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= psy50
(505 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QTF|A Chain A, Crystal Structure Of A Gtp-Binding Protein From The
Hyperthermophilic Archaeon Sulfolobus Solfataricus
pdb|2QTH|A Chain A, Crystal Structure Of A Gtp-Binding Protein From The
Hyperthermophilic Archaeon Sulfolobus Solfataricus In
Complex With Gdp
pdb|3KXI|A Chain A, Crystal Structure Of Ssgbp And Gdp Complex
Length = 364
Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 84/308 (27%), Positives = 155/308 (50%), Gaps = 28/308 (9%)
Query: 153 RQVRGDARVTAVFVSVDVLKLHQQKMLQDLFQVPVFDRYMIVIQIFKAHAKTREARLQIA 212
+Q++ D ++ + + + H + ++L V D+ +++++IF HA ++EA++QI
Sbjct: 49 QQIKNDEEISTLIIFEQLKPRHFINIRRELKGKEVLDKILLLLEIFALHAGSKEAKMQIE 108
Query: 213 IAELPY-------LWTRYRTIEDATNMNITKGFLDSKRMVLMEREQKLKKALNKLKGQRE 265
+A L Y +T+ + E + ++S R KL K L +K +E
Sbjct: 109 LARLKYELPIIKETYTKSKIGEQQGPLGAGTYGVESTIKFYKRRINKLMKELESIKIFKE 168
Query: 266 MMRNKKQRQKFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRL 325
+R P++ +VGYTN GKT+L +LT V +LF T+ + + NR
Sbjct: 169 KSIESNKRNNIPSIGIVGYTNSGKTSLFNSLTGLTQKV-DTKLFTTMSPKRYAIPINNR- 226
Query: 326 RILYVDTIGFISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYL--QQKQHVDETLQ 383
+I+ VDT+GFI IP +++ F VTL +A +D +I V+D + + L + Q E L+
Sbjct: 227 KIMLVDTVGFIRGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILR 286
Query: 384 HLELEEKILEHVLVVGNKVDAVPPG--------ERVTEE-----YDLL-ISATRGTGLAQ 429
+ + K +LV NK+D + E++++E +D++ ISA + T L
Sbjct: 287 EIGVSGK---PILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLEL 343
Query: 430 LKEKVQDM 437
L++K+ +
Sbjct: 344 LRDKIYQL 351
>pdb|3KXL|A Chain A, Crystal Structure Of Ssgbp Mutation Variant G235s
pdb|3KXL|B Chain B, Crystal Structure Of Ssgbp Mutation Variant G235s
Length = 364
Score = 98.6 bits (244), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 83/308 (26%), Positives = 154/308 (50%), Gaps = 28/308 (9%)
Query: 153 RQVRGDARVTAVFVSVDVLKLHQQKMLQDLFQVPVFDRYMIVIQIFKAHAKTREARLQIA 212
+Q++ D ++ + + + H + ++L V D+ +++++IF HA ++EA++QI
Sbjct: 49 QQIKNDEEISTLIIFEQLKPRHFINIRRELKGKEVLDKILLLLEIFALHAGSKEAKMQIE 108
Query: 213 IAELPY-------LWTRYRTIEDATNMNITKGFLDSKRMVLMEREQKLKKALNKLKGQRE 265
+A L Y +T+ + E + ++S R KL K L +K +E
Sbjct: 109 LARLKYELPIIKETYTKSKIGEQQGPLGAGTYGVESTIKFYKRRINKLMKELESIKIFKE 168
Query: 266 MMRNKKQRQKFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRL 325
+R P++ +VGYTN GKT+L +LT V +LF T+ + + NR
Sbjct: 169 KSIESNKRNNIPSIGIVGYTNSGKTSLFNSLTGLTQKV-DTKLFTTMSPKRYAIPINNR- 226
Query: 326 RILYVDTIGFISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYL--QQKQHVDETLQ 383
+I+ VDT+ FI IP +++ F VTL +A +D +I V+D + + L + Q E L+
Sbjct: 227 KIMLVDTVSFIRGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILR 286
