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= 007511
(601 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 144 bits (364), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 116/451 (25%), Positives = 200/451 (44%), Gaps = 88/451 (19%)
Query: 84 CPGCGVLMQDTNPKHPGYFIRPSQNLNKVRKSHLVHVANESEFSNSLKKGGLVVFEAENE 143
C GCG +Q NPK+ GY
Sbjct: 7 CIGCGAAIQFENPKNAGY----------------------------------------AP 26
Query: 144 TSEVKKHEKPVVCARCHALRHYGKVKDVTVENLLPDFDFDHTVGRKLMSASGARSVVLMV 203
S ++K + V+C RC L+HY +V+DV ++ D DF + R ++++V+ +
Sbjct: 27 KSVLEKDAEEVICQRCFRLKHYNEVQDVPLD----DDDFLSMLHR----IGESKALVVNI 78
Query: 204 VDAADFDGSFPRKVAKMVSDTAEENERAWKEGKSGNVPRVVLVVTKIDLLPSSLSPTRFE 263
VD DF+GSF + + +D ++LV K DLLP S+ +
Sbjct: 79 VDIFDFNGSFIPGLPRFAADNP-----------------ILLVGNKADLLPRSVKYPKLL 121
Query: 264 HWVRQRAREDGISKITKLHFVSAVKNWGLKSLIDDVVDLAGKRGNVWAIGAQNAGKSTLL 323
W+R+ A E G+ + + VSA K G+ +++ ++ + G+V+ +G N GKST +
Sbjct: 122 RWMRRMAEELGLCPV-DVCLVSAAKGIGMAKVME-AINRYREGGDVYVVGCTNVGKSTFI 179
Query: 324 NAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVRVEGVLPAQAKLFDTPGLLHPNQ 383
N I + G+G N++ T + PGTTL ++ + L + A L+DTPG+++ +Q
Sbjct: 180 NRIIEEA-TGKG------NVI---TTSYFPGTTLDMIEIP--LESGATLYDTPGIINHHQ 227
Query: 384 ITTRLTREEQKLVNINKELKPRTYRIKAGHSIHIAGLMRMDVEESSVESIYVTVWASPYL 443
+ + + K++ +E+ PR Y++ G ++ GL R+D + S + + L
Sbjct: 228 MAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLARLDYIKGGRRSF--VCYMANEL 285
Query: 444 PLHMGKTENACTMVEKHFGRQLQPPIGEKRVEELGKWVRKEFHXXXXXXXXXXXXIAAAG 503
+H K E A ++ G L PP ++ E V + I +G
Sbjct: 286 TVHRTKLEKADSLYANQLGELLSPP-SKRYAAEFPPLVPRSL-----SVKERKTDIVFSG 339
Query: 504 LGWFSVRLKGEAALGVWTYEGVDIVLRNALL 534
LGW + G A L V +GVD+ +R +L+
Sbjct: 340 LGWVTCNDPG-AQLVVHAPKGVDVFIRQSLI 369
>pdb|3H2Y|A Chain A, Crystal Structure Of Yqeh Gtpase From Bacillus Anthracis
With Dgdp Bound
Length = 368
Score = 141 bits (356), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 107/381 (28%), Positives = 183/381 (48%), Gaps = 47/381 (12%)
Query: 154 VVCARCHALRHYGKVKDVTVENLLPDFDFDHTVGRKLMSASGARSVVLMVVDAADFDGSF 213
V+C RC L+HY +++DV+ L D DF R L + ++V+ +VD DF+GS+
Sbjct: 35 VICQRCFRLKHYNEIQDVS----LTDDDF----LRILNGIGKSDALVVKIVDIFDFNGSW 86
Query: 214 PRKVAKMVSDTAEENERAWKEGKSGNVPRVVLVVTKIDLLPSSLSPTRFEHWVRQRARED 273
+ + V + +V+LV K DL+P S+ + +HW R A++
Sbjct: 87 LPGLHRFVGNN-----------------KVLLVGNKADLIPKSVKHDKVKHWXRYSAKQL 129
Query: 274 GISKITKLHFVSAVKNWGLKSLIDDVVDLAGKRGNVWAIGAQNAGKSTLLNAIAKSVDAG 333
G+ K + +SA K G+ L D + G + +V+ +G N GKST +N K
Sbjct: 130 GL-KPEDVFLISAAKGQGIAELADAIEYYRGGK-DVYVVGCTNVGKSTFINRXIKEFS-- 185
Query: 334 RGGDGEEKNIVSHLTEAPVPGTTLGIVRVEGVLPAQAKLFDTPGLLHPNQITTRLTREEQ 393
E +N++ T + PGTTL ++ + L ++ L+DTPG+++ +Q + ++
Sbjct: 186 ----DETENVI---TTSHFPGTTLDLIDIP--LDEESSLYDTPGIINHHQXAHYVGKQSL 236
Query: 394 KLVNINKELKPRTYRIKAGHSIHIAGLMRMDVEESSVESIYVTVWASPYLPLHMGKTENA 453
KL+ KE+KP +++ ++ +GL R D + T S L +H K E A
Sbjct: 237 KLITPTKEIKPXVFQLNEEQTLFFSGLARFDYVSGGRRAF--TCHFSNRLTIHRTKLEKA 294
Query: 454 CTMVEKHFGRQLQPPIGEKRVEELGKWVRKEFHXXXXXXXXXXXXIAAAGLGWFSVRLKG 513
+ + H G L PP E+ +E + V+ EF+ + +GLGW +V G
Sbjct: 295 DELYKNHAGDLLSPPTPEE-LENXPELVKYEFN-----IREPKTDVVFSGLGWVTVNEPG 348
Query: 514 EAALGVWTYEGVDIVLRNALL 534
A + +GV + LR +L+
Sbjct: 349 -AKIVAHVPKGVSVSLRKSLI 368
>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A
Switch Protein Containing Two Gtpase Domains
Length = 439
