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= 001181
(1131 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QZQ|A Chain A, Human Tyrosyl Dna Phosphodiesterase
pdb|1QZQ|B Chain B, Human Tyrosyl Dna Phosphodiesterase
Length = 483
Score = 49.7 bits (117), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 51/115 (44%), Gaps = 12/115 (10%)
Query: 523 GIACHHPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTP 582
HH K+ +L E+ +RV++ ++NL W+ T +W R A
Sbjct: 133 AFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADG--------- 183
Query: 583 VEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPG 637
+ +S + F A L S++ + + PS WI + K+D + +L+ S PG
Sbjct: 184 -THKSGESPTHFKADLISYL--MAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPG 235
Score = 43.5 bits (101), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 73/172 (42%), Gaps = 30/172 (17%)
Query: 901 IRIIFPTIERVRNACDGILPSKRVLCFSEKTWQRLRNV-DILHDAIPHPHDRVGHPMHVK 959
+ +I+P++E VR + +G P+ L +S +T ++ + H R H+K
Sbjct: 312 LYLIYPSVENVRTSLEGY-PAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIK 370
Query: 960 VAWRRFQSRTDTSLGWVYCGSHNFSAAAWGRPIQTPSTIKPNGSEKTKSSSSQRLHICNY 1019
R S + + W S N S AAWG ++ NG++ L I +Y
Sbjct: 371 TYMR--PSPDFSKIAWFLVTSANLSKAAWG-------ALEKNGTQ---------LMIRSY 412
Query: 1020 ELGIVFVFPPTE--------KQSSTGNNTSNLDDIVLPFVVPAPKYRPKDRP 1063
ELG++F+ P+ KQ + + +P+ +P Y KDRP
Sbjct: 413 ELGVLFL--PSAFGLDSFKVKQKFFAGSQEPMATFPVPYDLPPELYGSKDRP 462
>pdb|1MU7|A Chain A, Crystal Structure Of A Human Tyrosyl-dna Phosphodiesterase
(tdp1)- Tungstate Complex
pdb|1MU7|B Chain B, Crystal Structure Of A Human Tyrosyl-dna Phosphodiesterase
(tdp1)- Tungstate Complex
pdb|1MU9|A Chain A, Crystal Structure Of A Human Tyrosyl-Dna Phosphodiesterase
(Tdp1)- Vanadate Complex
pdb|1MU9|B Chain B, Crystal Structure Of A Human Tyrosyl-Dna Phosphodiesterase
(Tdp1)- Vanadate Complex
pdb|1NOP|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
(Tdp1) In Complex With Vanadate, Dna And A Human
Topoisomerase I-Derived Peptide
pdb|1NOP|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
(Tdp1) In Complex With Vanadate, Dna And A Human
Topoisomerase I-Derived Peptide
pdb|1RFF|A Chain A, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octapeptide Klnyydpr, And
Tetranucleotide Agtt.
pdb|1RFF|B Chain B, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octapeptide Klnyydpr, And
Tetranucleotide Agtt.
pdb|1RFI|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Pentapeptide Klnyk, And
Tetranucleotide Agtc
pdb|1RFI|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Pentapeptide Klnyk, And
Tetranucleotide Agtc
pdb|1RG1|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtt
pdb|1RG1|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtt
pdb|1RG2|A Chain A, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agta
pdb|1RG2|B Chain B, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agta
pdb|1RGT|A Chain A, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtc
pdb|1RGT|B Chain B, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtc
pdb|1RGU|A Chain A, The Crystal Structure Of Human Tyrosyl-dna
Phosphodiesterase Complexed With Vanadate, Octopamine,
And Tetranucleotide Agtg
pdb|1RGU|B Chain B, The Crystal Structure Of Human Tyrosyl-dna
Phosphodiesterase Complexed With Vanadate, Octopamine,