Query: 384 HLELEEKILEHVLVVGNKVDAVPPG--------ERVTEE-----YDLL-ISATRGTGLAQ 429
+ + K +LV NK+D + E++++E +D++ ISA + T L
Sbjct: 287 EIGVSGK---PILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLEL 343
Query: 430 LKEKVQDM 437
L++K+ +
Sbjct: 344 LRDKIYQL 351
>pdb|3KXK|A Chain A, Crystal Structure Of Ssgbp Mutation Variant G235p
pdb|3KXK|B Chain B, Crystal Structure Of Ssgbp Mutation Variant G235p
Length = 364
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 83/308 (26%), Positives = 154/308 (50%), Gaps = 28/308 (9%)
Query: 153 RQVRGDARVTAVFVSVDVLKLHQQKMLQDLFQVPVFDRYMIVIQIFKAHAKTREARLQIA 212
+Q++ D ++ + + + H + ++L V D+ +++++IF HA ++EA++QI
Sbjct: 49 QQIKNDEEISTLIIFEQLKPRHFINIRRELKGKEVLDKILLLLEIFALHAGSKEAKMQIE 108
Query: 213 IAELPY-------LWTRYRTIEDATNMNITKGFLDSKRMVLMEREQKLKKALNKLKGQRE 265
+A L Y +T+ + E + ++S R KL K L +K +E
Sbjct: 109 LARLKYELPIIKETYTKSKIGEQQGPLGAGTYGVESTIKFYKRRINKLMKELESIKIFKE 168
Query: 266 MMRNKKQRQKFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRL 325
+R P++ +VGYTN GKT+L +LT V +LF T+ + + NR
Sbjct: 169 KSIESNKRNNIPSIGIVGYTNSGKTSLFNSLTGLTQKV-DTKLFTTMSPKRYAIPINNR- 226
Query: 326 RILYVDTIGFISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYL--QQKQHVDETLQ 383
+I+ VDT+ FI IP +++ F VTL +A +D +I V+D + + L + Q E L+
Sbjct: 227 KIMLVDTVPFIRGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILR 286
Query: 384 HLELEEKILEHVLVVGNKVDAVPPG--------ERVTEE-----YDLL-ISATRGTGLAQ 429
+ + K +LV NK+D + E++++E +D++ ISA + T L
Sbjct: 287 EIGVSGK---PILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLEL 343
Query: 430 LKEKVQDM 437
L++K+ +
Sbjct: 344 LRDKIYQL 351
>pdb|1XZP|A Chain A, Structure Of The Gtp-Binding Protein Trme From Thermotoga
Maritima
pdb|1XZQ|A Chain A, Structure Of The Gtp-binding Protein Trme From Thermotoga
Maritima Complexed With 5-formyl-thf
Length = 482
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 56/175 (32%), Positives = 87/175 (49%), Gaps = 40/175 (22%)
Query: 279 VAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRLRILY--VDTIGFI 336
+ +VG N GK+TL+ L ++D + + T DV + E ++ IL+ VDT G
Sbjct: 246 MVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG---ILFRIVDTAGVR 302
Query: 337 SNIPTTLLEPFKV--TLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILEH 394
S L+E + TL++ ADI++ V+D S+P +DE + KILE
Sbjct: 303 SET-NDLVERLGIERTLQEIEKADIVLFVLDASSP--------LDEE------DRKILER 347
Query: 395 V-----LVVGNKVDAVPPGERVTEE----------YDLLISATRGTGLAQLKEKV 434
+ LVV NKVD V E++ EE + + ISA +G GL +L+E +
Sbjct: 348 IKNKRYLVVINKVDVV---EKINEEEIKNKLGTDRHMVKISALKGEGLEKLEESI 399
>pdb|3A1T|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gdp Form Ii
pdb|3A1U|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gmppnp Form
