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= 029062
(199 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B54|A Chain A, Crystal Structure Of A Yeast Hypothetical Protein-A
Structure From Bnl's Human Proteome Project
Length = 257
Score = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 68/171 (39%), Positives = 99/171 (57%), Gaps = 12/171 (7%)
Query: 29 LPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGR--KPLKVL 86
LP+DIKWHF+G LQ+NK K L VPNL VE + + K A L+++ + P+
Sbjct: 82 LPDDIKWHFIGGLQTNKCKDL-AKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCN 140
Query: 87 VQVNTSGEESKSGIDPSSCLGIVEHVRL--RCPNLEFSGLMTIGMPD--YTSTPEN--FR 140
VQ+NTS E+ KSG++ + + V L C ++ +GLMTIG + + + EN F
Sbjct: 141 VQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGSWNVSHEDSKENRDFA 200
Query: 141 TLLNCRAEVCKALGMAEDQCELSMGMSGDFEQAIEMGSTSVRIGSTIFGPR 191
TL+ + ++ G + +LSMGMS DF +AI G+ VRIG+ IFG R
Sbjct: 201 TLVEWKKKIDAKFGTS---LKLSMGMSADFREAIRQGTAEVRIGTDIFGAR 248
>pdb|1CT5|A Chain A, Crystal Structure Of Yeast Hypothetical Protein
Ybl036c-Selenomet Crystal
Length = 256
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 65/171 (38%), Positives = 96/171 (56%), Gaps = 12/171 (7%)
Query: 29 LPEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGR--KPLKVL 86
LP+DIKWHF+G LQ+NK K L VPNL VE + + K A L+++ + P+
Sbjct: 81 LPDDIKWHFIGGLQTNKCKD-LAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCN 139
Query: 87 VQVNTSGEESKSGIDPSSCLGIVEHVRL--RCPNLEFSGLMTIGMPD--YTSTPEN--FR 140
VQ+NTS E+ KSG++ + + V L C ++ +GL TIG + + + EN F
Sbjct: 140 VQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLXTIGSWNVSHEDSKENRDFA 199
Query: 141 TLLNCRAEVCKALGMAEDQCELSMGMSGDFEQAIEMGSTSVRIGSTIFGPR 191
TL+ + ++ G + +LS G S DF +AI G+ VRIG+ IFG R
Sbjct: 200 TLVEWKKKIDAKFGTS---LKLSXGXSADFREAIRQGTAEVRIGTDIFGAR 247
>pdb|3R79|A Chain A, Crystal Structure Of An Uncharactertized Protein From
Agrobacterium Tumefaciens
pdb|3R79|B Chain B, Crystal Structure Of An Uncharactertized Protein From
Agrobacterium Tumefaciens
Length = 244
Score = 94.0 bits (232), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 68/162 (41%), Positives = 83/162 (51%), Gaps = 18/162 (11%)
Query: 32 DIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVNT 91
DI+ H +G LQSNKA V D+VE + EKIA L + + GR L+ VQVNT
Sbjct: 77 DIELHLIGPLQSNKAAD---AVALFDVVESIDREKIARALSEECARQGRS-LRFYVQVNT 132
Query: 92 SGEESKSGIDPSSCLGIVEHVR--LRCPNLEFSGLMTIGMPDYTSTPENFRTLLNCRAEV 149
E K+GIDP + V R L+ P GL I P P LL A
Sbjct: 133 GLEPQKAGIDPRETVAFVAFCRDELKLP---VEGLXCI--PPAEENPGPHFALLAKLAGQ 187
Query: 150 CKALGMAEDQCELSMGMSGDFEQAIEMGSTSVRIGSTIFGPR 191
C G+ + LS G SGDFE A+E G+TSVR+GS IFG R
Sbjct: 188 C---GLEK----LSXGXSGDFETAVEFGATSVRVGSAIFGSR 222
>pdb|3CPG|A Chain A, Crystal Structure Of An Unknown Protein From
Bifidobacterium Adolescentis
Length = 282
Score = 92.4 bits (228), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 63/166 (37%), Positives = 88/166 (53%), Gaps = 8/166 (4%)
Query: 31 EDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVLVQVN 90
E I +H +G LQSNK +L P +D +E V + +A + + G + VL++VN
Sbjct: 113 EHIPFHLIGQLQSNKIGKVL---PVVDTIESVDSIDLAEKISRRAVARG-ITVGVLLEVN 168
Query: 91 TSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIG--MPDYTSTPENFRTLLNCRAE 148
SGEESKSG DP+ + I + + +E GL TIG + D T F L R
Sbjct: 169 ESGEESKSGCDPAHAIRIAQKIGT-LDGIELQGLXTIGAHVHDETVIRRGFSHLRKTRDL 227
Query: 149 VCKALGMAEDQC-ELSMGMSGDFEQAIEMGSTSVRIGSTIFGPREY 193
+ + D+C ELS G +GD E AI GST VR+G+ IFG R +
