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= 009371
(536 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 = 122 bits (305), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 105/345 (30%), Positives = 166/345 (48%), Gaps = 30/345 (8%)
Query: 143 LFVIEESLKELAQLADTAGLMVVGSTHQKLNSPNPRTYIGSGKVAEIKSAIHALGVETVI 202
LFV +E +E L + A V S ++ SPN + YI K+ +IK+ + T+I
Sbjct: 6 LFVSKEFEEEAIALVEGANYKVT-SIYKLPKSPNVKFYIQYDKLQQIKNDEE---ISTLI 61
Query: 203 FDDELSAGQLRNLEKAFGGDVRVCDRTALILDIFNQRAATHEAALQ---------LPRLT 253
++L N+ + G V D+ L+L+IF A + EA +Q LP +
Sbjct: 62 IFEQLKPRHFINIRRELKGK-EVLDKILLLLEIFALHAGSKEAKMQIELARLKYELPIIK 120
Query: 254 KMWTH--LERQAGGQVKGMGEKQIEVDKRILRTQIGVLKKELESVRKHRKQYRNRRXXXX 311
+ +T + Q G G G +E + + +I L KELES++ +++
Sbjct: 121 ETYTKSKIGEQQGPL--GAGTYGVESTIKFYKRRINKLMKELESIKIFKEKSIESNKRNN 178
Query: 312 XXXXXXXGYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFI 371
GYTN+GK++L N LTG T + +LF T+ P + + N + +L DTVGFI
Sbjct: 179 IPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPI-NNRKIMLVDTVGFI 237
Query: 372 QKLPTTLVAAFRATLEEISESSLLVHVVD--ISHPLAEQQIEAVDKVLSELDVSSIPKLM 429
+ +P +V AF TL E S L+ V+D S L + +++ ++L E+ VS P L+
Sbjct: 238 RGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILV 297
Query: 430 IWNKVDKVCDPQKVKL---EAQKRE------DVVCISALSGNGLD 465
NK+DK+ KL E +E DV+ ISAL L+
Sbjct: 298 TLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLE 342
>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 = 119 bits (299), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 104/345 (30%), Positives = 165/345 (47%), Gaps = 30/345 (8%)
Query: 143 LFVIEESLKELAQLADTAGLMVVGSTHQKLNSPNPRTYIGSGKVAEIKSAIHALGVETVI 202
LFV +E +E L + A V S ++ SPN + YI K+ +IK+ + T+I
Sbjct: 6 LFVSKEFEEEAIALVEGANYKVT-SIYKLPKSPNVKFYIQYDKLQQIKNDEE---ISTLI 61
Query: 203 FDDELSAGQLRNLEKAFGGDVRVCDRTALILDIFNQRAATHEAALQ---------LPRLT 253
++L N+ + G V D+ L+L+IF A + EA +Q LP +
Sbjct: 62 IFEQLKPRHFINIRRELKGK-EVLDKILLLLEIFALHAGSKEAKMQIELARLKYELPIIK 120
Query: 254 KMWTH--LERQAGGQVKGMGEKQIEVDKRILRTQIGVLKKELESVRKHRKQYRNRRXXXX 311
+ +T + Q G G G +E + + +I L KELES++ +++
Sbjct: 121 ETYTKSKIGEQQGPL--GAGTYGVESTIKFYKRRINKLMKELESIKIFKEKSIESNKRNN 178
Query: 312 XXXXXXXGYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFI 371
GYTN+GK++L N LTG T + +LF T+ P + + N + +L DTV FI
Sbjct: 179 IPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPI-NNRKIMLVDTVSFI 237
Query: 372 QKLPTTLVAAFRATLEEISESSLLVHVVD--ISHPLAEQQIEAVDKVLSELDVSSIPKLM 429
+ +P +V AF TL E S L+ V+D S L + +++ ++L E+ VS P L+
Sbjct: 238 RGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILV 297
Query: 430 IWNKVDKVCDPQKVKL---EAQKRE------DVVCISALSGNGLD 465
NK+DK+ KL E +E DV+ ISAL L+
Sbjct: 298 TLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLE 342
>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 = 119 bits (297), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 104/345 (30%), Positives = 165/345 (47%), Gaps = 30/345 (8%)
Query: 143 LFVIEESLKELAQLADTAGLMVVGSTHQKLNSPNPRTYIGSGKVAEIKSAIHALGVETVI 202
LFV +E +E L + A V S ++ SPN + YI K+ +IK+ + T+I
Sbjct: 6 LFVSKEFEEEAIALVEGANYKVT-SIYKLPKSPNVKFYIQYDKLQQIKNDEE---ISTLI 61
Query: 203 FDDELSAGQLRNLEKAFGGDVRVCDRTALILDIFNQRAATHEAALQ---------LPRLT 253
++L N+ + G V D+ L+L+IF A + EA +Q LP +
Sbjct: 62 IFEQLKPRHFINIRRELKGK-EVLDKILLLLEIFALHAGSKEAKMQIELARLKYELPIIK 120
Query: 254 KMWTH--LERQAGGQVKGMGEKQIEVDKRILRTQIGVLKKELESVRKHRKQYRNRRXXXX 311
+ +T + Q G G G +E + + +I L KELES++ +++
Sbjct: 121 ETYTKSKIGEQQGPL--GAGTYGVESTIKFYKRRINKLMKELESIKIFKEKSIESNKRNN 178
Query: 312 XXXXXXXGYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFI 371
GYTN+GK++L N LTG T + +LF T+ P + + N + +L DTV FI
Sbjct: 179 IPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPI-NNRKIMLVDTVPFI 237
Query: 372 QKLPTTLVAAFRATLEEISESSLLVHVVD--ISHPLAEQQIEAVDKVLSELDVSSIPKLM 429
+ +P +V AF TL E S L+ V+D S L + +++ ++L E+ VS P L+
Sbjct: 238 RGIPPQIVDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILV 297
Query: 430 IWNKVDKVCDPQKVKL---EAQKRE------DVVCISALSGNGLD 465
