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= psy4436
(171 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WM8|A Chain A, Crystal Structure Of Human Magnesium-Dependent Phosphatase
1 Of The Haloacid Dehalogenase Superfamily (Mgc5987)
Length = 187
Score = 163 bits (412), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 81/159 (50%), Positives = 110/159 (69%), Gaps = 1/159 (0%)
Query: 11 SVKKFPKLAVFDLDHTLWPFHVYIDVIPPFKKIGD-KVLDAGGAIIKYYRDVPAILKYLK 69
S+ + PKLAVFDLD+TLWPF V V PPF K D V D G ++ Y +VP +LK L+
Sbjct: 22 SMARLPKLAVFDLDYTLWPFWVDTHVDPPFHKSSDGTVRDRRGQDVRLYPEVPEVLKRLQ 81
Query: 70 QNNCLVAAASRTTEMLRAHQLVDLFNWNQHFDHKEIFPGQKTTHFANLKKATGIEYKDMV 129
AAASRT+E+ A+QL++LF+ ++F H+EI+PG K THF L++ TGI + M+
Sbjct: 82 SLGVPGAAASRTSEIEGANQLLELFDLFRYFVHREIYPGSKITHFERLQQKTGIPFSQMI 141
Query: 130 FFDDEERNSHDVSPLGVTCIHVKDGMSHSVLHKGLKQWA 168
FFDDE RN DVS LGVTCIH+++GM+ L +GL+ +A
Sbjct: 142 FFDDERRNIVDVSKLGVTCIHIQNGMNLQTLSQGLETFA 180
>pdb|1U7O|A Chain A, Magnesium Dependent Phosphatase 1 (Mdp-1)
pdb|1U7P|A Chain A, X-Ray Crystal Structure Of The Hypothetical
Phosphotyrosine Phosphatase Mdp-1 Of The Haloacid
Dehalogenase Superfamily
pdb|1U7P|B Chain B, X-Ray Crystal Structure Of The Hypothetical
Phosphotyrosine Phosphatase Mdp-1 Of The Haloacid
Dehalogenase Superfamily
pdb|1U7P|C Chain C, X-Ray Crystal Structure Of The Hypothetical
Phosphotyrosine Phosphatase Mdp-1 Of The Haloacid
Dehalogenase Superfamily
pdb|1U7P|D Chain D, X-Ray Crystal Structure Of The Hypothetical
Phosphotyrosine Phosphatase Mdp-1 Of The Haloacid
Dehalogenase Superfamily
Length = 164
Score = 159 bits (402), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 81/158 (51%), Positives = 105/158 (66%), Gaps = 1/158 (0%)
Query: 12 VKKFPKLAVFDLDHTLWPFHVYIDVIPPFKKIGD-KVLDAGGAIIKYYRDVPAILKYLKQ 70
+ + PKLAVFDLD+TLWPF V V PPF K D V D G I+ Y +VP +L L+
Sbjct: 1 MTRLPKLAVFDLDYTLWPFWVDTHVDPPFHKSSDGTVRDRRGQNIQLYPEVPEVLGRLQS 60
Query: 71 NNCLVAAASRTTEMLRAHQLVDLFNWNQHFDHKEIFPGQKTTHFANLKKATGIEYKDMVF 130
VAAASRT+E+ A+QL++LF+ ++F +EI+PG K THF L TG+ + MVF
Sbjct: 61 LGVPVAAASRTSEIQGANQLLELFDLGKYFIQREIYPGSKVTHFERLHHKTGVPFSQMVF 120
Query: 131 FDDEERNSHDVSPLGVTCIHVKDGMSHSVLHKGLKQWA 168
FDDE RN DV LGVTCIH++DGMS L +GL+ +A
Sbjct: 121 FDDENRNIIDVGRLGVTCIHIRDGMSLQTLTQGLETFA 158
>pdb|1ZT2|A Chain A, Heterodimeric Structure Of The Core Primase.
