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= 003020
(856 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha.
pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha
Length = 388
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/168 (20%), Positives = 80/168 (47%), Gaps = 10/168 (5%)
Query: 640 LINAFADVGNVKQAQSYFDAMESAGL------PPNAVIYNSLIKLYTKVGYLKEAQETYK 693
++A+ ++GNV + FD +A L P +AV++ +L +Y + G + A +TY+
Sbjct: 202 FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYR 261
Query: 694 LLRSLEASPDVYTSNC-MIDLYSERSMVRQAEEIFEIMKKKGDANEFTYAMMLIMYKRNG 752
R++E P + C + + E+ V +AE+ + + + + + + + G
Sbjct: 262 --RAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG 319
Query: 753 RFEEATRIAKQMRESGLISDLLSYNNVLGLYAVDGRFKDVIGTFKDMV 800
EEA R+ ++ E +++N+ + G+ ++ + +K+ +
Sbjct: 320 NIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAI 366
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 10/94 (10%)
Query: 316 NG-SLSSYTYNTLIDTYGKAGQLKEAS---------ETFAQMLREGIVPTTVTFNTMIHI 365
NG LS Y YN L+ A E+S + F QM+ + +VP TF +
Sbjct: 55 NGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARL 114
Query: 366 YGNNDQLAEVDSLIKKMEELHCPPDTRTYNILIF 399
D ++K+M+ P R+Y +F
Sbjct: 115 AVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALF 148
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 30/138 (21%), Positives = 59/138 (42%), Gaps = 18/138 (13%)
Query: 502 IDGYGERGHVLEAERAFI-CCQEGKKLTVLVFNVMV-------------KAYGMGRNYDK 547
+D ++G VLEA R + + G +L+ +NV++ G+ R +D
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFD- 91
Query: 548 ACNLFDSMTSHGAVPDKCSYNSLIQILAGADLPHMAKRYLRKMQEAGLVSDCIPYCAVIS 607
+F M VP++ ++ + ++ D P MA +++M+ G+ Y +
Sbjct: 92 ---IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALF 148
Query: 608 SYMKLGQLEMAEEVYKDM 625
+ + G + A EV M
Sbjct: 149 GFCRKGDADKAYEVDAHM 166
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 36/165 (21%), Positives = 70/165 (42%), Gaps = 20/165 (12%)
Query: 547 KACNLFDSMTSHGAVPDKCSYNSLIQILAGADL-------PHMAKRY--LRKMQEAGLVS 597
+A L+D +G + YN L+ + + A+ P +++ + ++M +V
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM----IVD 99
Query: 598 DCIPYCAVISSYMKLG----QLEMAEEVYKDMIRFNVEPDVVVYGVLINAFADVGNVKQA 653
+P A ++ +L EMA ++ K M F ++P + YG + F G+ +A
Sbjct: 100 KVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159
Query: 654 QSYFDAMESAGLPPNAVIYNSLIKLYTKVGYLKEAQETYKLLRSL 698
M + + P +L+K+ K A + YK L+ L
Sbjct: 160 YEVDAHMVESEVVPEEPELAALLKVSMDT---KNADKVYKTLQRL 201
>pdb|2PFL|A Chain A, Crystal Structure Of Pfl From E.Coli
pdb|2PFL|B Chain B, Crystal Structure Of Pfl From E.Coli
pdb|3PFL|A Chain A, Crystal Structure Of Pfl From E.coli In Complex With
Substrate Analogue Oxamate
pdb|3PFL|B Chain B, Crystal Structure Of Pfl From E.coli In Complex With
Substrate Analogue Oxamate
pdb|1H16|A Chain A, Pyruvate Formate-Lyase (E.Coli) In Complex With Pyruvate
And Coa
pdb|1H17|A Chain A, Pyruvate Formate-Lyase (E.Coli) In Complex With Coa And
The Substrate Analog Oxamate
pdb|1H18|A Chain A, Pyruvate Formate-Lyase (E.Coli) In Complex With Pyruvate
pdb|1H18|B Chain B, Pyruvate Formate-Lyase (E.Coli) In Complex With Pyruvate
pdb|1MZO|A Chain A, Crystal Structure Of Pyruvate Formate-Lyase With Pyruvate
pdb|1MZO|B Chain B, Crystal Structure Of Pyruvate Formate-Lyase With Pyruvate
Length = 759
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 35/89 (39%), Gaps = 2/89 (2%)
Query: 109 DVISAVCVNGEVQTKCSTKWARYGGCIPSMLQALDTVKDLDEALKPWAENLSNKERSIIL 168
D A CV+ + K + +ML A++ +DE LK S + +L
Sbjct: 413 DYAIACCVSPMIVGKQMQFFGARANLAKTMLYAIN--GGVDEKLKMQVGPKSEPIKGDVL 470
Query: 169 KEQSSWERALEIFEWFKRQECHELNVIHY 197
ER +W +Q LN+IHY
Sbjct: 471 NYDEVMERMDHFMDWLAKQYITALNIIHY 499
>pdb|1QHM|A Chain A, Escherichia Coli Pyruvate Formate Lyase Large Domain
pdb|1QHM|B Chain B, Escherichia Coli Pyruvate Formate Lyase Large Domain
Length = 624
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 35/89 (39%), Gaps = 2/89 (2%)
Query: 109 DVISAVCVNGEVQTKCSTKWARYGGCIPSMLQALDTVKDLDEALKPWAENLSNKERSIIL 168
D A CV+ + K + +ML A++ +DE LK S + +L
Sbjct: 413 DYAIACCVSPMIVGKQMQFFGARANLAKTMLYAIN--GGVDEKLKMQVGPKSEPIKGDVL 470
Query: 169 KEQSSWERALEIFEWFKRQECHELNVIHY 197
ER +W +Q LN+IHY
Sbjct: 471 NYDEVMERMDHFMDWLAKQYITALNIIHY 499
>pdb|3NEH|A Chain A, Crystal Structure Of The Protein Lmo2462 From Listeria
Monocytogenes Complexed With Zn And Phosphonate Mimic Of
