGEGGEDPARFRPDKNG--DNWNSAIK 908
Query: 1069 QVASGRFGVSSYYLTNADELQIKMAQGAKPGEGGELPGHKVIGDIAVTRNSTAGVGLISP 1128
QVASGRFGV++ YL EL+IK+AQGAKPGEGG+LPG KV IA R+ST GV LISP
Sbjct: 909 QVASGRFGVTAEYLNQCRELEIKVAQGAKPGEGGQLPGFKVTEMIARLRHSTPGVMLISP 968
Query: 1129 PPHHDIYSIEDLAQLIYDLKNANPGARISVKLVSEAGVGVIASGVVKGHADHVLISGHDG 1188
PPHHDIYSIEDLAQLIYDLK NP A+++VKLVS +G+G IA+GV K +AD +LISG+ G
Sbjct: 969 PPHHDIYSIEDLAQLIYDLKQINPDAKVTVKLVSRSGIGTIAAGVAKANADIILISGNSG 1028
Query: 1189 GTGASRWTGIKNAGLPWELGLAETHQTLVANDLRGRTILQTDGQLKTGRDVAIAALLGAE 1248
GTGAS T IK AGLPWE+GL+E HQ L N LR R L+TDG LKTGRD+ IAA+LGAE
Sbjct: 1029 GTGASPQTSIKFAGLPWEMGLSEVHQVLTLNRLRHRVRLRTDGGLKTGRDIVIAAMLGAE 1088
Query: 1249 EFGFSTAPLITLGCIMMRKCHKNTCPVGIATQDPVLREKFAGEPEHVINFFFMLAEELRE 1308
EFG TA LI +GCIM+R+CH NTCPVG+ QD LR+KF G PE V+N F LAEE+RE
Sbjct: 1089 EFGIGTASLIAMGCIMVRQCHSNTCPVGVCVQDDKLRQKFVGTPEKVVNLFTFLAEEVRE 1148
Query: 1309 IMSQLGFRTITEMIGRSDMLEVDKEVTKTNEKLENIDLSLLLRPAADLRP-EAAQYCVQK 1367
I++ LGFR++ E+IGR+D+L +V++ E L+++DL+ L A + P E A+YC +
Sbjct: 1149 ILAGLGFRSLNEVIGRTDLLH---QVSRGAEHLDDLDLNPRL---AQVDPGENARYCTLQ 1202
Query: 1368 QDHGLDMALDQKLIKLSKAALEKALPVYIETPVCNVNRAVGTMLSHEVTKRYHLVGLPAD 1427
+ + LD +++ ++ E+ + + N RA+GT LS VT+++ + GL
Sbjct: 1203 GRNEVPDTLDARIVADARPLFEEGEKMQLAYNARNTQRAIGTRLSSMVTRKFGMFGLQPG 1262
Query: 1428 TIHIKLTGSAGQSVGAFLCPGILLELEGDSNDYVGKGLSGGKIVAYPPKGSLFDPKVNIV 1487
I I+L G+AGQS+GAF GI LE+ GD+NDYVGKGLSGG IV P S + N +
Sbjct: 1263 HITIRLRGTAGQSLGAFAVQGIKLEVMGDANDYVGKGLSGGTIVVRPTTSSPLETNKNTI 1322
Query: 1488 IGNVALYGATSGEAYFNGMAAERFCVRNSGARAVVEGVGDHGCEYMXXXXXXXXXXXXRN 1547
IGN LYGAT+G+ + G A ERF VRNSGA VVEG G +GCEYM N
Sbjct: 1323 IGNTVLYGATAGKLFAAGQAGERFAVRNSGATVVVEGCGSNGCEYMTGGTAVILGRVGDN 1382
Query: 1548 FAAGMSGGIAYVLDVDGKFRSRCNPXXXXXXXXXXXXXIITLRMMIQQHQRYTNSQLAKE 1607
FAAGM+GG+AYV D+D N L+ +I++H T S+ A E
Sbjct: 1383 FAAGMTGGMAYVYDLDDSLPLYINDESVIFQRIEVGHYESQLKHLIEEHVTETQSRFAAE 1442
Query: 1608 VLADFENLLPKFIKVFPRD 1626
+L D+ + KF +V P++
Sbjct: 1443 ILNDWAREVTKFWQVVPKE 1461
>pdb|2R17|C Chain C, Functional Architecture Of The Retromer Cargo-Recognition
Complex
pdb|2R17|D Chain D, Functional Architecture Of The Retromer Cargo-Recognition
Complex
Length = 298
Score = 31.6 bits (70), Expect = 4.0, Method: Composition-based stats.
Identities = 30/102 (29%), Positives = 42/102 (41%), Gaps = 12/102 (11%)
Query: 932 NPGDYHWRKGGEIHLN---DPLAIAKLQEAARGNSVAAYKEYSKRIQELNKTCNLRGLLK 988
N H+ GG + PL A Q A R YKE SK + K C + +
Sbjct: 29 NTARKHFGAGGNQRIRFTLPPLVFAAYQLAFR------YKENSKVDDKWEKKC--QKIFS 80
Query: 989 FKEADVKIPLEEVEPASEIVKRFCTGAMSYGSISLEAHTTLA 1030
F + L + E A ++ F GA++ G I E H T+A
Sbjct: 81 FAHQTIS-ALIKAELAELPLRLFLQGALAAGEIGFENHETVA 121
>pdb|1VPR|A Chain A, Crystal Structure Of A Luciferase Domain From The
Dinoflagellate Lingulodinium Polyedrum
Length = 374
Score = 31.6 bits (70), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%)
Query: 1203 LPWELGLAETHQTLVANDLRGRTILQTDGQLKTGRDVAIAALLGAEE 1249
LPW GL E N L GR I + GQ ++ + +LGA E
Sbjct: 143 LPWPAGLPEPGYVPKTNPLHGRWITVSGGQAAFIKEAIKSGMLGAAE 189
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
0.318 0.135 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 50,625,697
Number of Sequences: 62578
Number of extensions: 2113323
Number of successful extensions: 5237
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 5192
Number of HSP's gapped (non-prelim): 10
length of query: 1760
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1648
effective length of database: 7,964,601
effective search space: 13125662448
effective search space used: 13125662448
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)