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= psy6259
(227 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ITQ|A Chain A, Crystal Structure Of A Prolyl 4-Hydroxylase From Bacillus
Anthracis
pdb|3ITQ|B Chain B, Crystal Structure Of A Prolyl 4-Hydroxylase From Bacillus
Anthracis
Length = 216
Score = 91.3 bits (225), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 62/180 (34%), Positives = 87/180 (48%), Gaps = 14/180 (7%)
Query: 44 YLDPRVVKIHDAIYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRLSKVYFLYPEIFGD 103
+ +P +V + + + D E + +IELSK K+ R KV + D D R S FL D
Sbjct: 36 FEEPLIVVLGNVLSDEECDELIELSKSKLARSKVGSSRDV--NDIRTSSGAFL-----DD 88
Query: 104 HPFLYKIQTRIQDMTNLVIGREERYKGPLQINNYGLGGHYDLHCD---ATPRDEGLWRLA 160
+ KI+ RI + N+ E L I NY + Y H D R R++
Sbjct: 89 NELTAKIEKRISSIXNVPASHGE----GLHILNYEVDQQYKAHYDYFAEHSRSAANNRIS 144
Query: 161 SFMFYLTDVELGGATIFPSLNLTVFPEKGSAVFWYNAHANTLLDYRMYHSGCPVALGNKW 220
+ + YL DVE GG T FP LNL+V P KG AV++ + + L+ H G PV G KW
Sbjct: 145 TLVXYLNDVEEGGETFFPKLNLSVHPRKGXAVYFEYFYQDQSLNELTLHGGAPVTKGEKW 204
>pdb|2JIG|A Chain A, Crystal Structure Of Chlamydomonas Reinhardtii Prolyl-4
Hydroxylase Type I Complexed With Zinc And Pyridine-2,4-
Dicarboxylate
pdb|2JIG|B Chain B, Crystal Structure Of Chlamydomonas Reinhardtii Prolyl-4
Hydroxylase Type I Complexed With Zinc And Pyridine-2,4-
Dicarboxylate
Length = 224
Score = 64.3 bits (155), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 55/207 (26%), Positives = 93/207 (44%), Gaps = 34/207 (16%)
Query: 39 KVEELYLDPRVVKIHDAIYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRL---SKVYF 95
+V L PR + + + D E + I+E ++ K+ + VV+ VD+ + + +F
Sbjct: 12 EVVHLSWSPRAFLLKNFLSDEECDYIVEKARPKMVKSSVVDNESGKSVDSEIRTSTGTWF 71
Query: 96 LYPEIFGDHPFLYKIQTRIQDMTNLVIGREERYKGPLQINNYGLGGHYDLHCD------- 148
G+ + KI+ R+ +T + + E ++G LQ+ +Y G Y+ H D
Sbjct: 72 AK----GEDSVISKIEKRVAQVTMIPL---ENHEG-LQVLHYHDGQKYEPHYDYFHDPVN 123
Query: 149 ATPRDEGLWRLASFMFYLTDVELGGATIFPSLN---------------LTVFPEKGSAVF 193
A P + G R+ + + YLT VE GG T+ P+ L V P KG A+
Sbjct: 124 AGP-EHGGQRVVTMLMYLTTVEEGGETVLPNAEQKVTGDGWSECAKRGLAVKPIKGDALM 182
Query: 194 WYNAHANTLLDYRMYHSGCPVALGNKW 220
+Y+ + D H CP G+KW
Sbjct: 183 FYSLKPDGSNDPASLHGSCPTLKGDKW 209
>pdb|2JIJ|A Chain A, Crystal Structure Of The Apo Form Of Chlamydomonas
Reinhardtii Prolyl-4 Hydroxylase Type I
pdb|2JIJ|B Chain B, Crystal Structure Of The Apo Form Of Chlamydomonas
Reinhardtii Prolyl-4 Hydroxylase Type I
pdb|2JIJ|C Chain C, Crystal Structure Of The Apo Form Of Chlamydomonas
Reinhardtii Prolyl-4 Hydroxylase Type I
