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= 028674
(205 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VGY|A Chain A, Crystal Structure Of Succinyl Diaminopimelate
Desuccinylase
pdb|1VGY|B Chain B, Crystal Structure Of Succinyl Diaminopimelate
Desuccinylase
Length = 393
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 65/164 (39%), Gaps = 20/164 (12%)
Query: 16 IAVFIAS-EENSAITGVG--VDAL-VKDGLLNKLKGGPLYWIDTADKQPCIGTGGMIPWK 71
IA+ I S EE A+ G VD L +D L++ G +D G G +
Sbjct: 129 IALLITSDEEGDALDGTTKVVDVLKARDELIDYCIVGEPTAVDKLGDXIKNGRRGSLSGN 188
Query: 72 LHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKD----FPPHPKEQVYGFETPSTMK 127
L V GK H PH AINP+ AL + + + FP P++ +
Sbjct: 189 LTVKGKQGHIAYPHLAINPVHTFAPALLELTQEVWDEGNEYFP------------PTSFQ 236
Query: 128 PTQWSYPGGGINQIPGECTVSGDVRLTPFYNVTDVMKRLQEYVD 171
+ + G N IPGE V + R + + +R+ +D
Sbjct: 237 ISNINGGTGATNVIPGELNVKFNFRFSTESTEAGLKQRVHAILD 280
>pdb|1CG2|A Chain A, Carboxypeptidase G2
pdb|1CG2|B Chain B, Carboxypeptidase G2
pdb|1CG2|C Chain C, Carboxypeptidase G2
pdb|1CG2|D Chain D, Carboxypeptidase G2
Length = 393
Score = 33.5 bits (75), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 49/115 (42%), Gaps = 19/115 (16%)
Query: 57 DKQPCIGTGGMIPWKLHVTGKLFHSG-LPHKAINPLELAMEALKVIQTRFYKDFPPHPKE 115
D++ +GT G+ ++++TGK H+G P +N L A + V++T D + +
Sbjct: 184 DEKLSLGTSGIAYVQVNITGKASHAGAAPELGVNALVEASDL--VLRTMNIDDKAKNLR- 240
Query: 116 QVYGFETPSTMKPTQWSYPGGG--INQIPGECTVSGDVRLTPFYNVTDVMKRLQE 168
W+ G N IP T++ DVR + MK L+E
Sbjct: 241 -------------FNWTIAKAGNVSNIIPASATLNADVRYARNEDFDAAMKTLEE 282
>pdb|4EWT|A Chain A, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
pdb|4EWT|C Chain C, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
pdb|4EWT|D Chain D, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
pdb|4EWT|B Chain B, The Crystal Structure Of A Putative Aminohydrolase From
Methicillin Resistant Staphylococcus Aureus
Length = 392
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 62/146 (42%), Gaps = 21/146 (14%)
Query: 32 GVDALVKDGLLNKLKGGPLYWIDTADKQPCIGTGGMIPWKLHVTGKLFHSGLPHKAINPL 91
GVD ++ +++ +K G +Y+ +P G +KL V GK H PH A + +
Sbjct: 156 GVDHVLGVHVMSTMKTGKVYY------RPGYVQTGRAFFKLKVQGKGGHGSSPHMANDAI 209
Query: 92 ELAMEALKVIQTRFYKDFPPHPKEQVYGFETPSTMKPTQWSYPG-GGINQIPGECTVSGD 150
+ +QT + P FET T S+ G G N I + GD
Sbjct: 210 VAGSYFVTALQTVVSRRLSP--------FETGVV---TIGSFDGKGQFNVIKDVVEIEGD 258
Query: 151 VR-LTPFYNVT--DVMKRLQEYVDDI 173
VR LT T +KRL + ++D+
Sbjct: 259 VRGLTDATKATIEKEIKRLSKGLEDM 284
>pdb|2POK|A Chain A, Crystal Structure Of A M20 Family Metallo Peptidase From
Streptococcus Pneumoniae
pdb|2POK|B Chain B, Crystal Structure Of A M20 Family Metallo Peptidase From
Streptococcus Pneumoniae
Length = 481
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 56/149 (37%), Gaps = 35/149 (23%)
Query: 53 IDTADKQPCIGTGGMI---PWKL--------HVTGKLFHSGLPHKAINPLELAMEALKVI 101
+ +AD GG++ PW L G++ GL + P E M L+
