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= 040649
(371 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LXX|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 4
Length = 239
Score = 139 bits (350), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 78/205 (38%), Positives = 124/205 (60%), Gaps = 6/205 (2%)
Query: 17 NGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDT 76
N + +VL+G+TG GKSATGNSILGR+ F + + +ITK CE +++ K+ ++V V+DT
Sbjct: 27 NSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VVDT 85
Query: 77 PGLFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAVHRLQTLFGKKI 136
PG+FD+ + SKEI +CI + G HA+LLV + R+++EE A ++ FG++
Sbjct: 86 PGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKXFGERA 144
Query: 137 FDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILQLCDNRWVLFDNKTKYEAKRTEQ 196
+ I++FT DDL D L DYL E P+ ++++ + +R+ +NK A++ Q
Sbjct: 145 RSFXILIFTRKDDLGDT--NLHDYL-REAPEDIQDLXDIFGDRYCALNNKAT-GAEQEAQ 200
Query: 197 VQQLLSLVNAVNVKNGGQPYTNECF 221
QLL L+ V +N YTN +
Sbjct: 201 RAQLLGLIQRVVRENKEGCYTNRXY 225
>pdb|3V70|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 1
pdb|3V70|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 1
Length = 247
Score = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 80/242 (33%), Positives = 134/242 (55%), Gaps = 17/242 (7%)
Query: 20 RTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGL 79
R ++L+GRTG GKSATGNSILG+R F + G++++T+ C + D V V+DTP +
Sbjct: 22 RRLILVGRTGAGKSATGNSILGQRRFFSRLGATSVTRACTTGSRRW-DKCHVEVVDTPDI 80
Query: 80 FDSS-AESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAVHRLQTLFGKKIFD 138
F S ++++ +E C ++ G HA+LLV + RF+ +++ AV +++ +FG+ +
Sbjct: 81 FSSQVSKTDPGCEERGHCYLLSAPGPHALLLVTQL-GRFTAQDQQAVRQVRDMFGEDVLK 139
Query: 139 YMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILQLCDNRWVLFDNKTKYEAKRTEQVQ 198
+M++VFT +DL +L DY+ + L+E++ C R FDN+ ++ QV
Sbjct: 140 WMVIVFTRKEDLAGG--SLHDYVSNTENRALRELVAECGGRVCAFDNRATGR-EQEAQVV 196
Query: 199 QLLSLVNAVNVKNGGQPYTNECFAELKVESKLKQTTIWLEQQLAKEQAARLKGEEVAQIA 258
QLL +V + +++ G Y+NE + +L Q W E+ R E VA
Sbjct: 197 QLLGMVEGLVLEHKGAHYSNEVY-------ELAQVLRW----AGPEERLRRVAERVAARV 245
Query: 259 QR 260
QR
Sbjct: 246 QR 247
>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTM|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTN|A Chain A, Crystal Structure Of Gtp-Bound Human Gimap2, Amino Acid
Residues 1-234
Length = 234
Score = 119 bits (298), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 68/217 (31%), Positives = 123/217 (56%), Gaps = 9/217 (4%)
Query: 10 WKPTS----SSNGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVL 65
W P + +S E ++L+G+TG GKSA GNSIL ++AF++ GS +TKTC
Sbjct: 9 WGPHAKGQCASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSW 68
Query: 66 KDGQVVNVIDTPGLFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAV 125
+ ++V +IDTP +F E + KE+ +C ++ G H +LLV + R++ +++ A
Sbjct: 69 GNREIV-IIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQAA 126
Query: 126 HRLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILQLCDNRWVLFDN 185
R++ +FG+ + IV+FT +DL N +L DY+ K L +++ C R F+N
Sbjct: 127 QRVKEIFGEDAMGHTIVLFTHKEDL--NGGSLMDYMHDSDNKALSKLVAACGGRICAFNN 184