NK+DK+ KL E +E DV+ ISAL L+
Sbjct: 298 TLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLE 342
>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 = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 61/197 (30%), Positives = 99/197 (50%), Gaps = 32/197 (16%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKN-----GGEFLLTDTVGFIQK 373
G N GKSTLLNRL L EDR T P T R + G F + DT G ++
Sbjct: 250 GKPNVGKSTLLNRL-----LNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAG-VRS 303
Query: 374 LPTTLVA--AFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIW 431
LV TL+EI ++ +++ V+D S PL E+ + ++++ ++ L++
Sbjct: 304 ETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNK------RYLVVI 357
Query: 432 NKVDKV--CDPQKVKLEAQKREDVVCISALSGNGLDEFCSAVQEKLKDSMVWVEALVPFD 489
NKVD V + +++K + +V ISAL G GL EKL++S ++ E F+
Sbjct: 358 NKVDVVEKINEEEIKNKLGTDRHMVKISALKGEGL--------EKLEES-IYRETQEIFE 408
Query: 490 KG--ELLSTIHQVGMVE 504
+G L++ + Q ++E
Sbjct: 409 RGSDSLITNLRQKQLLE 425
>pdb|1LNZ|A Chain A, Structure Of The Obg Gtp-Binding Protein
pdb|1LNZ|B Chain B, Structure Of The Obg Gtp-Binding Protein
Length = 342
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 46/168 (27%), Positives = 79/168 (47%), Gaps = 9/168 (5%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G+ + GKSTLL+ ++ A D F TL P V+ +G F+ D G I+
Sbjct: 165 GFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGXVETDDGRSFVXADLPGLIEGAHQG- 223
Query: 379 VAAFRATLEEISESSLLVHVVDISHPLAEQQIE---AVDKVLSE--LDVSSIPKLMIWNK 433
V L I + ++VHV+D S + +++ LSE L ++ P++++ NK
Sbjct: 224 VGLGHQFLRHIERTRVIVHVIDXSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANK 283
Query: 434 VDKVCDPQKVKLEAQKRED---VVCISALSGNGLDEFCSAVQEKLKDS 478
D + ++ +K D V ISA++ GL E V +L+++
Sbjct: 284 XDXPEAAENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLENT 331
>pdb|1UDX|A Chain A, Crystal Structure Of The Conserved Protein Tt1381 From
Thermus Thermophilus Hb8
Length = 416
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 52/163 (31%), Positives = 79/163 (48%), Gaps = 15/163 (9%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLP--T 376
GY NAGKS+LL +T A F TL P V++ F L D G I+
Sbjct: 164 GYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGK 223
Query: 377 TLVAAFRATLEEISESSLLVHVVDIS-HPLAEQQIEAVDKVLSELDVSSI--PKLMIWNK 433
L F L I+ + +L++V+D + PL + +E + K + D + + P L+ NK
Sbjct: 224 GLGLEF---LRHIARTRVLLYVLDAADEPL--KTLETLRKEVGAYDPALLRRPSLVALNK 278
Query: 434 VDKVCDPQKVK--LEAQKRED--VVCISALSGNGLDEFCSAVQ 472
VD + + + VK +A RE V+ +SAL+G GL A+
Sbjct: 279 VD-LLEEEAVKALADALAREGLAVLPVSALTGAGLPALKEALH 320
>pdb|3GEE|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gdp And Folinic Acid
pdb|3GEI|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gcp
pdb|3GEI|B Chain B, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gcp
pdb|3GEI|C Chain C, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gcp
Length = 476
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 49/202 (24%), Positives = 93/202 (46%), Gaps = 18/202 (8%)
Query: 272 EKQIEVDKRI-LRTQIGVLKKELESVRKHRKQYRNRRXXXXXXXXXXXGYTNAGKSTLLN 330
E+ +E R L QI L+ E V + Y++ R G NAGKSTLLN
Sbjct: 195 EEDVEFQSRDELTMQIETLRSE---VNRLIDSYQHGRIVSEGVSTVIAGKPNAGKSTLLN 251
Query: 331 RLTGATVLAEDRLFATLDPTTRRVQMK-----NGGEFLLTDTVGFIQKLPTTLVAAFRAT 385
T+L ++R + P T R ++ + F LTDT G + R +
Sbjct: 252 -----TLLGQERAIVSHMPGTTRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGIRRS 306
Query: 386 LEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKVCDPQKV-- 443
+++E+ L+++++D+ + ++ + ++ + + L + NK+D+ + +
Sbjct: 307 RMKMAEADLILYLLDLGTERLDDELTEIRELKAAHPAAKF--LTVANKLDRAANADALIR 364
Query: 444 KLEAQKREDVVCISALSGNGLD 465
+ +V+ ISAL+G+G+D
Sbjct: 365 AIADGTGTEVIGISALNGDGID 386
>pdb|1WF3|A Chain A, Crystal Structure Of Gtp-Binding Protein Tt1341 From
Thermus Thermophilus Hb8
Length = 301
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 58/126 (46%), Gaps = 6/126 (4%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G N GKSTLLN L G V T R + + + + DT G + P
