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= 029469
(193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HZQ|A Chain A, Crystal Structure Of Human Apolipoprotein D (Apod) In
Complex With Progesterone
pdb|2HZR|A Chain A, Crystal Structure Of Human Apolipoprotein D (Apod)
Length = 174
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 71 FIPKEPYDVIATDYDNFALVSGAKDKS------FIQIYSRTPTPGPEFIEKYKSYLANFG 124
F P PY ++ATDY+N+ALV S F I +R PE ++ K+ L +
Sbjct: 90 FXPSAPYHILATDYENYALVYSCTSISQSFHVDFAWILARNVALPPETVDSLKNILTSNN 149
Query: 125 YDPNKIKDTPQ 135
D K T Q
Sbjct: 150 IDVKKXTVTDQ 160
>pdb|2WWP|A Chain A, Crystal Structure Of The Human Lipocalin-Type
Prostaglandin D Synthase Crystallised With The Substrate
Analog
9,11-Dideoxy-9alpha,11alpha-Epoxymethanoprostaglandin
F2alpha
pdb|2WWP|B Chain B, Crystal Structure Of The Human Lipocalin-Type
Prostaglandin D Synthase Crystallised With The Substrate
Analog
9,11-Dideoxy-9alpha,11alpha-Epoxymethanoprostaglandin
F2alpha
Length = 176
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 78 DVIATDYDNFALV--SGAK----DKSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNKIK 131
V+ TDYD +AL+ G+K D +YSRT TP E EK+ ++ G+ + I
Sbjct: 98 SVVETDYDQYALLYSQGSKGPGEDFRMATLYSRTQTPRAELKEKFTAFCKAQGFTEDTIV 157
Query: 132 DTPQ 135
PQ
Sbjct: 158 FLPQ 161
>pdb|3O19|A Chain A, Structure-Function Analysis Of Human L-Prostaglandin D
Synthase Bound With Fatty Acid
pdb|3O22|A Chain A, Structure-Function Analysis Of Human L-Prostaglandin D
Synthase Bound With Fatty Acid
pdb|3O2Y|A Chain A, Structure-Function Analysis Of Human L-Prostaglandin D
Synthase Bound With Fatty Acid
pdb|3O2Y|B Chain B, Structure-Function Analysis Of Human L-Prostaglandin D
Synthase Bound With Fatty Acid
Length = 162
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 78 DVIATDYDNFALV--SGAK----DKSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNKIK 131
V+ TDYD +AL+ G+K D +YSRT TP E EK+ ++ G+ + I
Sbjct: 91 SVVETDYDQYALLYSQGSKGPGEDFRMATLYSRTQTPRAELKEKFTAFCKAQGFTEDTIV 150
Query: 132 DTPQ 135
PQ
Sbjct: 151 FLPQ 154
>pdb|2XST|A Chain A, Crystal Structure Of The Human Lipocalin 15
Length = 161
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 40/83 (48%), Gaps = 8/83 (9%)
Query: 58 IKGKCYLRFPTLPFIPKEPYDVIATDYDNFALVSGAKD-----KSFIQIYSRTPTPGPEF 112
+ + + R P L ++ ++ TDY +FA++ K+ + +Q+YSRT P+
Sbjct: 77 VGSEGHFRVPALGYLDVR---IVDTDYSSFAVLYIYKELEGALSTMVQLYSRTQDVSPQA 133
Query: 113 IEKYKSYLANFGYDPNKIKDTPQ 135
++ ++ + G + + PQ
Sbjct: 134 LKSFQDFYPTLGLPKDMMVMLPQ 156
