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= psy7894
(1006 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SAF|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAF|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
pdb|3SAG|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
D313n Mutation In The Active Site
Length = 428
Score = 376 bits (966), Expect = e-104, Method: Compositional matrix adjust.
Identities = 194/405 (47%), Positives = 266/405 (65%), Gaps = 31/405 (7%)
Query: 169 IERPQLQFKVKVDNSYEQLFEPKLKEKPNALKPLAILLEK-------------------Y 209
I RPQL+F+ K+DNS F PK+ KPNA KPL L K
Sbjct: 2 IIRPQLKFREKIDNS-NTPFLPKIFIKPNAQKPLPQALSKERRERPQDRPEDLDVPPALA 60
Query: 210 DAI----------ESFCHPYEYELDLYVPKEDFLKCEEPKQALPLSDTPLMMITEPEQVT 259
D I + F HPY+YEL+ + P + L+ +P+ P+ +TP I+ +++
Sbjct: 61 DFIHQQRTQQVEQDMFAHPYQYELNHFTPADAVLQKPQPQLYRPIEETPCHFISSLDELV 120
Query: 260 QLVSELKQQQEIAIDLEYHNYRSYQGYTCLMQISTRDKDYIVDTLKLREDLEVLNEVLTD 319
+L +L QE A++LE+H+YRS+ G TCLMQISTR +D+I+DTL+LR D+ +LNE LTD
Sbjct: 121 ELNEKLLNCQEFAVNLEHHSYRSFLGLTCLMQISTRTEDFIIDTLELRSDMYILNESLTD 180
Query: 320 KNIVKVFHGADSDIKWLQKDFGLYVVGMFDTHQACKFLPMPRQSLAYLLKHYCDVDSDKT 379
IVKVFHGADSDI+WLQKDFGLYVV MFDTHQA + L + R SL +LLK YC+VDS+K
Sbjct: 181 PAIVKVFHGADSDIEWLQKDFGLYVVNMFDTHQAARLLNLGRHSLDHLLKLYCNVDSNKQ 240
Query: 380 FQLFDWRHRPLPEPAIQYARTDTHYLLYVYDCMKLDLSAAAHGKQNLVLSTFTNSRNICK 439
+QL DWR RPLPE + YAR DTHYLLY+YD M+L++ +G+ + + SR+IC
Sbjct: 241 YQLADWRIRPLPEEMLSYARDDTHYLLYIYDKMRLEMWERGNGQPVQLQVVWQRSRDICL 300
Query: 440 LKYEKPVFNEEGYMNIFRSH-ALLNNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLL 498
K+ KP+F +E Y+ ++R LN QQ A + L+ WRD+ AR +DES GYVLPNHM+L
Sbjct: 301 KKFIKPIFTDESYLELYRKQKKHLNTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMML 360
Query: 499 QMAQSIPRDIQGIFACCNPVPQTVKEHVLDIHAIILKARLQSLTK 543
++A+ +P++ QGI ACCNPVP V++ + ++H +I +AR L K
Sbjct: 361 KIAEELPKEPQGIIACCNPVPPLVRQQINEMHLLIQQAREMPLLK 405
Score = 97.8 bits (242), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 42/81 (51%), Positives = 60/81 (74%)
Query: 570 NNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLLQMAQSIPRDIQGIFACCNPVPQTV 629
N QQ A + L+ WRD+ AR +DES GYVLPNHM+L++A+ +P++ QGI ACCNPVP V
Sbjct: 325 NTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPPLV 384
Query: 630 KEHVLDIHAIILKARLQPLTK 650
++ + ++H +I +AR PL K
Sbjct: 385 RQQINEMHLLIQQAREMPLLK 405
>pdb|3SAH|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
pdb|3SAH|B Chain B, Crystal Structure Of The Human Rrp6 Catalytic Domain With
Y436a Mutation In The Catalytic Site
Length = 428
Score = 375 bits (962), Expect = e-104, Method: Compositional matrix adjust.