pdb|3A1U|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gmppnp Form
pdb|3A1V|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Apo Form
pdb|3A1V|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Apo Form
Length = 258
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 48/176 (27%), Positives = 82/176 (46%), Gaps = 26/176 (14%)
Query: 279 VAVVGYTNCGKTTLIKALTDDDSLV---PRNQLFATLDVTTHEGMLPNRLRILYVDTIGF 335
VA+ G N GKT+L ALT V P + V T++G N + + ++G+
Sbjct: 8 VALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGY 67
Query: 336 ISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILEHV 395
S+I + + + + AD++I V D NP+ Q + L+ LE+E+K+ +
Sbjct: 68 -SSIDEKIARDYLLKGD----ADLVILVADSVNPE-----QSLYLLLEILEMEKKV---I 114
Query: 396 LVVGNKVDAVPPGERVTEEYDL---------LISATRGTGLAQLKEKVQDMILKAT 442
L + +A G ++ + Y+L S+ G GL +LKEK+ + K T
Sbjct: 115 LAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQKNT 169
>pdb|2E87|A Chain A, Crystal Structure Of Hypothetical Gtp-Binding Protein
Ph1320 From Pyrococcus Horikoshii Ot3, In Complex With
Gdp
Length = 357
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 50/173 (28%), Positives = 82/173 (47%), Gaps = 21/173 (12%)
Query: 275 KFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRLRILYVDTIG 334
+ PTV + G+ N GK+TL+KALT + + F T + + R +DT G
Sbjct: 166 EIPTVVIAGHPNVGKSTLLKALTTAKPEIA-SYPFTTRGINVGQ-FEDGYFRYQIIDTPG 223
Query: 335 FISNIPTTLLEPFK-VTLEDAMLADIIIHVVDVSN----PDYLQQKQHVDETLQHLELEE 389
+ + E K L L ++II++ D S P L+++ H+ E + H E ++
Sbjct: 224 LLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFP--LEEQIHLFEEV-HGEFKD 280
Query: 390 KILEHVLVVGNKVDA-----VPPGERVTEEYDL---LISATRGTGLAQLKEKV 434
LVV NK+D + E+ +E L ISA +GTG+ +KE++
Sbjct: 281 LPF---LVVINKIDVADEENIKRLEKFVKEKGLNPIKISALKGTGIDLVKEEI 330
>pdb|1WF3|A Chain A, Crystal Structure Of Gtp-Binding Protein Tt1341 From
Thermus Thermophilus Hb8
Length = 301
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 50/163 (30%), Positives = 75/163 (46%), Gaps = 22/163 (13%)
Query: 279 VAVVGYTNCGKTTLIKAL--TDDDSLVPRNQLFATLDVTTHE---GML-PNRLRILYVDT 332
VA+VG N GK+TL+ L + PR Q TT + G+L R +I++VDT
Sbjct: 10 VAIVGKPNVGKSTLLNNLLGVKVAPISPRPQ-------TTRKRLRGILTEGRRQIVFVDT 62
Query: 333 IGFISNIPTTLLEPFKVTLEDAMLADI--IIHVVDVSNPDYLQQKQHVDETLQHLELEEK 390
G + P L F LAD+ ++ VVD+ +P + + V L+ L +
Sbjct: 63 PGL--HKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPP-TPEDELVARALKPLVGKVP 119
Query: 391 ILEHVLVVGNKVDAVPPGERVTEEYDLLISATRGTGLAQLKEK 433
IL +VGNK+DA E + Y L+ L+ L E+
Sbjct: 120 IL----LVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDER 158
>pdb|3A1W|A Chain A, Crystal Structue Of The G Domain Of T. Maritima Feob Iron
Iransporter
Length = 168
Score = 37.7 bits (86), Expect = 0.017, Method: Composition-based stats.