Query: 186 KTKYEAKRTEQVQQLLSLVNAVNVKNGGQPYTNECFA 222
+ + + + +QV++L+ + + ++ G YTN ++
Sbjct: 185 RAE-GSNQDDQVKELMDCIEDLLMEKNGDHYTNGLYS 220
>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|C Chain C, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|D Chain D, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
Length = 209
Score = 117 bits (292), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 66/208 (31%), Positives = 119/208 (57%), Gaps = 5/208 (2%)
Query: 15 SSNGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVI 74
S E ++L+G+TG GKSA GNSIL ++AF++ GS +TKTC + ++V +I
Sbjct: 1 GSRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-II 59
Query: 75 DTPGLFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAVHRLQTLFGK 134
DTP +F E + KE+ +C ++ G H +LLV + R++ +++ A R++ +FG+
Sbjct: 60 DTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQAAQRVKEIFGE 118
Query: 135 KIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILQLCDNRWVLFDNKTKYEAKRT 194
+ IV+FT +DL N +L DY+ K L +++ C R F+N+ + + +
Sbjct: 119 DAMGHTIVLFTHKEDL--NGGSLMDYMHDSDNKALSKLVAACGGRICAFNNRAE-GSNQD 175
Query: 195 EQVQQLLSLVNAVNVKNGGQPYTNECFA 222
+QV++L+ + + ++ G YTN ++
Sbjct: 176 DQVKELMDCIEDLLMEKNGDHYTNGLYS 203
>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
pdb|2XTO|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
Length = 240
Score = 116 bits (291), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 65/204 (31%), Positives = 118/204 (57%), Gaps = 5/204 (2%)
Query: 19 ERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPG 78
E ++L+G+TG GKSA GNSIL ++AF++ GS +TKTC + ++V +IDTP
Sbjct: 2 ELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPD 60
Query: 79 LFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAVHRLQTLFGKKIFD 138
+F E + KE+ +C ++ G H +LLV + R++ +++ A R++ +FG+
Sbjct: 61 MFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQAAQRVKEIFGEDAMG 119
Query: 139 YMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILQLCDNRWVLFDNKTKYEAKRTEQVQ 198
+ IV+FT +DL N +L DY+ K L +++ C R F+N+ + + + +QV+
Sbjct: 120 HTIVLFTHKEDL--NGGSLMDYMHDSDNKALSKLVAACGGRICAFNNRAE-GSNQDDQVK 176
Query: 199 QLLSLVNAVNVKNGGQPYTNECFA 222
+L+ + + ++ G YTN ++
Sbjct: 177 ELMDCIEDLLMEKNGDHYTNGLYS 200
>pdb|2XTP|A Chain A, Crystal Structure Of Nucleotide-Free Human Gimap2, Amino
Acid Residues 1-260
Length = 260
Score = 114 bits (286), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 68/217 (31%), Positives = 119/217 (54%), Gaps = 9/217 (4%)
Query: 10 WKPTS----SSNGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVL 65
W P + +S E ++L+G+TG GKSA GNSIL ++AF++ GS +TKTC
Sbjct: 9 WGPHAKGQCASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSW 68
Query: 66 KDGQVVNVIDTPGLFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAV 125
+ ++V +IDTP F E + KE+ +C ++ G H +LLV + R++ +++ A
Sbjct: 69 GNREIV-IIDTPDXFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQAA 126
Query: 126 HRLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILQLCDNRWVLFDN 185
R++ +FG+ + IV+FT +DL N +L DY K L +++ C R F+N
Sbjct: 127 QRVKEIFGEDAXGHTIVLFTHKEDL--NGGSLXDYXHDSDNKALSKLVAACGGRICAFNN 184
Query: 186 KTKYEAKRTEQVQQLLSLVNAVNVKNGGQPYTNECFA 222
+ + + + +QV++L + + + G YTN ++
