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= 006771
(632 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZIU|A Chain A, Crystal Structure Of The Mus81-Eme1 Complex
pdb|2ZIV|A Chain A, Crystal Structure Of The Mus81-Eme1 Complex
Length = 311
Score = 115 bits (287), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 91/271 (33%), Positives = 138/271 (50%), Gaps = 52/271 (19%)
Query: 374 AYEVVLILDDREQFAVQGSRSRRIIENVCSQFKIQMEVRRLPVGDGIWIARHRQT----- 428
+Y++VL +D E R + +++ + + + +VR+L VGD +W+AR R T
Sbjct: 17 SYDIVLCVDLCETTGGSSVRKQELVKEL-QRNSVTFDVRKLNVGDFLWVARERVTPVPGQ 75
Query: 429 -----QSEYVLDFIVERKKVDDLRSSIRDNRYRDQKLRLVRCGLKKLIYLVEGDPNSSEA 483
E VLD+I+ERK++DDL SI D R+R+QK RL RCGL+K IYLVE + S+ A
Sbjct: 76 LRPPVGKELVLDYIIERKRMDDLCGSIIDGRFREQKFRLKRCGLRKPIYLVE-ECGSAAA 134
Query: 484 AESI-----KTACFTTEILEGFDVQRTSGLADTLRKYGYITQAITEYYK--------VEL 530
SI + A T++++GF V+R ++ +T+ + + Y+ EL
Sbjct: 135 HLSIPESTLQQAIVNTQVVDGFFVKRVQDAKESAAYLTIMTRYLQKLYQNCTLFCRSREL 194
Query: 531 PED----------QLKCAAVCPPFDEF-----LKRCQDLDKMTVSDVFAVQLMQVPQVTE 575
D L C+ + F EF +CQ TV +VFA QLMQ+ V+
Sbjct: 195 EGDGEAESEKMVANLSCSLM--AFTEFNYGAIKNKCQ-----TVREVFARQLMQISGVSG 247
Query: 576 EIAITVLDLYPTLLSLAHAYSILEGDVCAQE 606
+ A VL+ Y T+ SL AY D C+ E
Sbjct: 248 DKAAAVLEHYSTVSSLLQAY-----DKCSSE 273
>pdb|2ZIX|A Chain A, Crystal Structure Of The Mus81-Eme1 Complex
Length = 307
Score = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 87/262 (33%), Positives = 126/262 (48%), Gaps = 35/262 (13%)
Query: 375 YEVVLILDDREQFAVQGSRSRRIIENVCSQFKIQMEVRRLPVGDGIWIA-----RHRQTQ 429
Y V+L +D E +G R + + + VR+L VGD +W+A R
Sbjct: 23 YRVLLCVDIGE---TRGGGHRPELLRELQRLHVTHTVRKLHVGDFVWVAQETNPRDPANP 79
Query: 430 SEYVLDFIVERKKVDDLRSSIRDNRYRDQKLRLVRCGLKKLIYLVEGDP---NSSEAAES 486
E VLD IVERK++DDL SSI D R+R+QK RL RCGL++ +YLVE N S +
Sbjct: 80 GELVLDHIVERKRLDDLCSSIIDGRFREQKFRLKRCGLERRVYLVEEHGSVHNLSLPEST 139
Query: 487 IKTACFTTEILEGFDVQRTSGLADTLRKYGYITQAITEYYKVE--------LPEDQLKCA 538
+ A T++++GF V+RT+ + ++ +T+ + Y+ P + A
Sbjct: 140 LLQAVTNTQVIDGFFVKRTADIKESAAYLALLTRGLQRLYQGHTLRSRPWGTPGNPESGA 199
Query: 539 AVCP-------PFDEFLKRCQDLDKMTVSDVFAVQLMQVPQVTEEIAITVLDLYPTLLSL 591
P F +F +V +VFA QLMQV V+ E A ++D Y T SL
Sbjct: 200 MTSPNPLCSLLTFSDFNAGAIKNKAQSVREVFARQLMQVRGVSGEKAAALVDRYSTPASL 259
Query: 592 AHAYSILEGDVCA----QEEML 609
AY D CA QE +L
Sbjct: 260 LAAY-----DACATPKEQETLL 276
>pdb|2ZIW|A Chain A, Crystal Structure Of The Mus81-Eme1 Complex
Length = 311
Score = 109 bits (272), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 90/271 (33%), Positives = 134/271 (49%), Gaps = 52/271 (19%)
Query: 374 AYEVVLILDDREQFAVQGSRSRRIIENVCSQFKIQMEVRRLPVGDGIWIARHRQT----- 428
+Y++VL +D E R + +++ + + + +VR+L VGD +W+AR R T
Sbjct: 17 SYDIVLCVDLCETTGGSSVRKQELVKEL-QRNSVTFDVRKLNVGDFLWVARERVTPVPGQ 75
Query: 429 -----QSEYVLDFIVERKKVDDLRSSIRDNRYRDQKLRLVRCGLKKLIYLVEGDPNSSEA 483
E VLD+I+ERK+ DDL SI D R+R+QK RL RCGL+K IYLVE + S+ A
Sbjct: 76 LRPPVGKELVLDYIIERKRXDDLCGSIIDGRFREQKFRLKRCGLRKPIYLVE-ECGSAAA 134
Query: 484 AESI-----KTACFTTEILEGFDVQRTSGLADTLRKYGYITQAITEYYK--------VEL 530
SI + A T++++GF V+R ++ T+ + + Y+ EL
Sbjct: 135 HLSIPESTLQQAIVNTQVVDGFFVKRVQDAKESAAYLTIXTRYLQKLYQNCTLFCRSREL 194
Query: 531 PED----------QLKCAAVCPPFDEF-----LKRCQDLDKMTVSDVFAVQLMQVPQVTE 575