Identities = 45/168 (26%), Positives = 75/168 (44%), Gaps = 26/168 (15%)
Query: 279 VAVVGYTNCGKTTLIKALTDDDSLV---PRNQLFATLDVTTHEGMLPNRLRILYVDTIGF 335
VA+ G N GKT+L ALT V P + V T++G N + + ++G+
Sbjct: 8 VALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGY 67
Query: 336 ISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILEHV 395
S+I + + + + AD++I V D NP+ Q + L+ LE+E+K V
Sbjct: 68 -SSIDEKIARDYLLKGD----ADLVILVADSVNPE-----QSLYLLLEILEMEKK----V 113
Query: 396 LVVGNKVDAVPPGERVTEEYDL---------LISATRGTGLAQLKEKV 434
++ +D + Y+L S+ G GL +LKEK+
Sbjct: 114 ILAMTAIDEAKKTGMKIDRYELQKHLGIPVVFTSSVTGEGLEELKEKI 161
>pdb|3R9W|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp And
Nucleotides 1506- 1542 Of 16s Ribosomal Rna
pdb|3R9X|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp,
Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
Length = 307
Score = 35.4 bits (80), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 42/169 (24%), Positives = 76/169 (44%), Gaps = 26/169 (15%)
Query: 279 VAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRLRILYVDTIGFISN 338
VA+VG N GK+TL+ L + + T +PN +I+++DT G
Sbjct: 12 VAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEP 71
Query: 339 -----IPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILE 393
+ +++E K +LE+ AD+I+ ++D + + +E Q+ + + +
Sbjct: 72 KKSDVLGHSMVEIAKQSLEE---ADVILFMIDATE----GWRPRDEEIYQN--FIKPLNK 122
Query: 394 HVLVVGNKVDAVPPGERVTEEYD------------LLISATRGTGLAQL 430
V+VV NK+D + P + V D + ISA +G L +L
Sbjct: 123 PVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDEL 171
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 35.4 bits (80), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 42/169 (24%), Positives = 76/169 (44%), Gaps = 26/169 (15%)
Query: 279 VAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRLRILYVDTIGFISN 338
VA+VG N GK+TL+ L + + T +PN +I+++DT G
Sbjct: 13 VAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEP 72
Query: 339 -----IPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILE 393
+ +++E K +LE+ AD+I+ ++D + + +E Q+ + + +
Sbjct: 73 KKSDVLGHSMVEIAKQSLEE---ADVILFMIDATE----GWRPRDEEIYQN--FIKPLNK 123
Query: 394 HVLVVGNKVDAVPPGERVTEEYD------------LLISATRGTGLAQL 430
V+VV NK+D + P + V D + ISA +G L +L
Sbjct: 124 PVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDEL 172
>pdb|2DWQ|A Chain A, Thermus Thermophilus Ychf Gtp-Binding Protein
pdb|2DWQ|B Chain B, Thermus Thermophilus Ychf Gtp-Binding Protein
Length = 368
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 278 TVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLP 322
V +VG N GK+TL ALT ++L N FAT+D G++P
Sbjct: 3 AVGIVGLPNVGKSTLFNALTRANALAA-NYPFATIDKNV--GVVP 44
>pdb|2DBY|A Chain A, Crystal Structure Of The Gtp-Binding Protein Ychf In
Complexed With Gdp
Length = 368
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 278 TVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLP 322
V +VG N GK+TL ALT ++L N FAT+D G++P
Sbjct: 3 AVGIVGLPNVGKSTLFNALTRANALA-ANYPFATIDKNV--GVVP 44
>pdb|3G5U|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G5U|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 55/111 (49%), Gaps = 15/111 (13%)