And Tetranucleotide Agtg
pdb|1RH0|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine And Trinucleotide
Gtt
pdb|1RH0|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine And Trinucleotide
Gtt
Length = 485
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 51/115 (44%), Gaps = 12/115 (10%)
Query: 523 GIACHHPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTP 582
HH K+ +L E+ +RV++ ++NL W+ T +W R A
Sbjct: 135 AFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADG--------- 185
Query: 583 VEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPG 637
+ +S + F A L S++ + + PS WI + K+D + +L+ S PG
Sbjct: 186 -THKSGESPTHFKANLISYLTA--YNAPSLKEWIDVIHKHDLSETNVYLIGSTPG 237
Score = 43.1 bits (100), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 73/172 (42%), Gaps = 30/172 (17%)
Query: 901 IRIIFPTIERVRNACDGILPSKRVLCFSEKTWQRLRNV-DILHDAIPHPHDRVGHPMHVK 959
+ +I+P++E VR + +G P+ L +S +T ++ + H R H+K
Sbjct: 314 LYLIYPSVENVRTSLEGY-PAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIK 372
Query: 960 VAWRRFQSRTDTSLGWVYCGSHNFSAAAWGRPIQTPSTIKPNGSEKTKSSSSQRLHICNY 1019
R S + + W S N S AAWG ++ NG++ L I +Y
Sbjct: 373 TYMR--PSPDFSKIAWFLVTSANLSKAAWG-------ALEKNGTQ---------LMIRSY 414
Query: 1020 ELGIVFVFPPTE--------KQSSTGNNTSNLDDIVLPFVVPAPKYRPKDRP 1063
ELG++F+ P+ KQ + + +P+ +P Y KDRP
Sbjct: 415 ELGVLFL--PSALGLDSFKVKQKFFAGSQEPMATFPVPYDLPPELYGSKDRP 464
>pdb|1JY1|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
(Tdp1)
Length = 464
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 12/115 (10%)
Query: 523 GIACHHPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTP 582
HH K +L E+ +RV++ ++NL W+ T +W +P Y + T
Sbjct: 114 AFGTHHTKXXLLLYEEGLRVVIHTSNLIHADWHQKTQGIW-------LSPLYPRIADGT- 165
Query: 583 VEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPG 637
+ +S + F A L S++ + + PS WI + K+D + +L+ S PG
Sbjct: 166 --HKSGESPTHFKANLISYLTAY--NAPSLKEWIDVIHKHDLSETNVYLIGSTPG 216
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/172 (25%), Positives = 72/172 (41%), Gaps = 30/172 (17%)
Query: 901 IRIIFPTIERVRNACDGILPSKRVLCFSEKTWQRLRNV-DILHDAIPHPHDRVGHPMHVK 959
+ +I+P++E VR + +G P+ L +S +T ++ + H R H+K
Sbjct: 293 LYLIYPSVENVRTSLEG-YPAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAXPHIK 351
Query: 960 VAWRRFQSRTDTSLGWVYCGSHNFSAAAWGRPIQTPSTIKPNGSEKTKSSSSQRLHICNY 1019
R S + + W S N S AAWG ++ NG++ L I +Y
Sbjct: 352 TYXR--PSPDFSKIAWFLVTSANLSKAAWG-------ALEKNGTQ---------LXIRSY 393
Query: 1020 ELGIVFVFPPTE--------KQSSTGNNTSNLDDIVLPFVVPAPKYRPKDRP 1063
ELG++F+ P+ KQ + +P+ +P Y KDRP
Sbjct: 394 ELGVLFL--PSALGLDSFKVKQKFFAGSQEPXATFPVPYDLPPELYGSKDRP 443
>pdb|2JPE|A Chain A, Fha Domain Of Nipp1
Length = 140
Score = 38.1 bits (87), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 60 VDSLTLEPDRPYSIGRASINCDFTFDNRLVSRQHCQILFDSSERKIYVLD-----GTFL 113
++ L ++ + Y GR CDFT D++ SR H +++ ++++++D GTFL
Sbjct: 46 IEKLIIDEKKYYLFGRNPDLCDFTIDHQSCSRVHAALVYHKHLKRVFLIDLNSTHGTFL 104
>pdb|3KY9|A Chain A, Autoinhibited Vav1
pdb|3KY9|B Chain B, Autoinhibited Vav1
Length = 587
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 262 LSQCRNILNSNDPVSCIQQIANSDMGIMSTYGCFSTKFPGRSSIDGELKVKKIERISQQE 321
L+QC N + ++ ++QI N + I + S GR IDGELK+ +ER S+ +
Sbjct: 369 LAQCVNEVKRDNET--LRQITNFQLSIENLDQ--SLAHYGRPKIDGELKITSVERRSKMD 424
Query: 322 R 322
R
Sbjct: 425 R 425