Sbjct: 234 VKSADVDIHSSYGGVVESAPWYLLQALQSLRAADGRILVEGLYEEVQEPNEREMALLETY 293
Query: 102 QTRFYKDFPPHPKEQVYGFETPS------------------TMKPTQWSYPGGGINQI-P 142
R P ++YG E P ++ Q Y G G+ I P
Sbjct: 294 GQR-----NPEEVSRIYGLELPLLQEERMAFLKRFFFDPALNIEGIQSGYQGQGVKTILP 348
Query: 143 GECTVSGDVRLTPFYNVTDVMKRLQEYVD 171
E + +VRL P DV++++++ +D
Sbjct: 349 AEASAKLEVRLVPGLEPHDVLEKIRKQLD 377
>pdb|1XMB|A Chain A, X-ray Structure Of Iaa-aminoacid Hydrolase From
Arabidopsis Thaliana Gene At5g56660
pdb|2Q43|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Iaa-Aminoacid Hydrolase From Arabidopsis Thaliana Gene
At5g56660
Length = 418
Score = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 39/175 (22%), Positives = 75/175 (42%), Gaps = 26/175 (14%)
Query: 4 LGETKLKLKSTVIAVFIASEENSAITGVGVDALVKDGLLNKLKGGPLYWIDTADKQPC-- 61
L E + L+ TV+ +F +EE + G + ++G L ++ ++ I + + P
Sbjct: 132 LHEHRHHLQGTVVLIFQPAEEGLS----GAKKMREEGALKNVEA--IFGIHLSARIPFGK 185
Query: 62 ----IGT--GGMIPWKLHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPHPKE 115
G+ G ++ +TGK H+ +P I+P+ A + +Q ++ P +
Sbjct: 186 AASRAGSFLAGAGVFEAVITGKGGHAAIPQHTIDPVVAASSIVLSLQQLVSRETDPLDSK 245
Query: 116 QVYGFETPSTMKPTQWSYPGGGINQIPGECTVSGDVRLTPFYNVTDVMKRLQEYV 170
V T S + G N IP T+ G +R F T + +R++E +
Sbjct: 246 VV----TVSKVN------GGNAFNVIPDSITIGGTLR--AFTGFTQLQQRVKEVI 288
>pdb|2RB7|A Chain A, Crystal Structure Of Co-Catalytic Metallopeptidase
(Yp_387682.1) From Desulfovibrio Desulfuricans G20 At
1.60 A Resolution
pdb|2RB7|B Chain B, Crystal Structure Of Co-Catalytic Metallopeptidase
(Yp_387682.1) From Desulfovibrio Desulfuricans G20 At
1.60 A Resolution
Length = 364
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 66 GMIPWKLHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPH 112
G+I KL TGK H P +N ++L E ++T F ++ H
Sbjct: 176 GIIDIKLTCTGKAAHGARPWXGVNAVDLLXEDYTRLKTLFAEENEDH 222
>pdb|3DLJ|A Chain A, Crystal Structure Of Human Carnosine Dipeptidase 1
pdb|3DLJ|B Chain B, Crystal Structure Of Human Carnosine Dipeptidase 1
Length = 485
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 21/99 (21%)
Query: 118 YGFETPSTMKPTQWSYPGGGIN-------------QIPGECTVSGDVRLTPFYNVTDVMK 164
+ F+T + W YP I+ IPG +RL P NV+ V K
Sbjct: 307 FLFDTKEEILMHLWRYPSLSIHGIEGAFDEPGTKTVIPGRVIGKFSIRLVPHMNVSAVEK 366
Query: 165 RLQEYVDDINENIEKLDTRGPVSKYVLPDENIRGRHPYI 203
++ +++D+ R +K V+ G HP+I
Sbjct: 367 QVTRHLEDV------FSKRNSSNKMVV--SMTLGLHPWI 397
>pdb|2L3J|A Chain A, The Solution Structure Of The Adar2 Dsrbm-Rna Complex
Reveals A Sequence-Specific Read Out Of The Minor Groove
Length = 236
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 31/84 (36%), Gaps = 5/84 (5%)
Query: 71 KLHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPHPKEQVYGFETPSTMKPTQ 130
KLH K S + + LAM + T F D P GFETP +P
Sbjct: 58 KLHAAEKALRSFVQFPNASEAHLAMGRTLSVNTDFTSDQADFPDTLFNGFETPDKSEPPF 117
Query: 131 WSYPGGGINQIPGECTVSGDVRLT 154
+ G + SGDV L+
