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= 043683
(256 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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 62/116 (53%), Gaps = 12/116 (10%)
Query: 63 LRYFHWHGCPLKSLPSNI-----HLEKLVLLEMPHSNIQQLLDSVRGILTRTPNTPLGQH 117
L Y G L+SLP+ + +L++LVL+E + +Q L D V LT L H
Sbjct: 87 LTYLILTGNQLQSLPNGVFDKLTNLKELVLVE---NQLQSLPDGVFDKLTNLTYLNLA-H 142
Query: 118 LNTLVLPENI-GQLSSLGKLDLQKNNFERIPESVI-QLSKLGRLCLRYWERLQSLP 171
LP+ + +L++L +LDL N + +PE V +L++L L L Y +L+S+P
Sbjct: 143 NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL-YQNQLKSVP 197
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 40/117 (34%), Positives = 65/117 (55%), Gaps = 14/117 (11%)
Query: 63 LRYFHWHGCPLKSLPSNI-----HLEKLVLLEMPHSNIQQLLDSVRGILTRTPNTPLGQH 117
L Y G L+SLP+ + +L++LVL+E + +Q L D V LT T L +
Sbjct: 87 LTYLILTGNQLQSLPNGVFDKLTNLKELVLVE---NQLQSLPDGVFDKLTNL--TYLYLY 141
Query: 118 LNTL-VLPENI-GQLSSLGKLDLQKNNFERIPESVI-QLSKLGRLCLRYWERLQSLP 171
N L LP+ + +L++L +LDL N + +PE V +L++L +L L +L+S+P
Sbjct: 142 HNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLND-NQLKSVP 197
>pdb|3EO7|A Chain A, Crystal Structure Of A Putative Nitroreductase (Ava_2154)
From Anabaena Variabilis Atcc 29413 At 1.80 A Resolution
Length = 511
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 114 LGQHLNTLVLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGR 158
LGQ LN + N+G G D Q N IP E+VI ++ LGR
Sbjct: 463 LGQRLNLAAIQLNLGVSGIGGFFDDQVNEVLGIPNDEAVIYITTLGR 509
>pdb|1CJA|A Chain A, Actin-Fragmin Kinase, Catalytic Domain From Physarum
Polycephalum
pdb|1CJA|B Chain B, Actin-Fragmin Kinase, Catalytic Domain From Physarum
Polycephalum
Length = 342
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 40/92 (43%), Gaps = 15/92 (16%)
Query: 98 LLDSVRGILTRTPNTPLGQHLNTLVLPE-----NIGQLSSLGKLDLQKNNFERIPESVIQ 152
L++ VRGI L T PE + QL SL LD+ NN +R+P +
Sbjct: 160 LMELVRGITL--------NKLTTTSAPEVLTKSTMQQLGSLMALDVIVNNSDRLPIAWTN 211
Query: 153 LSKLGRLCLRYWERLQSLPKLPCKLHELDAHH 184
L + L ER ++ + K+ LDA H
Sbjct: 212 EGNLDNIMLS--ERGATVVPIDSKIIPLDASH 241
>pdb|3Q36|A Chain A, Crystal Structure Of The 4fe-4s Cluster Domain Of Human
Dna Primase Large Subunit
pdb|3Q36|B Chain B, Crystal Structure Of The 4fe-4s Cluster Domain Of Human
Dna Primase Large Subunit
Length = 192
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 68 WHGCPLKSLPSNIHLEKLVLLEMPHSNIQQLLDSVRG 104
+HGCP + + +KL ++ I Q+LD V+G
Sbjct: 116 YHGCPFRHSDPELLKQKLQSYKISPGGISQILDLVKG 152
>pdb|3L9Q|A Chain A, Crystal Structure Of Human Polymerase Alpha-Primase P58
Iron-Sulfur Cluster Domain
pdb|3L9Q|B Chain B, Crystal Structure Of Human Polymerase Alpha-Primase P58
Iron-Sulfur Cluster Domain
Length = 195
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 68 WHGCPLKSLPSNIHLEKLVLLEMPHSNIQQLLDSVRG 104
+HGCP + + +KL ++ I Q+LD V+G
Sbjct: 112 YHGCPFRHSDPELLKQKLQSYKISPGGISQILDLVKG 148
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 114 LGQHLNTLVLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLCLRYWERLQSLPK 172
LG + + +P+ +G L L LDL N + RIP+++ L+ L + L +P+
Sbjct: 660 LGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 719
Query: 173 L 173
+
Sbjct: 720 M 720
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
0.325 0.140 0.459
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,018,758
Number of Sequences: 62578
Number of extensions: 247694
Number of successful extensions: 772
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 765
Number of HSP's gapped (non-prelim): 22
length of query: 256
length of database: 14,973,337
effective HSP length: 97
effective length of query: 159
effective length of database: 8,903,271
effective search space: 1415620089
effective search space used: 1415620089
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)