Sbjct: 14 GKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHK--PMDA 71
Query: 379 VAAF--RATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDK 436
+ F + E +++ + +V VVD+ HP + E V + L L V +P L++ NK+D
Sbjct: 72 LGEFMDQEVYEALADVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDA 129
Query: 437 VCDPQK 442
P++
Sbjct: 130 AKYPEE 135
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 52/188 (27%), Positives = 81/188 (43%), Gaps = 31/188 (16%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTR-RV----QMKNGGEFLLTDTVGFIQK 373
G N GKSTLLN L G V + + TTR RV + N + + DT G +
Sbjct: 17 GKPNVGKSTLLNNLLGTKV----SIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEP 72
Query: 374 -----LPTTLVAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKL 428
L ++V + +LEE ++ + P E+ + K L++ P +
Sbjct: 73 KKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNK------PVI 126
Query: 429 MIWNKVDKVCDPQKVKL---EAQKRE----DVVCISALSGNGLDEFCSAVQEKLKDSMVW 481
++ NK+DK+ + V E K+ ++V ISAL G LDE + + L +
Sbjct: 127 VVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLPEG--- 183
Query: 482 VEALVPFD 489
E L P D
Sbjct: 184 -EPLFPED 190
>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 = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 52/188 (27%), Positives = 81/188 (43%), Gaps = 31/188 (16%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTR-RV----QMKNGGEFLLTDTVGFIQK 373
G N GKSTLLN L G V + + TTR RV + N + + DT G +
Sbjct: 16 GKPNVGKSTLLNNLLGTKV----SIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEP 71
Query: 374 -----LPTTLVAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKL 428
L ++V + +LEE ++ + P E+ + K L++ P +
Sbjct: 72 KKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNK------PVI 125
Query: 429 MIWNKVDKVCDPQKVKL---EAQKRE----DVVCISALSGNGLDEFCSAVQEKLKDSMVW 481
++ NK+DK+ + V E K+ ++V ISAL G LDE + + L +
Sbjct: 126 VVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLPEG--- 182
Query: 482 VEALVPFD 489
E L P D
Sbjct: 183 -EPLFPED 189
>pdb|2E87|A Chain A, Crystal Structure Of Hypothetical Gtp-Binding Protein
Ph1320 From Pyrococcus Horikoshii Ot3, In Complex With
Gdp
Length = 357
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 50/166 (30%), Positives = 79/166 (47%), Gaps = 34/166 (20%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRV---QMKNGG-EFLLTDTVGFIQK- 373
G+ N GKSTLL LT A A+ TTR + Q ++G + + DT G + +
Sbjct: 174 GHPNVGKSTLLKALTTAKP-----EIASYPFTTRGINVGQFEDGYFRYQIIDTPGLLDRP 228
Query: 374 ------LPTTLVAAFRATLEEISESSLLVHVVDISH----PLAEQQIEAVDKVLSELDVS 423
+ + A R +L++++ D S PL E+QI ++V E
Sbjct: 229 ISERNEIEKQAILALRYL------GNLIIYIFDPSEHCGFPL-EEQIHLFEEVHGEF--K 279
Query: 424 SIPKLMIWNKVDKVCDPQKVK-LEAQKRE---DVVCISALSGNGLD 465
+P L++ NK+D V D + +K LE +E + + ISAL G G+D
Sbjct: 280 DLPFLVVINKID-VADEENIKRLEKFVKEKGLNPIKISALKGTGID 324
>pdb|1JAL|A Chain A, Ychf Protein (Hi0393)
pdb|1JAL|B Chain B, Ychf Protein (Hi0393)
Length = 363
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/129 (29%), Positives = 58/129 (44%), Gaps = 22/129 (17%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G N GKSTL N LT A + A + F T++P T V M + L + V + LPTT+
Sbjct: 9 GLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTM 68
Query: 379 ----VAAFRAT-----------LEEISESSLLVHVV------DISHPLAE-QQIEAVDKV 416
+A A L I E+ + HVV DI H + ++ +D +
Sbjct: 69 EFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTI 128
Query: 417 LSELDVSSI 425
+EL ++ +
Sbjct: 129 NTELALADL 137
>pdb|2FMX|A Chain A, An Open Conformation Of Switch I Revealed By Sar1-gdp
Crystal Structure At Low Mg(2+)
pdb|2FMX|B Chain B, An Open Conformation Of Switch I Revealed By Sar1-gdp
Crystal Structure At Low Mg(2+)
Length = 195
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 41/148 (27%), Positives = 69/148 (46%), Gaps = 21/148 (14%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRL---FATLDPTTRRVQMKNGGEFLLTDTVGFIQKLP 375
G NAGK+TLL+ +L +DRL TL PT+ + + G F D G IQ
Sbjct: 29 GLDNAGKTTLLH------MLKDDRLGQHVPTLHPTSEELTIA-GMTFTTFDLGGHIQA-- 79