Sbjct: 118 YVGSNGD-----DSFSSSGDVSLS 136
>pdb|3IC1|A Chain A, Crystal Structure Of Zinc-Bound Succinyl-Diaminopimelate
Desuccinylase From Haemophilus Influenzae
pdb|3IC1|B Chain B, Crystal Structure Of Zinc-Bound Succinyl-Diaminopimelate
Desuccinylase From Haemophilus Influenzae
pdb|3ISZ|A Chain A, Crystal Structure Of Mono-zinc Form Of
Succinyl-diaminopimelate Desuccinylase From Haemophilus
Influenzae
pdb|3ISZ|B Chain B, Crystal Structure Of Mono-zinc Form Of
Succinyl-diaminopimelate Desuccinylase From Haemophilus
Influenzae
Length = 377
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/112 (20%), Positives = 44/112 (39%), Gaps = 8/112 (7%)
Query: 63 GTGGMIPWKLHVTGKLFHSGLPHKAINPLELAMEALKVIQTRFYKDFPPHPKEQVYGFET 122
G G I L++ G H PH A NP+ A F ++ + ++ F
Sbjct: 177 GRRGSITGNLYIQGIQGHVAYPHLAENPIHKA--------ALFLQELTTYQWDKGNEFFP 228
Query: 123 PSTMKPTQWSYPGGGINQIPGECTVSGDVRLTPFYNVTDVMKRLQEYVDDIN 174
P++++ G N IP E + ++R + +++ E ++ N
Sbjct: 229 PTSLQIANIHAGTGSNNVIPAELYIQFNLRYCTEVTDEIIKQKVAEMLEKHN 280
>pdb|1AP8|A Chain A, Translation Initiation Factor Eif4e In Complex With M7gdp,
Nmr, 20 Structures
Length = 213
Score = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 13/80 (16%)
Query: 14 TVIAVF--IASEENSAITGVGVDALVKDGLLNKLKGGPLY--WIDTADKQPCIGTGGMIP 69
T++AV E++S I GV +L+ KGG + W + DK+P + GG
Sbjct: 133 TLLAVIGETIDEDDSQINGV---------VLSIRKGGNKFALWTKSEDKEPLLRIGGKFK 183
Query: 70 WKLHVTGKLFHSGLPHKAIN 89
L +T PH + N
Sbjct: 184 QVLKLTDDGHLEFFPHSSAN 203
>pdb|3ECS|A Chain A, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|B Chain B, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|C Chain C, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|D Chain D, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|E Chain E, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|F Chain F, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|G Chain G, Crystal Structure Of Human Eif2b Alpha
pdb|3ECS|H Chain H, Crystal Structure Of Human Eif2b Alpha
Length = 315
Score = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 1/72 (1%)
Query: 135 GGGINQI-PGECTVSGDVRLTPFYNVTDVMKRLQEYVDDINENIEKLDTRGPVSKYVLPD 193
GG IN+I + V + PFY V + K ++ + + + +K + K
Sbjct: 204 GGIINKIGTNQXAVCAKAQNKPFYVVAESFKFVRLFPLNQQDVPDKFKYKADTLKVAQTG 263
Query: 194 ENIRGRHPYIDF 205
++++ HP++D+
Sbjct: 264 QDLKEEHPWVDY 275
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
0.318 0.139 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,957,552
Number of Sequences: 62578
Number of extensions: 311057
Number of successful extensions: 696
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 692
Number of HSP's gapped (non-prelim): 11
length of query: 205
length of database: 14,973,337
effective HSP length: 94
effective length of query: 111
effective length of database: 9,091,005
effective search space: 1009101555
effective search space used: 1009101555
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)