Identities = 194/405 (47%), Positives = 265/405 (65%), Gaps = 31/405 (7%)
Query: 169 IERPQLQFKVKVDNSYEQLFEPKLKEKPNALKPLAILLEK-------------------Y 209
I RPQL+F+ K+DNS F PK+ KPNA KPL L K
Sbjct: 2 IIRPQLKFREKIDNS-NTPFLPKIFIKPNAQKPLPQALSKERRERPQDRPEDLDVPPALA 60
Query: 210 DAI----------ESFCHPYEYELDLYVPKEDFLKCEEPKQALPLSDTPLMMITEPEQVT 259
D I + F HPY+YEL+ + P + L+ +P+ P+ +TP I+ +++
Sbjct: 61 DFIHQQRTQQVEQDMFAHPYQYELNHFTPADAVLQKPQPQLYRPIEETPCHFISSLDELV 120
Query: 260 QLVSELKQQQEIAIDLEYHNYRSYQGYTCLMQISTRDKDYIVDTLKLREDLEVLNEVLTD 319
+L +L QE A+DLE+H+YRS+ G TCLMQISTR +D+I+DTL+LR D+ +LNE LTD
Sbjct: 121 ELNEKLLNCQEFAVDLEHHSYRSFLGLTCLMQISTRTEDFIIDTLELRSDMYILNESLTD 180
Query: 320 KNIVKVFHGADSDIKWLQKDFGLYVVGMFDTHQACKFLPMPRQSLAYLLKHYCDVDSDKT 379
IVKVFHGADSDI+WLQKDFGLYVV MFDTHQA + L + R SL +LLK YC+VDS+K
Sbjct: 181 PAIVKVFHGADSDIEWLQKDFGLYVVNMFDTHQAARLLNLGRHSLDHLLKLYCNVDSNKQ 240
Query: 380 FQLFDWRHRPLPEPAIQYARTDTHYLLYVYDCMKLDLSAAAHGKQNLVLSTFTNSRNICK 439
+QL DWR RPLPE + AR DTHYLLY+YD M+L++ +G+ + + SR+IC
Sbjct: 241 YQLADWRIRPLPEEMLSAARDDTHYLLYIYDKMRLEMWERGNGQPVQLQVVWQRSRDICL 300
Query: 440 LKYEKPVFNEEGYMNIFRSH-ALLNNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLL 498
K+ KP+F +E Y+ ++R LN QQ A + L+ WRD+ AR +DES GYVLPNHM+L
Sbjct: 301 KKFIKPIFTDESYLELYRKQKKHLNTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMML 360
Query: 499 QMAQSIPRDIQGIFACCNPVPQTVKEHVLDIHAIILKARLQSLTK 543
++A+ +P++ QGI ACCNPVP V++ + ++H +I +AR L K
Sbjct: 361 KIAEELPKEPQGIIACCNPVPPLVRQQINEMHLLIQQAREMPLLK 405
Score = 97.8 bits (242), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 42/81 (51%), Positives = 60/81 (74%)
Query: 570 NNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLLQMAQSIPRDIQGIFACCNPVPQTV 629
N QQ A + L+ WRD+ AR +DES GYVLPNHM+L++A+ +P++ QGI ACCNPVP V
Sbjct: 325 NTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPPLV 384
Query: 630 KEHVLDIHAIILKARLQPLTK 650
++ + ++H +I +AR PL K
Sbjct: 385 RQQINEMHLLIQQAREMPLLK 405
>pdb|2HBJ|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain
pdb|2HBK|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain; Protein In Complex With Mn
pdb|2HBL|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain; Protein In Complex With Mn, Zn, And Amp
pdb|2HBM|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p,
Reveals An Interplay Between The Active Site And The
Hrdc Domain; Protein In Complex With Mn, Zn, And Ump
Length = 410
Score = 296 bits (758), Expect = 4e-80, Method: Compositional matrix adjust.
