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= 027633
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4APC|A Chain A, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
pdb|4APC|B Chain B, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
pdb|4B9D|A Chain A, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
With Inhibitor.
pdb|4B9D|B Chain B, Crystal Structure Of Human Nima-Related Kinase 1 (Nek1)
With Inhibitor
Length = 350
Score = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 35/72 (48%)
Query: 26 EDDDDVLYTASFQEKEDNFVQYQTAQWVLYSLLLILAWGIGLFMLLYLPVRRYILRKDIR 85
E++ + + E D F + + VL+ IL W + + + L R IL +DI+
Sbjct: 93 EENGSLYIVMDYCEGGDLFKRINAQKGVLFQEDQILDWFVQICLALKHVHDRKILHRDIK 152
Query: 86 SRKLFLTPNAIV 97
S+ +FLT + V
Sbjct: 153 SQNIFLTKDGTV 164
>pdb|1MGS|A Chain A, The Solution Structure Of Melanoma Growth Stimulating
Activity
pdb|1MGS|B Chain B, The Solution Structure Of Melanoma Growth Stimulating
Activity
Length = 73
Score = 28.9 bits (63), Expect = 2.2, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 28/54 (51%)
Query: 133 LQSLFGVYSLRIENVGVRRPPSDDVQIQGVANPSDFRKAVLTRLSNMTNEVFSR 186
LQ+L G++ I++V V+ P Q + +A + RKA L S + ++ +
Sbjct: 12 LQTLQGIHPKNIQSVNVKSPGPHCAQTEVIATLKNGRKACLNPASPIVKKIIEK 65
>pdb|1MSG|A Chain A, Solution Structure Of Gro(Slash)melanoma Growth
Stimulatory Activity Determined By 1h Nmr Spectroscopy
pdb|1MSG|B Chain B, Solution Structure Of Gro(Slash)melanoma Growth
Stimulatory Activity Determined By 1h Nmr Spectroscopy
pdb|1MSH|A Chain A, Solution Structure Of Gro(Slash)melanoma Growth
Stimulatory Activity Determined By 1h Nmr Spectroscopy
pdb|1MSH|B Chain B, Solution Structure Of Gro(Slash)melanoma Growth
Stimulatory Activity Determined By 1h Nmr Spectroscopy
Length = 72
Score = 28.9 bits (63), Expect = 2.2, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 28/54 (51%)
Query: 133 LQSLFGVYSLRIENVGVRRPPSDDVQIQGVANPSDFRKAVLTRLSNMTNEVFSR 186
LQ+L G++ I++V V+ P Q + +A + RKA L S + ++ +
Sbjct: 12 LQTLQGIHPKNIQSVNVKSPGPHCAQTEVIATLKNGRKACLNPASPIVKKIIEK 65
>pdb|3GNX|A Chain A, Structure Of Dehydrated D-Xylose Isomerase From
Streptomyces Rubiginosus
pdb|3GNX|E Chain E, Structure Of Dehydrated D-Xylose Isomerase From
Streptomyces Rubiginosus
Length = 387
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQTA--------QWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E++ +++ A +L + G F
Sbjct: 45 LGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFT 104
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 105 ANDRDVRRYALRKTIRNIDLAVELGAETY 133
>pdb|3KCO|A Chain A, Room Temperature Neutron Structure Of D-Xylose Isomerase
In Complex With Two Ni2+ Cations And D12-D-Glucose In
The Linear Form (Refined Jointly With X-Ray Structure
3kbn)
pdb|3KCJ|A Chain A, Room Temperature Neutron Structure Of Apo-D-Xylose
Isomerase (Refined Jointly With X-Ray Structure 3kbj)
Length = 388
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQTA--------QWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E++ +++ A +L + G F
Sbjct: 46 LGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFT 105
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 106 ANDRDVRRYALRKTIRNIDLAVELGAETY 134
>pdb|1O1H|A Chain A, Structure Of Glucose Isomerase Derivatized With Kr.
