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= 037222
(904 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 39/156 (25%), Positives = 70/156 (44%), Gaps = 6/156 (3%)
Query: 499 FLVCAGAGLEQAPAVRESENVTRLSLMQNQIKILSE--VPTCPDLLTLFLDFNEELEMIA 556
+L G L A++E N+T L L NQ++ L +L L L N +L+ +
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVEN-QLQSLP 125
Query: 557 DGFFQFMPSLKVLKISNCGNFTFQLPLGM-SKLGSLELFDISRTEIQELPEEXXXXXXXX 615
DG F + +L L +++ N LP G+ KL +L D+S ++Q LPE
Sbjct: 126 DGVFDKLTNLTYLNLAH--NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQL 183
Query: 616 XXXXRWTSKLIRIPRQLISNSSGLRVLRMFATGYEC 651
+ ++L +P + + L+ + + ++C
Sbjct: 184 KDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC 219
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 37.7 bits (86), Expect = 0.026, Method: Composition-based stats.
Identities = 34/111 (30%), Positives = 53/111 (47%), Gaps = 6/111 (5%)
Query: 499 FLVCAGAGLEQAPAVRESENVTRLSLMQNQIKILSE--VPTCPDLLTLFLDFNEELEMIA 556
+L G L A++E N+T L L NQ++ L +L L L N +L+ +
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVEN-QLQSLP 125
Query: 557 DGFFQFMPSLKVLKISNCGNFTFQLPLGM-SKLGSLELFDISRTEIQELPE 606
DG F + +L L + + N LP G+ KL +L D+ ++Q LPE
Sbjct: 126 DGVFDKLTNLTYLYLYH--NQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPE 174
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%)
Query: 540 DLLTLFLDFNEELEMIADGFFQFMPSLKVLKISNCGNFTFQLPLGMSKLGSLELFDISRT 599
DL + + N+ LE+I F +P L ++I N + P L +L+ IS T
Sbjct: 55 DLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT 114
Query: 600 EIQELPE 606
I+ LP+
Sbjct: 115 GIKHLPD 121
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 34.3 bits (77), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%)
Query: 540 DLLTLFLDFNEELEMIADGFFQFMPSLKVLKISNCGNFTFQLPLGMSKLGSLELFDISRT 599
DL + + N+ LE+I F +P L ++I N + P L +L+ IS T
Sbjct: 55 DLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT 114
Query: 600 EIQELPE 606
I+ LP+
Sbjct: 115 GIKHLPD 121
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 33.5 bits (75), Expect = 0.53, Method: Composition-based stats.
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 10/94 (10%)
Query: 518 NVTRLSLMQNQIKILSEVPTCPDLLT----LFLDFNEELEMIADGFFQFMPSLKVLKISN 573
N+ L L +NQ+K L P D LT L L +NE L+ + G F + SLK L++ N
Sbjct: 110 NLAELRLDRNQLKSLP--PRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYN 166
Query: 574 CGNFTFQLPLG-MSKLGSLELFDISRTEIQELPE 606
N ++P G KL L+ + +++ +PE
Sbjct: 167 --NQLKRVPEGAFDKLTELKTLKLDNNQLKRVPE 198
>pdb|1OID|A Chain A, 5'-nucleotidase (e. Coli) With An Engineered Disulfide
Bridge (s228c, P513c)
pdb|1OID|B Chain B, 5'-nucleotidase (e. Coli) With An Engineered Disulfide
Bridge (s228c, P513c)
pdb|1OIE|A Chain A, 5'-Nucleotidase (E. Coli) With An Engineered Disulfide
Bridge (S228c, P513c)
Length = 532
Score = 33.1 bits (74), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 770 FSCGKLKDVTFLVFAPNLKSLELLQCDAMEEIISVGEIAETPEMMGHISPFENLQSLHL 828
F G++K V + + NLK + E ++ EIAE +M+ +SPF+N L
Sbjct: 277 FRNGEMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQNKGKAQL 335
>pdb|1OI8|A Chain A, 5'-Nucleotidase (E. Coli) With An Engineered Disulfide
Bridge (P90c, L424c)
pdb|1OI8|B Chain B, 5'-Nucleotidase (E. Coli) With An Engineered Disulfide
Bridge (P90c, L424c)
Length = 532
Score = 33.1 bits (74), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 770 FSCGKLKDVTFLVFAPNLKSLELLQCDAMEEIISVGEIAETPEMMGHISPFENLQSLHL 828
F G++K V + + NLK + E ++ EIAE +M+ +SPF+N L
Sbjct: 277 FRNGEMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQNKGKAQL 335
>pdb|1HO5|A Chain A, 5'-Nucleotidase (E. Coli) In Complex With Adenosine And
Phosphate
pdb|1HO5|B Chain B, 5'-Nucleotidase (E. Coli) In Complex With Adenosine And
Phosphate
pdb|1HPU|A Chain A, 5'-Nucleotidase (Closed Form), Complex With Ampcp
pdb|1HPU|B Chain B, 5'-Nucleotidase (Closed Form), Complex With Ampcp
pdb|1HPU|C Chain C, 5'-Nucleotidase (Closed Form), Complex With Ampcp
pdb|1HPU|D Chain D, 5'-Nucleotidase (Closed Form), Complex With Ampcp
Length = 525
Score = 33.1 bits (74), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 770 FSCGKLKDVTFLVFAPNLKSLELLQCDAMEEIISVGEIAETPEMMGHISPFENLQSLHL 828
F G++K V + + NLK + E ++ EIAE +M+ +SPF+N L
Sbjct: 277 FRNGEMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQNKGKAQL 335
>pdb|2USH|A Chain A, 5'-Nucleotidase From E. Coli
pdb|2USH|B Chain B, 5'-Nucleotidase From E. Coli
pdb|1USH|A Chain A, 5'-Nucleotidase From E. Coli
Length = 550
Score = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%)
Query: 770 FSCGKLKDVTFLVFAPNLKSLELLQCDAMEEIISVGEIAETPEMMGHISPFEN 822
F G++K V + + NLK + E ++ EIAE +M+ +SPF+N
Sbjct: 302 FRNGEMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQN 354
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
0.323 0.138 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,997,194
Number of Sequences: 62578
Number of extensions: 923267
Number of successful extensions: 2286
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2273
Number of HSP's gapped (non-prelim): 18
length of query: 904
length of database: 14,973,337
effective HSP length: 108
effective length of query: 796
effective length of database: 8,214,913
effective search space: 6539070748
effective search space used: 6539070748
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)