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= 011838
(476 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RF9|A Chain A, X-Ray Structure Of Rlmn From Escherichia Coli
pdb|3RF9|B Chain B, X-Ray Structure Of Rlmn From Escherichia Coli
Length = 404
Score = 232 bits (591), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 140/358 (39%), Positives = 209/358 (58%), Gaps = 17/358 (4%)
Query: 104 NVLPKKGSRVLLKGMSFTELQQWVRSHAFRPGQALMLWKRLYGDDIWAHCTD---ELEGL 160
NV K G ++ L ++ +++++ + +P +A + K +Y +C D E+ +
Sbjct: 10 NVTTKDG-KINLLDLNRQQMREFFKDLGEKPFRADQVMKWMY-----HYCCDNFDEMTDI 63
Query: 161 NKDFKKMLSEHAEFRALSLKDILTSSDGTRKILFMLDDGLVIETVVIPCNRGRTTVCVSS 220
NK + L E AE RA + + SSDGT K + D V ETV IP + R T+CVSS
Sbjct: 64 NKVLRGKLKEVAEIRAPEVVEEQRSSDGTIKWAIAVGDQRV-ETVYIPED-DRATLCVSS 121
Query: 221 QVGCAMNCQFCYTGRMGLKRHLTAAEIVEQAVFARRLLSSEVGS----ITNVVFMGMGEP 276
QVGCA+ C+FC T + G R+L +EI+ Q A +++ + + ITNVV MGMGEP
Sbjct: 122 QVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGMGEP 181
Query: 277 LHNVENVIKAANIMVHEQGLHFSPRKVTVSTSGLVPQLKQFLNESNCALAVSLNATTDEV 336
L N+ NV+ A IM+ + G S R+VT+STSG+VP L + + + ALA+SL+A DE+
Sbjct: 182 LLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVVPALDKLGDMIDVALAISLHAPNDEI 241
Query: 337 RNWIMPINRKYKLGLLIETLREELHFK--NNYKVLFEYVMLAGVNDSFDDAKRLIGLVQG 394
R+ I+PIN+KY + + +R L N +V EYVML VND + A +L L++
Sbjct: 242 RDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDGTEHAHQLAELLKD 301
Query: 395 IPCKINLISFNPHCGSQFTPTTDEKMIEFRNILAGAGCTVFLRLSRGDDQMAACGQLG 452
PCKINLI +NP G+ + +++ ++ F +L G T +R +RGDD AACGQL
Sbjct: 302 TPCKINLIPWNPFPGAPYGRSSNSRIDRFSKVLMSYGFTTIVRKTRGDDIDAACGQLA 359
>pdb|3RFA|A Chain A, X-Ray Structure Of Rlmn From Escherichia Coli In Complex
With S- Adenosylmethionine
pdb|3RFA|B Chain B, X-Ray Structure Of Rlmn From Escherichia Coli In Complex
With S- Adenosylmethionine
Length = 404
Score = 228 bits (580), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 139/358 (38%), Positives = 208/358 (58%), Gaps = 17/358 (4%)
Query: 104 NVLPKKGSRVLLKGMSFTELQQWVRSHAFRPGQALMLWKRLYGDDIWAHCTD---ELEGL 160
NV K G ++ L ++ +++++ + +P +A + K +Y +C D E+ +
Sbjct: 10 NVTTKDG-KINLLDLNRQQMREFFKDLGEKPFRADQVMKWMY-----HYCCDNFDEMTDI 63
Query: 161 NKDFKKMLSEHAEFRALSLKDILTSSDGTRKILFMLDDGLVIETVVIPCNRGRTTVCVSS 220
NK + L E AE RA + + SSDGT K + D V ETV IP + R T+CVSS
Sbjct: 64 NKVLRGKLKEVAEIRAPEVVEEQRSSDGTIKWAIAVGDQRV-ETVYIPED-DRATLCVSS 121
Query: 221 QVGCAMNCQFCYTGRMGLKRHLTAAEIVEQAVFARRLLSSEVGS----ITNVVFMGMGEP 276
QVGCA+ C+FC T + G R+L +EI+ Q A +++ + + ITNVV MGMGEP
Sbjct: 122 QVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGMGEP 181
Query: 277 LHNVENVIKAANIMVHEQGLHFSPRKVTVSTSGLVPQLKQFLNESNCALAVSLNATTDEV 336
L N+ NV+ A IM+ + G S R+VT+STSG+VP L + + + ALA+SL+A DE+
Sbjct: 182 LLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVVPALDKLGDMIDVALAISLHAPNDEI 241
Query: 337 RNWIMPINRKYKLGLLIETLREELHFK--NNYKVLFEYVMLAGVNDSFDDAKRLIGLVQG 394
R+ I+PIN+KY + + +R L N +V EYVML VND + A +L L++
Sbjct: 242 RDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDGTEHAHQLAELLKD 301
Query: 395 IPCKINLISFNPHCGSQFTPTTDEKMIEFRNILAGAGCTVFLRLSRGDDQMAACGQLG 452
PCKINLI +NP G+ + +++ ++ F +L G T +R +RGDD AA GQL
Sbjct: 302 TPCKINLIPWNPFPGAPYGRSSNSRIDRFSKVLMSYGFTTIVRKTRGDDIDAAXGQLA 359
