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= 036463
(119 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZS|S Chain S, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
Length = 167
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 34 TLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSEL 69
TL GA+ + + M +R V F C +IKT H +L
Sbjct: 100 TLNGAVEQMYTEMASRHRVRFPCIQIIKTATVHFKL 135
>pdb|3IZR|S Chain S, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 178
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 34 TLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSEL 69
TL GA+ + + M +R V F C +IKT H +L
Sbjct: 100 TLNGAVEQMYTEMASRHRVRFPCIQIIKTATVHFKL 135
>pdb|1YJK|A Chain A, Reduced Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) In A New Crystal Form
Length = 306
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 8 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 59
Query: 92 QL 93
L
Sbjct: 60 ML 61
>pdb|1YJL|A Chain A, Reduced Peptidylglycine Alpha-Hydroxylating
Monooxygenase In A New Crystal Form
Length = 306
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 8 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 59
Query: 92 QL 93
L
Sbjct: 60 ML 61
>pdb|1YIP|A Chain A, Oxidized Peptidylglycine Alpha-hydroxylating
Monooxygenase (phm) In A New Crystal Form
Length = 311
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 13 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 64
Query: 92 QL 93
L
Sbjct: 65 ML 66
>pdb|1YI9|A Chain A, Crystal Structure Analysis Of The Oxidized Form Of The
M314i Mutant Of Peptidylglycine Alpha-Hydroxylating
Monooxygenase
Length = 309
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 11 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 62
Query: 92 QL 93
L
Sbjct: 63 ML 64
>pdb|4E4Z|A Chain A, Oxidized (cu2+) Peptidylglycine Alpha-hydroxylating
Monooxygenase (phm) In Complex With Hydrogen Peroxide
(1.98 A)
Length = 312
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 13 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 64
Query: 92 QL 93
L
Sbjct: 65 ML 66
>pdb|1OPM|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Substrate
pdb|3PHM|A Chain A, Reduced (Cu+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm)
pdb|1PHM|A Chain A, Peptidylglycine Alpha-Hydroxylating Monooxygenase (Phm)
From Rat
Length = 310
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 13 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 64
Query: 92 QL 93
L
Sbjct: 65 ML 66
>pdb|1SDW|A Chain A, Reduced (Cu+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase With Bound Peptide And Dioxygen
pdb|3MIB|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Nitrite
pdb|3MIC|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Azide Obtained By
Co-Crystallization
pdb|3MID|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Azide Obtained By
Soaking (100mm Nan3)
pdb|3MIE|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Azide Obtained By
Soaking (50mm Nan3)
pdb|3MIF|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Carbon Monooxide (Co)
pdb|3MIG|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Nitrite, Obtained In The
Presence Of Substrate
pdb|3MIH|A Chain A, Oxidized (Cu2+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Azide, Obtained In The
Presence Of Substrate
pdb|3MLJ|A Chain A, Reduced (Cu+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Carbon Monooxide (Co)
pdb|3MLK|A Chain A, Reduced (Cu+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Nitrite
pdb|3MLL|A Chain A, Reduced (Cu+) Peptidylglycine Alpha-Hydroxylating
Monooxygenase (Phm) With Bound Azide
Length = 314
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 32 LDTLGGALSFLVSGMTARTTVIFFCFAVIKTVDDHSELWLPGNIFHLFFQNNTAYHDVHH 91
LD AL + G+T + + +FC ++ VD+ + F + F+ + VHH
Sbjct: 15 LDASDFALDIRMPGVTPKESDTYFCMSMRLPVDEEA--------FVIDFKPRASMDTVHH 66
Query: 92 QL 93
L
Sbjct: 67 ML 68
>pdb|1CLK|A Chain A, Crystal Structure Of Streptomyces Diastaticus No.7 Strain
M1033 Xylose Isomerase At 1.9 A Resolution With
Pseudo-I222 Space Group
Length = 387
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 16 PYAIGALYNHPLEGLLLDTLGGALSFL 42
P+AI N P +LL T+G AL+F+
Sbjct: 176 PFAIEPKPNEPRGDILLPTIGHALAFI 202
>pdb|1QT1|A Chain A, Crystal Structure Of Xylose Isomerase From Streptomyces
Diastaticus No.7 M1033 At 1.85 A Resolution
pdb|1QT1|B Chain B, Crystal Structure Of Xylose Isomerase From Streptomyces
Diastaticus No.7 M1033 At 1.85 A Resolution
Length = 387
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 16 PYAIGALYNHPLEGLLLDTLGGALSFL 42
P+AI N P +LL T+G AL+F+
Sbjct: 176 PFAIEPKPNEPRGDILLPTIGHALAFI 202
>pdb|4B91|A Chain A, Crystal Structure Of Truncated Human Crmp-5
pdb|4B91|B Chain B, Crystal Structure Of Truncated Human Crmp-5
pdb|4B92|A Chain A, Crystal Structure Of Truncated Human Crmp-5 Soaked With
Zn
pdb|4B92|B Chain B, Crystal Structure Of Truncated Human Crmp-5 Soaked With
Zn
Length = 484
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 5/40 (12%)
Query: 61 KTVDDHSELWLPGNI-----FHLFFQNNTAYHDVHHQLKG 95
K +D +L +PG I FH F N T D +H K
Sbjct: 50 KVIDATGKLVIPGGIDTSTHFHQTFMNATCVDDFYHGTKA 89
>pdb|4B90|A Chain A, Crystal Structure Of Wt Human Crmp-5
pdb|4B90|B Chain B, Crystal Structure Of Wt Human Crmp-5
Length = 586
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 5/40 (12%)
Query: 61 KTVDDHSELWLPGNI-----FHLFFQNNTAYHDVHHQLKG 95
K +D +L +PG I FH F N T D +H K
Sbjct: 71 KVIDATGKLVIPGGIDTSTHFHQTFMNATCVDDFYHGTKA 110
>pdb|1CE1|H Chain H, 1.9a Structure Of The Therapeutic Antibody Campath-1h
Fab In Complex With A Synthetic Peptide Antigen
Length = 220
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 23 YNHPLEG---LLLDTLGGALSFLVSGMTARTTVIFFC 56
YN ++G +L+DT S +S +TA T +++C
Sbjct: 62 YNPSVKGRVTMLVDTSKNQFSLRLSSVTAADTAVYYC 98
>pdb|1BEY|H Chain H, Antibody To Campath-1h Humanized Fab
Length = 219
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 23 YNHPLEG---LLLDTLGGALSFLVSGMTARTTVIFFC 56
YN ++G +L+DT S +S +TA T +++C
Sbjct: 62 YNPSVKGRVTMLVDTSKNQFSLRLSSVTAADTAVYYC 98
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
0.330 0.144 0.466
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,929,341
Number of Sequences: 62578
Number of extensions: 143584
Number of successful extensions: 401
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 396
Number of HSP's gapped (non-prelim): 20
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)