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= 027215
(226 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SMV|A Chain A, X-Ray Crystal Structure Of L-Azetidine-2-Carboxylate
Hydrolase
Length = 240
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 133 NRPPEKRQRVPSAYN---RFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 181
N P++ + + Y R + D I + PD + RE F + KNW FP
Sbjct: 51 NESPQQTETPGALYQDILRAVYDRIAKEWGLEPDAAEREEFGTSVKNWPAFP 102
>pdb|3KH1|A Chain A, Crystal Structure Of Predicted Metal-Dependent
Phosphohydrolase (Zp_00055740.2) From Magnetospirillum
Magnetotacticum Ms-1 At 1.37 A Resolution
pdb|3KH1|B Chain B, Crystal Structure Of Predicted Metal-Dependent
Phosphohydrolase (Zp_00055740.2) From Magnetospirillum
Magnetotacticum Ms-1 At 1.37 A Resolution
Length = 200
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 35/77 (45%), Gaps = 16/77 (20%)
Query: 144 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQ 203
A + FI DE AGN D RE +AA FGL+P DQ + +++ Q+
Sbjct: 81 DAGDTFIHDE-----AGNEDKEERERKAAARL---------FGLLPPDQAAEYSALWQEY 126
Query: 204 EGEDAMIKDGFFAPAAN 220
E + D FA A +
Sbjct: 127 EARETA--DARFADALD 141
>pdb|3SNH|A Chain A, Crystal Structure Of Nucleotide-Free Human Dynamin1
Length = 743
Score = 30.0 bits (66), Expect = 1.2, Method: Composition-based stats.
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 95 IRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDE- 153
I VP N+ + +P V+ + +VD + K PV ++PP+ ++ +F+ E
Sbjct: 112 ISPVPINLRVYSP------HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKEN 165
Query: 154 --IQRIKAGNPDISHREAFSAAAK 175
I + N D+++ +A A +
Sbjct: 166 CLILAVSPANSDLANSDALKVAKE 189
>pdb|3ZVR|A Chain A, Crystal Structure Of Dynamin
Length = 772
Score = 29.3 bits (64), Expect = 1.6, Method: Composition-based stats.
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 95 IRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDE- 153
I VP N+ + +P V+ + +VD + K PV ++PP+ ++ +F+ E
Sbjct: 135 ISPVPINLRVYSP------HVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKEN 188
Query: 154 --IQRIKAGNPDISHREAFSAAAK 175
I + N D+++ +A A +
Sbjct: 189 CLILAVSPANSDLANSDALKIAKE 212
>pdb|1X5H|A Chain A, The Solution Structure Of The Third Fibronectin Type Iii
Domain Of Human Neogenin
Length = 132
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 84 PFFTPQNLLEEIRNVPANMLMINPPNPADQ 113
P PQNL E+RN + M+ PP PA Q
Sbjct: 18 PSAAPQNLSLEVRNSKSIMIHWQPPAPATQ 47
>pdb|3TQ6|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Factor A, Tfam Or Mttfa, Bound To The Light Strand
Promoter Lsp
pdb|3TQ6|B Chain B, Crystal Structure Of Human Mitochondrial Transcription
Factor A, Tfam Or Mttfa, Bound To The Light Strand
Promoter Lsp
Length = 214
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 144 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 181
S+Y RF K+++ KA NPD E A+ W P
Sbjct: 15 SSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 52
>pdb|2OLU|A Chain A, Structural Insight Into The Transglycosylation Step Of
Bacterial Cell Wall Biosynthesis : Apoenzyme
pdb|2OLV|A Chain A, Structural Insight Into The Transglycosylation Step Of
Bacterial Cell Wall Biosynthesis : Donor Ligand Complex
pdb|2OLV|B Chain B, Structural Insight Into The Transglycosylation Step Of
Bacterial Cell Wall Biosynthesis : Donor Ligand Complex
Length = 669
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 39/96 (40%), Gaps = 26/96 (27%)
Query: 90 NLLEEIR-----NVPANMLMINPPNPADQSVMPV--------RVVDHQEIP------KSP 130
NL EE VP N + + P A+ V R+ D Q K+
Sbjct: 162 NLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLXHYHKRITDKQWEDAKKIDLKAN 221
Query: 131 VVNRPPEKRQRV----PSAYN---RFIKDEIQRIKA 159
+VNR PE+RQ + S YN F+K E+ KA
Sbjct: 222 LVNRTPEERQNIDTNQDSEYNSYVNFVKSELXNNKA 257
>pdb|3TMM|A Chain A, Tfam Imposes A U-Turn On Mitochondrial Dna
Length = 238
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 144 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 181
