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= 002664
(895 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MKR|A Chain A, Crystal Structure Of Yeast AlphaEPSILON-Cop Subcomplex Of
The Copi Vesicular Coat
Length = 291
Score = 37.0 bits (84), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 2/87 (2%)
Query: 481 LGKNGRVDDAYKFYEKMLDTDQIPNAILYTSLIRNFFKHGRK-EDGHKIYKEMVQRGCSP 539
L K R+D A K +KM D D+ + + G K +D + I++EM + CSP
Sbjct: 140 LLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSP 198
Query: 540 DLMLLNTYMDCVFKAGETEKGRALFEE 566
L+LLN C G E + +E
Sbjct: 199 TLLLLNGQAACHMAQGRWEAAEGVLQE 225
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 26/46 (56%)
Query: 335 YNTMIMGYGSVGKFDEAFSLFERLKQKGCIPSVIAYNSLLTCLGKK 380
YN +++G+ G F E + +K G P +++Y + L C+G++
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQ 213
>pdb|2PBR|A Chain A, Crystal Structure Of Thymidylate Kinase (Aq_969) From
Aquifex Aeolicus Vf5
pdb|2PBR|B Chain B, Crystal Structure Of Thymidylate Kinase (Aq_969) From
Aquifex Aeolicus Vf5
Length = 195
Score = 33.1 bits (74), Expect = 0.68, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 8/68 (11%)
Query: 619 DGFCKSGKVNKAYQLLEEMKTKGHY------PTVVTYGSVIDGLAKIDRLDE--AYMLFE 670
+G SGK +A +L E +K KG++ P G V+ + + LDE +LFE
Sbjct: 6 EGIDGSGKTTQAKKLYEYLKQKGYFVSLYREPGGTKVGEVLREILLTEELDERTELLLFE 65
Query: 671 EAKSKGIE 678
++SK IE
Sbjct: 66 ASRSKLIE 73
>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 = 33.1 bits (74), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 50/218 (22%), Positives = 94/218 (43%), Gaps = 23/218 (10%)
Query: 272 FGKVGKVDMAWKFFHEMKAQGVAPDDV-TYTSMIGVLCKSKRLEEAVAMFEQ---MDRNR 327
F G++ +A F KA + P+ + Y ++ VL +++ + AVA + + + N
Sbjct: 179 FNAQGEIWLAIHHFE--KAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNH 236
Query: 328 EVPCAYAYNTMIMGYGSVGKFDEAFSLFER-LKQKGCIPSVIAYNSLLTCLGKKGRVTEA 386
V + + Y G D A + R ++ + P AY +L L +KG V EA
Sbjct: 237 AV----VHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPD--AYCNLANALKEKGSVAEA 290
Query: 387 MKIFEAMKKDARPNNTTYNVLIDMLCKAGNFEDALK-FRDAMKEAGLFPNVMTVNIMVDR 445
+ + + + N L ++ + GN E+A++ +R A++ +FP + +
Sbjct: 291 EDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALE---VFPEFAAAHSNLAS 347
Query: 446 LCKAQ-KLDEAFSIFEGMDHKTCTPDAVTFCSLIDGLG 482
+ + Q KL EA M +K + TF +G
Sbjct: 348 VLQQQGKLQEAL-----MHYKEAIRISPTFADAYSNMG 380
>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 = 32.7 bits (73), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 52/127 (40%), Gaps = 11/127 (8%)
Query: 238 AREGRVDDALFLLDEMKNNAFSVDIVLYNVCI----------DCFGKVGKVDMAWKFFHE 287
+++G V +AL L DE + N + YNV + + G + + F +
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG-LSRGFDIFKQ 95
Query: 288 MKAQGVAPDDVTYTSMIGVLCKSKRLEEAVAMFEQMDRNREVPCAYAYNTMIMGYGSVGK 347
M V P++ T+T+ + E A M +QM P +Y + G+ G
Sbjct: 96 MIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGD 155
Query: 348 FDEAFSL 354
D+A+ +
Sbjct: 156 ADKAYEV 162
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/129 (21%), Positives = 55/129 (42%), Gaps = 11/129 (8%)
Query: 653 IDGLAKIDRLDEAYMLFEEAKSKGIELNTVIYSSLI----------DGFGKVGRIDEAYL 702
+D +K + EA L++EA+ G++L+ Y+ L+ + G + +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG-LSRGFD 91
Query: 703 IMEELMQKGLTPNAYTWNCLLDALVKAEEISEAFVCFQSMKDLKCTPNHVTYSIIINGLC 762
I ++++ + PN T+ V ++ AF + MK P +Y + G C
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 763 RVRKFNKAF 771
R +KA+
Sbjct: 152 RKGDADKAY 160
>pdb|3AKZ|B Chain B, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|D Chain D, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|C Chain C, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|A Chain A, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
Length = 487
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 600 YAMKKQGCVLDTRAYNTVVDGFCKSGKVNKAYQLLEEMKTKGHYPTVVTYGSVIDGLAKI 659
Y + V D RAY V D S ++ Y+ E K KGH P + + V+ G
Sbjct: 112 YREYAEKLVEDKRAYYVVYDKEDPSKELFTTYEYPHEYKEKGH-PVTIKF-KVLPGKTSF 169