D L C+ F EF +CQ TV +VFA QL Q+ V+
Sbjct: 195 EGDGEAESEKXVANLSCSLX--AFTEFNYGAIKNKCQ-----TVREVFARQLXQISGVSG 247
Query: 576 EIAITVLDLYPTLLSLAHAYSILEGDVCAQE 606
+ A VL+ Y T+ SL AY D C+ E
Sbjct: 248 DKAAAVLEHYSTVSSLLQAY-----DKCSSE 273
>pdb|3ZQM|A Chain A, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|B Chain B, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|C Chain C, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|D Chain D, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|E Chain E, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|F Chain F, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|G Chain G, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|H Chain H, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|I Chain I, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQM|J Chain J, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
1)
pdb|3ZQN|A Chain A, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|B Chain B, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|C Chain C, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|D Chain D, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|E Chain E, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|F Chain F, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|G Chain G, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|H Chain H, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|I Chain I, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQN|J Chain J, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
2)
pdb|3ZQO|A Chain A, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|B Chain B, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|C Chain C, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|D Chain D, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|E Chain E, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|F Chain F, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|G Chain G, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|H Chain H, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|I Chain I, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|J Chain J, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|K Chain K, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|L Chain L, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|M Chain M, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|N Chain N, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|O Chain O, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|P Chain P, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|Q Chain Q, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
pdb|3ZQO|R Chain R, Crystal Structure Of The Small Terminase Oligomerization
Core Domain From A Spp1-Like Bacteriophage (Crystal Form
3)
Length = 72
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 278 ESLERFTR--MGYSKEQVLRAFGEVSETSQHKEISS 311
E LE TR +G KEQVL G+ +ET H E+S+
Sbjct: 24 EVLEHLTRIALGQEKEQVLXGIGKGAETKTHVEVSA 59
>pdb|1J22|A Chain A, Crystal Structure Of Archaeal XpfMUS81 HOMOLOG, HEF FROM
PYROCOCCUS Furiosus, Nuclease Domain, Selenomet
Derivative
pdb|1J23|A Chain A, Crystal Structure Of Archaeal XpfMUS81 HOMOLOG, HEF FROM
PYROCOCCUS Furiosus, Nuclease Domain