pdb|1O1H|B Chain B, Structure Of Glucose Isomerase Derivatized With Kr.
pdb|2G4J|A Chain A, Anomalous Substructure Of Glucose Isomerase
pdb|1XIS|A Chain A, A Metal-Mediated Hydride Shift Mechanism For Xylose
Isomerase Based On The 1.6 Angstroms Streptomyces
Rubiginosus Structures With Xylitol And D-Xylose
pdb|2XIS|A Chain A, A Metal-Mediated Hydride Shift Mechanism For Xylose
Isomerase Based On The 1.6 Angstroms Streptomyces
Rubiginosus Structures With Xylitol And D-Xylose
pdb|3XIS|A Chain A, A Metal-Mediated Hydride Shift Mechanism For Xylose
Isomerase Based On The 1.6 Angstroms Streptomyces
Rubiginosus Structures With Xylitol And D-Xylose
pdb|4XIS|A Chain A, A Metal-Mediated Hydride Shift Mechanism For Xylose
Isomerase Based On The 1.6 Angstroms Streptomyces
Rubiginosus Structures With Xylitol And D-Xylose
pdb|3N4A|A Chain A, Crystal Structure Of D-Xylose Isomerase In Complex With
S-1,2- Propandiol
Length = 387
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQTA--------QWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E++ +++ A +L + G F
Sbjct: 45 LGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFT 104
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 105 ANDRDVRRYALRKTIRNIDLAVELGAETY 133
>pdb|1OAD|A Chain A, Glucose Isomerase From Streptomyces Rubiginosus In P21212
Crystal Form
pdb|1OAD|B Chain B, Glucose Isomerase From Streptomyces Rubiginosus In P21212
Crystal Form
Length = 388
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQTA--------QWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E++ +++ A +L + G F
Sbjct: 46 LGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFT 105
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 106 ANDRDVRRYALRKTIRNIDLAVELGAETY 134
>pdb|1MNZ|A Chain A, Atomic Structure Of Glucose Isomerase
pdb|2GLK|A Chain A, High-Resolution Study Of D-Xylose Isomerase, 0.94a
Resolution.
pdb|2GUB|A Chain A, Crystal Structure Of Metal Free D-Xylose Isomerase.
pdb|2GVE|A Chain A, Time-Of-Flight Neutron Diffraction Structure Of D-Xylose
Isomerase
pdb|3CWH|A Chain A, D-Xylose Isomerase In Complex With Linear Product,
Per-Deuterated Xylulose
pdb|3KBM|A Chain A, Room Temperature X-Ray Structure Of D-Xylose Isomerase
Complexed With 2cd(2+) Co-Factors And
D12-D-Alpha-Glucose In The Cyclic Form
pdb|3KBN|A Chain A, Room Temperature Structure Of D-Xylose Isomerase In
Complex With 2ni(2+) Co-Factors And D12-D-Glucose In The
Linear Form
pdb|3KBS|A Chain A, Room Temperature X-Ray Structure Of D-Xylose Isomerase In
Complex With 2cd(2+) Co-Factors
pdb|3KBV|A Chain A, Room Temperature Structure Of D-Xylose Isomerase In
Complex With 2ni(2+) Co-Factors
pdb|3KBW|A Chain A, Room Temperature X-Ray Mixed-Metal Structure Of D-Xylose
Isomerase In Complex With Ni(2+) And Mg(2+) Co-Factors
pdb|3KBJ|A Chain A, Room Temperature X-Ray Structure Of Apo-D-Xylose Isomerase
pdb|3QYS|A Chain A, Room Temperature X-Ray Structure Of D-Xylose Isomerase In
Complex With 0.6ni2+ Cation Bound In M2 Metal Binding
Site At Ph5.8
pdb|3QZA|A Chain A, Joint Neutron And X-Ray Structure Of Apo-D-Xylose
Isomerase At Ph5.9
pdb|3U3H|A Chain A, X-Ray Crystallographic Analysis Of D-Xylose
Isomerase-Catalyzed Isomerization Of (R)-Glyceraldehyde
pdb|4A8I|A Chain A, Protein Crystallization And Microgravity: Glucose
Isomerase Crystals Grown During The Pcdf-Protein Mission
pdb|4A8L|A Chain A, Protein Crystallization And Microgravity: Glucose