>pdb|3OU8|A Chain A, The Crystal Structure Of Adenosine Deaminase From
Pseudomonas Aeruginosa
pdb|3OU8|B Chain B, The Crystal Structure Of Adenosine Deaminase From
Pseudomonas Aeruginosa
pdb|3PAN|A Chain A, The Crystal Structure Of Adenosine Deaminase With
Hypoxanthine Bound From Pseudomonas Aeruginosa
pdb|3PAN|B Chain B, The Crystal Structure Of Adenosine Deaminase With
Hypoxanthine Bound From Pseudomonas Aeruginosa
pdb|3PAO|A Chain A, The Crystal Structure Of Adenosine Deaminase With Adenine
Bound From Pseudomonas Aeruginosa
pdb|3PAO|B Chain B, The Crystal Structure Of Adenosine Deaminase With Adenine
Bound From Pseudomonas Aeruginosa
pdb|3PBM|A Chain A, The Crystal Structure Of Adenosine Deaminase In Complex
With Chloropurine From Pseudomonas Aeruginosa
pdb|3PBM|B Chain B, The Crystal Structure Of Adenosine Deaminase In Complex
With Chloropurine From Pseudomonas Aeruginosa
Length = 326
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 373 VMLAGVNDSFDDAKRLIGLVQGIPCKINLISFNPHCGSQFTPTTDEKMIEFRNILAGAG 431
V+LAG+ + D ++L+G+ G+ ++SF H + T ++ + FR+ G
Sbjct: 113 VVLAGIRAALRDGEKLLGIRHGL-----ILSFLRHLSEEQAQKTLDQALPFRDAFIAVG 166
>pdb|1EBO|A Chain A, Crystal Structure Of The Ebola Virus Membrane-Fusion
Subunit, Gp2, From The Envelope Glycoprotein Ectodomain
pdb|1EBO|B Chain B, Crystal Structure Of The Ebola Virus Membrane-Fusion
Subunit, Gp2, From The Envelope Glycoprotein Ectodomain
pdb|1EBO|C Chain C, Crystal Structure Of The Ebola Virus Membrane-Fusion
Subunit, Gp2, From The Envelope Glycoprotein Ectodomain
pdb|1EBO|D Chain D, Crystal Structure Of The Ebola Virus Membrane-Fusion
Subunit, Gp2, From The Envelope Glycoprotein Ectodomain
pdb|1EBO|E Chain E, Crystal Structure Of The Ebola Virus Membrane-Fusion
Subunit, Gp2, From The Envelope Glycoprotein Ectodomain
pdb|1EBO|F Chain F, Crystal Structure Of The Ebola Virus Membrane-Fusion
Subunit, Gp2, From The Envelope Glycoprotein Ectodomain
Length = 131
Score = 29.3 bits (64), Expect = 4.4, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 2/46 (4%)
Query: 301 RKVTVSTSGLVPQLKQFLNESNCALAVSLNATTDEVRNWIMPINRK 346
+K+ GL+ L+Q NE+ AL + L ATT E+R + + +NRK
Sbjct: 26 KKLIGEADGLIEGLRQLANETTQALQLFLRATT-ELRTFSI-LNRK 69
>pdb|3PP0|A Chain A, Crystal Structure Of The Kinase Domain Of Human Her2
(Erbb2).
pdb|3PP0|B Chain B, Crystal Structure Of The Kinase Domain Of Human Her2
(Erbb2).
pdb|3RCD|A Chain A, Her2 Kinase Domain Complexed With Tak-285
pdb|3RCD|B Chain B, Her2 Kinase Domain Complexed With Tak-285
pdb|3RCD|C Chain C, Her2 Kinase Domain Complexed With Tak-285
pdb|3RCD|D Chain D, Her2 Kinase Domain Complexed With Tak-285
Length = 338
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 339 WIMPINRKYKLGLLIETLREELHFKNNYKVLFEYVMLAGVNDSFDDAKRLIGL 391
WI P K+ + I+ LRE K N ++L E ++AGV + RL+G+
Sbjct: 38 WI-PDGENVKIPVAIKVLRENTSPKANKEILDEAYVMAGVGSPY--VSRLLGI 87
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
0.322 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,581,476
Number of Sequences: 62578
Number of extensions: 552242
Number of successful extensions: 1705
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1697
Number of HSP's gapped (non-prelim): 6
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
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: 53 (25.0 bits)