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= 031911
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|BB Chain b, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 147
Score = 229 bits (584), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 113/147 (76%), Positives = 127/147 (86%), Gaps = 1/147 (0%)
Query: 1 MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
MATVP LIWEIVKKNNCFLVKQFG NA V+F+KEPNNLYN++S+KHSGLAN+KTVTIQ
Sbjct: 1 MATVPEPLIWEIVKKNNCFLVKQFGNSNAKVQFTKEPNNLYNVHSYKHSGLANKKTVTIQ 60
Query: 61 PGG-KDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAAL 119
P G KD +VVL+T KTKKQN PA L HKS MRKEF +MAKAV NQV+DNYYRPDL K AL
Sbjct: 61 PSGVKDAAVVLSTTKTKKQNAPAKLYHKSVMRKEFRKMAKAVKNQVSDNYYRPDLTKPAL 120
Query: 120 ARLSAVNRSLKVSKSGVKKRNRQATKV 146
ARLS+V RSL+VSKSG KK+NRQ TK+
Sbjct: 121 ARLSSVYRSLQVSKSGAKKKNRQPTKL 147
>pdb|4A18|O Chain O, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|O Chain O, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|O Chain O, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|O Chain O, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 134
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 63/124 (50%), Gaps = 11/124 (8%)
Query: 7 QLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKD- 65
QL+WEIVK NN FLVK N V F+ +P ++ N+ G +R V ++ G K
Sbjct: 3 QLVWEIVKNNNAFLVK-----NNGVAFTTDPFSVTGRNTQVGLGFTHRHGVALKGGAKQA 57
Query: 66 LSVVLATAKTKKQNKPASLLHKS-TMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSA 124
++ L ++ K K ++ ++ T++ R+AK + + + LK+ AL +L
Sbjct: 58 IATSLRKNQSHKVKKTGTIEAETLTVKGGVQRVAKVIRGR----FQSKGLKQFALKKLVN 113
Query: 125 VNRS 128
+R+
Sbjct: 114 FHRA 117
>pdb|3FCR|A Chain A, Crystal Structure Of Putative Aminotransferase
(Yp_614685.1) From Silicibacter Sp. Tm1040 At 1.80 A
Resolution
Length = 459
Score = 28.1 bits (61), Expect = 1.9, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 107 DNYYRPDLKKAALARLSAVNRSLKVSKSGVKKRNRQATKV 146
DN++ P A AR + NR +K + SGV +R TK+
Sbjct: 14 DNFFHPSTHLAQHARGESANRVIKTA-SGVFIEDRDGTKL 52
>pdb|3T6C|A Chain A, Crystal Structure Of An Enolase From Pantoea Ananatis (Efi
Target Efi- 501676) With Bound D-Gluconate And Mg
pdb|3T6C|B Chain B, Crystal Structure Of An Enolase From Pantoea Ananatis (Efi
Target Efi- 501676) With Bound D-Gluconate And Mg
Length = 440
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 45/106 (42%), Gaps = 13/106 (12%)
Query: 28 NASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASL-LH 86
++ V+ E NLY + + + N KT+ PGG DL VV + N+P L
Sbjct: 8 SSGVDLGTE--NLYFQSMMSNLFITNVKTILTAPGGIDLVVV-----KIETNEPGLYGLG 60
Query: 87 KSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVS 132
+T + + A+ D Y P L AR+ + +S VS
Sbjct: 61 CATFTQRIYAVQSAI-----DEYLAPFLIGKDPARIEDIWQSAAVS 101
>pdb|2O2C|A Chain A, Crystal Structure Of Phosphoglucose Isomerase From T.
Brucei Containing Glucose-6-Phosphate In The Active Site
pdb|2O2C|B Chain B, Crystal Structure Of Phosphoglucose Isomerase From T.
Brucei Containing Glucose-6-Phosphate In The Active Site
pdb|2O2C|C Chain C, Crystal Structure Of Phosphoglucose Isomerase From T.