pdb|1ZT2|C Chain C, Heterodimeric Structure Of The Core Primase
Length = 330
Score = 33.9 bits (76), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 12 VKKFPKLAVFDLDHTLWPFHVYIDVIPPFKKIGDKVLDAGGAIIKYYRDVPAILK 66
VK+ P L F+ + TL PF Y + P+ I +VL G+IIK R +P +K
Sbjct: 260 VKRVPNLDDFEFNETLSPFTGYT-IFLPYITIETEVL---GSIIKLNRGIPIKIK 310
>pdb|3FVV|A Chain A, The Crystal Structure Of The Protein With Unknown Function
From Bordetella Pertussis Tohama I
pdb|3FVV|B Chain B, The Crystal Structure Of The Protein With Unknown Function
From Bordetella Pertussis Tohama I
Length = 232
Score = 33.1 bits (74), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 10/94 (10%)
Query: 17 KLAVFDLDHTLWPF---HVYIDVIPPFKKIGDKVLDAGGAIIKYYRDVPAILKYLKQNNC 73
+LA+FDLDHTL P + + D + + GD R+ + +Y +
Sbjct: 5 RLALFDLDHTLLPLDSDYQWADFLARTGRAGDPAE-------ARRRNDDLMERYNRGELT 57
Query: 74 LVAAASRTTEMLRAHQLVDLFNWNQHFDHKEIFP 107
AA +L AH V+L W++ F I P
Sbjct: 58 AEQAAEFMLGLLAAHSPVELAAWHEEFMRDVIRP 91
>pdb|2B0C|A Chain A, The Crystal Structure Of The Putative Phosphatase From
Escherichia Coli
Length = 206
Score = 33.1 bits (74), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 114 FANLKKATGIEYKDMVFFDDEERNSHDVSPLGVTCIHVKD 153
+ ++ +A G D VFFDD N + LG+T I VKD
Sbjct: 154 YQHVLQAEGFSPSDTVFFDDNADNIEGANQLGITSILVKD 193
>pdb|4FHM|B Chain B, Nup37-Nup120(Aa1-961) Complex From Schizosaccharomyces
Pombe
Length = 964
Score = 28.1 bits (61), Expect = 2.3, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 9/72 (12%)
Query: 1 MAEIPHKLDPSVKKFPKLAVFDLDHTLWPF---HVYIDVIPPFKKIGDKVLDAGGAIIKY 57
++EI + L V+ P ++FD TLW F H+Y +V P + ++D ++
Sbjct: 595 LSEIRYSLRELVQDLPSYSLFD---TLWVFYDKHIYPNVDPDYIS---TLIDTLVSLENP 648
Query: 58 YRDVPAILKYLK 69
RD+ ++++ L+
Sbjct: 649 MRDIDSLIQRLR 660
>pdb|4GQ2|M Chain M, S. Pombe Nup120-Nup37 Complex
Length = 950
Score = 28.1 bits (61), Expect = 2.3, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 9/72 (12%)
Query: 1 MAEIPHKLDPSVKKFPKLAVFDLDHTLWPF---HVYIDVIPPFKKIGDKVLDAGGAIIKY 57
++EI + L V+ P ++FD TLW F H+Y +V P + ++D ++
Sbjct: 593 LSEIRYSLRELVQDLPSYSLFD---TLWVFYDKHIYPNVDPDYIS---TLIDTLVSLENP 646
Query: 58 YRDVPAILKYLK 69
RD+ ++++ L+
Sbjct: 647 MRDIDSLIQRLR 658
>pdb|4FHN|B Chain B, Nup37-Nup120 Full-Length Complex From Schizosaccharomyces
Pombe
pdb|4FHN|D Chain D, Nup37-Nup120 Full-Length Complex From Schizosaccharomyces
Pombe
Length = 1139
Score = 28.1 bits (61), Expect = 2.4, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 9/72 (12%)
Query: 1 MAEIPHKLDPSVKKFPKLAVFDLDHTLWPF---HVYIDVIPPFKKIGDKVLDAGGAIIKY 57
++EI + L V+ P ++FD TLW F H+Y +V P + ++D ++
Sbjct: 595 LSEIRYSLRELVQDLPSYSLFD---TLWVFYDKHIYPNVDPDYIS---TLIDTLVSLENP 648
Query: 58 YRDVPAILKYLK 69
RD+ ++++ L+
Sbjct: 649 MRDIDSLIQRLR 660
>pdb|1RQH|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Pyruvic Acid
Length = 472
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 11 SVKKFPKLAVFDLDHTLWPFHVYIDVIPPFKKIGDKVLDAGGAIIKYYRDVPAILK 66
+VKK K A + +T+ P H + + K+ ++LD G I +D+ A+LK
Sbjct: 138 AVKKAGKHAQGTICYTISPVHT----VEGYVKLAGQLLDMGADSIALXKDMAALLK 189
>pdb|1RR2|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To 2- Ketobutyric Acid
Length = 473
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 11 SVKKFPKLAVFDLDHTLWPFHVYIDVIPPFKKIGDKVLDAGGAIIKYYRDVPAILK 66
+VKK K A + +T+ P H + + K+ ++LD G I +D+ A+LK
Sbjct: 139 AVKKAGKHAQGTICYTISPVHT----VEGYVKLAGQLLDMGADSIALXKDMAALLK 190
>pdb|2BRA|A Chain A, Structure Of N-Terminal Fad Binding Motif Of Mouse Mical
pdb|2BRA|B Chain B, Structure Of N-Terminal Fad Binding Motif Of Mouse Mical
Length = 484
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 114 FANLKKATGIEYKDMVFFDDE 134
F +L KATGI+ +++V++ DE
Sbjct: 270 FQSLLKATGIDLENIVYYKDE 290
>pdb|2BRY|A Chain A, Crystal Structure Of The Native Monooxygenase Domain Of
Mical At 1.45 A Resolution
pdb|2BRY|B Chain B, Crystal Structure Of The Native Monooxygenase Domain Of
Mical At 1.45 A Resolution
pdb|2C4C|A Chain A, Crystal Structure Of The Nadph-Treated Monooxygenase
Domain Of Mical
pdb|2C4C|B Chain B, Crystal Structure Of The Nadph-Treated Monooxygenase
Domain Of Mical
Length = 497
Score = 26.6 bits (57), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 114 FANLKKATGIEYKDMVFFDDE 134
F +L KATGI+ +++V++ DE
Sbjct: 278 FQSLLKATGIDLENIVYYKDE 298
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 0.138 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,672,560
Number of Sequences: 62578
Number of extensions: 228185
Number of successful extensions: 402
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 394
Number of HSP's gapped (non-prelim): 16
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
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: 48 (23.1 bits)