Identities = 162/399 (40%), Positives = 241/399 (60%), Gaps = 23/399 (5%)
Query: 169 IERPQLQFKVKVDNSYEQLFEPKLKEKPNALKPLAILLEKYDAIES----FCHPYEYELD 224
+E+PQL+FK +DNS F P LKEKPNALKPL+ L D E+ + HPYEYE+D
Sbjct: 3 VEKPQLKFKSPIDNSESHPFIPLLKEKPNALKPLSESLRLVDDDENNPSHYPHPYEYEID 62
Query: 225 LYVPKEDFLKCEEPKQALPLSDTPLMMITEPEQVTQLVSELKQQQEIAIDLEYHNYRSYQ 284
+ L+ E + D+ + + ++ ++ +LK +EIA+DLE+H+YRSY
Sbjct: 63 HQEYSPEILQIREEIPSKSWDDSVPIWVDTSTELESMLEDLKNTKEIAVDLEHHDYRSYY 122
Query: 285 GYTCLMQISTRDKDYIVDTLKLREDLEVLNEVLTDKNIVKVFHGADSDIKWLQKDFGLYV 344
G CLMQISTR++DY+VDTLKLRE+L +LNEV T+ +IVKVFHGA DI WLQ+D GLYV
Sbjct: 123 GIVCLMQISTRERDYLVDTLKLRENLHILNEVFTNPSIVKVFHGAFMDIIWLQRDLGLYV 182
Query: 345 VGMFDTHQACKFLPMPRQSLAYLLKHYCDVDSDKTFQLFDWRHRPLPEPAIQYARTDTHY 404
VG+FDT+ A K + +PR SLAYLL+++ + + K +QL DWR RPL +P AR DTH+
Sbjct: 183 VGLFDTYHASKAIGLPRHSLAYLLENFANFKTSKKYQLADWRIRPLSKPMTAAARADTHF 242
Query: 405 LLYVYDCMKLDLSAAAHGKQNLVLSTFTNSRNICKLKYE----KPV---------FNEEG 451
LL +YD ++ L + N + SRN+ K ++E +P+ +E
Sbjct: 243 LLNIYDQLRNKLI-----ESNKLAGVLYESRNVAKRRFEYSKYRPLTPSSEVYSPIEKES 297
Query: 452 YMNIFRSHALLNNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLLQMAQSIPRDIQGI 511
I + +++ +RELY+WRD IAR DES +V+PN +L + P D+ G+
Sbjct: 298 PWKILMYQYNIPPEREVLVRELYQWRDLIARRDDESPRFVMPNQLLAALVAYTPTDVIGV 357
Query: 512 FACCNPVPQTVKEHVLDIHAIILKARLQSLTKPVEKLQP 550
+ N V + V+++ + A +++ L+++ E+ P
Sbjct: 358 VSLTNGVTEHVRQNA-KLLANLIRDALRNIKNTNEEATP 395
Score = 56.2 bits (134), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 39/62 (62%)
Query: 572 QQKYALRELYKWRDRIARDKDESTGYVLPNHMLLQMAQSIPRDIQGIFACCNPVPQTVKE 631
+++ +RELY+WRD IAR DES +V+PN +L + P D+ G+ + N V + V++
Sbjct: 311 EREVLVRELYQWRDLIARRDDESPRFVMPNQLLAALVAYTPTDVIGVVSLTNGVTEHVRQ 370
Query: 632 HV 633
+
Sbjct: 371 NA 372
>pdb|2CPR|A Chain A, Solution Structure Of The Hrdc Domain Of Human Exosome
Component 10
Length = 124
Score = 109 bits (272), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 48/101 (47%), Positives = 71/101 (70%), Gaps = 1/101 (0%)
Query: 444 KPVFNEEGYMNIFRSHAL-LNNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLLQMAQ 502
KP+F +E Y+ ++R LN QQ A + L+ WRD+ AR +DES GYVLPNHM+L++A+
Sbjct: 8 KPIFTDESYLELYRKQKKHLNTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMMLKIAE 67
Query: 503 SIPRDIQGIFACCNPVPQTVKEHVLDIHAIILKARLQSLTK 543
+P++ QGI ACCNPVP V++ + ++H +I +AR L K
Sbjct: 68 ELPKEPQGIIACCNPVPPLVRQQINEMHLLIQQAREMPLLK 108
Score = 99.4 bits (246), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 42/81 (51%), Positives = 60/81 (74%)
Query: 570 NNQQKYALRELYKWRDRIARDKDESTGYVLPNHMLLQMAQSIPRDIQGIFACCNPVPQTV 629
N QQ A + L+ WRD+ AR +DES GYVLPNHM+L++A+ +P++ QGI ACCNPVP V
Sbjct: 28 NTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPPLV 87
Query: 630 KEHVLDIHAIILKARLQPLTK 650
++ + ++H +I +AR PL K
Sbjct: 88 RQQINEMHLLIQQAREMPLLK 108
>pdb|1YT3|A Chain A, Crystal Structure Of Escherichia Coli Rnase D, An