Dipeptide L-Leu-D-Ala
pdb|3NEH|B Chain B, Crystal Structure Of The Protein Lmo2462 From Listeria
Monocytogenes Complexed With Zn And Phosphonate Mimic Of
Dipeptide L-Leu-D-Ala
Length = 318
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 40/86 (46%), Gaps = 15/86 (17%)
Query: 171 QSSWERALEIFEWFKRQECHELNVIHYNIMLRTLGKARKWSYVQSLWDE-----MSVKGI 225
+ W++A+E FK+ H+ +IH+ +KW +++L ++ ++++GI
Sbjct: 59 EHKWKKAVEQVNIFKQHVLHKGGIIHH---------VKKWCDLENLPEDKIGAMLTLEGI 109
Query: 226 VPINSTYGTLIDVCSKGGLKEEAVCW 251
PI L + GG+ + W
Sbjct: 110 EPIGRDLDKLTQLLD-GGVLSVGLTW 134
>pdb|3GRK|A Chain A, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|B Chain B, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|C Chain C, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|D Chain D, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|E Chain E, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|F Chain F, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|G Chain G, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
pdb|3GRK|H Chain H, Crystal Structure Of Short Chain Dehydrogenase Reductase
Sdr Glucose-Ribitol Dehydrogenase From Brucella
Melitensis
Length = 293
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 28/126 (22%), Positives = 54/126 (42%), Gaps = 14/126 (11%)
Query: 616 EMAEEVYKDMIRFNVEPDVVVYGVLINAFADVGNVKQAQSYFDAMESAGLPPNAVIYNSL 675
E+A D ++ VEP G + DV + + F+ +E + L
Sbjct: 59 ELAFTYQGDALKKRVEPLAEELGAFVAGHCDVADAASIDAVFETLEKK--------WGKL 110
Query: 676 IKLYTKVGYLKEAQETYKLLRSLEASPDVYTSNCMIDLYSERSMVRQAEEIFEIMKKKGD 735
L +G+ + + T + + + EA+ +T+ +I +YS ++ R+AE ++M G
Sbjct: 111 DFLVHAIGFSDKDELTGRYIDTSEAN---FTNTMLISVYSLTAVSRRAE---KLMADGGS 164
Query: 736 ANEFTY 741
TY
Sbjct: 165 ILTLTY 170
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 741 YAMMLIMYKRNGRFEEATRIAKQMRESGLISDLLSYNNVL 780
Y +++ + R G F+E + ++++GL DLLSY L
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207
>pdb|3LU2|A Chain A, Structure Of Lmo2462, A Listeria Monocytogenes
Amidohydrolase Family Putative Dipeptidase
pdb|3LU2|B Chain B, Structure Of Lmo2462, A Listeria Monocytogenes
Amidohydrolase Family Putative Dipeptidase
Length = 311
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 40/86 (46%), Gaps = 15/86 (17%)
Query: 171 QSSWERALEIFEWFKRQECHELNVIHYNIMLRTLGKARKWSYVQSLWDE-----MSVKGI 225
+ W++A+E FK+ H+ +IH+ +KW +++L ++ ++++GI
Sbjct: 60 EHKWKKAVEQVNIFKQHVLHKGGIIHH---------VKKWCDLENLPEDKIGAXLTLEGI 110
Query: 226 VPINSTYGTLIDVCSKGGLKEEAVCW 251
PI L + GG+ + W
Sbjct: 111 EPIGRDLDKLTQLLD-GGVLSVGLTW 135
>pdb|1H5Q|A Chain A, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|B Chain B, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|C Chain C, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|D Chain D, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|E Chain E, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|F Chain F, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|G Chain G, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|H Chain H, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|I Chain I, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|J Chain J, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|K Chain K, Mannitol Dehydrogenase From Agaricus Bisporus
pdb|1H5Q|L Chain L, Mannitol Dehydrogenase From Agaricus Bisporus
Length = 265
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 41/111 (36%), Gaps = 10/111 (9%)
Query: 278 GEFQKAEEFFKKWSSRESLRHGEDTKTMIGKVENGSHVNGSLSSYTYNTLIDTYGKAGQL 337
G F K W ++ T +M ++ N S +NGSL+ YN+
Sbjct: 126 GVFNTCRAVAKLWLQKQQKGSIVVTSSMSSQIINQSSLNGSLTQVFYNS----------S 175
Query: 338 KEASETFAQMLREGIVPTTVTFNTMIHIYGNNDQLAEVDSLIKKMEELHCP 388
K A + L + N + Y N DQ A +D I+ + + P
Sbjct: 176 KAACSNLVKGLAAEWASAGIRVNALSPGYVNTDQTAHMDKKIRDHQASNIP 226
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
0.317 0.132 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,257,139
Number of Sequences: 62578
Number of extensions: 1056957
Number of successful extensions: 3103
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 3092
Number of HSP's gapped (non-prelim): 23
length of query: 856
length of database: 14,973,337
effective HSP length: 107
effective length of query: 749
effective length of database: 8,277,491
effective search space: 6199840759
effective search space used: 6199840759
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)