Query: 376 TTLVAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVD 435
++ L I+ LV D H + E +D ++++ ++++P L++ NK+D
Sbjct: 80 ---RRVWKNYLPAINGIVFLVDCAD--HERLLESKEELDSLMTDETIANVPILILGNKID 134
Query: 436 KVCDPQKVKLEAQKREDVVCISALSGNG 463
+ P+ + E + RE +G G
Sbjct: 135 R---PEAIS-EERLREMFGLYGQTTGKG 158
>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2
Length = 537
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 71/164 (43%), Gaps = 25/164 (15%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G+ + GK+TLL++L V A + T V + +G + DT G
Sbjct: 11 GHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGEKITFLDTPGH------AA 64
Query: 379 VAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKV- 437
+A RA ++++ +LV D + +Q +E++ + +P ++ NK DK
Sbjct: 65 FSAMRARGTQVTDIVILVVAADDG--VMKQTVESIQHAKD----AHVPIVLAINKCDKAE 118
Query: 438 CDPQKVKLEAQKREDVVC-----------ISALSGNGLDEFCSA 470
DP+KVK E DVVC +SAL+G + A
Sbjct: 119 ADPEKVKKELLAY-DVVCEDYGGDVQAVHVSALTGENMMALAEA 161
>pdb|1F6B|A Chain A, Crystal Structure Of Sar1-Gdp Complex
pdb|1F6B|B Chain B, Crystal Structure Of Sar1-Gdp Complex
Length = 198
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 41/148 (27%), Positives = 69/148 (46%), Gaps = 21/148 (14%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRL---FATLDPTTRRVQMKNGGEFLLTDTVGFIQKLP 375
G NAGK+TLL+ +L +DRL TL PT+ + + G F D G IQ
Sbjct: 32 GLDNAGKTTLLH------MLKDDRLGQHVPTLHPTSEELTIA-GMTFTTFDLGGHIQA-- 82
Query: 376 TTLVAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVD 435
++ L I+ LV D H + E +D ++++ ++++P L++ NK+D
Sbjct: 83 ---RRVWKNYLPAINGIVFLVDCAD--HERLLESKEELDSLMTDETIANVPILILGNKID 137
Query: 436 KVCDPQKVKLEAQKREDVVCISALSGNG 463
+ P+ + E + RE +G G
Sbjct: 138 R---PEAIS-EERLREMFGLYGQTTGKG 161
>pdb|2FA9|A Chain A, The Crystal Structure Of Sar1[h79g]-gdp Provides Insight
Into The Coat-controlled Gtp Hydrolysis In The
Disassembly Of Cop Ii
pdb|2FA9|B Chain B, The Crystal Structure Of Sar1[h79g]-gdp Provides Insight
Into The Coat-controlled Gtp Hydrolysis In The
Disassembly Of Cop Ii
Length = 189
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 41/148 (27%), Positives = 69/148 (46%), Gaps = 21/148 (14%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRL---FATLDPTTRRVQMKNGGEFLLTDTVGFIQKLP 375
G NAGK+TLL+ +L +DRL TL PT+ + + G F D G IQ
Sbjct: 23 GLDNAGKTTLLH------MLKDDRLGQHVPTLHPTSEELTIA-GMTFTTFDLGGGIQA-- 73
Query: 376 TTLVAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVD 435
++ L I+ LV D H + E +D ++++ ++++P L++ NK+D
Sbjct: 74 ---RRVWKNYLPAINGIVFLVDCAD--HERLLESKEELDSLMTDETIANVPILILGNKID 128
Query: 436 KVCDPQKVKLEAQKREDVVCISALSGNG 463
+ P+ + E + RE +G G
Sbjct: 129 R---PEAIS-EERLREMFGLYGQTTGKG 152
>pdb|2OHF|A Chain A, Crystal Structure Of Human Ola1 In Complex With Amppcp
Length = 396
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKN 358
G N GKST N LT + AE+ F T+DP RV + +
Sbjct: 29 GLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPD 68
>pdb|1X18|X Chain X, Contact Sites Of Era Gtpase On The Thermus Thermophilus
30s Subunit
Length = 292
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 42/167 (25%), Positives = 73/167 (43%), Gaps = 12/167 (7%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G N GKSTLLN+L G + R T + + + + DT G + +
Sbjct: 12 GRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAI 71
Query: 379 VAAF-RATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKV 437
+A I + L++ VV+ + + ++ VL++L P ++ NKVD V
Sbjct: 72 NRLMNKAASSSIGDVELVIFVVEGTRWTPDDEM-----VLNKLREGKAPVILAVNKVDNV 126
Query: 438 CD-----PQKVKLEAQKRE-DVVCISALSGNGLDEFCSAVQEKLKDS 478
+ P L +Q D+V ISA +G +D + V++ L ++
Sbjct: 127 QEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEA 173
>pdb|1EGA|A Chain A, Crystal Structure Of A Widely Conserved Gtpase Era
pdb|1EGA|B Chain B, Crystal Structure Of A Widely Conserved Gtpase Era
pdb|1X1L|X Chain X, Interaction Of Era,A Gtpase Protein, With The 3'minor
Domain Of The 16s Rrna Within The Thermus Thermophilus
30s Subunit.
