BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15645996|ref|NP_208177.1| D-ribulose-5-phosphate 3
epimerase (rpe) [Helicobacter pylori 26695]
(217 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1RPX|A Chain A, D-Ribulose-5-Phosphate 3-Epimerase From... 173 2e-44
pdb|1QAP|A Chain A, Quinolinic Acid Phosphoribosyltransfera... 32 0.073
pdb|1CPC|B Chain B, C-Phycocyanin 27 1.8
pdb|1CPC|L Chain L, C-Phycocyanin 27 1.8
pdb|1F6F|A Chain A, Crystal Structure Of The Ternary Comple... 27 2.4
pdb|1PKL|G Chain G, The Structure Of Leishmania Pyruvate Ki... 27 2.4
pdb|1B8D|B Chain B, Crystal Structure Of A Phycourobilin-Co... 26 3.1
pdb|1QMD|A Chain A, Calcium Bound Closed Form Alpha-Toxin F... 26 3.1
pdb|1GYG|A Chain A, R32 Closed Form Of Alpha-Toxin From Clo... 26 3.1
pdb|3PMG|A Chain A, Phosphoglucomutase Mol_id: 1; Molecule:... 25 5.3
pdb|1RPM|A Chain A, Human Receptor Protein Tyrosine Phospha... 25 5.3
pdb|1I7Y|B Chain B, Crystal Structure Of C-Phycocyanin Of S... 25 5.3
pdb|1KTP|B Chain B, Crystal Structure Of C-Phycocyanin Of S... 25 6.9
pdb|1QF6|A Chain A, Structure Of E. Coli Threonyl-Trna Synt... 25 9.0
pdb|1LIA|B Chain B, Crystal Structure Of R-Phycoerythrin Fr... 25 9.0
pdb|1KOG|A Chain A, Crystal Structure Of E. Coli Threonyl-T... 25 9.0
pdb|1F99|B Chain B, Crystal Structure Of R-Phycocyanin From... 25 9.0
pdb|1I6H|B Chain B, Rna Polymerase Ii Elongation Complex >g... 25 9.0
>pdb|1RPX|A Chain A, D-Ribulose-5-Phosphate 3-Epimerase From Solanum Tuberosum
Chloroplasts
pdb|1RPX|B Chain B, D-Ribulose-5-Phosphate 3-Epimerase From Solanum Tuberosum
Chloroplasts
pdb|1RPX|C Chain C, D-Ribulose-5-Phosphate 3-Epimerase From Solanum Tuberosum
Chloroplasts
Length = 230
Score = 173 bits (438), Expect = 2e-44
Identities = 86/216 (39%), Positives = 144/216 (65%), Gaps = 4/216 (1%)
Query: 3 VAPSLLSADFMHLAKEIESVSNA--DFLHVDVMDGHYVPNLTMGPVVLENVTQMSQVPLD 60
V+PS+LSA+F L ++++++ A D++HVDVMDG +VPN+T+GP+V++++ ++ +PLD
Sbjct: 13 VSPSILSANFSKLGEQVKAIEQAGCDWIHVDVMDGRFVPNITIGPLVVDSLRPITDLPLD 72
Query: 61 VHLMVENASFFAELFAPLKPQIISIHAENEK--HPHRVLQLIKNLGITPGIVLNPHTHEE 118
VHLM+ F I+S+H E H HR + IK+LG G+VLNP T
Sbjct: 73 VHLMIVEPDQRVPDFIKAGADIVSVHCEQSSTIHLHRTINQIKSLGAKAGVVLNPGTPLT 132
Query: 119 SIKYLLESVGLVLLMSVNPGFGGQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGVNDKN 178
+I+Y+L++V LVL+MSVNPGFGGQ F++ ++K ++++ + +EVDGGV KN
Sbjct: 133 AIEYVLDAVDLVLIMSVNPGFGGQSFIESQVKKISDLRKICAERGLNPWIEVDGGVGPKN 192
Query: 179 IFELQQAGVDVVVSGSYIFKSKDRKLAIEGLQNVRQ 214
+++ +AG + +V+GS +F + D AI+G++ ++
Sbjct: 193 AYKVIEAGANALVAGSAVFGAPDYAEAIKGIKTSKR 228
>pdb|1QAP|A Chain A, Quinolinic Acid Phosphoribosyltransferase With Bound
Quinolinic Acid
pdb|1QAP|B Chain B, Quinolinic Acid Phosphoribosyltransferase With Bound
Quinolinic Acid
Length = 296
Score = 31.6 bits (70), Expect = 0.073
Identities = 14/41 (34%), Positives = 23/41 (55%)