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 16/80 (20%)
Query: 309 VWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVRVEGVLPA 368
V +G N GKSTL NAI +E+ +VS P+PGTT V E +
Sbjct: 183 VAIVGRPNVGKSTLFNAIL----------NKERALVS-----PIPGTTRDPVDDEVFIDG 227
Query: 369 QAKLF-DTPGLLHPNQITTR 387
+ +F DT GL +++ R
Sbjct: 228 RKYVFVDTAGLRRKSRVEPR 247
>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 = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 21/83 (25%)
Query: 305 KRGNVWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVRVEG 364
K G V +G N GKSTLLN + G + +I+S P GTT +RV G
Sbjct: 8 KVGYVAIVGKPNVGKSTLLNNLL----------GTKVSIIS-----PKAGTTR--MRVLG 50
Query: 365 V--LPAQAKL--FDTPGLLHPNQ 383
V +P +A++ DTPG+ P +
Sbjct: 51 VKNIPNEAQIIFLDTPGIYEPKK 73
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 33.1 bits (74), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 42/83 (50%), Gaps = 21/83 (25%)
Query: 305 KRGNVWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVRVEG 364
K G V +G N GKSTLLN + G + +I+S P GTT +RV G
Sbjct: 9 KVGYVAIVGKPNVGKSTLLNNLL----------GTKVSIIS-----PKAGTTR--MRVLG 51
Query: 365 V--LPAQAKL--FDTPGLLHPNQ 383
V +P +A++ DTPG+ P +
Sbjct: 52 VKNIPNEAQIIFLDTPGIYEPKK 74
>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 = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 24/44 (54%), Gaps = 15/44 (34%)
Query: 313 GAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTT 356
G NAGKSTLLN + G+E+ IVSH+ PGTT
Sbjct: 240 GKPNAGKSTLLNTLL----------GQERAIVSHM-----PGTT 268
>pdb|3RGA|A Chain A, Crystal Structure Of Epoxide Hydrolase For Polyether
Lasalocid A Biosynthesis
Length = 283
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 507 FSVRLKGEAALGVWTYEGVDIVLRNALLPYRSQVFEVAGFTVS 549
+S R++ E +G WT G++ + +A + S V E AG TV+
Sbjct: 163 YSPRIRFEDPVGSWTRTGLEALRAHATMAVGSNVRETAGLTVA 205
>pdb|2Y5W|A Chain A, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer
pdb|2Y5W|B Chain B, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer
pdb|2Y65|A Chain A, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
pdb|2Y65|B Chain B, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
pdb|2Y65|C Chain C, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
pdb|2Y65|D Chain D, Crystal Structure Of Drosophila Melanogaster Kinesin-1
Motor Domain Dimer-Tail Complex
Length = 365
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 287 VKNWGLKSLIDDVVDLAGKRGNVWAIGAQNAGKS-TLLNAIAKSVDAG 333
V N KS++ DV LAG G ++A G ++GK+ T+ I SV G
Sbjct: 68 VYNEAAKSIVTDV--LAGYNGTIFAYGQTSSGKTHTMEGVIGDSVKQG 113
>pdb|1PUJ|A Chain A, Structure Of B. Subtilis Ylqf Gtpase
Length = 282
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 62/149 (41%), Gaps = 26/149 (17%)
Query: 239 NVPRVVLVVTKIDLLPSSLSPTRFEHWVRQRAREDGISKITKLHFVSAVKNWGLKSLIDD 298
N PR++L+ K D ++++ EH+ Q R I+ + V K ++ +
Sbjct: 50 NKPRIMLL-NKADKADAAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVP--ASKEILQE 106
Query: 299 VVDLAGKRG------NVWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPV 352
D +G IG N GKSTL+N +AK + + GD
Sbjct: 107 KFDRMRAKGVKPRAIRALIIGIPNVGKSTLINRLAKK-NIAKTGDR-------------- 151
Query: 353 PGTTLGIVRVEGVLPAQAKLFDTPGLLHP 381
PG T V+ + + +L DTPG+L P
Sbjct: 152 PGITTSQQWVK--VGKELELLDTPGILWP 178
>pdb|3SOP|A Chain A, Crystal Structure Of Human Septin 3 Gtpase Domain
pdb|3SOP|B Chain B, Crystal Structure Of Human Septin 3 Gtpase Domain
Length = 270
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 12/75 (16%)