S+Y RF K+++ KA NPD E A+ W P
Sbjct: 47 SSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 84
>pdb|3DWK|A Chain A, Identification Of Dynamic Structural Motifs Involved In
Peptidoglycan Glycosyltransfer
pdb|3DWK|B Chain B, Identification Of Dynamic Structural Motifs Involved In
Peptidoglycan Glycosyltransfer
pdb|3DWK|C Chain C, Identification Of Dynamic Structural Motifs Involved In
Peptidoglycan Glycosyltransfer
pdb|3DWK|D Chain D, Identification Of Dynamic Structural Motifs Involved In
Peptidoglycan Glycosyltransfer
Length = 625
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 39/96 (40%), Gaps = 26/96 (27%)
Query: 90 NLLEEIR-----NVPANMLMINPPNPADQSVMPV--------RVVDHQEIP------KSP 130
NL EE VP N + + P A+ V R+ D Q K+
Sbjct: 153 NLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKAN 212
Query: 131 VVNRPPEKRQRV----PSAYN---RFIKDEIQRIKA 159
+VNR PE+RQ + S YN F+K E+ KA
Sbjct: 213 LVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKA 248
>pdb|1JNY|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Elongation
Factor 1 Alpha In Complex With Gdp
pdb|1JNY|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Elongation
Factor 1 Alpha In Complex With Gdp
pdb|1SKQ|A Chain A, The Crystal Structure Of Sulfolobus Solfataricus
Elongation Factor 1-Alpha In Complex With Magnesium And
Gdp
pdb|1SKQ|B Chain B, The Crystal Structure Of Sulfolobus Solfataricus
Elongation Factor 1-Alpha In Complex With Magnesium And
Gdp
Length = 435
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 24/50 (48%)
Query: 86 FTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRP 135
F P + E+R++ + ++ P D VR V+ ++I + VV P
Sbjct: 267 FMPAGKVGEVRSIETHHTKMDKAEPGDNIGFNVRGVEKKDIKRGDVVGHP 316
>pdb|1AXI|B Chain B, Structural Plasticity At The Hgh:hghbp Interface
Length = 236
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 8/47 (17%)
Query: 11 PDHLSSSEQLCYVHCTFCDTVLAVPYHFIFSVSVPCTSLFKTVTVRC 57
PD++S+ E CY + +F T +A+PY + TS TV +C
Sbjct: 84 PDYVSAGENSCYFNSSF--TSIAIPY------CIKLTSNGGTVDEKC 122
>pdb|3L43|A Chain A, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
pdb|3L43|B Chain B, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
pdb|3L43|C Chain C, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
pdb|3L43|D Chain D, Crystal Structure Of The Dynamin 3 Gtpase Domain Bound
With Gdp
Length = 319
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 41/84 (48%), Gaps = 9/84 (10%)
Query: 95 IRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDE- 153
I ++P N+ + +P V+ + ++D I K PV ++PP+ ++ +FI E
Sbjct: 128 ISSIPINLRVYSP------HVLNLTLIDLPGITKVPVGDQPPDIEYQIREMIMQFITREN 181
Query: 154 --IQRIKAGNPDISHREAFSAAAK 175
I + N D+++ +A A +
Sbjct: 182 CLILAVTPANTDLANSDALKLAKE 205
>pdb|3N0V|A Chain A, Crystal Structure Of A Formyltetrahydrofolate Deformylase
(Pp_0327) From Pseudomonas Putida Kt2440 At 2.25 A
Resolution
pdb|3N0V|B Chain B, Crystal Structure Of A Formyltetrahydrofolate Deformylase
(Pp_0327) From Pseudomonas Putida Kt2440 At 2.25 A
Resolution
pdb|3N0V|C Chain C, Crystal Structure Of A Formyltetrahydrofolate Deformylase
(Pp_0327) From Pseudomonas Putida Kt2440 At 2.25 A
Resolution
pdb|3N0V|D Chain D, Crystal Structure Of A Formyltetrahydrofolate Deformylase
(Pp_0327) From Pseudomonas Putida Kt2440 At 2.25 A
Resolution
Length = 286
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 176 NWAHFPHIHFGLMPSDQPVKKTSVRQ--QQEGEDAMI 210
+W P+ HF L P D+P ++ V Q ++ G + +I
Sbjct: 135 HWHKIPYYHFALDPKDKPGQERKVLQVIEETGAELVI 171
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
0.321 0.134 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,893,496
Number of Sequences: 62578
Number of extensions: 275334
Number of successful extensions: 557
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 547
Number of HSP's gapped (non-prelim): 20
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
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: 50 (23.9 bits)