Query: 154 KVKELIKRYNPSCLLEVDGGVNDKNIFELQQAGVDVVVSGS 194
+++E +KR N LEV G V + + E + GVD + G+
Sbjct: 241 QMREAVKRVNGQARLEVSGNVTAETLREFAETGVDFISVGA 281
>pdb|1CPC|B Chain B, C-Phycocyanin
Length = 172
Score = 26.9 bits (58), Expect = 1.8
Identities = 22/77 (28%), Positives = 35/77 (44%), Gaps = 5/77 (6%)
Query: 140 GGQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGV-NDKNIFELQQAGVDVVVSGSYIF- 197
GG + + CL+ E+I RY + D V +D+ + L++ + + GS +
Sbjct: 70 GGNAYTSRRMAACLRDMEIILRYVTYAIFAGDASVLDDRCLNGLKETYLALGTPGSSVAV 129
Query: 198 ---KSKDRKLAIEGLQN 211
K KD LAI G N
Sbjct: 130 GVQKMKDAALAIAGDTN 146
>pdb|1CPC|L Chain L, C-Phycocyanin
Length = 172
Score = 26.9 bits (58), Expect = 1.8
Identities = 22/77 (28%), Positives = 35/77 (44%), Gaps = 5/77 (6%)
Query: 140 GGQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGV-NDKNIFELQQAGVDVVVSGSYIF- 197
GG + + CL+ E+I RY + D V +D+ + L++ + + GS +
Sbjct: 70 GGNAYTSRRMAACLRDMEIILRYVTYAIFAGDASVLDDRCLNGLKETYLALGTPGSSVAV 129
Query: 198 ---KSKDRKLAIEGLQN 211
K KD LAI G N
Sbjct: 130 GVQKMKDAALAIAGDTN 146
>pdb|1F6F|A Chain A, Crystal Structure Of The Ternary Complex Between Ovine
Placental Lactogen And The Extracellular Domain Of The
Rat Prolactin Receptor
Length = 199
Score = 26.6 bits (57), Expect = 2.4
Identities = 14/54 (25%), Positives = 28/54 (50%), Gaps = 1/54 (1%)
Query: 85 IHAENEKHPHRVLQLIKNLGITPGIVLNPHTHEESIKYLLESVGLVLLMSVNPG 138
+H+ +E H V +L + G +P ++ +E K L++ V V+ ++PG
Sbjct: 90 LHSWDEPLHHAVTELANSKGTSPALLTKAQEIKEKAKVLVDGVE-VIQKRIHPG 142
>pdb|1PKL|G Chain G, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|D Chain D, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|E Chain E, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|C Chain C, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|H Chain H, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|A Chain A, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|F Chain F, The Structure Of Leishmania Pyruvate Kinase
pdb|1PKL|B Chain B, The Structure Of Leishmania Pyruvate Kinase
Length = 499
Score = 26.6 bits (57), Expect = 2.4
Identities = 19/80 (23%), Positives = 36/80 (44%), Gaps = 4/80 (5%)
Query: 91 KHPHRVLQLIKNLGITPGIVLNPHTHEESIKYL----LESVGLVLLMSVNPGFGGQKFLD 146
K+P+ V+Q + + + LN + SIK L + + V +VN + +
Sbjct: 338 KYPNEVVQYMARICLEAQSALNEYVFFNSIKKLQHIPMSADEAVCSSAVNSVYETKAKAM 397
Query: 147 LVLEKCLKVKELIKRYNPSC 166
+VL + L+ +Y P+C
Sbjct: 398 VVLSNTGRSARLVAKYRPNC 417
>pdb|1B8D|B Chain B, Crystal Structure Of A Phycourobilin-Containing
Phycoerythrin
pdb|1B8D|L Chain L, Crystal Structure Of A Phycourobilin-Containing
Phycoerythrin
Length = 177
Score = 26.2 bits (56), Expect = 3.1
Identities = 18/68 (26%), Positives = 32/68 (46%), Gaps = 9/68 (13%)
Query: 118 ESIKYLLESVGLVLLMSV------NPGF---GGQKFLDLVLEKCLKVKELIKRYNPSCLL 168
+++ Y++ + ++ +V NPG GG + + + CL+ E+I RY LL