Isomerase Crystals Grown During The Pcdf-Protein Mission
pdb|4A8R|A Chain A, Protein Crystallization And Microgravity: Glucose
Isomerase Crystals Grown During The Pcdf-Protein Mission
pdb|4A8N|A Chain A, Protein Crystallization And Microgravity: Glucose
Isomerase Crystals Grown During The Pcdf-Protein Mission
pdb|3KCL|A Chain A, Room Temperature Neutron Structure Of D-Xylose Isomerase
In Complex With Two Cd2+ Cations And D12-D-Alpha-Glucose
In The Ring Form (Refined Jointly With X-Ray Structure
3kbm)
pdb|4E3V|A Chain A, Crystal Structure Of Xylose Isomerase From Streptomyces
Rubiginosus Cryoprotected In Proline
pdb|4DUO|A Chain A, Room-Temperature X-Ray Structure Of D-Xylose Isomerase In
Complex With 2mg2+ Ions And Xylitol At Ph 7.7
pdb|4DVO|A Chain A, Room-Temperature Joint X-RayNEUTRON STRUCTURE OF D-Xylose
Isomerase In Complex With 2ni2+ And Per-Deuterated
D-Sorbitol At Ph 5.9
Length = 388
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQTA--------QWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E++ +++ A +L + G F
Sbjct: 46 LGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFT 105
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 106 ANDRDVRRYALRKTIRNIDLAVELGAETY 134
>pdb|1GW9|A Chain A, Tri-Iodide Derivative Of Xylose Isomerase From
Streptomyces Rubiginosus
pdb|1XIB|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|1XIC|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|1XID|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|1XIE|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|1XIF|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|1XIG|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-xylose Isomerase
pdb|1XIH|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-xylose Isomerase
pdb|1XII|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|1XIJ|A Chain A, Modes Of Binding Substrates And Their Analogues To The
Enzyme D-Xylose Isomerase
pdb|8XIA|A Chain A, X-Ray Analysis Of D-Xylose Isomerase At 1.9 Angstroms:
Native Enzyme In Complex With Substrate And With A
Mechanism-Designed Inactivator
pdb|9XIA|A Chain A, X-Ray Analysis Of D-Xylose Isomerase At 1.9 Angstroms:
Native Enzyme In Complex With Substrate And With A
Mechanism-Designed Inactivator
Length = 388
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQTA--------QWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E++ +++ A +L + G F
Sbjct: 46 LGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFT 105
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 106 ANDRDVRRYALRKTIRNIDLAVELGAETY 134
>pdb|1XYA|A Chain A, X-Ray Crystallographic Structures Of D-Xylose
Isomerase-Substrate Complexes Position The Substrate And
Provide Evidence For Metal Movement During Catalysis
pdb|1XYA|B Chain B, X-Ray Crystallographic Structures Of D-Xylose
Isomerase-Substrate Complexes Position The Substrate And
Provide Evidence For Metal Movement During Catalysis
pdb|1XYB|A Chain A, X-Ray Crystallographic Structures Of D-Xylose
Isomerase-Substrate Complexes Position The Substrate And
Provide Evidence For Metal Movement During Catalysis
pdb|1XYB|B Chain B, X-Ray Crystallographic Structures Of D-Xylose
Isomerase-Substrate Complexes Position The Substrate And
Provide Evidence For Metal Movement During Catalysis
pdb|1XYC|A Chain A, X-Ray Crystallographic Structures Of D-Xylose
Isomerase-Substrate Complexes Position The Substrate And
Provide Evidence For Metal Movement During Catalysis