>pdb|3M62|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
pdb|3M63|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 968
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 14 AIQVDTFCVHGGPDGYITGIRGNVQC 39
A+Q++ FC++G YITGI NV
Sbjct: 108 ALQIENFCMNGAFINYITGIVSNVNS 133
>pdb|2QIZ|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 32.0 bits (71), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 14 AIQVDTFCVHGGPDGYITGIRGNVQC 39
A+Q++ FC++G YITGI NV
Sbjct: 122 ALQIENFCMNGAFINYITGIVSNVNS 147
>pdb|2QJ0|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 14 AIQVDTFCVHGGPDGYITGIRGNVQC 39
A+Q++ FC +G YITGI NV
Sbjct: 122 ALQIENFCXNGAFINYITGIVSNVNS 147
>pdb|3MBT|A Chain A, Structure Of Monomeric Blc From E. Coli
Length = 168
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 77 YDVIATDYD-NFALVSGAKDKSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNKIKDTPQ 135
Y+VIA D + ALVSG D+ ++ I SRTPT E ++ + G+D +K Q
Sbjct: 98 YNVIALDREYRHALVSGP-DRDYLWILSRTPTISDEVKQEMLAVATREGFDVSKFIWVQQ 156
Query: 136 DCEVISN 142
S+
Sbjct: 157 PGSAWSH 163
>pdb|3S26|A Chain A, Crystal Structure Of Murine Siderocalin (Lipocalin 2,
24p3)
Length = 190
Score = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 79 VIATDYDNFALV---SGAKDKSF--IQIYSRTPTPGPEFIEKYKSYLANFGY-DPNKIKD 132
V TDY+ FA+V +++K + I +Y RT PE E++ + + G D N I
Sbjct: 112 VATTDYNQFAMVFFRKTSENKQYFKITLYGRTKELSPELKERFTRFAKSLGLKDDNIIFS 171
Query: 133 TPQD 136
P D
Sbjct: 172 VPTD 175
>pdb|3EBK|A Chain A, Crystal Structure Of Major Allergens, Bla G 4 From
Cockroaches
pdb|3EBK|B Chain B, Crystal Structure Of Major Allergens, Bla G 4 From
Cockroaches
Length = 176
Score = 30.4 bits (67), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 76 PYDVIATDYDNFALVSG 92
PY V+ATDY+N+A+V G
Sbjct: 95 PYSVLATDYENYAIVEG 111
>pdb|2K23|A Chain A, Solution Structure Analysis Of The Rlcn2
Length = 178
Score = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 75 EPYDVIA--TDYDNFALV---SGAKDKSF--IQIYSRTPTPGPEFIEKYKSYLANFGYDP 127
+ YDV TDYD FA+V +++K + + +Y RT E E++ S+ + G
Sbjct: 104 QSYDVQVADTDYDQFAMVFFQKTSENKQYFKVTLYGRTKGLSDELKERFVSFAKSLGLKD 163
Query: 128 NKI 130
N I
Sbjct: 164 NNI 166
>pdb|1W9H|A Chain A, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus.
pdb|2BGG|A Chain A, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Sirna Duplex.
pdb|2BGG|B Chain B, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Sirna Duplex.
pdb|2W42|A Chain A, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Dna Duplex.