pdb|1J24|A Chain A, Crystal Structure Of Archaeal XpfMUS81 HOMOLOG, HEF FROM
PYROCOCCUS Furiosus, Nuclease Domain, Ca Cocrystal
pdb|1J25|A Chain A, Crystal Structure Of Archaeal XpfMUS81 HOMOLOG, HEF FROM
PYROCOCCUS Furiosus, Nuclease Domain, Mn Cocrystal
Length = 143
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 50/115 (43%), Gaps = 23/115 (20%)
Query: 394 SRRIIENVCSQFK---IQMEVRRLPVGDGIWIARHRQTQSEYVLDFIVERKKVDDLRSSI 450
SR + V + K +++EV+ L VGD I SE D +ERK +DL SI
Sbjct: 11 SRELRSEVVKRLKLLGVKLEVKTLDVGDYII--------SE---DVAIERKSANDLIQSI 59
Query: 451 RDNRYRDQKLRLVRCGLKKLIYLVEGD--------PNSSEAAESIKTACFTTEIL 497
D DQ RL + + I +VEG PN+ A + T F I+
Sbjct: 60 IDGGLFDQVKRL-KEAYSRPIMIVEGSLYGIRNVHPNAIRGAIAAVTVDFGVPII 113
>pdb|3ZQP|A Chain A, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|B Chain B, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|C Chain C, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|D Chain D, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|E Chain E, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|F Chain F, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|G Chain G, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|H Chain H, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQP|I Chain I, Crystal Structure Of The Small Terminase Oligomerization
Domain From A Spp1-Like Bacteriophage
pdb|3ZQQ|A Chain A, Crystal Structure Of The Full-Length Small Terminase From
A Spp1-Like Bacteriophage
pdb|3ZQQ|B Chain B, Crystal Structure Of The Full-Length Small Terminase From
A Spp1-Like Bacteriophage
pdb|3ZQQ|C Chain C, Crystal Structure Of The Full-Length Small Terminase From
A Spp1-Like Bacteriophage
Length = 164
Score = 31.6 bits (70), Expect = 1.4, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 278 ESLERFTR--MGYSKEQVLRAFGEVSETSQHKEISS 311
E LE TR +G KEQVL G+ +ET H E+S+
Sbjct: 91 EVLEHLTRIALGQEKEQVLMGIGKGAETKTHVEVSA 126
>pdb|2XFC|A Chain A, The Chikungunya E1 E2 Envelope Glycoprotein Complex Fit
Into The Semliki Forest Virus Cryo-Em Map
pdb|2XFC|D Chain D, The Chikungunya E1 E2 Envelope Glycoprotein Complex Fit
Into The Semliki Forest Virus Cryo-Em Map
pdb|2XFC|F Chain F, The Chikungunya E1 E2 Envelope Glycoprotein Complex Fit
Into The Semliki Forest Virus Cryo-Em Map
pdb|2XFC|H Chain H, The Chikungunya E1 E2 Envelope Glycoprotein Complex Fit
Into The Semliki Forest Virus Cryo-Em Map
Length = 439
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 526 YKVELPEDQLKCAAVC-PPFDEFLKRCQDLDKMTVSDVFAVQLMQVPQVTEEIAITV 581
++V++ Q+ CAA C PP D + + V D+ A + V ++T + + V
Sbjct: 365 FRVQVCSTQVHCAAECHPPKDHIVNYPASHTTLGVQDISATAMSWVQKITGGVGLVV 421
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 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,551,844
Number of Sequences: 62578
Number of extensions: 696689
Number of successful extensions: 1616
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1606
Number of HSP's gapped (non-prelim): 9
length of query: 632
length of database: 14,973,337
effective HSP length: 105
effective length of query: 527
effective length of database: 8,402,647
effective search space: 4428194969
effective search space used: 4428194969
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)