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= 003457
(818 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EMH|A Chain A, Structural Basis Of Wdr5-Mll Interaction
Length = 318
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 68/165 (41%), Gaps = 19/165 (11%)
Query: 458 LQNPDFESPPTNLTPNRSTPFVLLNGNNTIPGWTFEGTVQYVTASQTIRLPDNGHAIQLA 517
L +P+F+S PT + PN + F L + F +++ +S +L I A
Sbjct: 3 LGSPEFQSKPTPVKPNYALKFTLAGHTKAVSSVKFSPNGEWLASSSADKLI----KIWGA 58
Query: 518 QDGRINQTFAADGDDLIYILTLTLAPGGQNCSANANLVVSAPDSHGVYSLKQHYGK--ET 575
DG+ +T + L S+++NL+VSA D + GK +T
Sbjct: 59 YDGKFEKTISGH----------KLGISDVAWSSDSNLLVSASDDKTLKIWDVSSGKCLKT 108
Query: 576 WKSYGHYLGRWGQDEPINLVIRSQSTESDDNSTCWPVIDMLLLKT 620
K + +Y+ + NL++ S D++ W V LKT
Sbjct: 109 LKGHSNYVFCCNFNPQSNLIV---SGSFDESVRIWDVKTGKCLKT 150
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 33.1 bits (74), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 302 LDLFRKLEKEQIVPNDITFVGVLSACCHAGFIDVGRQIFGSMKRVYGIEPKIEHYGCMVD 361
D+F+++ +++VPN+ TF ++ + MK +GI+P++ YG
Sbjct: 90 FDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMK-AFGIQPRLRSYGPA-- 146
Query: 362 LLGRCGK 368
L G C K
Sbjct: 147 LFGFCRK 153
>pdb|3LSB|A Chain A, Crystal Structure Of The Mutant E241q Of Atrazine
Chlorohydrolase Trzn From Arthrobacter Aurescens Tc1
Complexed With Zinc And Ametrin
pdb|3LSB|B Chain B, Crystal Structure Of The Mutant E241q Of Atrazine
Chlorohydrolase Trzn From Arthrobacter Aurescens Tc1
Complexed With Zinc And Ametrin
pdb|3LSC|A Chain A, Crystal Structure Of The Mutant E241q Of Atrazine
Chlorohydrolase Trzn From Arthrobacter Aurescens Tc1
Complexed With Zinc And Atraton
pdb|3LSC|B Chain B, Crystal Structure Of The Mutant E241q Of Atrazine
Chlorohydrolase Trzn From Arthrobacter Aurescens Tc1
Complexed With Zinc And Atraton
Length = 456
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 17/94 (18%)
Query: 638 EFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSA 697
+FGPD + VLLE S++G + + +H + P A I A
Sbjct: 101 KFGPDVIREVARAVLLE-------------SLLGGITTVADQHLFFPGATADSYI---DA 144
Query: 698 GIQTATTMLTEGSAYNLDFTLGDAKDA-CEGMFV 730
I+ AT + A TLG ++ C+ +FV
Sbjct: 145 TIEAATDLGIRFHAARSSMTLGKSEGGFCDDLFV 178
>pdb|3LS9|A Chain A, Crystal Structure Of Atrazine Chlorohydrolase Trzn From
Arthrobacter Aurescens Tc1 Complexed With Zinc
pdb|3LS9|B Chain B, Crystal Structure Of Atrazine Chlorohydrolase Trzn From
Arthrobacter Aurescens Tc1 Complexed With Zinc
Length = 456
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 17/94 (18%)
Query: 638 EFGPDFLSNSTEGVLLESAPSPIQSALQQWSVIGTVKYIDSKHFYVPKGNAAIEIVSVSA 697
+FGPD + VLLE S++G + + +H + P A I A
Sbjct: 101 KFGPDVIREVARAVLLE-------------SLLGGITTVADQHLFFPGATADSYI---DA 144
Query: 698 GIQTATTMLTEGSAYNLDFTLGDAKDA-CEGMFV 730
I+ AT + A TLG ++ C+ +FV
Sbjct: 145 TIEAATDLGIRFHAARSSMTLGKSEGGFCDDLFV 178
>pdb|3T5V|B Chain B, Sac3:thp1:sem1 Complex
pdb|3T5V|E Chain E, Sac3:thp1:sem1 Complex
Length = 455
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 53/120 (44%), Gaps = 15/120 (12%)
Query: 66 SYATRLFNSIQSPNHFMWNTLIRAQASSLN-PDKA-IFLYMNMRRTGFAPNQHTFTFVLK 123
S +RLFNSI+ P R ASS N P K I LY+ + N + +
Sbjct: 147 SILSRLFNSIKPP---------RGNASSTNIPGKQRILLYLVNKLN----NIYFRIESPQ 193
Query: 124 ACSNVRSLNCCKQIHTHVSKSGLDLDLHVVNCLVRCYSVSSDLNNARQVFDEIRNRTLNV 183
CSN+ K + H ++ LD + L R Y ++S ++NA F+E LN+
Sbjct: 194 LCSNIFKNFQPKSMLAHFNEYQLDQQIEYRYLLGRYYLLNSQVHNAFVQFNEAFQSLLNL 253
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 30.8 bits (68), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 9/70 (12%)
Query: 302 LDLFRKLEKEQIVPNDITFV-GVLSACCHAGFIDVGRQIFGSMK--RVYGIEPKIEHYGC 358
D+F++ +++VPN+ TF G A D F +K + +GI+P++ YG
Sbjct: 90 FDIFKQXIVDKVVPNEATFTNGARLAVAK----DDPEXAFDXVKQXKAFGIQPRLRSYGP 145
Query: 359 MVDLLGRCGK 368
L G C K
Sbjct: 146 A--LFGFCRK 153
>pdb|3CLM|A Chain A, Crystal Structure Of Transaldolase (Yp_208650.1) From
Neisseria Gonorrhoeae Fa 1090 At 1.14 A Resolution
Length = 352
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%)
Query: 671 GTVKYIDSKHFYVPKGNAAIEIVSVSAGIQTATTMLTEGSAYNLDFTLGDAK 722
GTV+ H + + NA I++ + AGI T++++G + NL A+
Sbjct: 119 GTVEEARRLHAAIARKNAXIKVPATDAGIDALETLVSDGISVNLTLLFSRAQ 170
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 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,380,375
Number of Sequences: 62578
Number of extensions: 916206
Number of successful extensions: 2119
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 2115
Number of HSP's gapped (non-prelim): 22
length of query: 818
length of database: 14,973,337
effective HSP length: 107
effective length of query: 711
effective length of database: 8,277,491
effective search space: 5885296101
effective search space used: 5885296101
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: 56 (26.2 bits)