pdb|2W42|B Chain B, The Structure Of A Piwi Protein From Archaeoglobus
Fulgidus Complexed With A 16nt Dna Duplex
Length = 427
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 40/92 (43%), Gaps = 8/92 (8%)
Query: 5 VYTFDKEKPAIQVDTFCVHGGPDGYITGIRGNVQCLPEEELEKNVTDLEKQEMIKGKCYL 64
VY F K P V+ +H ++G R ++ + L++ V +L+KQEM+
Sbjct: 234 VYGFKKSNPDWDVEKLTLH------VSGKRPKMKDGETKILKETVEELKKQEMVSRDV-- 285
Query: 65 RFPTLPFIPKEPYDVIATDYDNFALVSGAKDK 96
++ L P+ V+ + F G K K
Sbjct: 286 KYAILHLNETHPFWVMGDPNNRFHPYEGTKVK 317
>pdb|2ACO|A Chain A, Xray Structure Of Blc Dimer In Complex With Vaccenic Acid
pdb|2ACO|B Chain B, Xray Structure Of Blc Dimer In Complex With Vaccenic Acid
Length = 173
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 77 YDVIATDYD-NFALVSGAKDKSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNKI 130
Y+VIA D + ALV G D+ ++ I SRTPT E ++ + G+D +K
Sbjct: 112 YNVIALDREYRHALVCGP-DRDYLWILSRTPTISDEVKQEMLAVATREGFDVSKF 165
>pdb|1EBD|A Chain A, Dihydrolipoamide Dehydrogenase Complexed With The
Binding Domain Of The Dihydrolipoamide Acetylase
pdb|1EBD|B Chain B, Dihydrolipoamide Dehydrogenase Complexed With The
Binding Domain Of The Dihydrolipoamide Acetylase
Length = 455
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 9/57 (15%)
Query: 14 AIQVDTFCVHGGPDGYITGIRGNVQCLPEEELEKNVTDLEKQEMIKGKCYLRFPTLP 70
AI+ +T V GP GY+ IR +L + VT +EK + G L +P
Sbjct: 1 AIETETLVVGAGPGGYVAAIRA-------AQLGQKVTIVEKGNL--GGVCLNVGCIP 48
>pdb|1QWD|A Chain A, Crystal Structure Of A Bacterial Lipocalin, The Blc Gene
Product From E. Coli
pdb|1QWD|B Chain B, Crystal Structure Of A Bacterial Lipocalin, The Blc Gene
Product From E. Coli
Length = 177
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 77 YDVIATDYD-NFALVSGAKDKSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNKI 130
Y+VIA D + ALV G D+ ++ I SRTPT E ++ + G+D +K
Sbjct: 116 YNVIALDREYRHALVCGP-DRDYLWILSRTPTISDEVKQEMLAVATREGFDVSKF 169
>pdb|1GKA|B Chain B, The Molecular Basis Of The Coloration Mechanism In Lobster
Shell. Beta-Crustacyanin At 3.2 A Resolution
Length = 174
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 7/77 (9%)
Query: 70 PFIPKEPYDVIATDYDNFALVSGA-----KDKSFIQIYSRTP-TPGPEFIEKYKSYLANF 123
P + PY+VI TDY+ ++ V F ++SRTP T GP +EK +
Sbjct: 96 PSVFAAPYEVIETDYETYSCVYSCITTDNYKSEFAFVFSRTPQTSGPA-VEKTAAVFNKN 154
Query: 124 GYDPNKIKDTPQDCEVI 140
G + +K E +
Sbjct: 155 GVEFSKFVPVSHTAECV 171
>pdb|2P23|A Chain A, Crystal Structure Of Human Fgf19
pdb|2P23|B Chain B, Crystal Structure Of Human Fgf19
Length = 194
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 23/84 (27%)
Query: 26 PDGYITGIRGNVQCLPEEELEKNVTDLEKQEMIKGKCYLRF----PTLPFIPKEPYDV-- 79
PDGY NV + L +++ +++++ K + +L P LP +P+EP D+
Sbjct: 106 PDGY------NVYRSEKHRLPVSLSSAKQRQLYKNRGFLPLSHFLPMLPMVPEEPEDLRG 159
Query: 80 ----------IATD-YDNFALVSG 92
+ TD D F LV+G
Sbjct: 160 HLESDMFSSPLETDSMDPFGLVTG 183
>pdb|1H91|A Chain A, The Crystal Structure Of Lobster Apocrustacyanin A1 Using
Softer X-Rays.
pdb|1H91|B Chain B, The Crystal Structure Of Lobster Apocrustacyanin A1 Using
Softer X-Rays.
pdb|1GKA|A Chain A, The Molecular Basis Of The Coloration Mechanism In Lobster
Shell. Beta-Crustacyanin At 3.2 A Resolution
pdb|1S44|A Chain A, The Structure And Refinement Of Apocrustacyanin C2 To 1.6a
Resolution And The Search For Differences Between This
Protein And The Homologous Apoproteins A1 And C1.