>pdb|3BJI|A Chain A, Structural Basis Of Promiscuous Guanine Nucleotide
Exchange By The T-Cell Essential Vav1
pdb|3BJI|B Chain B, Structural Basis Of Promiscuous Guanine Nucleotide
Exchange By The T-Cell Essential Vav1
Length = 378
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 262 LSQCRNILNSNDPVSCIQQIANSDMGIMSTYGCFSTKFPGRSSIDGELKVKKIERISQQE 321
L+QC N + ++ ++QI N + I + S GR IDGELK+ +ER S+ +
Sbjct: 178 LAQCVNEVKRDNET--LRQITNFQLSIENLDQ--SLAHYGRPKIDGELKITSVERRSKMD 233
Query: 322 R 322
R
Sbjct: 234 R 234
>pdb|2VRW|B Chain B, Critical Structural Role For The Ph And C1 Domains Of The
Vav1 Exchange Factor
Length = 406
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 262 LSQCRNILNSNDPVSCIQQIANSDMGIMSTYGCFSTKFPGRSSIDGELKVKKIERISQQE 321
L+QC N + ++ ++QI N + I + + GR IDGELK+ +ER S+ +
Sbjct: 197 LAQCVNEVKRDNET--LRQITNFQLSIENLDQSLANY--GRPKIDGELKITSVERRSKTD 252
Query: 322 R 322
R
Sbjct: 253 R 253
>pdb|1LGP|A Chain A, Crystal Structure Of The Fha Domain Of The Chfr Mitotic
Checkpoint Protein Complexed With Tungstate
Length = 116
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 69 RPYSIGRASINCDFTF-DNRLVSRQHCQILFDSSERKIYVLD 109
R ++IGR CD +F N+LVS HC+I+ D ++ + D
Sbjct: 24 REWTIGRRR-GCDLSFPSNKLVSGDHCRIVVDEKSGQVTLED 64
>pdb|1LGQ|A Chain A, Crystal Structure Of The Fha Domain Of The Chfr Mitotic
Checkpoint Protein
pdb|1LGQ|B Chain B, Crystal Structure Of The Fha Domain Of The Chfr Mitotic
Checkpoint Protein
Length = 112
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 69 RPYSIGRASINCDFTF-DNRLVSRQHCQILFDSSERKIYVLD 109
R ++IGR CD +F N+LVS HC+I+ D ++ + D
Sbjct: 24 REWTIGRRR-GCDLSFPSNKLVSGDHCRIVVDEKSGQVTLED 64
>pdb|1R74|A Chain A, Crystal Structure Of Human Glycine N-Methyltransferase
pdb|1R74|B Chain B, Crystal Structure Of Human Glycine N-Methyltransferase
Length = 294
Score = 29.6 bits (65), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 14/78 (17%)
Query: 357 CVHNDHLHHKDSVG------ISNKNATPGVKSKLLNSVDRQNATHFGSMDKSKSLGSSCS 410
C+ N H D G ++ KN V++ L +D +N H L + C+
Sbjct: 137 CLGNSFAHLPDCKGDQSEHRLALKNIASMVRAGGLLVIDHRNYDHI--------LSTGCA 188
Query: 411 PPGKKFYLNRLEFMDLTS 428
PPGK Y D+T+
Sbjct: 189 PPGKNIYYKSDLTKDVTT 206
>pdb|2AZT|A Chain A, Crystal Structure Of H176n Mutant Of Human Glycine
N-Methyltransferase
pdb|2AZT|B Chain B, Crystal Structure Of H176n Mutant Of Human Glycine
N-Methyltransferase
Length = 295
Score = 29.6 bits (65), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 14/78 (17%)
Query: 357 CVHNDHLHHKDSVG------ISNKNATPGVKSKLLNSVDRQNATHFGSMDKSKSLGSSCS 410
C+ N H D G ++ KN V++ L +D +N H L + C+
Sbjct: 138 CLGNSFAHLPDCKGDQSEHRLALKNIASMVRAGGLLVIDNRNYDHI--------LSTGCA 189
Query: 411 PPGKKFYLNRLEFMDLTS 428
PPGK Y D+T+
Sbjct: 190 PPGKNIYYKSDLTKDVTT 207
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
0.319 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,298,915
Number of Sequences: 62578
Number of extensions: 1228164
Number of successful extensions: 3053
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 3040
Number of HSP's gapped (non-prelim): 18
length of query: 1131
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1022
effective length of database: 8,152,335
effective search space: 8331686370
effective search space used: 8331686370
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: 57 (26.6 bits)