pdb|3IEU|A Chain A, Crystal Structure Of Era In Complex With Gdp
pdb|3IEU|B Chain B, Crystal Structure Of Era In Complex With Gdp
Length = 301
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 42/167 (25%), Positives = 73/167 (43%), Gaps = 12/167 (7%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G N GKSTLLN+L G + R T + + + + DT G + +
Sbjct: 15 GRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAI 74
Query: 379 VAAF-RATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKV 437
+A I + L++ VV+ + + ++ VL++L P ++ NKVD V
Sbjct: 75 NRLMNKAASSSIGDVELVIFVVEGTRWTPDDEM-----VLNKLREGKAPVILAVNKVDNV 129
Query: 438 CD-----PQKVKLEAQKRE-DVVCISALSGNGLDEFCSAVQEKLKDS 478
+ P L +Q D+V ISA +G +D + V++ L ++
Sbjct: 130 QEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPEA 176
>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A
Switch Protein Containing Two Gtpase Domains
Length = 439
Score = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 37/121 (30%), Positives = 57/121 (47%), Gaps = 11/121 (9%)
Query: 319 GYTNAGKSTLLNRLT-GATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTT 377
G N GKSTL N+L + ED T DP V+ G F L DT G P
Sbjct: 8 GRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEW-YGKTFKLVDTCGVFDN-PQD 65
Query: 378 LVA--AFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSE-LDVSSIPKLMIWNKV 434
+++ TL I E+ L++ VVD ++ I D+ L++ L S++ +++ NK
Sbjct: 66 IISQKXKEVTLNXIREADLVLFVVD-----GKRGITKEDESLADFLRKSTVDTILVANKA 120
Query: 435 D 435
+
Sbjct: 121 E 121
>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 = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 31/60 (51%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G N GKSTL N LT A LA + FAT+D V +++ + L T +++P +
Sbjct: 8 GLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVV 67
>pdb|2DBY|A Chain A, Crystal Structure Of The Gtp-Binding Protein Ychf In
Complexed With Gdp
Length = 368
Score = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 31/60 (51%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G N GKSTL N LT A LA + FAT+D V +++ + L T +++P +
Sbjct: 8 GLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVV 67
>pdb|2GAO|A Chain A, Crystal Structure Of Human Sar1a In Complex With Gdp
pdb|2GAO|B Chain B, Crystal Structure Of Human Sar1a In Complex With Gdp
Length = 208
Score = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 36/121 (29%), Positives = 61/121 (50%), Gaps = 17/121 (14%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRL---FATLDPTTRRVQMKNGGEFLLTDTVGFIQKLP 375
G NAGK+TLL+ +L +DRL TL PT+ + + G F D G Q
Sbjct: 42 GLDNAGKTTLLH------MLKDDRLGQHVPTLHPTSEELTIA-GMTFTTFDLGGHEQA-- 92
Query: 376 TTLVAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVD 435
++ L I+ LV D S L E ++E ++ ++++ +S++P L++ NK+D
Sbjct: 93 ---RRVWKNYLPAINGIVFLVDCADHSR-LVESKVE-LNALMTDETISNVPILILGNKID 147
Query: 436 K 436
+
Sbjct: 148 R 148
>pdb|1PUI|A Chain A, Structure Of Engb Gtpase
pdb|1PUI|B Chain B, Structure Of Engb Gtpase
Length = 210
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 45/133 (33%), Positives = 61/133 (45%), Gaps = 27/133 (20%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFL----LTDTVGF-IQK 373
G +NAGKS+ LN LT LA T R Q+ N E L D G+ +
Sbjct: 33 GRSNAGKSSALNTLTNQKSLAR------TSKTPGRTQLINLFEVADGKRLVDLPGYGYAE 86
Query: 374 LPTTLVAAFRATLEEISE--SSL--LVHVVDISHPLA---EQQIE-AVDKVLSELDVSSI 425
+P + ++ L E E SL LV ++DI HPL +Q IE AVD S+I
Sbjct: 87 VPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD--------SNI 138
Query: 426 PKLMIWNKVDKVC 438
L++ K DK+
Sbjct: 139 AVLVLLTKADKLA 151
>pdb|2QTV|B Chain B, Structure Of Sec23-Sar1 Complexed With The Active Fragment
Of Sec31
Length = 167