Sbjct: 185 RAE-GSNQDDQVKELXDCIEDLLXEKNGDHYTNGLYS 220
>pdb|2J3E|A Chain A, Dimerization Is Important For The Gtpase Activity Of
Chloroplast Translocon Components Attoc33 And Pstoc159
Length = 249
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 71/143 (49%), Gaps = 9/143 (6%)
Query: 21 TVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
TV++LG+ G GKS+T NS++G + + S + + + T+ G +N+IDTPGL
Sbjct: 37 TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGL- 93
Query: 81 DSSAESEYVSKEIAKCI-GMAKDGIHAVLLVFSVRSRFSQEE--EAAVHRLQTLFGKKIF 137
E+ YV+ + + I G + VLL ++ +E + V + FGK+I+
Sbjct: 94 ---VEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIW 150
Query: 138 DYMIVVFTGGDDLEDNEKTLEDY 160
++V T +E + E +
Sbjct: 151 CKTLLVLTHAQFSPPDELSYETF 173
>pdb|3DEF|A Chain A, Crystal Structure Of Toc33 From Arabidopsis Thaliana,
Dimerization Deficient Mutant R130a
Length = 262
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 71/143 (49%), Gaps = 9/143 (6%)
Query: 21 TVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
TV++LG+ G GKS+T NS++G + + S + + + T+ G +N+IDTPGL
Sbjct: 38 TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGL- 94
Query: 81 DSSAESEYVSKEIAKCI-GMAKDGIHAVLLVFSVRSRFSQEE--EAAVHRLQTLFGKKIF 137
E+ YV+ + + I G + VLL ++ +E + V + FGK+I+
Sbjct: 95 ---VEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIW 151
Query: 138 DYMIVVFTGGDDLEDNEKTLEDY 160
++V T +E + E +
Sbjct: 152 CKTLLVLTHAQFSPPDELSYETF 174
>pdb|3BB4|A Chain A, Crystal Structure Of Toc33 From Arabidopsis Thaliana In
Complex With Mg2+ And Gmppnp
Length = 262
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 21 TVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
TV++LG+ G GKS+T NS++G + + S + + + T+ G +N+IDTPGL
Sbjct: 38 TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGL- 94
Query: 81 DSSAESEYVSKEIAKCI-GMAKDGIHAVLLVFSVRS--RFSQEEEAAVHRLQTLFGKKIF 137
E+ YV+ + + I G + VLL R + ++ V + FGK+I+
Sbjct: 95 ---VEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYRVDELDKQVVIAITQTFGKEIW 151
Query: 138 DYMIVVFTGGDDLEDNEKTLEDY 160
++V T +E + E +
Sbjct: 152 CKTLLVLTHAQFSPPDELSYETF 174
>pdb|3BB3|A Chain A, Crystal Structure Of Toc33 From Arabidopsis Thaliana In
Complex With Gdp And Mg2+
Length = 262
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 21 TVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
TV++LG+ G GKS+T NS++G + + S + + + T+ G +N+IDTPGL
Sbjct: 38 TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGL- 94
Query: 81 DSSAESEYVSKEIAKCI-GMAKDGIHAVLLVFSVRSRFSQEE--EAAVHRLQTLFGKKIF 137
E+ YV+ + + I G + VLL + +E + V + FGK+I+
Sbjct: 95 ---VEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYRVDELDKQVVIAITQTFGKEIW 151
Query: 138 DYMIVVFTGGDDLEDNEKTLEDY 160
++V T +E + E +
Sbjct: 152 CKTLLVLTHAQFSPPDELSYETF 174
>pdb|3BB1|A Chain A, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|B Chain B, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|C Chain C, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|D Chain D, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|E Chain E, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|F Chain F, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|G Chain G, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
