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= 000864
(1247 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3S4W|A Chain A, Structure Of The Fanci-Fancd2 Complex
pdb|3S4Z|A Chain A, Structure Of A Y Dna-Fanci Complex
pdb|3S4Z|B Chain B, Structure Of A Y Dna-Fanci Complex
pdb|3S4Z|C Chain C, Structure Of A Y Dna-Fanci Complex
pdb|3S51|A Chain A, Structure Of Fanci
pdb|3S51|B Chain B, Structure Of Fanci
pdb|3S51|C Chain C, Structure Of Fanci
pdb|3S51|D Chain D, Structure Of Fanci
Length = 1308
Score = 186 bits (472), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 150/537 (27%), Positives = 259/537 (48%), Gaps = 63/537 (11%)
Query: 29 GGDYVNLVFDRLLDCDWSKGLLLKLVSIVRELGFFDKRRCSEFLMKVFEGMKIVDLQDLP 88
G +Y + D L W + +++L S+ +++ + + KV ++LQ++P
Sbjct: 153 GEEYKRQLIDTLCSVRWPQRYMIQLTSVFKDVCL-TPEEMNLVVAKVLTMFSKLNLQEIP 211
Query: 89 TLVYQLLVLASRGFNKREVIEGIVVFFG---------------SKMGSKVTSIVRQVEGT 133
LVYQLLVL+S+G ++R V++GI+ FF S++ + + VEGT
Sbjct: 212 PLVYQLLVLSSKG-SRRSVLDGIIAFFRELDKQHREEQSSDELSELITAPADELYHVEGT 270
Query: 134 VLLHVNFAVKQDPSLGQEVMGLVKLDL-----RAFNHFAVAVLLSVARIRKFSESAMGIL 188
V+LH+ FA+K D LG+E++ +K + F++A+LLS+ RI++F E +L
Sbjct: 271 VILHIVFAIKLDCELGRELLKHLKAGQQGDPSKCLCPFSIALLLSLTRIQRFEEQVFDLL 330
Query: 189 KTALLTAYRDYKFSKDCMWLPNDSKDEFLQSV----KVVEKAVLRSVNESNYGREHVVPS 244
KT+++ +++D + L SK FLQ++ V +L V S + +HV
Sbjct: 331 KTSVVKSFKD-------LQLLQGSK--FLQTLVPQRTCVSTMILEVVRNSVHSWDHVTQG 381
Query: 245 IVQFGFILLES-----------VEEG-SLKEHCQSNGLLGIEKLGIQILKTLFEVHDMAR 292
+++FGFIL++S VE G SL + + KLG IL F++H+M R
Sbjct: 382 LIEFGFILMDSYGPKKILDGKAVEIGTSLSKMTNQHAC----KLGANILLETFKIHEMIR 437
Query: 293 SEIVEQCKFRVLSLKPEQSMSVIRLIGNLVQNYPYPMLEHVSRLKELLDYFTFMHGKVAT 352
EI+EQ RV++ + L +++ P +L++ S++ E DY TF+ +
Sbjct: 438 QEILEQVLNRVVTRTSSPINHFLDLFSDIIMYAPL-ILQNCSKVTETFDYLTFLPLQTVQ 496
Query: 353 YLVTALLPLINISRDLQDYTILVVRKAMFRREDAVRHAATNAIIDLIMAEKQSKTDGXXX 412
L+ A+ PL+ IS ++D ILV+RKAMF + R +A + L+ K K G
Sbjct: 497 GLLKAVQPLLKISMSMRDSLILVLRKAMFASQLDARKSAVAGFLLLL---KNFKVLGSLP 553
Query: 413 XXXXXXXXXXXXXEIP-RSTHGGLFQELSAL-----LQRCLYQQAKVKEVMYQGLVKLVL 466
+ S + + E L L+R L QQA ++ ++Y G ++
Sbjct: 554 SSQCTQSIGVTQVRVDVHSRYSAVANETFCLEIIDSLKRSLGQQADIRLMLYDGFYDVLR 613
Query: 467 VDPSAGGPIFDFLLPHFLRFFREDSDV--QLGVNLCIKVENGRAFIDEPLDCLLYCV 521
+ I L +F+ + D+ L + C+ + + F+ EPLD LL C+
Sbjct: 614 RNSQLASSIMQTLFSQLKQFYEPEPDLLPPLKLGACVLTQGSQIFLQEPLDHLLSCI 670
Score = 96.3 bits (238), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 85/295 (28%), Positives = 144/295 (48%), Gaps = 27/295 (9%)
Query: 908 TWAEGFCKSNSITNANVVKSVVKLAICL----SSPPNDLFVAQSLAQELLKVTGSGSSD- 962
+W CK S +A+ KS++ L L SP L + L+Q++ G D
Sbjct: 1004 SWTSKICKEYSQEDASFCKSLMNLFFSLHVLYKSPVTLL---RDLSQDIHGQLGDIDQDV 1060
Query: 963 SLEVSELYPLINHSTST-TILSCILQLTEEVVSDMDWAIKKVKTFSLVTQKGIHVNHDED 1021
+E ++ + ++N T+ T+ +L E+V+ ++DW I K+K + Q+ + +
Sbjct: 1061 EIEKTDHFAVVNLRTAAPTVCLLVLSQAEKVLEEVDWLIAKIKGSA--NQETLSDKVTPE 1118
Query: 1022 HVSG------LGFEENLYSRTEALVKVLSSFVLMSLKDPQ-AEHFLRLATRLYKHLAQMS 1074
S L E+ + + LV V +L + L+ +++Y L
Sbjct: 1119 DASSQAVPPTLLIEKAIVMQLGTLVTFFHELVQTALPSGSCVDTLLKGLSKIYSTLTAFV 1178
Query: 1075 KLRIAPKGCKQLLPSLEFQRLVELTCKQLTVPLYNFVAEMQR--------GQLENASSKG 1126
K + + +P+ ++LV+L+ LT Y+F++ +Q + E A+
Sbjct: 1179 KYYLQVCQSSRGIPN-TVEKLVKLSGSHLTPVCYSFISYVQNKSSDAPKCSEKEKAAVST 1237
Query: 1127 ILNKIKRENKCIPDLIFQIEDYEKYLIQLSKVSKINLLRHAKRSTSRDFKILDTV 1181
+ K+ RE K IP+L+F IE YEK+LIQLSK SK+NL++H K STSRDFKI +V
Sbjct: 1238 TMAKVLRETKPIPNLVFAIEQYEKFLIQLSKKSKVNLMQHMKLSTSRDFKIKGSV 1292
>pdb|3UW3|A Chain A, Crystal Structure Of An Aspartate-Semialdehyde
Dehydrogenase From Burkholderia Thailandensis
pdb|3UW3|B Chain B, Crystal Structure Of An Aspartate-Semialdehyde
Dehydrogenase From Burkholderia Thailandensis
Length = 377
Score = 30.4 bits (67), Expect = 7.3, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 2 KQVVNLDDAQMLDLLPKCFDLLRESEKGGDYVNLVFDRLLDCDWS 46
K L DA +D L KC ++ + +GGDY N VF +L W+
Sbjct: 52 KNETTLKDATSIDDLKKCDVII--TCQGGDYTNDVFPKLRAAGWN 94
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 0.136 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,285,932
Number of Sequences: 62578
Number of extensions: 1115382
Number of successful extensions: 2554
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2538
Number of HSP's gapped (non-prelim): 8
length of query: 1247
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1137
effective length of database: 8,089,757
effective search space: 9198053709
effective search space used: 9198053709
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: 57 (26.6 bits)