Brucei Containing Glucose-6-Phosphate In The Active Site
pdb|2O2D|A Chain A, Crystal Structure Of Phosphoglucose Isomerase From
Trypanosoma Brucei Complexed With Citrate
pdb|2O2D|B Chain B, Crystal Structure Of Phosphoglucose Isomerase From
Trypanosoma Brucei Complexed With Citrate
pdb|2O2D|C Chain C, Crystal Structure Of Phosphoglucose Isomerase From
Trypanosoma Brucei Complexed With Citrate
Length = 613
Score = 27.3 bits (59), Expect = 3.6, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 48 HSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLH 86
H+G A R V I GG DL V+AT K ++ LH
Sbjct: 192 HTGKAIRHVVNIGIGGSDLGPVMATEALKPFSQRDLSLH 230
>pdb|3TW9|A Chain A, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109
pdb|3TW9|B Chain B, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109
pdb|3TW9|C Chain C, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109
pdb|3TW9|D Chain D, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109
pdb|3TWA|A Chain A, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Glycerol
pdb|3TWA|B Chain B, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Glycerol
pdb|3TWA|C Chain C, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Glycerol
pdb|3TWA|D Chain D, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Glycerol
pdb|3TWA|E Chain E, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Glycerol
pdb|3TWB|A Chain A, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Gluconic Acid
pdb|3TWB|B Chain B, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Gluconic Acid
pdb|3TWB|C Chain C, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Gluconic Acid
pdb|3TWB|D Chain D, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Gluconic Acid
pdb|3TWB|E Chain E, Crystal Structure Of Gluconate Dehydratase (Target
Efi-501679) From Salmonella Enterica Subsp. Enterica
Serovar Enteritidis Str. P125109 Complexed With
Magnesium And Gluconic Acid
Length = 442
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 28 NASVEFSKEPNNLYNLNSFKHSGL--ANRKTVTIQPGGKDLSVV 69
++ V+ E NLY + K S L N KT+ PGG DL+VV
Sbjct: 8 SSGVDLGTE--NLYFQSMMKVSNLKITNVKTILTAPGGIDLAVV 49
>pdb|4IHC|A Chain A, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|B Chain B, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|C Chain C, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|D Chain D, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|E Chain E, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|F Chain F, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|G Chain G, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
pdb|4IHC|H Chain H, Crystal Structure Of Probable Mannonate Dehydratase
Dd703_0947 (target Efi-502222) From Dickeya Dadantii
Ech703
Length = 440
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 28 NASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVV 69
++ V+ E NLY + + N KT+ PGG DL+VV
Sbjct: 8 SSGVDLGTE--NLYFQSMMSKLKITNVKTILTAPGGIDLAVV 47
>pdb|2QZI|A Chain A, The Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Thermophilus Lmg 18311.
pdb|2QZI|B Chain B, The Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Thermophilus Lmg 18311.
pdb|2QZI|C Chain C, The Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Thermophilus Lmg 18311.
pdb|2QZI|D Chain D, The Crystal Structure Of A Conserved Protein Of Unknown
Function From Streptococcus Thermophilus Lmg 18311
Length = 103
Score = 26.2 bits (56), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 17 NCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRK 55
+ FLV+ + GN V F++ P + L S KH + + +
Sbjct: 25 DAFLVETYSAGNTDVVFTQAPKHYELLISNKHRAVKDNE 63
>pdb|3VD6|C Chain C, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P21 Crystal Form
pdb|3VEK|C Chain C, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P1 Crystal Form
pdb|3VEK|F Chain F, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P1 Crystal Form
Length = 119
Score = 25.8 bits (55), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 121 RLSAVNRSLKVSKSGVKKRNRQAT 144
+L VNR L + K G++ RNR+A+
Sbjct: 88 KLHQVNRPLTMRKDGIQTRNRKAS 111
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 0.127 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,001,948
Number of Sequences: 62578
Number of extensions: 140572
Number of successful extensions: 466
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 23
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)