Exoribonuclease Involved In Structured Rna Processing
Length = 375
Score = 82.8 bits (203), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 79/307 (25%), Positives = 134/307 (43%), Gaps = 15/307 (4%)
Query: 251 MITEPEQVTQLVSELKQQQEIAIDLEYHNYRSYQGYTCLMQISTRDKDYIVDTLKLREDL 310
MIT + + L ++ IA+D E+ R+Y L+Q+ + ++D L + D
Sbjct: 5 MITTDDALASLCEAVRAFPAIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPLGI-TDW 63
Query: 311 EVLNEVLTDKNIVKVFHGADSDIKWLQKDFGLYVVGMFDTHQACKFLPMPRQ-SLAYLLK 369
L +L D +I K H D++ FG + DT F P A +++
Sbjct: 64 SPLKAILRDPSITKFLHAGSEDLEVFLNVFGELPQPLIDTQILAAFCGRPMSWGFASMVE 123
Query: 370 HYCDVDSDKTFQLFDWRHRPLPEPAIQYARTDTHYLLYVYDCMKLDLSAAAHGKQNLVLS 429
Y V DK+ DW RPL E +YA D YLL + KL + A G L
Sbjct: 124 EYSGVTLDKSESRTDWLARPLTERQCEYAAADVWYLLPI--TAKLMVETEASG----WLP 177
Query: 430 TFTNSRNICKLKYEKPVFNEEGYMNIFRSHALLNNQQKYALRELYKWRDRIARDKDESTG 489
+ + +++ ++ V E+ + +I + L +Q L+ L WR R AR++D +
Sbjct: 178 AALDECRLMQMRRQEVVAPEDAWRDITNAWQ-LRTRQLACLQLLADWRLRKARERDLAVN 236
Query: 490 YVLPNHMLLQMAQSIPRDIQGIFACCNPVPQTVKEHVLDIHAIILKARLQSLTKPVEKL- 548
+V+ L +A+ +P + G ++ H + A++ KA+ T P + L
Sbjct: 237 FVVREEHLWSVARYMPGSL-GELDSLGLSGSEIRFHGKTLLALVEKAQ----TLPEDALP 291
Query: 549 QPSLDGM 555
QP L+ M
Sbjct: 292 QPMLNLM 298
>pdb|3CYM|A Chain A, Crystal Structure Of Protein Bad_0989 From Bifidobacterium
Adolescentis
Length = 440
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 50/213 (23%), Positives = 91/213 (42%), Gaps = 19/213 (8%)
Query: 326 FHGADSDIKWLQKDF-----GLYVVGM-----FDTHQACKFLPMPRQSLAYLLKHYCDVD 375
F+ A D W+ D G +GM FDT A + L + R LA + +H+ +
Sbjct: 87 FNRAVGDAVWILHDSLQDLPGFDELGMEPQRLFDTEIAARLLGLKRFGLAAVTEHFLGLT 146
Query: 376 SDKTFQLFDWRHRPLPEPAIQYARTDTHYLLYVYDCMKLDLSAAAHGKQNLVLSTFTNS- 434
K DW +RPLP YA D L+ + M+ +L GK F +
Sbjct: 147 LAKEHSAADWSYRPLPRDWRNYAALDVELLIELETKMRAELK--RQGKMEWAQEEFDYAL 204
Query: 435 RNICKLKYEKPVFNEEGYMNIFRSHALLNNQQKYAL-RELYKWRDRIARDKDESTGYVLP 493
+ + E + +M++ ++ ++Q A+ R L+ RD +AR+ D + +L
Sbjct: 205 KEGLGPRKEHLI----PWMHVSHITEVMRDRQALAIVRALWTRRDELAREYDIAPTLLLS 260
Query: 494 NHMLLQMAQSIPRDIQGIFACCNPVPQTVKEHV 526
+ ++++A+ P + F + + V+ H
Sbjct: 261 DSSIIEVAKRKPHN-AAQFRSIRSINERVRIHT 292
>pdb|4DID|B Chain B, Crystal Structure Of Salmonella Effector N-Terminal Domain
Sopb In Complex With Cdc42
Length = 152
Score = 33.9 bits (76), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 395 IQYARTDTHYLLYVYDCMK--LDLSAAAHGKQNLVLSTFTNSRNICKLKYEKPVFNEE 450
+Q+ + H L +Y+ + L ++A GKQ+ VL++ N + K+K ++P +E
Sbjct: 34 LQHQKASNHSLHNLYNLQRDLLTVAATVLGKQDPVLTSMANQMELAKVKADRPATKQE 91
>pdb|2WJR|A Chain A, Nanc Porin Structure In Rhombohedral Crystal Form
Length = 214
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 11/75 (14%)
Query: 113 IDVMAGTKTPSVLPSQPKIVKESWNKN---AKASNVWQEVHDNKKKSANWFMLNKGAVEI 169
+DV G ++ S V E W + SN W +HDNKK++A LN VE+
Sbjct: 2 LDVRGGYRSGSHAYETRLKVSEGWQNGWWASMESNTWNTIHDNKKENA---ALNDVQVEV 58
Query: 170 ERPQLQFKVKVDNSY 184
+ +K+D+ +
Sbjct: 59 -----NYAIKLDDQW 68