Length = 233
Score = 63.9 bits (154), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 55/207 (26%), Positives = 93/207 (44%), Gaps = 34/207 (16%)
Query: 39 KVEELYLDPRVVKIHDAIYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRL---SKVYF 95
+V L PR + + + D E + I+E ++ K+ + VV+ VD+ + + +F
Sbjct: 21 EVVHLSWSPRAFLLKNFLSDEECDYIVEKARPKMVKSSVVDNESGKSVDSEIRTSTGTWF 80
Query: 96 LYPEIFGDHPFLYKIQTRIQDMTNLVIGREERYKGPLQINNYGLGGHYDLHCD------- 148
G+ + KI+ R+ +T + + E ++G LQ+ +Y G Y+ H D
Sbjct: 81 AK----GEDSVISKIEKRVAQVTMIPL---ENHEG-LQVLHYHDGQKYEPHYDYFHDPVN 132
Query: 149 ATPRDEGLWRLASFMFYLTDVELGGATIFPSLN---------------LTVFPEKGSAVF 193
A P + G R+ + + YLT VE GG T+ P+ L V P KG A+
Sbjct: 133 AGP-EHGGQRVVTMLMYLTTVEEGGETVLPNAEQKVTGDGWSECAKRGLAVKPIKGDALM 191
Query: 194 WYNAHANTLLDYRMYHSGCPVALGNKW 220
+Y+ + D H CP G+KW
Sbjct: 192 FYSLKPDGSNDPASLHGSCPTLKGDKW 218
>pdb|3GZE|A Chain A, Algal Prolyl 4-Hydroxylase Complexed With Zinc And
(Ser-Pro)5 Peptide Substrate
pdb|3GZE|B Chain B, Algal Prolyl 4-Hydroxylase Complexed With Zinc And
(Ser-Pro)5 Peptide Substrate
pdb|3GZE|C Chain C, Algal Prolyl 4-Hydroxylase Complexed With Zinc And
(Ser-Pro)5 Peptide Substrate
pdb|3GZE|D Chain D, Algal Prolyl 4-Hydroxylase Complexed With Zinc And
(Ser-Pro)5 Peptide Substrate
Length = 225
Score = 63.9 bits (154), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 55/207 (26%), Positives = 93/207 (44%), Gaps = 34/207 (16%)
Query: 39 KVEELYLDPRVVKIHDAIYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRL---SKVYF 95
+V L PR + + + D E + I+E ++ K+ + VV+ VD+ + + +F
Sbjct: 13 EVVHLSWSPRAFLLKNFLSDEECDYIVEKARPKMVKSSVVDNESGKSVDSEIRTSTGTWF 72
Query: 96 LYPEIFGDHPFLYKIQTRIQDMTNLVIGREERYKGPLQINNYGLGGHYDLHCD------- 148
G+ + KI+ R+ +T + + E ++G LQ+ +Y G Y+ H D
Sbjct: 73 AK----GEDSVISKIEKRVAQVTMIPL---ENHEG-LQVLHYHDGQKYEPHYDYFHDPVN 124
Query: 149 ATPRDEGLWRLASFMFYLTDVELGGATIFPSLN---------------LTVFPEKGSAVF 193
A P + G R+ + + YLT VE GG T+ P+ L V P KG A+
Sbjct: 125 AGP-EHGGQRVVTMLMYLTTVEEGGETVLPNAEQKVTGDGWSECAKRGLAVKPIKGDALM 183
Query: 194 WYNAHANTLLDYRMYHSGCPVALGNKW 220
+Y+ + D H CP G+KW
Sbjct: 184 FYSLKPDGSNDPASLHGSCPTLKGDKW 210
>pdb|2V4A|A Chain A, Crystal Structure Of The Semet-Labeled Prolyl-4
Hydroxylase (P4h) Type I From Green Algae Chlamydomonas
Reinhardtii.
pdb|2V4A|B Chain B, Crystal Structure Of The Semet-Labeled Prolyl-4
Hydroxylase (P4h) Type I From Green Algae Chlamydomonas
Reinhardtii.
pdb|2V4A|C Chain C, Crystal Structure Of The Semet-Labeled Prolyl-4
Hydroxylase (P4h) Type I From Green Algae Chlamydomonas
Reinhardtii.