Sbjct: 39 DAVNYIVSNASCIVSDAVSGMICENPGLIAPGGXCYTNRRMAACLRDGEIILRYVSYALL 98
Query: 169 EVDGGVND 176
D V D
Sbjct: 99 AGDSSVLD 106
>pdb|1QMD|A Chain A, Calcium Bound Closed Form Alpha-Toxin From Clostridium
Perfringens
pdb|1QMD|B Chain B, Calcium Bound Closed Form Alpha-Toxin From Clostridium
Perfringens
pdb|1QM6|A Chain A, R32 Form Of Clostridium Perfringens Alpha-Toxin Strain
pdb|1QM6|B Chain B, R32 Form Of Clostridium Perfringens Alpha-Toxin Strain
Length = 370
Score = 26.2 bits (56), Expect = 3.1
Identities = 22/72 (30%), Positives = 31/72 (42%), Gaps = 16/72 (22%)
Query: 155 VKELIKRYNPSCLLEVDGGVNDKNIF------------ELQQAGVDVVVSG--SYIFKSK 200
VKEL+ + S E D G +D F E+ G D + +Y FK K
Sbjct: 255 VKELVAYISTSG--EKDAGTDDYMYFGIKTKDGKTQEWEMDNPGNDFMTGSKDTYTFKLK 312
Query: 201 DRKLAIEGLQNV 212
D L I+ +QN+
Sbjct: 313 DENLKIDDIQNM 324
>pdb|1GYG|A Chain A, R32 Closed Form Of Alpha-Toxin From Clostridium
Perfringens Strain Cer89l43
pdb|1GYG|B Chain B, R32 Closed Form Of Alpha-Toxin From Clostridium
Perfringens Strain Cer89l43
pdb|1CA1| Alpha-Toxin From Clostridium Perfringens
Length = 370
Score = 26.2 bits (56), Expect = 3.1
Identities = 22/72 (30%), Positives = 31/72 (42%), Gaps = 16/72 (22%)
Query: 155 VKELIKRYNPSCLLEVDGGVNDKNIF------------ELQQAGVDVVVSG--SYIFKSK 200
VKEL+ + S E D G +D F E+ G D + +Y FK K
Sbjct: 255 VKELVAYISTSG--EKDAGTDDYMYFGIKTKDGKTQEWEMDNPGNDFMTGSKDTYTFKLK 312
Query: 201 DRKLAIEGLQNV 212
D L I+ +QN+
Sbjct: 313 DENLKIDDIQNM 324
>pdb|3PMG|A Chain A, Phosphoglucomutase Mol_id: 1; Molecule:
Alpha-D-Glucose-1,6-Bisphosphate; Chain: A, B; Synonym:
Phosphoglucomutase; Ec: 5.4.2.2; Heterogen: Mg
pdb|3PMG|B Chain B, Phosphoglucomutase Mol_id: 1; Molecule:
Alpha-D-Glucose-1,6-Bisphosphate; Chain: A, B; Synonym:
Phosphoglucomutase; Ec: 5.4.2.2; Heterogen: Mg
pdb|1LXT|A Chain A, Structure Of Phosphotransferase Phosphoglucomutase From
Rabbit
pdb|1LXT|B Chain B, Structure Of Phosphotransferase Phosphoglucomutase From
Rabbit
pdb|1C47|A Chain A, Binding Driven Structural Changes In Crystaline
Phosphoglucomutase Associated With Chemical Reaction
pdb|1C47|B Chain B, Binding Driven Structural Changes In Crystaline
Phosphoglucomutase Associated With Chemical Reaction
pdb|1C4G|A Chain A, Phosphoglucomutase Vanadate Based Transition State Analog
Complex
pdb|1C4G|B Chain B, Phosphoglucomutase Vanadate Based Transition State Analog
Complex
Length = 561
Score = 25.4 bits (54), Expect = 5.3
Identities = 20/68 (29%), Positives = 32/68 (46%), Gaps = 12/68 (17%)
Query: 128 GLVLLMSVNPG-----FG-------GQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGVN 175
G++L S NPG FG G + + +K ++ + I+ Y L+VD GV
Sbjct: 110 GIILTASHNPGGPNGDFGIKFNISNGGPAPEAITDKIFQISKTIEEYAICPDLKVDLGVL 169
Query: 176 DKNIFELQ 183
K F+L+
Sbjct: 170 GKQQFDLE 177
>pdb|1RPM|A Chain A, Human Receptor Protein Tyrosine Phosphatase Mu, Domain 1