Sbjct: 228 ILASGEPGTDRCRELSXGXTGDXELAIAEGSTIVRVGTAIFGERAF 273
>pdb|1W8G|A Chain A, Crystal Structure Of E. Coli K-12 Yggs
Length = 234
Score = 91.3 bits (225), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 63/168 (37%), Positives = 84/168 (50%), Gaps = 14/168 (8%)
Query: 33 IKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHL-DKAVSNLGRKPLKVLVQVNT 91
++WHF+G LQSNK++ + + D + +IA L D+ + L PL VL+Q+N
Sbjct: 77 LEWHFIGPLQSNKSRLV---AEHFDWCHTIDRLRIATRLNDQRPAEL--PPLNVLIQINI 131
Query: 92 SGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRTLLNCRAEVCK 151
S E SKSGI + + V P L GLM I P+ E R R
Sbjct: 132 SDENSKSGIQLAELDELAAAV-AELPRLRLRGLMAIPAPE----SEYVRQFEVARQMAVA 186
Query: 152 ALGMAEDQCE---LSMGMSGDFEQAIEMGSTSVRIGSTIFGPREYAKK 196
G+ LS+GMS D E AI GST VRIG+ IFG R+Y+KK
Sbjct: 187 FAGLKTRYPHIDTLSLGMSDDMEAAIAAGSTMVRIGTAIFGARDYSKK 234
>pdb|3SY1|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or70
Length = 245
Score = 76.6 bits (187), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 58/168 (34%), Positives = 80/168 (47%), Gaps = 14/168 (8%)
Query: 33 IKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKIANHL-DKAVSNLGRKPLKVLVQVNT 91
++W+F G LQSNK++ + + D + +IA L D+ + L PL VL+Q+N
Sbjct: 78 LEWNFAGPLQSNKSRLV---AEHFDWCITIDRLRIATRLNDQRPAEL--PPLNVLIQINI 132
Query: 92 SGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRTLLNCRAEVCK 151
S E SKSGI + + V P L GL I P+ E R R
Sbjct: 133 SDENSKSGIQLAELDELAAAV-AELPRLRLRGLSAIPAPE----SEYVRQFEVARQMAVA 187
Query: 152 ALGMAEDQCE---LSMGMSGDFEQAIEMGSTSVRIGSTIFGPREYAKK 196
G+ L++G S D E AI GST V IG+ IFG R+Y+KK
Sbjct: 188 FAGLKTRYPHIDTLALGQSDDMEAAIAAGSTMVAIGTAIFGARDYSKK 235
>pdb|1TQJ|A Chain A, Crystal Structure Of D-Ribulose 5-Phosphate 3-Epimerase
From Synechocystis To 1.6 Angstrom Resolution
pdb|1TQJ|B Chain B, Crystal Structure Of D-Ribulose 5-Phosphate 3-Epimerase
From Synechocystis To 1.6 Angstrom Resolution
pdb|1TQJ|C Chain C, Crystal Structure Of D-Ribulose 5-Phosphate 3-Epimerase
From Synechocystis To 1.6 Angstrom Resolution
pdb|1TQJ|D Chain D, Crystal Structure Of D-Ribulose 5-Phosphate 3-Epimerase
From Synechocystis To 1.6 Angstrom Resolution
pdb|1TQJ|E Chain E, Crystal Structure Of D-Ribulose 5-Phosphate 3-Epimerase
From Synechocystis To 1.6 Angstrom Resolution
pdb|1TQJ|F Chain F, Crystal Structure Of D-Ribulose 5-Phosphate 3-Epimerase
From Synechocystis To 1.6 Angstrom Resolution
Length = 230
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 26/113 (23%), Positives = 54/113 (47%), Gaps = 4/113 (3%)
Query: 84 KVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRTLL 143
+ L Q+ G+++ + ++PS+ L +E+V C +L + G + PE +
Sbjct: 103 RTLCQIRELGKKAGAVLNPSTPLDFLEYVLPVC-DLILIMSVNPGFGGQSFIPEVLPKIR 161
Query: 144 NCRAEVCKALGMAEDQCELSMGM-SGDFEQAIEMGSTSVRIGSTIFGPREYAK 195
R ++C G+ + E+ G+ + Q +E G+ ++ GS +F YA+
Sbjct: 162 ALR-QMCDERGL-DPWIEVDGGLKPNNTWQVLEAGANAIVAGSAVFNAPNYAE 212
>pdb|3HJL|A Chain A, The Structure Of Full-Length Flig From Aquifex Aeolicus
Length = 329
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 11/74 (14%)
Query: 15 KSLIKLLRFIDKYNL-------PEDIKWHFVGHLQSNKAKTLLGGVPNLDMVEGVGNEKI 67
+ +I++L+ +DK L PEDIK F+ ++ AK L + L V+ EK
Sbjct: 249 RDIIEILKVVDKNTLMIALLGAPEDIKQKFLSNMSKRAAKLFLEDMEALGPVKKSEIEKA 308
Query: 68 ANHLDKAVSNLGRK 81
V N+ RK
Sbjct: 309 QRQ----VVNIIRK 318
>pdb|1URJ|A Chain A, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
pdb|1URJ|B Chain B, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
Length = 1136
Score = 28.9 bits (63), Expect = 2.1, Method: Composition-based stats.
