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= 006320
(650 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 50.4 bits (119), Expect = 3e-06, Method: Composition-based stats.
Identities = 37/125 (29%), Positives = 67/125 (53%), Gaps = 11/125 (8%)
Query: 348 LVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDEL 407
L R+L +VG +IG+ V+ ++ E G + +++ E+IIT++ GP + +
Sbjct: 5 LTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE--GNCPERIITLA---GPTNAI 59
Query: 408 FPAQEALL-----HIQTRIVDLGADKDNIITTRLLVPSSEIGCLEGRDG-SLSEMRRSTG 461
F A ++ I + + + A +T RL+VP+S+ G L G+ G + E+R STG
Sbjct: 60 FKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTG 119
Query: 462 ANIQI 466
A +Q+
Sbjct: 120 AQVQV 124
Score = 33.1 bits (74), Expect = 0.45, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 195 RMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNV 254
R+++ VG ++GK G+ +++MR E+ +I I S C E I+ + G N +
Sbjct: 8 RLLMHGKEVGSIIGKKGESVKKMREESGARINI-----SEGNC---PERIITLAGPTNAI 59
Query: 255 KNAVAIISSRLRE 267
A A+I +L E
Sbjct: 60 FKAFAMIIDKLEE 72
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 41/168 (24%), Positives = 67/168 (39%), Gaps = 31/168 (18%)
Query: 428 KDNIITTRLLVPSSEIGCLEGRDG-SLSEMRRSTGANIQILSREEVPACVSGTDELVQIV 486
K+ +T RLL+ E+G + G+ G S+ +MR +GA I I S P + ++ +
Sbjct: 1 KNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINI-SEGNCP------ERIITLA 53
Query: 487 GEIQAARDALVEVTTRLRSYLYRDFFQKETPPSSTGPTGSALVVEAAS------------ 534
G A A + +L + + +S P LVV A+
Sbjct: 54 GPTNAIFKAFAMIIDKLEEDISSSM--TNSTAASRPPVTLRLVVPASQCGSLIGKGGCKI 111
Query: 535 -PIDITPAREVQTVTDP-PAATHQSVQIPATSQPSKEAAGSVSETVKQ 580
I + +VQ D P +T +++ I Q S+ E VKQ
Sbjct: 112 KEIRESTGAQVQVAGDMLPNSTERAITIAGIPQ-------SIIECVKQ 152
Score = 30.8 bits (68), Expect = 2.8, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRI 227
V R+VV G L+GKGG I+++R T Q+++
Sbjct: 89 VTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQV 124
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 38.5 bits (88), Expect = 0.012, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 38/60 (63%), Gaps = 3/60 (5%)
Query: 355 PIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEAL 414
P D G +IG+ ++ +++E G +K+ +P++GS+++IITI+ G D++ AQ L
Sbjct: 21 PKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITIT---GTQDQIQNAQYLL 77
Score = 33.5 bits (75), Expect = 0.34, Method: Composition-based stats.
Identities = 18/76 (23%), Positives = 42/76 (55%), Gaps = 6/76 (7%)
Query: 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDI 251
+ T++ + + G ++GKGG+ I+Q+R E+ I+I D L + I+ + G
Sbjct: 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI---DEPLE---GSEDRIITITGTQ 67
Query: 252 NNVKNAVAIISSRLRE 267
+ ++NA ++ + +++
Sbjct: 68 DQIQNAQYLLQNSVKQ 83
>pdb|1ZZI|A Chain A, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZI|B Chain B, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZJ|A Chain A, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|B Chain B, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|C Chain C, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZK|A Chain A, Crystal Structure Of The Third Kh Domain Of Hnrnp K At
0.95a Resolution
Length = 82
Score = 38.5 bits (88), Expect = 0.013, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 38/60 (63%), Gaps = 3/60 (5%)
Query: 355 PIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEAL 414
P D G +IG+ ++ +++E G +K+ +P++GS+++IITI+ G D++ AQ L
Sbjct: 14 PKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITIT---GTQDQIQNAQYLL 70
Score = 33.5 bits (75), Expect = 0.37, Method: Composition-based stats.