pdb|1RPM|B Chain B, Human Receptor Protein Tyrosine Phosphatase Mu, Domain 1
Length = 278
Score = 25.4 bits (54), Expect = 5.3
Identities = 11/31 (35%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 19 IESVSNADFLHVDVMDGHYVPN---LTMGPV 46
IE +N+D+++ + +DG++ PN T GP+
Sbjct: 67 IEGDTNSDYINGNYIDGYHRPNHYIATQGPM 97
>pdb|1I7Y|B Chain B, Crystal Structure Of C-Phycocyanin Of Synechococcus
Vulcanus At 2.5 Angstroms
Length = 172
Score = 25.4 bits (54), Expect = 5.3
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 140 GGQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGVND----KNIFELQQA----GVDVVV 191
GG + + + CL+ E+I RY +L D V D + E QA G V V
Sbjct: 70 GGNAYTNRRMAACLRDMEIILRYVTYAILAGDSSVLDDRCLNGLRETYQALGTPGSSVAV 129
Query: 192 SGSYIFKSKDRKLAI 206
+ I K KD +AI
Sbjct: 130 A---IQKMKDAAIAI 141
>pdb|1KTP|B Chain B, Crystal Structure Of C-Phycocyanin Of Synechococcus
Vulcanus At 1.6 Angstroms
Length = 172
Score = 25.0 bits (53), Expect = 6.9
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 140 GGQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGVND----KNIFELQQA----GVDVVV 191
GG + + + CL+ E+I RY +L D V D + E QA G V V
Sbjct: 70 GGXAYTNRRMAACLRDMEIILRYVTYAILAGDSSVLDDRCLNGLRETYQALGTPGSSVAV 129
Query: 192 SGSYIFKSKDRKLAI 206
+ I K KD +AI
Sbjct: 130 A---IQKMKDAAIAI 141
>pdb|1QF6|A Chain A, Structure Of E. Coli Threonyl-Trna Synthetase Complexed
With Its Cognate Trna
Length = 642
Score = 24.6 bits (52), Expect = 9.0
Identities = 13/43 (30%), Positives = 22/43 (50%)
Query: 63 LMVENASFFAELFAPLKPQIISIHAENEKHPHRVLQLIKNLGI 105
L E A FF AP++ I++I ++ + + Q + N GI
Sbjct: 525 LTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGI 567
>pdb|1LIA|B Chain B, Crystal Structure Of R-Phycoerythrin From Polysiphonia At
2.8 A Resolution
pdb|1LIA|L Chain L, Crystal Structure Of R-Phycoerythrin From Polysiphonia At
2.8 A Resolution
Length = 177
Score = 24.6 bits (52), Expect = 9.0
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 9/66 (13%)
Query: 118 ESIKYLLESVGLVL------LMSVNPGF---GGQKFLDLVLEKCLKVKELIKRYNPSCLL 168
+++ Y++ + ++ ++ NPG GG + + + CL+ E+I RY LL
Sbjct: 39 DAVNYIVSNSSCIVSDAISGMICENPGLITPGGNCYTNRRMAACLRDGEIILRYVSYALL 98
Query: 169 EVDGGV 174
D V
Sbjct: 99 AGDASV 104
>pdb|1KOG|A Chain A, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|B Chain B, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|C Chain C, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|D Chain D, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|E Chain E, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|F Chain F, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|G Chain G, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1KOG|H Chain H, Crystal Structure Of E. Coli Threonyl-Trna Synthetase
Interacting With The Essential Domain Of Its Mrna
Operator