>pdb|2WJQ|A Chain A, Nanc Porin Structure In Hexagonal Crystal Form
Length = 215
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 11/75 (14%)
Query: 113 IDVMAGTKTPSVLPSQPKIVKESWNKN---AKASNVWQEVHDNKKKSANWFMLNKGAVEI 169
+DV G ++ S V E W + SN W +HDNKK++A LN VE+
Sbjct: 3 LDVRGGYRSGSHAYETRLKVSEGWQNGWWASMESNTWNTIHDNKKENA---ALNDVQVEV 59
Query: 170 ERPQLQFKVKVDNSY 184
+ +K+D+ +
Sbjct: 60 -----NYAIKLDDQW 69
>pdb|1GM6|A Chain A, 3-D Structure Of A Salivary Lipocalin From Boar
Length = 175
Score = 30.8 bits (68), Expect = 3.7, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 341 GLYVVGMFDTHQACKFLPMPRQSLAYLLKHYCDVDSDKTFQLFDWRHR-PLPEPAIQ 396
G+Y V + + KF + Y++ H DV+ DKTFQL ++ R P EP ++
Sbjct: 81 GVYTVAYYGEN---KFRLLEVNYSDYVILHLVDVNGDKTFQLMEFYGRKPDVEPKLK 134
>pdb|4E7W|A Chain A, Structure Of Gsk3 From Ustilago Maydis
Length = 394
Score = 30.4 bits (67), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 27/126 (21%), Positives = 63/126 (50%), Gaps = 18/126 (14%)
Query: 162 LNKGAVEIERPQLQFKVKVDNSYEQLFEPKLKEKPNALKPLAILLE-----KYDAIESFC 216
+N +E + PQ++ + + ++F P+ P+A+ ++ LLE + AIE+ C
Sbjct: 269 MNPNYMEHKFPQIR-----PHPFSKVFRPR--TPPDAIDLISRLLEYTPSARLTAIEALC 321
Query: 217 HPYEYELDLYVPKEDFLKCEEPKQALPLSD-TPLMMITEPEQVTQLVSELKQQQEIAIDL 275
HP+ EL + + ++ PL + T + P+ +++LV + + + ++ +
Sbjct: 322 HPFFDEL-----RTGEARMPNGRELPPLFNWTKEELSVRPDLISRLVPQHAEAELLSRGI 376
Query: 276 EYHNYR 281
+ HN++
Sbjct: 377 DVHNFQ 382
>pdb|3U6J|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyrazolone Inhibitor
Length = 314
Score = 30.4 bits (67), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 248 PLMMITEPEQVTQLVSELKQQQ------EIAIDLEYHNYRSYQGYTCLMQISTRDKDYIV 301
PLM+ITE + L + L+ ++ ++A + Y ++ + + C + +++
Sbjct: 97 PLMVITEFCKFGNLSTYLRSKRNEFVPYKVAPEDLYKDFLTLEHLICYSFQVAKGMEFLA 156
Query: 302 DTLKLREDLEVLNEVLTDKNIVKV 325
+ DL N +L++KN+VK+
Sbjct: 157 SRKCIHRDLAARNILLSEKNVVKI 180
>pdb|2P2H|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyridinyl-Triazine Inhibitor
pdb|2QU5|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Benzimidazole Inhibitor
pdb|2QU6|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Benzoxazole Inhibitor
pdb|2QU6|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Benzoxazole Inhibitor
pdb|3B8Q|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Naphthamide Inhibitor
pdb|3B8Q|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Naphthamide Inhibitor
pdb|3B8R|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Naphthamide Inhibitor
pdb|3B8R|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Naphthamide Inhibitor
pdb|2RL5|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A 2,3-Dihydro-1,4-Benzoxazine Inhibitor
pdb|3BE2|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Benzamide Inhibitor
pdb|3CP9|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyridone Inhibitor
pdb|3CP9|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyridone Inhibitor