pdb|2V4A|D Chain D, Crystal Structure Of The Semet-Labeled Prolyl-4
Hydroxylase (P4h) Type I From Green Algae Chlamydomonas
Reinhardtii
Length = 233
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 55/207 (26%), Positives = 92/207 (44%), Gaps = 34/207 (16%)
Query: 39 KVEELYLDPRVVKIHDAIYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRL---SKVYF 95
+V L PR + + + D E + I+E ++ K + VV+ VD+ + + +F
Sbjct: 21 EVVHLSWSPRAFLLKNFLSDEECDYIVEKARPKXVKSSVVDNESGKSVDSEIRTSTGTWF 80
Query: 96 LYPEIFGDHPFLYKIQTRIQDMTNLVIGREERYKGPLQINNYGLGGHYDLHCD------- 148
G+ + KI+ R+ +T + + E ++G LQ+ +Y G Y+ H D
Sbjct: 81 AK----GEDSVISKIEKRVAQVTXIPL---ENHEG-LQVLHYHDGQKYEPHYDYFHDPVN 132
Query: 149 ATPRDEGLWRLASFMFYLTDVELGGATIFPSLN---------------LTVFPEKGSAVF 193
A P + G R+ + + YLT VE GG T+ P+ L V P KG A+
Sbjct: 133 AGP-EHGGQRVVTXLXYLTTVEEGGETVLPNAEQKVTGDGWSECAKRGLAVKPIKGDALX 191
Query: 194 WYNAHANTLLDYRMYHSGCPVALGNKW 220
+Y+ + D H CP G+KW
Sbjct: 192 FYSLKPDGSNDPASLHGSCPTLKGDKW 218
>pdb|2JQX|A Chain A, Solution Structure Of Malate Synthase G From Joint
Refinement Against Nmr And Saxs Data
Length = 723
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 56 IYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRLSKVYFLYPEIFGDH--PFLYKIQTR 113
I+DSE N I E V G + Y + ++R VY + P++ G F K+ TR
Sbjct: 349 IWDSEGNEIPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTR 408
Query: 114 IQDMTNLV 121
I+ M +
Sbjct: 409 IETMLGMA 416
>pdb|1Y8B|A Chain A, Solution Nmr-Derived Global Fold Of Malate Synthase G From
E.Coli
Length = 731
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 56 IYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRLSKVYFLYPEIFGDH--PFLYKIQTR 113
I+DSE N I E V G + Y + ++R VY + P++ G F K+ TR
Sbjct: 349 IWDSEGNEIPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTR 408
Query: 114 IQDMTNLV 121
I+ M +
Sbjct: 409 IETMLGMA 416
>pdb|1P7T|A Chain A, Structure Of Escherichia Coli Malate Synthase
G:pyruvate:acetyl- Coenzyme A Abortive Ternary Complex
At 1.95 Angstrom Resolution
Length = 731
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 56 IYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRLSKVYFLYPEIFGDH--PFLYKIQTR 113
I+DSE N I E V G + Y + ++R VY + P++ G F K+ TR
Sbjct: 349 IWDSEGNEIPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTR 408
Query: 114 IQDMTNLV 121
I+ M +
Sbjct: 409 IETMLGMA 416
>pdb|3FGQ|A Chain A, Crystal Structure Of Native Human Neuroserpin
pdb|3FGQ|B Chain B, Crystal Structure Of Native Human Neuroserpin
Length = 397
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 90 LSKVYFLYPEIFGDHPFLYKIQTRIQDMTNLVIGR 124
+S++ LYP++ DHPF + I+ R + T L +GR
Sbjct: 357 ISRMAVLYPQVIVDHPFFFLIRNR-RTGTILFMGR 390
>pdb|3F5N|A Chain A, Structure Of Native Human Neuroserpin
pdb|3F5N|B Chain B, Structure Of Native Human Neuroserpin
pdb|3F5N|C Chain C, Structure Of Native Human Neuroserpin
pdb|3F5N|D Chain D, Structure Of Native Human Neuroserpin
pdb|3F5N|E Chain E, Structure Of Native Human Neuroserpin
Length = 407
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 90 LSKVYFLYPEIFGDHPFLYKIQTRIQDMTNLVIGR 124
+S++ LYP++ DHPF + I+ R + T L +GR
Sbjct: 357 ISRMAVLYPQVIVDHPFFFLIRNR-RTGTILFMGR 390
>pdb|1P7T|B Chain B, Structure Of Escherichia Coli Malate Synthase
G:pyruvate:acetyl- Coenzyme A Abortive Ternary Complex
At 1.95 Angstrom Resolution
Length = 731
