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= 018413
(356 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AQM|A Chain A, Structure Of Bacterial Protein (Form Ii)
pdb|3AQM|B Chain B, Structure Of Bacterial Protein (Form Ii)
Length = 415
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 53/215 (24%), Positives = 87/215 (40%), Gaps = 3/215 (1%)
Query: 1 MLNRIPKDFDIITSAELKEVVRVFSQCEIVGKRFPICHVHFENTIVEVXXXXXXXXXXXX 60
+L + PKDFD+ T+A ++V ++F C +VG+RF + HV F I+EV
Sbjct: 46 LLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLAHVMFGPEIIEVATFRGHHEGNVS 105
Query: 61 XXKYEFERPIGCDEKDFIRW---RNCLQRDFTINGLMFDPYAKXXXXXXXXXXXXRKAKV 117
G +D I + +RDFTIN L + + +
Sbjct: 106 DRTTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVADFTVRDYVGGMKDLKDGVI 165
Query: 118 QTVIPASTSFQEDCXXXXXXXXXXXXXGFRFSRETAHFVKHLSPSILKLDRGRLLMEMNY 177
+ + T ++ED G R S ETA + L+ + + RL E
Sbjct: 166 RLIGNPETRYREDPVRMLRAVRFAAKLGMRISPETAEPIPRLATLLNDIPPARLFEESLK 225
Query: 178 MLAYGSAEASLRLLWKFGLLEVLLPIQAAYLVKHG 212
+L G + +LL ++ L + L P Y ++G
Sbjct: 226 LLQAGYGYETYKLLCEYHLFQPLFPTITRYFTENG 260
>pdb|3AQK|A Chain A, Structure Of Bacterial Protein (Apo Form I)
Length = 414
Score = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 52/215 (24%), Positives = 86/215 (40%), Gaps = 3/215 (1%)
Query: 1 MLNRIPKDFDIITSAELKEVVRVFSQCEIVGKRFPICHVHFENTIVEVXXXXXXXXXXXX 60
+L + PKDFD+ T+A ++V ++F C +VG+RF + HV F I+EV
Sbjct: 45 LLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLAHVMFGPEIIEVATFRGHHEGNVS 104
Query: 61 XXKYEFERPIGCDEKDFIRW---RNCLQRDFTINGLMFDPYAKXXXXXXXXXXXXRKAKV 117
G +D I + +RDFTIN L + + +
Sbjct: 105 DRTTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVADFTVRDYVGGMKDLKDGVI 164
Query: 118 QTVIPASTSFQEDCXXXXXXXXXXXXXGFRFSRETAHFVKHLSPSILKLDRGRLLMEMNY 177
+ + T ++ED G R S ETA + L+ + + L E
Sbjct: 165 RLIGNPETRYREDPVRMLRAVRFAAKLGMRISPETAEPIPRLATLLNDIPPAHLFEESLK 224
Query: 178 MLAYGSAEASLRLLWKFGLLEVLLPIQAAYLVKHG 212
+L G + +LL ++ L + L P Y ++G
Sbjct: 225 LLQAGYGYETYKLLCEYHLFQPLFPTITRYFTENG 259
>pdb|3AQL|A Chain A, Structure Of Bacterial Protein (Apo Form Ii)
pdb|3AQL|B Chain B, Structure Of Bacterial Protein (Apo Form Ii)
pdb|3AQN|A Chain A, Complex Structure Of Bacterial Protein (Apo Form Ii)
pdb|3AQN|B Chain B, Complex Structure Of Bacterial Protein (Apo Form Ii)
Length = 415
Score = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 52/215 (24%), Positives = 86/215 (40%), Gaps = 3/215 (1%)
Query: 1 MLNRIPKDFDIITSAELKEVVRVFSQCEIVGKRFPICHVHFENTIVEVXXXXXXXXXXXX 60
+L + PKDFD+ T+A ++V ++F C +VG+RF + HV F I+EV
Sbjct: 46 LLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLAHVMFGPEIIEVATFRGHHEGNVS 105
Query: 61 XXKYEFERPIGCDEKDFIRW---RNCLQRDFTINGLMFDPYAKXXXXXXXXXXXXRKAKV 117
G +D I + +RDFTIN L + + +
Sbjct: 106 DRTTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVADFTVRDYVGGMKDLKDGVI 165
Query: 118 QTVIPASTSFQEDCXXXXXXXXXXXXXGFRFSRETAHFVKHLSPSILKLDRGRLLMEMNY 177
+ + T ++ED G R S ETA + L+ + + L E
Sbjct: 166 RLIGNPETRYREDPVRMLRAVRFAAKLGMRISPETAEPIPRLATLLNDIPPAHLFEESLK 225
Query: 178 MLAYGSAEASLRLLWKFGLLEVLLPIQAAYLVKHG 212
+L G + +LL ++ L + L P Y ++G
Sbjct: 226 LLQAGYGYETYKLLCEYHLFQPLFPTITRYFTENG 260
>pdb|1MIY|A Chain A, Crystal Structure Of Bacillus Stearothermophilus