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 60/122 (49%), Gaps = 21/122 (17%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRV--QMKNGG-EFLLTDTVGFIQKLP 375
G NAGK+TLL+ +L DRL ATL PT ++ G +F D G IQ
Sbjct: 8 GLDNAGKTTLLH------MLKNDRL-ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ--- 57
Query: 376 TTLVAAFRATLEEISESSLLVHVVDISHP--LAEQQIEAVDKVLSELDVSSIPKLMIWNK 433
A R + E + +V +VD + P E ++E +D + + ++ +P +++ NK
Sbjct: 58 -----ARRLWKDYFPEVNGIVFLVDAADPERFDEARVE-LDALFNIAELKDVPFVILGNK 111
Query: 434 VD 435
+D
Sbjct: 112 ID 113
>pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2O|D Chain D, Crystal Structure Of The Sec23-Sar1 Complex
Length = 190
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 60/122 (49%), Gaps = 21/122 (17%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRV--QMKNGG-EFLLTDTVGFIQKLP 375
G NAGK+TLL+ +L DRL ATL PT ++ G +F D G IQ
Sbjct: 30 GLDNAGKTTLLH------MLKNDRL-ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ--- 79
Query: 376 TTLVAAFRATLEEISESSLLVHVVDISHP--LAEQQIEAVDKVLSELDVSSIPKLMIWNK 433
A R + E + +V +VD + P E ++E +D + + ++ +P +++ NK
Sbjct: 80 -----ARRLWKDYFPEVNGIVFLVDAADPERFDEARVE-LDALFNIAELKDVPFVILGNK 133
Query: 434 VD 435
+D
Sbjct: 134 ID 135
>pdb|4A9A|A Chain A, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
pdb|4A9A|B Chain B, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
Length = 376
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 45/98 (45%), Gaps = 14/98 (14%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLP--- 375
G+ + GKSTLL++LTG A + F TL ++ K G + + D G I
Sbjct: 79 GFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYK-GAKIQMLDLPGIIDGAKDGR 137
Query: 376 ---TTLVAAFRATLEEISESSLLVHVVDISHPLAEQQI 410
++A R +LL ++D++ PL +QI
Sbjct: 138 GRGKQVIAVART-------CNLLFIILDVNKPLHHKQI 168
>pdb|3TZ0|A Chain A, Crystal Structure Of Branched-Chain Alpha-Ketoacid
Dehydrogenase KinaseS-Alpha-Chloroisocaproate Complex
pdb|3TZ2|A Chain A, Crystal Structure Of Branched-Chain Alpha-Ketoacid
Dehydrogenase KinasePHENYLBUTYRATE COMPLEX
pdb|3TZ4|A Chain A, Crystal Structure Of Branched-Chain Alpha-Ketoacid
Dehydrogenase KinaseS-Alpha-Chloroisocaproate Complex
With Adp
pdb|3TZ5|A Chain A, Crystal Structure Of Branched-Chain Alpha-Ketoacid
Dehydrogenase KinasePHENYLBUTYRATE COMPLEX WITH ADP
Length = 418
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 223 VRVCDRTALI----LD-IFNQRAATHEAALQLPRLTKMWTHLERQAGGQVKGM 270
+R+ DR I LD + + T EA+ Q PR++ ++ HL+ +GGQ M
Sbjct: 311 IRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPRISPLFGHLDMHSGGQSGPM 363
>pdb|1GJV|A Chain A, Branched-chain Alpha-ketoacid Dehydrogenase Kinase (bck)
Complxed With Atp-gamma-s
pdb|1GKX|A Chain A, Branched-Chain Alpha-Ketoacid Dehydrogenase Kinase (Bck)
pdb|1GKZ|A Chain A, Branched-Chain Alpha-Ketoacid Dehydrogenase Kinase (Bck)
Complxed With Adp
Length = 388
Score = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 223 VRVCDRTALI----LD-IFNQRAATHEAALQLPRLTKMWTHLERQAGGQVKGM 270
+R+ DR I LD + + T EA+ Q PR++ ++ HL+ +GGQ M
Sbjct: 281 IRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPRISPLFGHLDMHSGGQSGPM 333
>pdb|3VAD|A Chain A, Crystal Structure Of I170f Mutant Branched-chain
Alpha-ketoacid Dehydrogenase Kinase In Complex With
3,6-dichlorobenzo[b]thiophene-2- Carboxylic Acid
Length = 418
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 223 VRVCDRTALI----LD-IFNQRAATHEAALQLPRLTKMWTHLERQAGGQVKGM 270
+R+ DR I LD + + T EA+ Q PR++ ++ HL+ +GGQ M
Sbjct: 311 IRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPRISPLFGHLDMHSGGQSGPM 363
>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 = 32.0 bits (71), Expect = 0.87, Method: Composition-based stats.