Query: 278 TVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLD-VTTHEGMLPNRLRILYV-DTIGF 335
TVA+VG + CGK+T ++ + +L+ LD + + +G + + Y+ + IG
Sbjct: 418 TVALVGNSGCGKSTTVQLM---------QRLYDPLDGMVSIDGQDIRTINVRYLREIIGV 468
Query: 336 ISNIP----TTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETL 382
+S P TT+ E + ED + +I V + + D++ + H +TL
Sbjct: 469 VSQEPVLFATTIAENIRYGREDVTMDEIEKAVKEANAYDFIMKLPHQFDTL 519
>pdb|3G60|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G60|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 55/111 (49%), Gaps = 15/111 (13%)
Query: 278 TVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLD-VTTHEGMLPNRLRILYV-DTIGF 335
TVA+VG + CGK+T ++ + +L+ LD + + +G + + Y+ + IG
Sbjct: 418 TVALVGNSGCGKSTTVQLM---------QRLYDPLDGMVSIDGQDIRTINVRYLREIIGV 468
Query: 336 ISNIP----TTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETL 382
+S P TT+ E + ED + +I V + + D++ + H +TL
Sbjct: 469 VSQEPVLFATTIAENIRYGREDVTMDEIEKAVKEANAYDFIMKLPHQFDTL 519
>pdb|3A1S|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gdp Form I
pdb|3A1S|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
Feob Iron Iransporter In Gdp Form I
Length = 258
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 43/176 (24%), Positives = 74/176 (42%), Gaps = 26/176 (14%)
Query: 279 VAVVGYTNCGKTTLIKALTDDDSLV---PRNQLFATLDVTTHEGMLPNRLRILYVDTIGF 335
VA+ G N GKT+L ALT V P + V T++G N + + ++G+
Sbjct: 8 VALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGY 67
Query: 336 ISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILEHV 395
S+I + + + + AD++I V D NP +++L L + + V
Sbjct: 68 -SSIDEKIARDYLLKGD----ADLVILVADSVNP---------EQSLYLLLEILEXEKKV 113
Query: 396 LVVGNKVDAVPPGERVTEEYDL---------LISATRGTGLAQLKEKVQDMILKAT 442
++ +D + Y+L S+ G GL +LKEK+ + K T
Sbjct: 114 ILAXTAIDEAKKTGXKIDRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQKNT 169
>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native)
Length = 186
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 64/148 (43%), Gaps = 19/148 (12%)
Query: 262 GQREMMRNKKQRQKFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGML 321
G +++ KQ+++ + ++G N GKTT++K +D L + H G
Sbjct: 4 GLLTILKKMKQKERELRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFK 63
Query: 322 PNRLRILYVDTIGFISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDET 381
N + +G ++ + F+ T D +I VVD ++ Q+ Q
Sbjct: 64 LN------IWDVGGQKSLRSYWRNYFEST-------DGLIWVVDSADR---QRMQDCQRE 107
Query: 382 LQHLELEEKILEHVLVV-GNKVDAVPPG 408
LQ L +EE++ L++ NK D PG
Sbjct: 108 LQSLLVEERLAGATLLIFANKQDL--PG 133
>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A
Switch Protein Containing Two Gtpase Domains
Length = 439
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 51/185 (27%), Positives = 80/185 (43%), Gaps = 41/185 (22%)
Query: 278 TVAVVGYTNCGKTTLI-------KALTDDDSLVPRNQLFATLDVTTHEGMLPNRLRILYV 330
TV +VG N GK+TL KA+ +D+ V R+ + T++ L V
Sbjct: 3 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKL--------V 54
Query: 331 DTIGFISNIPTTLLEPFK-VTLEDAMLADIIIHVV---------DVSNPDYLQQKQHVD- 379
DT G N + + K VTL AD+++ VV D S D+L +K VD
Sbjct: 55 DTCGVFDNPQDIISQKXKEVTLNXIREADLVLFVVDGKRGITKEDESLADFL-RKSTVDT 113
Query: 380 -------ETLQHLELEEKILEHVLVVGNKVDAVPPGERVTEEYDLLISATRGTGLAQLKE 432