pdb|3BB1|H Chain H, Crystal Structure Of Toc34 From Pisum Sativum In Complex
With Mg2+ And Gmppnp
Length = 274
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 63/126 (50%), Gaps = 5/126 (3%)
Query: 21 TVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
T++++G+ G GKS+T NSI+G R S S + + + + G +N+IDTPGL
Sbjct: 41 TILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRS--RAGFTLNIIDTPGLI 98
Query: 81 DSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRS-RFSQEEEAAVHRLQTLFGKKIFDY 139
+ ++ ++ I K + K I +L V + + R ++ + FGK I++
Sbjct: 99 EGGYIND-MALNIIKSFLLDKT-IDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNK 156
Query: 140 MIVVFT 145
IV T
Sbjct: 157 AIVALT 162
>pdb|1H65|A Chain A, Crystal Structure Of Pea Toc34-A Novel Gtpase Of The
Chloroplast Protein Translocon
pdb|1H65|B Chain B, Crystal Structure Of Pea Toc34-A Novel Gtpase Of The
Chloroplast Protein Translocon
pdb|1H65|C Chain C, Crystal Structure Of Pea Toc34-A Novel Gtpase Of The
Chloroplast Protein Translocon
Length = 270
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/129 (29%), Positives = 61/129 (47%), Gaps = 11/129 (8%)
Query: 21 TVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
T+++ G+ G GKS+T NSI+G R S S + + + + G +N+IDTPGL
Sbjct: 41 TILVXGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVXVSRS--RAGFTLNIIDTPGLI 98
Query: 81 DSSAESEYVSK---EIAKCIGMAKDGIHAVLLVFSVRS-RFSQEEEAAVHRLQTLFGKKI 136
E Y++ I K + K I +L V + + R ++ + FGK I
Sbjct: 99 ----EGGYINDXALNIIKSFLLDKT-IDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGI 153
Query: 137 FDYMIVVFT 145
++ IV T
Sbjct: 154 WNKAIVALT 162
>pdb|1RFL|A Chain A, Nmr Data Driven Structural Model Of G-Domain Of Mnme
Protein
Length = 172
Score = 35.0 bits (79), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 22 VVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLFD 81
VV+ GR GKS+ N++ GR A A A T ++ + DG +++IDT GL +
Sbjct: 10 VVIAGRPNAGKSSLLNALAGREA--AIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 67
Query: 82 SSAESEYVSKE 92
+S E E + E
Sbjct: 68 ASDEVERIGIE 78
>pdb|2GJ9|A Chain A, Structure Of The Mnme G-Domain In Complex With GdpAlf4-,
Mg2+ And Rb+
pdb|2GJ9|B Chain B, Structure Of The Mnme G-Domain In Complex With GdpAlf4-,
Mg2+ And Rb+
pdb|2GJ9|C Chain C, Structure Of The Mnme G-Domain In Complex With GdpAlf4-,
Mg2+ And Rb+
pdb|2GJ9|D Chain D, Structure Of The Mnme G-Domain In Complex With GdpAlf4-,
Mg2+ And Rb+
pdb|2GJA|A Chain A, Structure Of The Mnme G-Domain In Complex With GdpAlf4-,
Mg2+ And Nh4+
pdb|2GJA|B Chain B, Structure Of The Mnme G-Domain In Complex With GdpAlf4-,
Mg2+ And Nh4+
Length = 172
Score = 34.7 bits (78), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 22 VVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLFD 81
VV+ GR GKS+ N++ GR A A A T ++ + DG +++IDT GL +
Sbjct: 7 VVIAGRPNAGKSSLLNALAGREA--AIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 64
Query: 82 SSAESEYVSKE 92
+S E E + E
Sbjct: 65 ASDEVERIGIE 75
>pdb|2GJ8|A Chain A, Structure Of The Mnme G-domain In Complex With
Gdp*alf4-, Mg2+ And K+
pdb|2GJ8|B Chain B, Structure Of The Mnme G-domain In Complex With
Gdp*alf4-, Mg2+ And K+