pdb|1EVK|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With The Ligand Threonine
pdb|1EVK|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With The Ligand Threonine
pdb|1EVL|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1EVL|C Chain C, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1FYF|B Chain B, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase Complexed With A Seryl Adenylate Analog
pdb|1EVL|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
pdb|1FYF|A Chain A, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase Complexed With A Seryl Adenylate Analog
pdb|1EVL|D Chain D, Crystal Structure Of A Truncated Form Of Threonyl-Trna
Synthetase With A Threonyl Adenylate Analog
Length = 401
Score = 24.6 bits (52), Expect = 9.0
Identities = 13/43 (30%), Positives = 22/43 (50%)
Query: 63 LMVENASFFAELFAPLKPQIISIHAENEKHPHRVLQLIKNLGI 105
L E A FF AP++ I++I ++ + + Q + N GI
Sbjct: 284 LTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGI 326
>pdb|1F99|B Chain B, Crystal Structure Of R-Phycocyanin From Polysiphonia At
2.4 A Resolution
pdb|1F99|L Chain L, Crystal Structure Of R-Phycocyanin From Polysiphonia At
2.4 A Resolution
pdb|1F99|N Chain N, Crystal Structure Of R-Phycocyanin From Polysiphonia At
2.4 A Resolution
Length = 172
Score = 24.6 bits (52), Expect = 9.0
Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 11/75 (14%)
Query: 140 GGQKFLDLVLEKCLKVKELIKRYNPSCLLEVDGGVND----KNIFELQQA----GVDVVV 191
GG + + CL+ E++ RY ++ D V D + E QA G V V
Sbjct: 70 GGNAYTSRRMAACLRDMEIVLRYVSYAMIAGDASVLDDRCLNGLRETYQALGTPGASVAV 129
Query: 192 SGSYIFKSKDRKLAI 206
+ I K KD LA+
Sbjct: 130 A---IQKMKDAALAL 141
>pdb|1I6H|B Chain B, Rna Polymerase Ii Elongation Complex
pdb|1I50|B Chain B, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I3Q|B Chain B, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1K83|B Chain B, Crystal Structure Of Yeast Rna Polymerase Ii Complexed With
The Inhibitor Alpha Amanitin
Length = 1224
Score = 24.6 bits (52), Expect = 9.0
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 104 GITPGIVLNPHT--HEESIKYLLES-VGLVLLMSVNPGFGGQKFLDLVLEKCLKV 155
GI P +++NPH ++ +L+E + V +S N G F D+ +E K+
Sbjct: 1005 GIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEG-DASPFTDITVEGISKL 1058
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.320 0.138 0.390
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,196,071
Number of Sequences: 13198
Number of extensions: 47353
Number of successful extensions: 126
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 118
Number of HSP's gapped (non-prelim): 19
length of query: 217
length of database: 2,899,336
effective HSP length: 85
effective length of query: 132
effective length of database: 1,777,506
effective search space: 234630792
effective search space used: 234630792
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: 52 (24.6 bits)