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= 014178
(429 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PFE|A Chain A, Crystal Structure Of A M20a Metallo Peptidase (Dape,
Lpg0809) From Legionella Pneumophila Subsp. Pneumophila
Str. Philadelphia 1 At 1.50 A Resolution
Length = 472
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 12/78 (15%)
Query: 81 TANSVSDW---HKLLGLTVPVIRFLRRYPTLFHEFPHSRYANLPCFRLTDTALLLDSLEQ 137
N +++W H G T+ ++R R P LF E P ++ DT LL L++
Sbjct: 50 AVNHIANWCKSHAPKGXTLEIVRLKNRTPLLFXEIPG---------QIDDTVLLYGHLDK 100
Query: 138 KIHLTYENDTMERLCSVL 155
+ + +D + VL
Sbjct: 101 QPEXSGWSDDLHPWKPVL 118
>pdb|2VQU|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VQU|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
Length = 846
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 6 QNSILSVEKLLSLKRPHKVPSGAKANTLLQNRWITRVRLKWVKNRGLDHI 55
+N+ LS E +++ P K+P+ + N L +T V+ + G++HI
Sbjct: 211 ENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHI 260
>pdb|2JE8|A Chain A, Structure Of A Beta-Mannosidase From Bacteroides
Thetaiotaomicron
pdb|2JE8|B Chain B, Structure Of A Beta-Mannosidase From Bacteroides
Thetaiotaomicron
Length = 848
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 6 QNSILSVEKLLSLKRPHKVPSGAKANTLLQNRWITRVRLKWVKNRGLDHI 55
+N+ LS E +++ P K+P+ + N L +T V+ + G++HI
Sbjct: 213 ENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHI 262
>pdb|2WBK|A Chain A, Structure Of The Michaelis Complex Of Beta-Mannosidase,
Man2a, Provides Insight Into The Conformational
Itinerary Of Mannoside Hydrolysis
pdb|2WBK|B Chain B, Structure Of The Michaelis Complex Of Beta-Mannosidase,
Man2a, Provides Insight Into The Conformational
Itinerary Of Mannoside Hydrolysis
Length = 847
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 6 QNSILSVEKLLSLKRPHKVPSGAKANTLLQNRWITRVRLKWVKNRGLDHI 55
+N+ LS E +++ P K+P+ + N L +T V+ + G++HI
Sbjct: 211 ENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHI 260
>pdb|2VJX|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VJX|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VL4|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VL4|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VMF|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VMF|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VO5|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VO5|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VOT|A Chain A, Structural And Biochemical Evidence For A Boat-like
Transition State In Beta-mannosidases
pdb|2VOT|B Chain B, Structural And Biochemical Evidence For A Boat-like
Transition State In Beta-mannosidases
pdb|2VQT|A Chain A, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VQT|B Chain B, Structural And Biochemical Evidence For A Boat-Like
Transition State In Beta-Mannosidases
pdb|2VR4|A Chain A, Transition-state Mimicry In Mannoside Hydrolysis:
Characterisation Of Twenty Six Inhibitors And Insight
Into Binding From Linear Free Energy Relationships And
3-d Structure
pdb|2VR4|B Chain B, Transition-state Mimicry In Mannoside Hydrolysis:
Characterisation Of Twenty Six Inhibitors And Insight
Into Binding From Linear Free Energy Relationships And
3-d Structure
Length = 846
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 6 QNSILSVEKLLSLKRPHKVPSGAKANTLLQNRWITRVRLKWVKNRGLDHI 55
+N+ LS E +++ P K+P+ + N L +T V+ + G++HI
Sbjct: 211 ENARLSNELIVNQIVPQKIPAEVRVNVSLNGTTVTEVKQQVTLQPGINHI 260
>pdb|1ZED|A Chain A, Alkaline Phosphatase From Human Placenta In Complex With
P- Nitrophenyl-Phosphonate
Length = 484
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 91 LLGLTVPVIRFLRRYPTLFHEF------PHSRYANLPCFRLTDTALLLDSLEQKIHLTYE 144
L+ +T +R L R P F F H + + LT+T + D++E+ LT E
Sbjct: 288 LMEMTEAALRLLSRNPRGFFLFVEGGRIDHGHHESRAYRALTETIMFDDAIERAGQLTSE 347