pdb|1XYC|B Chain B, X-Ray Crystallographic Structures Of D-Xylose
Isomerase-Substrate Complexes Position The Substrate And
Provide Evidence For Metal Movement During Catalysis
pdb|2GYI|A Chain A, Design, Synthesis, And Characterization Of A Potent Xylose
Isomerase Inhibitor, D-Threonohydroxamic Acid, And
High-Resolution X-Ray Crystallographic Structure Of The
Enzyme-Inhibitor Complex
pdb|2GYI|B Chain B, Design, Synthesis, And Characterization Of A Potent Xylose
Isomerase Inhibitor, D-Threonohydroxamic Acid, And
High-Resolution X-Ray Crystallographic Structure Of The
Enzyme-Inhibitor Complex
Length = 386
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQ--------TAQWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E + +++ T +L + G F
Sbjct: 45 LGAHGVTFHDDDLIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTHPVFKDGGFT 104
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 105 ANDRDVRRYALRKTIRNIDLAVELGAKTY 133
>pdb|1S5N|A Chain A, Xylose Isomerase In Substrate And Inhibitor Michaelis
States: Atomic Resolution Studies Of A Metal-Mediated
Hydride Shift
Length = 386
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQ--------TAQWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E + +++ T +L + G F
Sbjct: 45 LGAHGVTFHDDDLIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTHPVFKDGGFT 104
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 105 ANDRDVRRYALRKTIRNIDLAVELGAKTY 133
>pdb|1XYL|A Chain A, The Role Of The Divalent Metal Ion In Sugar Binding, Ring
Opening, And Isomerization By D-Xylose Isomerase:
Replacement Of A Catalytic Metal By An Amino-Acid
pdb|1XYL|B Chain B, The Role Of The Divalent Metal Ion In Sugar Binding, Ring
Opening, And Isomerization By D-Xylose Isomerase:
Replacement Of A Catalytic Metal By An Amino-Acid
pdb|1XYM|A Chain A, The Role Of The Divalent Metal Ion In Sugar Binding, Ring
Opening, And Isomerization By D-Xylose Isomerase:
Replacement Of A Catalytic Metal By An Amino-Acid
pdb|1XYM|B Chain B, The Role Of The Divalent Metal Ion In Sugar Binding, Ring
Opening, And Isomerization By D-Xylose Isomerase:
Replacement Of A Catalytic Metal By An Amino-Acid
Length = 386
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQ--------TAQWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E + +++ T +L + G F
Sbjct: 45 LGAHGVTFHDDDLIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTHPVFKDGGFT 104
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 105 ANDRDVRRYALRKTIRNIDLAVELGAKTY 133
>pdb|1S5M|A Chain A, Xylose Isomerase In Substrate And Inhibitor Michaelis
States: Atomic Resolution Studies Of A Metal-Mediated
Hydride Shift
pdb|1MUW|A Chain A, The 0.86 Angstrom Structure Of Xylose Isomerase
Length = 386
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 18 LSDNGIEREDDDDVLYTASFQEKEDNFVQYQ--------TAQWVLYSLLLILAWGIGLFM 69
L +G+ DDD + + +S E+E + +++ T +L + G F
Sbjct: 45 LGAHGVTFHDDDLIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTHPVFKDGGFT 104
Query: 70 LLYLPVRRYILRKDIRSRKLFLTPNAIVY 98
VRRY LRK IR+ L + A Y
Sbjct: 105 ANDRDVRRYALRKTIRNIDLAVELGAKTY 133
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
0.320 0.138 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,706,105
Number of Sequences: 62578
Number of extensions: 225150
Number of successful extensions: 499
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 485
Number of HSP's gapped (non-prelim): 15
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)