pdb|2GJ8|C Chain C, Structure Of The Mnme G-domain In Complex With
Gdp*alf4-, Mg2+ And K+
pdb|2GJ8|D Chain D, Structure Of The Mnme G-domain In Complex With
Gdp*alf4-, Mg2+ And K+
Length = 172
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 15 SSNGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVI 74
S+G + VV+ GR GKS+ N++ GR A A A T ++ + DG +++I
Sbjct: 1 GSHGXK-VVIAGRPNAGKSSLLNALAGREA--AIVTDIAGTTRDVLREHIHIDGXPLHII 57
Query: 75 DTPGLFDSSAESEYVSKE 92
DT GL ++S E E + E
Sbjct: 58 DTAGLREASDEVERIGIE 75
>pdb|2QAG|C Chain C, Crystal Structure Of Human Septin Trimer 267
Length = 418
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 7/75 (9%)
Query: 19 ERTVVLLGRTGNGKSATGNSILGRRAFKA--SAGSSAITKTCEMKTT--VLKDGQV---V 71
E T++++G +G GKS NS+ + S I KT +++ + ++K+G V +
Sbjct: 31 EFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLL 90
Query: 72 NVIDTPGLFDSSAES 86
++DTPG D+ S
Sbjct: 91 TIVDTPGFGDAVDNS 105
>pdb|3T5D|A Chain A, Crystal Structure Of Septin 7 In Complex With Gdp
pdb|3T5D|C Chain C, Crystal Structure Of Septin 7 In Complex With Gdp
Length = 274
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 15 SSNGERTVVLLGRTGNGKSATGNSILGRRAFKA--SAGSSAITKTCEMKTT--VLKDGQV 70
S E T++++G +G GKS NS+ + S I KT +++ + ++K+G V
Sbjct: 4 GSGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGV 63
Query: 71 ---VNVIDTPGLFDSSAES 86
+ ++DTPG D+ S
Sbjct: 64 QLLLTIVDTPGFGDAVDNS 82
>pdb|3TW4|A Chain A, Crystal Structure Of Human Septin 7 Gtpase Domain
pdb|3TW4|B Chain B, Crystal Structure Of Human Septin 7 Gtpase Domain
Length = 271
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 7/75 (9%)
Query: 19 ERTVVLLGRTGNGKSATGNSILGRRAFKA--SAGSSAITKTCEMKTT--VLKDGQV---V 71
E T++++G +G GKS NS+ + S I KT +++ + ++K+G V +
Sbjct: 3 EFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLL 62
Query: 72 NVIDTPGLFDSSAES 86
++DTPG D+ S
Sbjct: 63 TIVDTPGFGDAVDNS 77
>pdb|3CNL|A Chain A, Crystal Structure Of Gnp-Bound Ylqf From T. Maritima
pdb|3CNN|A Chain A, Gtp-Bound Structure Of Tm Ylqf
pdb|3CNO|A Chain A, Gdp-Bound Structue Of Tm Ylqf
Length = 262
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 7/67 (10%)
Query: 22 VVLLGRTGNGKSATGNSILGRRAFKASAGS-SAITKTCEMKTTVLKDGQVVNVIDTPGLF 80
V+++G GKS N + G+RA +S G+ ITK + + L++G V ++DTPG+
Sbjct: 102 VLIVGVPNTGKSTIINKLKGKRA--SSVGAQPGITKGIQWFS--LENG--VKILDTPGIL 155
Query: 81 DSSAESE 87
+ SE
Sbjct: 156 YKNIFSE 162
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 17 NGERTVVLLGRTGNGKSATGNSI---LGRRAF 45
+GER V LLG TG GK+ T + LGR A
Sbjct: 27 DGERFVTLLGATGTGKTVTMAKVIEALGRPAL 58
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 17 NGERTVVLLGRTGNGKSATGNSI---LGRRAF 45
+GER V LLG TG GK+ T + LGR A
Sbjct: 26 DGERFVTLLGATGTGKTVTMAKVIEALGRPAL 57
>pdb|3J25|A Chain A, Structural Basis For Tetm-Mediated Tetracycline Resistance
Length = 638
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 37/86 (43%), Gaps = 15/86 (17%)
Query: 25 LGRTGNGKSATGNSILGR-RAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLFDSS 83
LG G + T N++L R R G T+ + VN+IDTPG D
Sbjct: 32 LGSVDKGTTRTDNTLLERQRGITIQTGI----------TSFQWENTKVNIIDTPGHMDFL 81
Query: 84 AESEYVSKEI---AKCIGMAKDGIHA 106
AE Y S + A + AKDG+ A
Sbjct: 82 AEV-YRSLSVLDGAILLISAKDGVQA 106