Query: 145 NDTM 148
DT+
Sbjct: 348 EDTL 351
>pdb|3MK0|A Chain A, Refinement Of Placental Alkaline Phosphatase Complexed
With Nitrophenyl
pdb|3MK1|A Chain A, Refinement Of Placental Alkaline Phosphatase Complexed
With Nitrophenyl
pdb|3MK2|A Chain A, Placental Alkaline Phosphatase Complexed With Phe
pdb|2GLQ|A Chain A, X-Ray Structure Of Human Alkaline Phosphatase In Complex
With Strontium
pdb|1ZEF|A Chain A, Structure Of Alkaline Phosphatase From Human Placenta In
Complex With Its Uncompetitive Inhibitor L-Phe
pdb|1ZEB|A Chain A, X-ray Structure Of Alkaline Phosphatase From Human
Placenta In Complex With 5'-amp
Length = 484
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 91 LLGLTVPVIRFLRRYPTLFHEF------PHSRYANLPCFRLTDTALLLDSLEQKIHLTYE 144
L+ +T +R L R P F F H + + LT+T + D++E+ LT E
Sbjct: 288 LMEMTEAALRLLSRNPRGFFLFVEGGRIDHGHHESRAYRALTETIMFDDAIERAGQLTSE 347
Query: 145 NDTM 148
DT+
Sbjct: 348 EDTL 351
>pdb|1EW2|A Chain A, Crystal Structure Of A Human Phosphatase
Length = 513
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 6/64 (9%)
Query: 91 LLGLTVPVIRFLRRYPTLFHEF------PHSRYANLPCFRLTDTALLLDSLEQKIHLTYE 144
L+ +T +R L R P F F H + + LT+T + D++E+ LT E
Sbjct: 288 LMEMTEAALRLLSRNPRGFFLFVEGGRIDHGHHESRAYRALTETIMFDDAIERAGQLTSE 347
Query: 145 NDTM 148
DT+
Sbjct: 348 EDTL 351
>pdb|3UG9|A Chain A, Crystal Structure Of The Closed State Of Channelrhodopsin
Length = 333
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 35/75 (46%), Gaps = 15/75 (20%)
Query: 44 LKWVKNRGLDHIIDTDTDLKAACLLK------DAIKRSSTGFLTANSVSDWHKLLGLTVP 97
L W+K+ G T+ + AA +L+ A+ G+ T S W ++ T+
Sbjct: 53 LAWLKSNG------TNAEKLAANILQWITFALSALCLMFYGYQTWKSTCGWEEIYVATIE 106
Query: 98 VIRFLRRYPTLFHEF 112
+I+F+ Y FHEF
Sbjct: 107 MIKFIIEY---FHEF 118
>pdb|1XAP|A Chain A, Structure Of The Ligand Binding Domain Of The Retinoic
Acid Receptor Beta
pdb|4DM6|A Chain A, Crystal Structure Of Rarb Lbd Homodimer In Complex With
Ttnpb
pdb|4DM6|B Chain B, Crystal Structure Of Rarb Lbd Homodimer In Complex With
Ttnpb
pdb|4DM8|A Chain A, Crystal Structure Of Rarb Lbd In Complex With 9cis
Retinoic Acid
pdb|4DM8|B Chain B, Crystal Structure Of Rarb Lbd In Complex With 9cis
Retinoic Acid
Length = 267
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 132 LDSLEQKIHLTYENDTMERLCSVLMMMRTRTAPLQSLHSLKWDLGLPDNFEKILVPKFSD 191
LD L +KI ++ +T LC + +A H ++ DLGL D F ++
Sbjct: 30 LDDLTEKIRKAHQ-ETFPSLCQLGKYTTNSSAD----HRVRLDLGLWDKFSELATKCIIK 84
Query: 192 DFRFAKTSSGVAGLQLS 208
FAK G GL ++
Sbjct: 85 IVEFAKRLPGFTGLTIA 101
>pdb|1XDK|B Chain B, Crystal Structure Of The RarbetaRXRALPHA LIGAND BINDING
Domain Heterodimer In Complex With 9-Cis Retinoic Acid
And A Fragment Of The Trap220 Coactivator
pdb|1XDK|F Chain F, Crystal Structure Of The RarbetaRXRALPHA LIGAND BINDING
Domain Heterodimer In Complex With 9-Cis Retinoic Acid
And A Fragment Of The Trap220 Coactivator
Length = 303
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 132 LDSLEQKIHLTYENDTMERLCSVLMMMRTRTAPLQSLHSLKWDLGLPDNFEKILVPKFSD 191
LD L +KI ++ +T LC + +A H ++ DLGL D F ++
Sbjct: 32 LDDLTEKIRKAHQ-ETFPSLCQLGKYTTNSSAD----HRVRLDLGLWDKFSELATKCIIK 86
Query: 192 DFRFAKTSSGVAGLQLS 208
FAK G GL ++
Sbjct: 87 IVEFAKRLPGFTGLTIA 103
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
0.322 0.137 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,933,169
Number of Sequences: 62578
Number of extensions: 480283
Number of successful extensions: 893
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 888
Number of HSP's gapped (non-prelim): 12
length of query: 429
length of database: 14,973,337
effective HSP length: 102
effective length of query: 327
effective length of database: 8,590,381
effective search space: 2809054587
effective search space used: 2809054587
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: 53 (25.0 bits)