pdb|3CPB|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Bisamide Inhibitor
pdb|3CPB|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Bisamide Inhibitor
pdb|3CPC|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyridone Inhibitor
pdb|3CPC|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyridone Inhibitor
pdb|3DTW|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Benzisoxazole Inhibitor
pdb|3DTW|B Chain B, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Benzisoxazole Inhibitor
Length = 314
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 248 PLMMITEPEQVTQLVSELKQQQ------EIAIDLEYHNYRSYQGYTCLMQISTRDKDYIV 301
PLM+ITE + L + L+ ++ ++A + Y ++ + + C + +++
Sbjct: 97 PLMVITEFCKFGNLSTYLRSKRNEFVPYKVAPEDLYKDFLTLEHLICYSFQVAKGMEFLA 156
Query: 302 DTLKLREDLEVLNEVLTDKNIVKV 325
+ DL N +L++KN+VK+
Sbjct: 157 SRKCIHRDLAARNILLSEKNVVKI 180
>pdb|3EWH|A Chain A, Crystal Structure Of The Vegfr2 Kinase Domain In Complex
With A Pyridyl-Pyrimidine Benzimidazole Inhibitor
Length = 314
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 248 PLMMITEPEQVTQLVSELKQQQ------EIAIDLEYHNYRSYQGYTCLMQISTRDKDYIV 301
PLM+ITE + L + L+ ++ ++A + Y ++ + + C + +++
Sbjct: 97 PLMVITEFCKFGNLSTYLRSKRNEFVPYKVAPEDLYKDFLTLEHLICYSFQVAKGMEFLA 156
Query: 302 DTLKLREDLEVLNEVLTDKNIVKV 325
+ DL N +L++KN+VK+
Sbjct: 157 SRKCIHRDLAARNILLSEKNVVKI 180
>pdb|2E6L|A Chain A, Structure Of Mouse Wrn Exonuclease Domain
pdb|2E6M|A Chain A, Structure Of Mouse Werner Exonuclease Domain
Length = 208
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 44/101 (43%), Gaps = 4/101 (3%)
Query: 313 LNEVLTDKNIVKVFHGADSDIKWLQKDFGLYVVGMFDTHQAC--KFLPMPRQSLAYLLKH 370
L +L +K+I K G + D L +DF + + + K SL L+KH
Sbjct: 88 LKMLLENKSIKKAGVGIEGDQWKLLRDFDVKLESFVELTDVANEKLKCAETWSLNGLVKH 147
Query: 371 YCD--VDSDKTFQLFDWRHRPLPEPAIQYARTDTHYLLYVY 409
+ DK+ + +W + PL E YA TD + L +Y
Sbjct: 148 VLGKQLLKDKSIRCSNWSNFPLTEDQKLYAATDAYAGLIIY 188
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 29.6 bits (65), Expect = 8.0, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 33/64 (51%), Gaps = 7/64 (10%)
Query: 529 IHAIILKARLQSLTKPVEKLQPSLDGMKKKQQQQVSPPHDSNNQQKYALRELYKWRDRIA 588
+HA++ ++++ K VE+++ L +Q + P D N+ +K LREL + +
Sbjct: 74 LHALVTANTMENVKKAVEQIRNIL-------KQGIETPEDQNDLRKMQLRELARLNGTLR 126
Query: 589 RDKD 592
D +
Sbjct: 127 EDDN 130
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
0.317 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: 27,430,508
Number of Sequences: 62578
Number of extensions: 1088884
Number of successful extensions: 2641
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 2612
Number of HSP's gapped (non-prelim): 44
length of query: 1006
length of database: 14,973,337
effective HSP length: 108
effective length of query: 898
effective length of database: 8,214,913
effective search space: 7376991874
effective search space used: 7376991874
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: 56 (26.2 bits)