Identities = 37/161 (22%), Positives = 66/161 (40%), Gaps = 7/161 (4%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G NAGKS+LLN L G + T R +G + DT G +
Sbjct: 11 GRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVE 70
Query: 379 VAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKVC 438
+EI ++ ++ +VD + A E + ++ L + +P ++ NK D
Sbjct: 71 RIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKAD--I 127
Query: 439 DPQKVKLEAQKREDVVCISALSGNGLDEFCSAVQEKLKDSM 479
+ + + ++ +SA +G G+D ++ LK SM
Sbjct: 128 TGETLGMSEVNGHALIRLSARTGEGVD----VLRNHLKQSM 164
>pdb|1RFL|A Chain A, Nmr Data Driven Structural Model Of G-Domain Of Mnme
Protein
Length = 172
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 37/161 (22%), Positives = 66/161 (40%), Gaps = 7/161 (4%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G NAGKS+LLN L G + T R +G + DT G +
Sbjct: 14 GRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVE 73
Query: 379 VAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKVC 438
+EI ++ ++ +VD + A E + ++ L + +P ++ NK D
Sbjct: 74 RIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKAD--I 130
Query: 439 DPQKVKLEAQKREDVVCISALSGNGLDEFCSAVQEKLKDSM 479
+ + + ++ +SA +G G+D ++ LK SM
Sbjct: 131 TGETLGMSEVNGHALIRLSARTGEGVD----VLRNHLKQSM 167
>pdb|3ZVN|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 193 IHALGVETVIFDDELSAGQLRNLEKAFGGDVR-VCDRTALILDIFNQRAATHEAALQLPR 251
+ A G + VIF +++ G+ + + F G V V ++ + + ATH A L
Sbjct: 99 LAAEGYKLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVPFQVL---VATH-AGLNRKP 154
Query: 252 LTKMWTHLERQA 263
++ MW HL+ QA
Sbjct: 155 VSGMWDHLQEQA 166
>pdb|3ZVL|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 193 IHALGVETVIFDDELSAGQLRNLEKAFGGDVR-VCDRTALILDIFNQRAATHEAALQLPR 251
+ A G + VIF +++ G+ + + F G V V ++ + + ATH A L
Sbjct: 99 LAAEGYKLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVPFQVL---VATH-AGLNRKP 154
Query: 252 LTKMWTHLERQA 263
++ MW HL+ QA
Sbjct: 155 VSGMWDHLQEQA 166
>pdb|3ZVM|A Chain A, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
pdb|3ZVM|B Chain B, The Structural Basis For Substrate Recognition By
Mammalian Polynucleotide Kinase 3' Phosphatase
Length = 416
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 193 IHALGVETVIFDDELSAGQLRNLEKAFGGDVR-VCDRTALILDIFNQRAATHEAALQLPR 251
+ A G + VIF +++ G+ + + F G V V ++ + + ATH A L
Sbjct: 99 LAAEGYKLVIFTNQMGIGRGKLPAEVFKGKVEAVLEKLGVPFQVL---VATH-AGLNRKP 154
Query: 252 LTKMWTHLERQA 263
++ MW HL+ QA
Sbjct: 155 VSGMWDHLQEQA 166
>pdb|2WIA|A Chain A, Crystal Structures Of The N-Terminal Intracellular Domain
Of Feob From Klebsiella Pneumoniae In Apo Form
pdb|2WIA|B Chain B, Crystal Structures Of The N-Terminal Intracellular Domain
Of Feob From Klebsiella Pneumoniae In Apo Form
pdb|2WIB|A Chain A, Crystal Structures Of The N-Terminal Intracellular Domain
Of Feob From Klebsiella Pneumoniae In Gdp Binding State
pdb|2WIB|B Chain B, Crystal Structures Of The N-Terminal Intracellular Domain
Of Feob From Klebsiella Pneumoniae In Gdp Binding State
pdb|2WIC|A Chain A, Crystal Structures Of The N-Terminal Intracellular Domain
Of Feob From Klebsiella Pneumoniae In Gmppnp Binding
State
Length = 267
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 17/95 (17%)
Query: 319 GYTNAGKSTLLNRLTGA----------TVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTV 368
G N+GK+TL N+LTGA TV ++ +FAT D V + G + LT T+
Sbjct: 10 GNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGIFATTDHQVTLVDLP--GTYSLT-TI 66
Query: 369 GFIQKLPTTLVAAFRATLEEISESSLLVHVVDISH 403
L + + + ++ +L++VVD S+
Sbjct: 67 SSQTSLDEQIACHYILS----GDADMLINVVDASN 97
>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 = 5.3, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 69/163 (42%), Gaps = 11/163 (6%)
Query: 319 GYTNAGKSTLLNRLTGATV-LAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTT 377
G N GKST+ NR+ G + + ED T D + N +F L DT G I
Sbjct: 30 GRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN-YDFNLIDT-GGIDIGDEP 87
Query: 378 LVAAFRATLE-EISESSLLVHVVDISHPLAEQQIEAVDKVLSE-LDVSSIPKLMIWNKVD 435
+A R E + E+ +++ +V+ + + A D+ +++ L + P ++ NK+D
Sbjct: 88 FLAQIRQQAEIAMDEADVIIFMVN-----GREGVTAADEEVAKILYRTKKPVVLAVNKLD 142
Query: 436 KV-CDPQKVKLEAQKREDVVCISALSGNGLDEFCSAVQEKLKD 477
+ + IS G GL + AV E K+
Sbjct: 143 NTEMRANIYDFYSLGFGEPYPISGTHGLGLGDLLDAVAEHFKN 185
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 58/147 (39%), Gaps = 4/147 (2%)
Query: 293 LESVRKHRKQYRNRRXXXXXXXXXXXGYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTR 352
L++V +H K + G N GKS+L+N + G + + T
Sbjct: 176 LDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVD 235
Query: 353 RVQMKNGGEFLLTDTVGFIQK---LPTTLVAAFRATLEEISESSLLVHVVDISHPLAEQQ 409
N EF++ DT G +K TT + L+ I S ++ V+D + EQ
Sbjct: 236 TSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQD 295
Query: 410 IEAVDKVLSELDVSSIPKLMIWNKVDK 436
+ + E + + + W+ VDK
Sbjct: 296 -KRIAGYAHEAGKAVVIVVNKWDAVDK 321
>pdb|3SR7|A Chain A, Crystal Structure Of S. Mutans Isopentenyl Pyrophosphate
Isomerase
pdb|3SR7|B Chain B, Crystal Structure Of S. Mutans Isopentenyl Pyrophosphate
Isomerase
pdb|3SR7|C Chain C, Crystal Structure Of S. Mutans Isopentenyl Pyrophosphate
Isomerase
pdb|3SR7|D Chain D, Crystal Structure Of S. Mutans Isopentenyl Pyrophosphate
Isomerase
Length = 365
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
Query: 151 KELAQLADTAGLMVV-GSTHQKLNSPNPRTYIGSGKVAEIKSAIHALGVETVIFDDELSA 209
++LAQ+ADT GL+ V GS L +P+ +Y +V KS H L + D A
Sbjct: 106 EKLAQVADTCGLLFVTGSYSTALKNPDDTSY----QVK--KSRPHLLLATNIGLDKPYQA 159
Query: 210 G--QLRNLEKAF 219
G +R+L+ F
Sbjct: 160 GLQAVRDLQPLF 171
>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 = 28.9 bits (63), Expect = 7.1, Method: Composition-based stats.