Score = 31.2 bits (69), Expect = 0.51, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 56 IYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRLSKVYFLYPEIFGDH--PFLYKIQTR 113
I+DSE N I E V G + Y + ++R VY + P++ G F K+ TR
Sbjct: 349 IWDSEGNEIPEGILDGVMTGAIALYDLKVQKNSRTGSVYIVKPKMHGPQEVAFANKLFTR 408
Query: 114 IQDMTNL 120
I+ M +
Sbjct: 409 IETMLGM 415
>pdb|1CSG|A Chain A, Three-Dimensional Structure Of Recombinant Human
Granulocyte-Macrophage Colony-Stimulating Factor
pdb|1CSG|B Chain B, Three-Dimensional Structure Of Recombinant Human
Granulocyte-Macrophage Colony-Stimulating Factor
pdb|2GMF|A Chain A, Human Granulocyte Macrophage Colony Stimulating Factor
pdb|2GMF|B Chain B, Human Granulocyte Macrophage Colony Stimulating Factor
pdb|3CXE|B Chain B, Structure Of The Gm-Csf Receptor Complex
Length = 127
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 110 IQTRIQDMTNLVIGREERYKGPLQINNYGLGGHYDLHCDATPRDEGLWRLASF 162
+QTR++ + G + KGPL + + HY HC TP ++ +F
Sbjct: 55 LQTRLELYKQGLRGSLTKLKGPLTM----MASHYKQHCPPTPETSCATQIITF 103
>pdb|3F02|C Chain C, Cleaved Human Neuroserpin
pdb|3F02|D Chain D, Cleaved Human Neuroserpin
Length = 48
Score = 29.3 bits (64), Expect = 2.0, Method: Composition-based stats.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 96 LYPEIFGDHPFLYKIQTRIQDMTNLVIGR 124
LYP++ DHPF + I+ R + T L +GR
Sbjct: 4 LYPQVIVDHPFFFLIRNR-RTGTILFMGR 31
>pdb|1D8C|A Chain A, Malate Synthase G Complexed With Magnesium And Glyoxylate
Length = 723
Score = 28.5 bits (62), Expect = 2.8, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 56 IYDSEINRIIELSKGKVERGKVVNYGDTIYVDTRLSKVYFLYPEIFGDH--PFLYKIQTR 113
I+DSE N I E V G + Y + ++R VY + P+ G F K+ TR
Sbjct: 349 IWDSEGNEIPEGILDGVXTGAIALYDLKVQKNSRTGSVYIVKPKXHGPQEVAFANKLFTR 408
Query: 114 IQ 115
I+
Sbjct: 409 IE 410
>pdb|2GHA|A Chain A, Thermotoga Maritima Maltotriose Binding Protein Bound With
Maltotriose
pdb|2GHA|B Chain B, Thermotoga Maritima Maltotriose Binding Protein Bound With
Maltotriose
pdb|2GHB|A Chain A, Thermotoga Maritima Maltotriose Binding Protein, Ligand
Free Form
pdb|2GHB|B Chain B, Thermotoga Maritima Maltotriose Binding Protein, Ligand
Free Form
pdb|2GHB|C Chain C, Thermotoga Maritima Maltotriose Binding Protein, Ligand
Free Form
Length = 382
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 57/122 (46%), Gaps = 21/122 (17%)
Query: 19 SNLKCFYESYNNTFLKIGPLKVEELYLDPRVVKIHDAIYDSE--------INRIIELSKG 70
S+LK FYE+ N F G +LY P ++ IY+ + ++ +IE++K
Sbjct: 82 SDLKNFYETALNAFSYGG-----KLYGIPYAMEAIALIYNKDYVPEPPKTMDELIEIAKQ 136
Query: 71 KVER--GKVVNYGDTIYVDTRLSKVYFLYPEIFGDHPFLYKIQTRIQDMTNLVIGREERY 128
E G+V + T ++ Y++ P IFG +++K + D+ ++ + E
Sbjct: 137 IDEEFGGEVRGF------ITSAAEFYYIAPFIFGYGGYVFKQTEKGLDVNDIGLANEGAI 190
Query: 129 KG 130
KG
Sbjct: 191 KG 192
>pdb|1JJO|E Chain E, Crystal Structure Of Mouse Neuroserpin (Cleaved Form)
pdb|1JJO|F Chain F, Crystal Structure Of Mouse Neuroserpin (Cleaved Form)
Length = 33
Score = 28.5 bits (62), Expect = 3.1, Method: Composition-based stats.
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 97 YPEIFGDHPFLYKIQTR 113
YP++ DHPFLY I+ R
Sbjct: 1 YPQVIVDHPFLYLIRNR 17
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 0.143 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,350,365
Number of Sequences: 62578
Number of extensions: 311984
Number of successful extensions: 742
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 720
Number of HSP's gapped (non-prelim): 20
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)