Query: 660 DRLDEAYMLFEEA 672
+ L + YM F+ +
Sbjct: 170 EDLLKGYMEFDNS 182
>pdb|3AFH|A Chain A, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With A Glutamyl-Amp
Analog
Length = 488
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 600 YAMKKQGCVLDTRAYNTVVDGFCKSGKVNKAYQLLEEMKTKGHYPTVVTYGSVIDGLAKI 659
Y + V D RAY V D S ++ Y+ E K KGH P + + V+ G
Sbjct: 113 YREYAEKLVEDKRAYYVVYDKEDPSKELFTTYEYPHEYKEKGH-PVTIKF-KVLPGKTSF 170
Query: 660 DRLDEAYMLFEEA 672
+ L + YM F+ +
Sbjct: 171 EDLLKGYMEFDNS 183
>pdb|3AL0|C Chain C, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 592
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 600 YAMKKQGCVLDTRAYNTVVDGFCKSGKVNKAYQLLEEMKTKGHYPTVVTYGSVIDGLAKI 659
Y + V D RAY V D S ++ Y+ E K KGH P + + V+ G
Sbjct: 217 YREYAEKLVEDKRAYYVVYDKEDPSKELFTTYEYPHEYKEKGH-PVTIKF-KVLPGKTSF 274
Query: 660 DRLDEAYMLFEEA 672
+ L + YM F+ +
Sbjct: 275 EDLLKGYMEFDNS 287
>pdb|4G1J|A Chain A, Sortase C1 Of Gbs Pilus Island 1
pdb|4G1J|B Chain B, Sortase C1 Of Gbs Pilus Island 1
Length = 222
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 313 LEEAVAMFEQMDRNREVPCAYAYNTMIMGYGSVGKF 348
+EAV ++++ NR + AYAYN I G + G++
Sbjct: 9 FKEAVTKIDRVEINRRLELAYAYNASIAGAKTNGEY 44
>pdb|3RBJ|A Chain A, Crystal Structure Of The Lid-Mutant Of Streptococcus
Agalactiae Sortase C1
pdb|3RBJ|B Chain B, Crystal Structure Of The Lid-Mutant Of Streptococcus
Agalactiae Sortase C1
Length = 230
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 313 LEEAVAMFEQMDRNREVPCAYAYNTMIMGYGSVGKF 348
+EAV ++++ NR + AYAYN I G + G++
Sbjct: 20 FKEAVTKIDRVEINRRLELAYAYNASIAGAKTNGEY 55
>pdb|3RBI|A Chain A, The Type Iii Crystal Structure Of Streptococcus Agalactiae
Sortase C1
pdb|3RBI|B Chain B, The Type Iii Crystal Structure Of Streptococcus Agalactiae
Sortase C1
pdb|3RBK|A Chain A, The Type Ii Crystal Structure Of Streptococcus Agalactiae
Sortase C1
pdb|3RBK|B Chain B, The Type Ii Crystal Structure Of Streptococcus Agalactiae
Sortase C1
pdb|3TB7|A Chain A, The Type I Crystal Structure Of Streptococcus Agalactiae
Sortase C1
pdb|3TBE|A Chain A, The Crystal Structure Of The Complex Of Streptococcus
Agalactiae Sortase C1 And Mtset
pdb|3TBE|B Chain B, The Crystal Structure Of The Complex Of Streptococcus
Agalactiae Sortase C1 And Mtset
pdb|3TBE|C Chain C, The Crystal Structure Of The Complex Of Streptococcus
Agalactiae Sortase C1 And Mtset
pdb|3TBE|D Chain D, The Crystal Structure Of The Complex Of Streptococcus
Agalactiae Sortase C1 And Mtset
pdb|3TBE|E Chain E, The Crystal Structure Of The Complex Of Streptococcus
Agalactiae Sortase C1 And Mtset
pdb|3TBE|F Chain F, The Crystal Structure Of The Complex Of Streptococcus
Agalactiae Sortase C1 And Mtset
Length = 230
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 313 LEEAVAMFEQMDRNREVPCAYAYNTMIMGYGSVGKF 348
+EAV ++++ NR + AYAYN I G + G++
Sbjct: 20 FKEAVTKIDRVEINRRLELAYAYNASIAGAKTNGEY 55
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 27/129 (20%), Positives = 53/129 (41%), Gaps = 11/129 (8%)
Query: 653 IDGLAKIDRLDEAYMLFEEAKSKGIELNTVIYSSLI----------DGFGKVGRIDEAYL 702
+D +K + EA L++EA+ G++L+ Y+ L+ + G + +
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG-LSRGFD 91
Query: 703 IMEELMQKGLTPNAYTWNCLLDALVKAEEISEAFVCFQSMKDLKCTPNHVTYSIIINGLC 762
I ++ + + PN T+ V ++ AF + K P +Y + G C
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 763 RVRKFNKAF 771
R +KA+
Sbjct: 152 RKGDADKAY 160
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 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,593,802
Number of Sequences: 62578
Number of extensions: 1073046
Number of successful extensions: 2702
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2671
Number of HSP's gapped (non-prelim): 37
length of query: 895
length of database: 14,973,337
effective HSP length: 108
effective length of query: 787
effective length of database: 8,214,913
effective search space: 6465136531
effective search space used: 6465136531
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: 56 (26.2 bits)