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= psy993
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZOU|A Chain A, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 2)
pdb|2ZOU|B Chain B, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 2)
Length = 149
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 28/117 (23%), Positives = 46/117 (39%), Gaps = 11/117 (9%)
Query: 23 GAPEGVCADMTPKHPQTVPQDSESPYKIVLKKKSVAPGGSISVVISSPPGLSFKGF---- 78
G+ EG C+ + +E ++ PG S V +S+ P F+GF
Sbjct: 1 GSSEGYCSRILRAQGTRREGYTEFSLRVEGDPDFYKPGTSYRVTLSAAPPSYFRGFTLIA 60
Query: 79 FVQARVGDKP---VGQFTKSPSSKFYKVINCLGGSQNAATHIDAKAKSRVTLTWVAP 132
+ R GDK G F + + NC A T + ++R+ + W+AP
Sbjct: 61 LRENREGDKEEDHAGTFQIIDEEETQFMSNC----PVAVTESTPRRRTRIQVFWIAP 113
>pdb|2ZOT|A Chain A, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
pdb|2ZOT|B Chain B, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
pdb|2ZOT|C Chain C, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
pdb|2ZOT|D Chain D, Crystal Struture Of Human F-Spondin Reeler Domain
(Fragment 1)
Length = 172
Score = 30.0 bits (66), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 11/81 (13%)
Query: 59 PGGSISVVISSPPGLSFKGF----FVQARVGDKP---VGQFTKSPSSKFYKVINCLGGSQ 111
PG S V +S+ P F+GF + R GDK G F + + NC
Sbjct: 48 PGTSYRVTLSAAPPSYFRGFTLIALRENREGDKEEDHAGTFQIIDEEETQFMSNC----P 103
Query: 112 NAATHIDAKAKSRVTLTWVAP 132
A T + ++R+ + W+AP
Sbjct: 104 VAVTESTPRRRTRIQVFWIAP 124
>pdb|3COO|A Chain A, The Crystal Structure Of Reelin-N Domain Of F-Spondin
pdb|3COO|B Chain B, The Crystal Structure Of Reelin-N Domain Of F-Spondin
Length = 180
Score = 30.0 bits (66), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 11/81 (13%)
Query: 59 PGGSISVVISSPPGLSFKGF----FVQARVGDKP---VGQFTKSPSSKFYKVINCLGGSQ 111
PG S V +S+ P F+GF + R GDK G F + + NC
Sbjct: 52 PGTSYRVTLSAAPPSYFRGFTLIALRENREGDKEEDHAGTFQIIDEEETQFMSNC----P 107
Query: 112 NAATHIDAKAKSRVTLTWVAP 132
A T + ++R+ + W+AP
Sbjct: 108 VAVTESTPRRRTRIQVFWIAP 128
>pdb|2YK7|A Chain A, Structure Of Neisseria Los-Specific Sialyltransferase
(Nst), In Complex With Cmp-3f-Neu5ac
Length = 326
Score = 30.0 bits (66), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 70 PPGLSFKGFFVQARVGDKPVGQFTKSPSSKFYKVINCLGGSQNAATHIDA-KAKSRVTLT 128
P L F +Q +V ++ + Q P +FY V+ ++ + + K K+
Sbjct: 1 PVNLIFCYTILQMKVAERIMAQ---HPGERFYVVLMSENNNEKYDYYFNQIKDKAEWAYF 57
Query: 129 WVAPEDLNESVNFVATVAK 147
+ P LN+S NF+ T+A+
Sbjct: 58 FHLPYGLNKSFNFIPTMAE 76
>pdb|2YK6|A Chain A, Structure Of Neisseria Los-Specific Sialyltransferase
(Nst), In Complex With Cdp
Length = 326
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 70 PPGLSFKGFFVQARVGDKPVGQFTKSPSSKFYKVINCLGGSQNAATHIDA-KAKSRVTLT 128
P L F +Q +V ++ + Q P +FY V+ ++ + + K K+
Sbjct: 1 PVNLIFCYTILQMKVAERIMAQ---HPGERFYVVLMSENRNEKYDYYFNQIKDKAEWAYF 57
Query: 129 WVAPEDLNESVNFVATVAK 147
+ P LN+S NF+ T+A+
Sbjct: 58 FHLPYGLNKSFNFIPTMAE 76
>pdb|3PP2|A Chain A, Crystal Structure Of The Pleckstrin Homology Domain Of
Arhgap27
pdb|3PP2|B Chain B, Crystal Structure Of The Pleckstrin Homology Domain Of
Arhgap27
Length = 124
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 126 TLTWVAPEDLNESVNFVATVAKDGGEYWVGQQSEPV 161
TL+W AP+D + N + ++DG EY + SE +
Sbjct: 76 TLSW-APKDKSSRKNVLELRSRDGSEYLIQHDSEAI 110
>pdb|4EIS|A Chain A, Structural Basis For Substrate Targeting And Catalysis By
Fungal Polysaccharide Monooxygenases (Pmo-3)
Length = 225
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 104 INCLGGSQNAATHIDAKAKSRVTLTWVAPED--LNESVNFVATVAKDGGEYWVGQQSEPV 161
I C S A H A A S VTL W D + + ++A G + W S+ V
Sbjct: 50 IQCNADSAPAKLHASAAAGSTVTLRWTIWPDSHVGPVITYMARCPDTGCQDWTPSASDKV 109
>pdb|4EIS|B Chain B, Structural Basis For Substrate Targeting And Catalysis By
Fungal Polysaccharide Monooxygenases (Pmo-3)
Length = 225
Score = 26.6 bits (57), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 2/60 (3%)
Query: 104 INCLGGSQNAATHIDAKAKSRVTLTWVAPED--LNESVNFVATVAKDGGEYWVGQQSEPV 161
I C S A H A A S VTL W D + + ++A G + W S+ V
Sbjct: 50 IQCNADSAPAKLHASAAAGSTVTLRWTIWPDSHVGPVITYMARCPDTGCQDWTPSASDKV 109
>pdb|1T90|A Chain A, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|B Chain B, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|C Chain C, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
pdb|1T90|D Chain D, Crystal Structure Of Methylmalonate Semialdehyde
Dehydrogenase From Bacillus Subtilis
Length = 486
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 84 VGDKPVGQFTKSPSSKFYKVINCLGGSQNAATHI-DAKAKSRVT 126
VG KPVG++ S+ K + L G++N + DA + VT
Sbjct: 226 VGSKPVGEYVYKKGSENLKRVQSLTGAKNHTIVLNDANLEDTVT 269
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
0.314 0.129 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,973,144
Number of Sequences: 62578
Number of extensions: 192063
Number of successful extensions: 359
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 359
Number of HSP's gapped (non-prelim): 11
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)