Identities = 33/147 (22%), Positives = 58/147 (39%), Gaps = 3/147 (2%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G NAGKS+LLN L G + T R +G + DT G +
Sbjct: 11 GRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGXPLHIIDTAGLREASDEVE 70
Query: 379 VAAFRATLEEISESSLLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKVC 438
+EI ++ ++ VD + A E + ++ L + +P ++ NK D
Sbjct: 71 RIGIERAWQEIEQADRVLFXVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKAD--I 127
Query: 439 DPQKVKLEAQKREDVVCISALSGNGLD 465
+ + ++ +SA +G G+D
Sbjct: 128 TGETLGXSEVNGHALIRLSARTGEGVD 154
>pdb|3HKV|A Chain A, Human Poly(Adp-Ribose) Polymerase 10, Catalytic Fragment
In Complex With An Inhibitor 3-Aminobenzamide
pdb|3HKV|B Chain B, Human Poly(Adp-Ribose) Polymerase 10, Catalytic Fragment
In Complex With An Inhibitor 3-Aminobenzamide
Length = 217
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 378 LVAAFRATLEEISESSLLVHVVDISHPLAEQQIE 411
+V AF TL+ S +V V +SHPL +QQ E
Sbjct: 26 VVRAFYDTLDAARSSIRVVRVERVSHPLLQQQYE 59
>pdb|1ZO1|I Chain I, If2, If1, And Trna Fitted To Cryo-Em Data Of E. Coli 70s
Initiation Complex
Length = 501
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 71/165 (43%), Gaps = 26/165 (15%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRRVQMKNGGEFLLTDTVGFIQKLPTTL 378
G+ + GK++LL + V + + T V+ +NG I L T
Sbjct: 11 GHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETENG----------MITFLDTPG 60
Query: 379 VAAFRATLEEISESS-LLVHVVDISHPLAEQQIEAVDKVLSELDVSSIPKLMIWNKVDKV 437
AAF + ++++ ++V VV + Q IEA+ + + +P ++ NK+DK
Sbjct: 61 HAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKA----AQVPVVVAVNKIDKP 116
Query: 438 -CDPQKVKLEAQK----------REDVVCISALSGNGLDEFCSAV 471
DP +VK E + V +SA +G G+DE A+
Sbjct: 117 EADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAI 161
>pdb|2CXX|A Chain A, Crystal Structure Of A Probable Gtp-binding Protein Engb
pdb|2CXX|B Chain B, Crystal Structure Of A Probable Gtp-binding Protein Engb
pdb|2CXX|C Chain C, Crystal Structure Of A Probable Gtp-binding Protein Engb
Length = 190
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 61/144 (42%), Gaps = 29/144 (20%)
Query: 319 GYTNAGKSTLLNRLTGATVLAEDRLFATLDPTTRR----VQMKNGGEFLLTDTVGFIQKL 374
G +N GKSTL+ RLTG V R P R ++ KN + + GF L
Sbjct: 8 GRSNVGKSTLIYRLTGKKVRRGKR------PGVTRKIIEIEWKN-HKIIDXPGFGFXXGL 60
Query: 375 PTTLVAAFRATLEEISES---SLLVHVVDISHPLAEQQIEAVDK------------VLSE 419
P + + + E ++ V V+ + A + I+ +K L E
Sbjct: 61 PKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE 120
Query: 420 LDVSSIPKLMIWNKVDKVCDPQKV 443
LD IP ++ NK+DK+ + Q+V
Sbjct: 121 LD---IPTIVAVNKLDKIKNVQEV 141
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
0.316 0.131 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,272,813
Number of Sequences: 62578
Number of extensions: 553419
Number of successful extensions: 1551
Number of sequences better than 100.0: 69
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 57
Number of HSP's that attempted gapping in prelim test: 1514
Number of HSP's gapped (non-prelim): 74
length of query: 536
length of database: 14,973,337
effective HSP length: 103
effective length of query: 433
effective length of database: 8,527,803
effective search space: 3692538699
effective search space used: 3692538699
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)