Query: 308 NVWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTT----LGIVRVE 363
N+ +G GKSTL+N + KS + + S E +P T +G V E
Sbjct: 4 NIMVVGQSGLGKSTLVNTLFKSQVSRKAS--------SWNREEKIPKTVEIKAIGHVIEE 55
Query: 364 GVLPAQAKLFDTPGL 378
G + + + DTPG
Sbjct: 56 GGVKMKLTVIDTPGF 70
>pdb|2OME|A Chain A, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|B Chain B, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|C Chain C, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|D Chain D, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|E Chain E, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|F Chain F, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|G Chain G, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
pdb|2OME|H Chain H, Crystal Structure Of Human Ctbp2 Dehydrogenase Complexed
With Nad(H)
Length = 336
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 24/50 (48%)
Query: 330 VDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVRVEGVLPAQAKLFDTPGLL 379
V+A RGG +EK + L E + G L + E AQ L D P L+
Sbjct: 240 VNAARGGLVDEKALAQALKEGRIRGAALDVHESEPFSFAQGPLKDAPNLI 289
>pdb|1JI0|A Chain A, Crystal Structure Analysis Of The Abc Transporter From
Thermotoga Maritima
Length = 240
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 300 VDLAGKRGN-VWAIGAQNAGKSTLLNAIAKSVDAGRG 335
+DL RG V IGA AGK+T L+AIA V A +G
Sbjct: 25 IDLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKG 61
>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 = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 32/80 (40%), Gaps = 17/80 (21%)
Query: 309 VWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVRVEGVLPA 368
V +G N GKST++N + + G PG T GI L
Sbjct: 102 VLIVGVPNTGKSTIINKLKGKRASSVGAQ---------------PGITKGIQWFS--LEN 144
Query: 369 QAKLFDTPGLLHPNQITTRL 388
K+ DTPG+L+ N + L
Sbjct: 145 GVKILDTPGILYKNIFSEDL 164
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 224 TAEENERAWKEGKSGNVPRVVLVVTKIDLLPSSLSPTRFEHWVRQRAREDGISKITKLH 282
++NER GKSGN+P V TKI PT F+ ++ A G S+ + H
Sbjct: 719 CTDKNERV---GKSGNIPAGTTVDTKIT------HPTEFDFYLCSHAGIQGTSRPSHYH 768
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 224 TAEENERAWKEGKSGNVPRVVLVVTKIDLLPSSLSPTRFEHWVRQRAREDGISKITKLH 282
++NER GKSGN+P V TKI PT F+ ++ A G S+ + H
Sbjct: 717 CTDKNERV---GKSGNIPAGTTVDTKIT------HPTEFDFYLCSHAGIQGTSRPSHYH 766
>pdb|3GEH|A Chain A, Crystal Structure Of Mnme From Nostoc In Complex With Gdp,
Folinic Acid And Zn
Length = 462
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 37/73 (50%), Gaps = 20/73 (27%)
Query: 309 VWAIGAQNAGKSTLLNAIAKSVDAGRGGDGEEKNIVSHLTEAPVPGTTLGIVR---VEGV 365
V +G N GKS+LLNA ++S ++ IV+ L PGTT +V V G
Sbjct: 227 VAIVGRPNVGKSSLLNAWSQS----------DRAIVTDL-----PGTTRDVVESQLVVGG 271
Query: 366 LPAQAKLFDTPGL 378
+P Q + DT G+
Sbjct: 272 IPVQ--VLDTAGI 282
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 0.133 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,749,241
Number of Sequences: 62578
Number of extensions: 666950
Number of successful extensions: 1714
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1697
Number of HSP's gapped (non-prelim): 25
length of query: 601
length of database: 14,973,337
effective HSP length: 104
effective length of query: 497
effective length of database: 8,465,225
effective search space: 4207216825
effective search space used: 4207216825
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)