E L+ E E K + L G + +P V+ E+++ + T + +L+E
Sbjct: 114 ILVANKAENLREFEREVKPELYSLGFG---EPIP----VSAEHNINLDTXLETIIKKLEE 166
Query: 433 KVQDM 437
K D+
Sbjct: 167 KGLDL 171
>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1
Length = 186
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 64/148 (43%), Gaps = 19/148 (12%)
Query: 262 GQREMMRNKKQRQKFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGML 321
G +++ KQ+++ + ++G N GKTT++K +D L + H G
Sbjct: 4 GLLTILKKMKQKERELRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFK 63
Query: 322 PNRLRILYVDTIGFISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDET 381
N + +G ++ + F+ T D +I VVD ++ Q+ Q
Sbjct: 64 LN------IWDVGGQKSLRSYWRNYFEST-------DGLIWVVDSADR---QRMQDCQRE 107
Query: 382 LQHLELEEKILEHVLVV-GNKVDAVPPG 408
LQ L +EE++ L++ NK D PG
Sbjct: 108 LQSLLVEERLAGATLLIFANKQDL--PG 133
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 54/125 (43%), Gaps = 17/125 (13%)
Query: 224 RTIEDATNMNITKGFLDSKRMV---LMEREQKLKKALNKLKGQREMMRNKKQRQKFPTVA 280
RT+ED +GF R + L EQ+L AL + +R Q ++ +
Sbjct: 127 RTLEDYAQ----QGFFKHVRPMSKSLTPFEQELL-ALKEAGDYMSFLRRAVQLER--VIV 179
Query: 281 VVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGML---PNRLRILYVDTIGFIS 337
V G T GKTTL+KAL + +P +Q T++ E L PN + + Y
Sbjct: 180 VAGETGSGKTTLMKALMQE---IPFDQRLITIE-DVPELFLPDHPNHVHLFYPSEAKEEE 235
Query: 338 NIPTT 342
N P T
Sbjct: 236 NAPVT 240
>pdb|3K53|A Chain A, Crystal Structure Of Nfeob From P. Furiosus
pdb|3K53|B Chain B, Crystal Structure Of Nfeob From P. Furiosus
pdb|3K53|C Chain C, Crystal Structure Of Nfeob From P. Furiosus
pdb|3K53|D Chain D, Crystal Structure Of Nfeob From P. Furiosus
Length = 271
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 60/127 (47%), Gaps = 12/127 (9%)
Query: 278 TVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGMLPNRLR-ILYVDTIGFI 336
TVA+VG N GKTT+ ALT V + + V EG++ R + L VD G
Sbjct: 5 TVALVGNPNVGKTTIFNALTGLRQHVGN---WPGVTVEKKEGIMEYREKEFLVVDLPGIY 61
Query: 337 SNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDETLQHLELEEKILEHVL 396
S ++ E AD+I+ +VD + +++ TL+ E+E K +++
Sbjct: 62 SLTAHSIDELIARNFILDGNADVIVDIVDSTC-----LMRNLFLTLELFEMEVK---NII 113
Query: 397 VVGNKVD 403
+V NK D
Sbjct: 114 LVLNKFD 120
>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1
pdb|3DOF|A Chain A, Complex Of Arl2 And Bart, Crystal Form 2
Length = 192
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 64/148 (43%), Gaps = 19/148 (12%)
Query: 262 GQREMMRNKKQRQKFPTVAVVGYTNCGKTTLIKALTDDDSLVPRNQLFATLDVTTHEGML 321
G +++ KQ+++ + ++G N GKTT++K +D L + H G
Sbjct: 2 GLLTILKKMKQKERELRLLMLGLDNAGKTTILKKFNGEDIDTISPTLGFNIKTLEHRGFK 61
Query: 322 PNRLRILYVDTIGFISNIPTTLLEPFKVTLEDAMLADIIIHVVDVSNPDYLQQKQHVDET 381
N + +G ++ + F+ T D +I VVD ++ Q+ Q
Sbjct: 62 LN------IWDVGGQKSLRSYWRNYFEST-------DGLIWVVDSADR---QRMQDCQRE 105
Query: 382 LQHLELEEKILEHVLVV-GNKVDAVPPG 408
LQ L +EE++ L++ NK D PG
Sbjct: 106 LQSLLVEERLAGATLLIFANKQDL--PG 131
>pdb|3K49|A Chain A, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr
Recognition Sequence Site B
pdb|3K49|C Chain C, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr
Recognition Sequence Site B
pdb|3K49|E Chain E, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr
Recognition Sequence Site B
pdb|3K4E|A Chain A, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr
Recognition Sequence Site A
pdb|3K4E|C Chain C, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr
Recognition Sequence Site A
pdb|3K4E|E Chain E, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr
Recognition Sequence Site A
Length = 369
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 70 FKTIRDEA---QTGALGTDHQVFVVQPFIKWGKKMKRNTTRDFMLAESKALVSSIQGWRV 126
F IRD+A G +V+Q F ++G K+++NT D K L + RV
Sbjct: 62 FNEIRDDAIELSNDVFGN----YVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRV 117
Query: 127 VDSTI 131
+ +
Sbjct: 118 IQKAL 122
>pdb|2D74|A Chain A, Crystal Structure Of Translation Initiation Factor
Aif2betagamma Heterodimer
pdb|2DCU|A Chain A, Crystal Structure Of Translation Initiation Factor
Aif2betagamma Heterodimer With Gdp
Length = 419
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 266 MMRNKKQRQKFPTVAVVGYTNCGKTTLIKALT 297
M +K RQ + +VG+ + GKTTL KALT
Sbjct: 1 MGEKRKTRQAEVNIGMVGHVDHGKTTLTKALT 32
>pdb|4F5D|A Chain A, ErisSTING IN COMPLEX WITH LIGAND
pdb|4F5D|B Chain B, ErisSTING IN COMPLEX WITH LIGAND
pdb|4F5E|A Chain A, Crystal Structure Of ErisSTING
Length = 256
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 380 ETLQHLELEEKILEHVLVVGNKVDAVPPGERVTEEYDLLISA 421
E L+HL EEK E V V K AVP +++E +LLIS
Sbjct: 205 EVLRHLRQEEK--EEVTVGSLKTSAVPSTSTMSQEPELLISG 244
>pdb|4EF4|A Chain A, Crystal Structure Of Sting Ctd Complex With C-Di-Gmp
pdb|4EF4|B Chain B, Crystal Structure Of Sting Ctd Complex With C-Di-Gmp
pdb|4EF5|A Chain A, Crystal Structure Of Sting Ctd
pdb|4F9E|A Chain A, Cyclic Di-Gmp Sensing Via The Innate Immune Signaling
Protein Sting
pdb|4F9G|A Chain A, Crystal Structure Of Sting Complex With Cyclic Di-Gmp.
pdb|4F9G|C Chain C, Crystal Structure Of Sting Complex With Cyclic Di-Gmp
Length = 265
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 380 ETLQHLELEEKILEHVLVVGNKVDAVPPGERVTEEYDLLISA 421
E L+HL EEK E V V K AVP +++E +LLIS
Sbjct: 214 EVLRHLRQEEK--EEVTVGSLKTSAVPSTSTMSQEPELLISG 253
>pdb|4F5W|A Chain A, Crystal Structure Of Ligand Free Human Sting Ctd
pdb|4F5Y|A Chain A, Crystal Structure Of Human Sting Ctd Complex With C-Di-Gmp
pdb|4F5Y|B Chain B, Crystal Structure Of Human Sting Ctd Complex With C-Di-Gmp
Length = 239
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 380 ETLQHLELEEKILEHVLVVGNKVDAVPPGERVTEEYDLLISA 421
E L+HL EEK E V V K AVP +++E +LLIS
Sbjct: 180 EVLRHLRQEEK--EEVTVGSLKTSAVPSTSTMSQEPELLISG 219
>pdb|3IBY|A Chain A, Structure Of Cytosolic Domain Of L. Pneumophila Feob
pdb|3IBY|B Chain B, Structure Of Cytosolic Domain Of L. Pneumophila Feob
pdb|3IBY|C Chain C, Structure Of Cytosolic Domain Of L. Pneumophila Feob
pdb|3IBY|D Chain D, Structure Of Cytosolic Domain Of L. Pneumophila Feob
Length = 256
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 281 VVGYTNCGKTTLIKALTDDD 300
++G NCGKTTL ALT+ +
Sbjct: 6 LIGNPNCGKTTLFNALTNAN 25
>pdb|1KJZ|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi-G235d Mutant
pdb|1KK1|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi-G235d Mutant Complexed With
Gdpnp-Mg2+
pdb|1KK2|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi-G235d Mutant Complexed With