Identities = 15/59 (25%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 128 GMPDYTSTPENFRTLLNCRAEVCKALGMAEDQCELSMGMSGDFEQAIEMGSTSVRIGST 186
G DYT P + + A +C+ LG+ D+ L + ++ F++A+ + +T + +G +
Sbjct: 124 GFSDYTPRPGDLKHETTGEA-LCERLGLDPDRALLYLVVTEGFKEAVCINNTFLHLGGS 181
>pdb|3OIR|A Chain A, Crystal Structure Of Sulfate Transporter Family Protein
From Wolinella Succinogenes
pdb|3OIR|B Chain B, Crystal Structure Of Sulfate Transporter Family Protein
From Wolinella Succinogenes
pdb|4DGF|A Chain A, Structure Of Sulp Transporter Stas Domain From Wolinella
Succinogenes Refined To 1.6 Angstrom Resolution
pdb|4DGF|B Chain B, Structure Of Sulp Transporter Stas Domain From Wolinella
Succinogenes Refined To 1.6 Angstrom Resolution
Length = 135
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 41 LQSNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVS 76
L S + L G + +E +G E++ +H+DKA++
Sbjct: 88 LLSGVSDRLYGALNRFGFIEALGEERVFDHIDKALA 123
>pdb|1J7X|A Chain A, Crystal Structure Of A Functional Unit Of
Interphotoreceptor Retinoid-Binding Protein (Irbp)
Length = 302
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 43 SNKAKTLLGGVPNLDMVEGVGNEKIANHLDKAVSNLGRKPLKVL 86
S + TLL +PNLD + E IA L+ + +L P VL
Sbjct: 22 SERIPTLLQHLPNLDYSTVISEEDIAAKLNYELQSLTEDPRLVL 65
>pdb|3FFS|A Chain A, The Crystal Structure Of Cryptosporidium Parvum
Inosine-5'- Monophosphate Dehydrogenase
pdb|3FFS|B Chain B, The Crystal Structure Of Cryptosporidium Parvum
Inosine-5'- Monophosphate Dehydrogenase
pdb|3FFS|C Chain C, The Crystal Structure Of Cryptosporidium Parvum
Inosine-5'- Monophosphate Dehydrogenase
pdb|3FFS|D Chain D, The Crystal Structure Of Cryptosporidium Parvum
Inosine-5'- Monophosphate Dehydrogenase
Length = 400
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 167 SGDFEQAIEMGSTSVRIGSTIFGPRE 192
SGD +A+ +G++SV IGS + G E
Sbjct: 258 SGDIGKALAVGASSVMIGSILAGTEE 283
>pdb|3KHJ|A Chain A, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|B Chain B, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|C Chain C, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|D Chain D, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|E Chain E, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|F Chain F, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|G Chain G, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
pdb|3KHJ|H Chain H, C. Parvum Inosine Monophosphate Dehydrogenase Bound By
Inhibitor C64
Length = 361
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 167 SGDFEQAIEMGSTSVRIGSTIFGPRE 192
SGD +A+ +G++SV IGS + G E
Sbjct: 219 SGDIGKALAVGASSVMIGSILAGTEE 244
>pdb|2PSQ|A Chain A, Crystal Structure Of Unphosphorylated Unactivated Wild
Type Fgf Receptor 2 (Fgfr2) Kinase Domain
pdb|2PSQ|B Chain B, Crystal Structure Of Unphosphorylated Unactivated Wild
Type Fgf Receptor 2 (Fgfr2) Kinase Domain
Length = 370
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 8 LVKITYKKSLIK---LLRFIDKYNLPEDIKWHF 37
LV+IT + S +L + +Y LPED KW F
Sbjct: 46 LVRITTRLSSTADTPMLAGVSEYELPEDPKWEF 78
>pdb|3DYJ|A Chain A, Crystal Structure A Talin Rod Fragment
pdb|3DYJ|B Chain B, Crystal Structure A Talin Rod Fragment
Length = 332
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 9/86 (10%)
Query: 84 KVLVQVNTSGEESKSGIDPSSCLGIVEHVRLRCPNLEFSGLMTIGMPDYTSTPENFRTLL 143
KVLVQ N +G + K S + + R ++ G ++G D PE L+
Sbjct: 70 KVLVQ-NAAGSQEKLAQAAQSSVATI----TRLADVVKLGAASLGAED----PETQVVLI 120
Query: 144 NCRAEVCKALGMAEDQCELSMGMSGD 169
N +V KALG + + G GD
Sbjct: 121 NAVKDVAKALGDLISATKAAAGKVGD 146
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 0.135 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,744,549
Number of Sequences: 62578
Number of extensions: 228446
Number of successful extensions: 573
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 550
Number of HSP's gapped (non-prelim): 17
length of query: 199
length of database: 14,973,337
effective HSP length: 94
effective length of query: 105
effective length of database: 9,091,005
effective search space: 954555525
effective search space used: 954555525
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: 49 (23.5 bits)