>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem
Length = 211
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 64/145 (44%), Gaps = 23/145 (15%)
Query: 12 PTSSSNGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEM------KTTVL 65
+ S N VVL+G G GKS N G ++ CE+ + T++
Sbjct: 30 SSESGNTYYRVVLIGEQGVGKSTLANIFAGVH--------DSMDSDCEVLGEDTYERTLM 81
Query: 66 KDGQVVNVIDTPGLFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAV 125
DG+ +I ++++ E+E++ C+ + A L+V+S+ R S E+ + +
Sbjct: 82 VDGESATII-LLDMWENKGENEWLHDH---CMQVGD----AYLIVYSITDRASFEKASEL 133
Query: 126 HRLQTLFGKKIFDYMIVVFTGGDDL 150
R+Q ++ D I++ DL
Sbjct: 134 -RIQLRRARQTEDIPIILVGNKSDL 157
>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp
pdb|2HT6|B Chain B, Crystal Structure Of Human Gem G-Domain Bound To Gdp
Length = 174
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 63/143 (44%), Gaps = 23/143 (16%)
Query: 14 SSSNGERTVVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEM------KTTVLKD 67
S N VVL+G G GKS N G ++ CE+ + T++ D
Sbjct: 1 GSGNTYYRVVLIGEQGVGKSTLANIFAGVH--------DSMDSDCEVLGEDTYERTLMVD 52
Query: 68 GQVVNVIDTPGLFDSSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAVHR 127
G+ +I ++++ E+E++ C+ + A L+V+S+ R S E+ + + R
Sbjct: 53 GESATII-LLDMWENKGENEWLHDH---CMQVGD----AYLIVYSITDRASFEKASEL-R 103
Query: 128 LQTLFGKKIFDYMIVVFTGGDDL 150
+Q ++ D I++ DL
Sbjct: 104 IQLRRARQTEDIPIILVGNKSDL 126
>pdb|3U4G|A Chain A, The Structure Of Cobt From Pyrococcus Horikoshii
Length = 337
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 2/80 (2%)
Query: 23 VLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLFDS 82
+++G + G + T +IL ++A S++ E+K V+K+G I+ GL D
Sbjct: 138 IVIGESTPGGTTTAQAILWALGYEAKTSSASPENPQELKEKVIKEGFKRVGIEKGGLKDK 197
Query: 83 SAES--EYVSKEIAKCIGMA 100
E+ E+ IA +G++
Sbjct: 198 PLEALKEFGDPXIATVLGLS 217
>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In
Complex To Mg.Gdp
Length = 192
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 33/129 (25%), Positives = 58/129 (44%), Gaps = 11/129 (8%)
Query: 22 VVLLGRTGNGKSATGNSILGRRAFKASAGSSAITKTCEMKTTVLKDGQVVNVIDTPGLFD 81
VVL+G G GKS N G S T E T++ DG+ +I +++
Sbjct: 9 VVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYE--RTLMVDGESATII-LLDMWE 65
Query: 82 SSAESEYVSKEIAKCIGMAKDGIHAVLLVFSVRSRFSQEEEAAVHRLQTLFGKKIFDYMI 141
+ E+E++ C+ + A L+V+S+ R S E+ + + R+Q ++ D I
Sbjct: 66 NKGENEWLHDH---CMQVGD----AYLIVYSITDRASFEKASEL-RIQLRRARQTEDIPI 117
Query: 142 VVFTGGDDL 150
++ DL
Sbjct: 118 ILVGNKSDL 126
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
0.312 0.128 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,891,896
Number of Sequences: 62578
Number of extensions: 380817
Number of successful extensions: 1488
Number of sequences better than 100.0: 113
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 87
Number of HSP's that attempted gapping in prelim test: 1380
Number of HSP's gapped (non-prelim): 147
length of query: 371
length of database: 14,973,337
effective HSP length: 100
effective length of query: 271
effective length of database: 8,715,537
effective search space: 2361910527
effective search space used: 2361910527
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)