Gdp-Mg2+
Length = 410
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 270 KKQRQKFPTVAVVGYTNCGKTTLIKALT 297
+K RQ + +VG+ + GKTTL KALT
Sbjct: 4 RKSRQAEVNIGMVGHVDHGKTTLTKALT 31
>pdb|1KK3|A Chain A, Structure Of The Wild-Type Large Gamma Subunit Of
Initiation Factor Eif2 From Pyrococcus Abyssi Complexed
With Gdp-Mg2+
Length = 410
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 270 KKQRQKFPTVAVVGYTNCGKTTLIKALT 297
+K RQ + +VG+ + GKTTL KALT
Sbjct: 4 RKSRQAEVNIGMVGHVDHGKTTLTKALT 31
>pdb|4DCS|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Sulfate Ion And Gdp
pdb|4DCT|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Half-Occupacy Gdp
pdb|4DCU|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With Gdp
pdb|4DCV|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Gmppcp
Length = 456
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 44/175 (25%), Positives = 76/175 (43%), Gaps = 32/175 (18%)
Query: 277 PTVAVVGYTNCGKTTLIK-------ALTDDDSLVPRNQLFATLDVTTHEGMLPNRLRILY 329
P VA+VG N GK+T+ ++ +D V R++++++ + ++ L
Sbjct: 24 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNL-------- 75
Query: 330 VDTIGF-ISNIPTTLLEPFKVTLEDAM-LADIIIHVVDVSNPDYLQQKQHVDETLQHLEL 387
+DT G I + P L + E AM AD+II +V+ + DE + +
Sbjct: 76 IDTGGIDIGDEP--FLAQIRQQAEIAMDEADVIIFMVNGR-----EGVTAADEEVAKILY 128
Query: 388 EEKILEHVLVVGNKVDAVPPGERVTEEYDL------LISATRGTGLAQLKEKVQD 436
K + V++ NK+D + + Y L IS T G GL L + V +
Sbjct: 129 RTK--KPVVLAVNKLDNTEMRANIYDFYSLGFGEPYPISGTHGLGLGDLLDAVAE 181
>pdb|3EC1|A Chain A, Structure Of Yqeh Gtpase From Geobacillus
Stearothermophilus (An Atnos1 ATNOA1 ORTHOLOG)
pdb|3EC1|B Chain B, Structure Of Yqeh Gtpase From Geobacillus
Stearothermophilus (An Atnos1 ATNOA1 ORTHOLOG)
Length = 369
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 45/107 (42%), Gaps = 34/107 (31%)
Query: 395 VLVVGNKVDAVPPG----------ERVTEEYDL------LISATRGTGLAQLKEKVQDMI 438
+L+VGNK D +P R+ EE L L+SA +G G+A++ E +
Sbjct: 101 ILLVGNKADLLPRSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKVMEAIN--- 157
Query: 439 LKATGRKNITMRVRSGGSEY----QWLMKHTAVSNIREDDTSAEHLL 481
R R GG Y + K T ++ I E+ T +++
Sbjct: 158 -----------RYREGGDVYVVGCTNVGKSTFINRIIEEATGKGNVI 193
>pdb|1KK0|A Chain A, Structure Of The Large Gamma Subunit Of Initiation Factor
Eif2 From Pyrococcus Abyssi
Length = 410
Score = 28.5 bits (62), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 270 KKQRQKFPTVAVVGYTNCGKTTLIKALT 297
+K RQ + VG+ + GKTTL KALT
Sbjct: 4 RKSRQAEVNIGXVGHVDHGKTTLTKALT 31
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 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,383,533
Number of Sequences: 62578
Number of extensions: 522426
Number of successful extensions: 1668
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 42
Number of HSP's that attempted gapping in prelim test: 1626
Number of HSP's gapped (non-prelim): 66
length of query: 505
length of database: 14,973,337
effective HSP length: 103
effective length of query: 402
effective length of database: 8,527,803
effective search space: 3428176806
effective search space used: 3428176806
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: 54 (25.4 bits)