Cca-adding Enzyme In Complex With Ctp
pdb|1MIY|B Chain B, Crystal Structure Of Bacillus Stearothermophilus
Cca-adding Enzyme In Complex With Ctp
Length = 404
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 49/199 (24%), Positives = 78/199 (39%), Gaps = 14/199 (7%)
Query: 1 MLNRIPKDFDIITSAELKEVVRVFSQCEIVGKRFPICHVHFENTIVEVXXXXXXXXXXXX 60
+L R D DI TSA ++V+ +F + VG + V + EV
Sbjct: 33 LLGRPIGDVDIATSALPEDVMAIFPKTIDVGSKHGTVVVVHKGKAYEVTTFKTDG----- 87
Query: 61 XXKYE-FERPIGCDEKDFIRW--RNCLQRDFTINGLMFDPYAKXXXXXXXXXXXXRKAKV 117
YE + RP + F+R + +RDFT+N + D Y + +
Sbjct: 88 --DYEDYRRP---ESVTFVRSLEEDLKRRDFTMNAIAMDEYGTIIDPFGGREAIR-RRII 141
Query: 118 QTVIPASTSFQEDCXXXXXXXXXXXXXGFRFSRETAHFVKHLSPSILKLDRGRLLMEMNY 177
+TV A F+ED GF + +T + +P + + R+ MEM
Sbjct: 142 RTVGEAEKRFREDALRMMRAVRFVSELGFALAPDTEQAIVQNAPLLAHISVERMTMEMEK 201
Query: 178 MLAYGSAEASLRLLWKFGL 196
+L A +L LL + GL
Sbjct: 202 LLGGPFAARALPLLAETGL 220
>pdb|1MIV|A Chain A, Crystal Structure Of Bacillus Stearothermophilus
Cca-Adding Enzyme
pdb|1MIV|B Chain B, Crystal Structure Of Bacillus Stearothermophilus
Cca-Adding Enzyme
pdb|1MIW|A Chain A, Crystal Structure Of Bacillus Stearothermophilus
Cca-Adding Enzyme In Complex With Atp
pdb|1MIW|B Chain B, Crystal Structure Of Bacillus Stearothermophilus
Cca-Adding Enzyme In Complex With Atp
Length = 404
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 49/199 (24%), Positives = 75/199 (37%), Gaps = 14/199 (7%)
Query: 1 MLNRIPKDFDIITSAELKEVVRVFSQCEIVGKRFPICHVHFENTIVEVXXXXXXXXXXXX 60
+L R D DI TSA ++V +F + VG + V + EV
Sbjct: 33 LLGRPIGDVDIATSALPEDVXAIFPKTIDVGSKHGTVVVVHKGKAYEVTTFKTDG----- 87
Query: 61 XXKYE-FERPIGCDEKDFIRW--RNCLQRDFTINGLMFDPYAKXXXXXXXXXXXXRKAKV 117
YE + RP + F+R + +RDFT N + D Y + +
Sbjct: 88 --DYEDYRRP---ESVTFVRSLEEDLKRRDFTXNAIAXDEYGTIIDPFGGREAIR-RRII 141
Query: 118 QTVIPASTSFQEDCXXXXXXXXXXXXXGFRFSRETAHFVKHLSPSILKLDRGRLLMEMNY 177
+TV A F+ED GF + +T + +P + + R E
Sbjct: 142 RTVGEAEKRFREDALRXXRAVRFVSELGFALAPDTEQAIVQNAPLLAHISVERXTXEXEK 201
Query: 178 MLAYGSAEASLRLLWKFGL 196
+L A +L LL + GL
Sbjct: 202 LLGGPFAARALPLLAETGL 220
>pdb|3NTT|A Chain A, Structural Insights Of Adeno-Associated Virus 5. A Gene
Therapy Vector For Cystic Fibrosis
Length = 724
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 27/63 (42%)
Query: 257 DQPRDPLVVAVFSLAVYNGGDMLEAVKIARRINKSHDESFCELLEPRDLDFEALKHEVMD 316
DQ R ++ L NG D E V A + + HD S+ E LE D + H +
Sbjct: 39 DQARGLVLPGYNYLGPGNGLDRGEPVNRADEVAREHDISYNEQLEAGDNPYLKYNHADAE 98
Query: 317 FAE 319
F E
Sbjct: 99 FQE 101
>pdb|2OAY|A Chain A, Crystal Structure Of Latent Human C1-Inhibitor
Length = 390
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 262 PLVVAVFSLAVYNGGDMLEAVKIARRINKSHDESFCELLEPRDLDFEALKHE-VMDFAES 320
P ++ + + V DML ++ + S+D + C L E DL A++H+ V++ E+
Sbjct: 283 PTLLTLPRIKVTTSQDMLSIMEKLEFFDFSYDLNLCGLTEDPDLQVSAMQHQTVLELTET 342
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
0.325 0.138 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,451,399
Number of Sequences: 62578
Number of extensions: 269369
Number of successful extensions: 651
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 638
Number of HSP's gapped (non-prelim): 14
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)