pdb|1S44|B Chain B, The Structure And Refinement Of Apocrustacyanin C2 To 1.6a
Resolution And The Search For Differences Between This
Protein And The Homologous Apoproteins A1 And C1
Length = 180
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 6/66 (9%)
Query: 76 PYDVIATDYDNFALVSGAKDKSFIQ------IYSRTPTPGPEFIEKYKSYLANFGYDPNK 129
P ++ TDY N+A + D +F I+SR+ ++++K ++ N D +
Sbjct: 103 PLVILETDYSNYACLYSCIDYNFGYHSDFSFIFSRSANLADQYVKKCEAAFKNINVDTTR 162
Query: 130 IKDTPQ 135
T Q
Sbjct: 163 FVKTVQ 168
>pdb|1I4U|A Chain A, The C1 Subunit Of Alpha-Crustacyanin
pdb|1I4U|B Chain B, The C1 Subunit Of Alpha-Crustacyanin
pdb|1OBQ|A Chain A, Apocrustacyanin C1 Crystals Grown In Space And Earth Using
Vapour Diffusion Geometry
pdb|1OBQ|B Chain B, Apocrustacyanin C1 Crystals Grown In Space And Earth Using
Vapour Diffusion Geometry
pdb|1OBU|A Chain A, Apocrustacyanin C1 Crystals Grown In Space And Earth Using
Vapour Diffusion Geometry
pdb|1OBU|B Chain B, Apocrustacyanin C1 Crystals Grown In Space And Earth Using
Vapour Diffusion Geometry
Length = 181
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 76 PYDVIATDYDNFALVSGAKD------KSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNK 129
P ++ TDY N+A + D F I+SR+ ++++K ++ N D +
Sbjct: 104 PLVILETDYSNYACLYSCIDYNFGYHSDFSFIFSRSANLADQYVKKCEAAFKNINVDTTR 163
Query: 130 IKDTPQ 135
T Q
Sbjct: 164 FVKTVQ 169
>pdb|1S2P|A Chain A, The Structure And Refinement Of Apocrustacyanin C2 To 1.3a
Resolution And The Search For Differences Between This
Protein And The Homologous Apoproteins A1 And C1
pdb|1S2P|B Chain B, The Structure And Refinement Of Apocrustacyanin C2 To 1.3a
Resolution And The Search For Differences Between This
Protein And The Homologous Apoproteins A1 And C1
Length = 181
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 76 PYDVIATDYDNFALVSGAKD------KSFIQIYSRTPTPGPEFIEKYKSYLANFGYDPNK 129
P ++ TDY N+A + D F I+SR+ ++++K ++ N D +
Sbjct: 104 PLVILETDYSNYACLYSCIDYNFGYHSDFSFIFSRSANLADQYVKKCEAAFKNINVDTTR 163
Query: 130 IKDTPQ 135
T Q
Sbjct: 164 FVKTVQ 169
>pdb|1W26|A Chain A, Trigger Factor In Complex With The Ribosome Forms A
Molecular Cradle For Nascent Proteins
pdb|1W26|B Chain B, Trigger Factor In Complex With The Ribosome Forms A
Molecular Cradle For Nascent Proteins
pdb|2VRH|A Chain A, Structure Of The E. Coli Trigger Factor Bound To A
Translating Ribosome
Length = 432
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%)
Query: 9 DKEKPAIQVDTFCVHGGPDGYITGIRGNVQCLPEEELEKNVTDLEKQEMIKG 60
++E P + + G DG + G+R V+ E EL+ + + K + I+G
Sbjct: 242 ERELPELTAEFIKRFGVEDGSVEGLRAEVRKNXERELKSAIRNRVKSQAIEG 293
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 0.140 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,097,351
Number of Sequences: 62578
Number of extensions: 253528
Number of successful extensions: 553
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 540
Number of HSP's gapped (non-prelim): 29
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
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)