Identities = 18/76 (23%), Positives = 42/76 (55%), Gaps = 6/76 (7%)
Query: 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDI 251
+ T++ + + G ++GKGG+ I+Q+R E+ I+I D L + I+ + G
Sbjct: 7 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKI---DEPLE---GSEDRIITITGTQ 60
Query: 252 NNVKNAVAIISSRLRE 267
+ ++NA ++ + +++
Sbjct: 61 DQIQNAQYLLQNSVKQ 76
>pdb|3KRM|A Chain A, Imp1 Kh34
pdb|3KRM|B Chain B, Imp1 Kh34
pdb|3KRM|C Chain C, Imp1 Kh34
Length = 163
Score = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 35/152 (23%), Positives = 72/152 (47%), Gaps = 8/152 (5%)
Query: 346 EDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADP-VDGSDEQIITISSEEGPD 404
E + ++ P VG +IG+ ++ L +K+A P S +++ I+ GP
Sbjct: 1 EQEMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIIT---GPP 57
Query: 405 DELFPAQEALLHIQTRIVDLGADKDNIITTRLLVPSSEIGCLEGRDG-SLSEMRRSTGAN 463
+ F AQ + G ++ + T + VP+S G + G+ G +++E++ T A
Sbjct: 58 EAQFKAQGRIYGKLKEENFFGPKEEVKLETHIRVPASAAGRVIGKGGKTVNELQNLTAAE 117
Query: 464 IQILSREEVPACVSGTDELVQIVGEIQAARDA 495
+ ++ R++ P +V+I+G A++ A
Sbjct: 118 V-VVPRDQTPD--ENDQVIVKIIGHFYASQMA 146
>pdb|2P2R|A Chain A, Crystal Structure Of The Third Kh Domain Of Human Poly(C)-
Binding Protein-2 In Complex With C-Rich Strand Of Human
Telomeric Dna
Length = 76
Score = 33.9 bits (76), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 37/71 (52%), Gaps = 6/71 (8%)
Query: 436 LLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARD 494
L +P+ IGC+ GR G+ ++E+R+ +GA I+I + E TD V I G +
Sbjct: 9 LTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVE-----GSTDRQVTITGSAASISL 63
Query: 495 ALVEVTTRLRS 505
A + RL S
Sbjct: 64 AQYLINVRLSS 74
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 28/47 (59%)
Query: 352 MLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITIS 398
+ P D +G +IG + ++ G +K+A+PV+GS ++ +TI+
Sbjct: 9 LTIPNDLIGCIIGRQGAKINEIRQXSGAQIKIANPVEGSTDRQVTIT 55
>pdb|1KHM|A Chain A, C-Terminal Kh Domain Of Hnrnp K (Kh3)
Length = 89
Score = 33.5 bits (75), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 40/67 (59%), Gaps = 3/67 (4%)
Query: 348 LVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDEL 407
+ ++ P D +IG+ ++ +++E G +K+ +P++GS+++IITI+ G D++
Sbjct: 14 ITTQVTIPKDLARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITIT---GTQDQI 70
Query: 408 FPAQEAL 414
AQ L
Sbjct: 71 QNAQYLL 77
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 41/76 (53%), Gaps = 6/76 (7%)
Query: 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDI 251
+ T++ + + ++GKGG+ I+Q+R E+ I+I D L + I+ + G
Sbjct: 14 ITTQVTIPKDLARSIIGKGGQRIKQIRHESGASIKI---DEPLE---GSEDRIITITGTQ 67
Query: 252 NNVKNAVAIISSRLRE 267
+ ++NA ++ + +++
Sbjct: 68 DQIQNAQYLLQNSVKQ 83
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 32.7 bits (73), Expect = 0.58, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 26/35 (74%), Gaps = 1/35 (2%)
Query: 433 TTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQI 466
T L +P++ IGC+ GR G+ ++E+R+ +GA I+I
Sbjct: 7 THELTIPNNLIGCIIGRQGANINEIRQMSGAQIKI 41
Score = 30.4 bits (67), Expect = 3.4, Method: Composition-based stats.
Identities = 14/54 (25%), Positives = 28/54 (51%)
Query: 345 GEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITIS 398
G + P + +G +IG + ++ G +K+A+PV+GS + +TI+
Sbjct: 3 GSQTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQVTIT 56
>pdb|3K1L|B Chain B, Crystal Structure Of Fancl
pdb|3K1L|A Chain A, Crystal Structure Of Fancl
Length = 381
Score = 32.3 bits (72), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 214 IEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLR 266
EQ +E K +L DHSLP CVS+ E + + G++ N + LR
Sbjct: 143 FEQHYLELKIP-SLLLLDHSLPDCVSLGEMLTKSAGNLEEALNLFRKLLEDLR 194
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 195 RMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNV 254
++++ G ++GKGG+ I Q++ ET I++ P +E + + G I +
Sbjct: 9 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYP---GTTERVCLIQGTIEAL 65
Query: 255 KNAVAIISSRLRE 267
I+ ++RE
Sbjct: 66 NAVHGFIAEKIRE 78
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 195 RMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNV 254
++++ G ++GKGG+ I Q++ ET I++ P +E + + G I +
Sbjct: 9 KVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYP---GTTERVCLIQGTIEAL 65
Query: 255 KNAVAIISSRLRE 267
I+ ++RE
Sbjct: 66 NAVHGFIAEKIRE 78
>pdb|1ZTG|A Chain A, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|B Chain B, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|C Chain C, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|D Chain D, Human Alpha Polyc Binding Protein Kh1
Length = 74
Score = 29.6 bits (65), Expect = 5.8, Method: Composition-based stats.
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 431 IITTRLLVPSSEIGCLEGRDG-SLSEMRRSTGANIQI 466
I+T RLL+ E+G + G+ G S+ +R +GA I I
Sbjct: 2 ILTIRLLMHGKEVGSIIGKKGESVKRIREESGARINI 38
>pdb|4A3V|A Chain A, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
pdb|4A3V|C Chain C, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
Length = 496
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 9/71 (12%)
Query: 562 ATSQPSKEAAGSVSETVKQNESERR-----EDVPTVINRVPLPLVTRSTLEVVLPDYAVP 616
A + PS++ V + Q E+E ED+ T++ + L LVT V LPD V
Sbjct: 2 AMADPSEKETNYVENLLTQLENELNEDNLPEDINTLLRKCSLNLVTV----VSLPDMDVK 57
Query: 617 KLITKSKTLLT 627
L+ K LT
Sbjct: 58 PLLATIKRFLT 68
>pdb|4A3T|A Chain A, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3
pdb|4A3T|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3
Length = 485
Score = 28.9 bits (63), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 9/71 (12%)
Query: 562 ATSQPSKEAAGSVSETVKQNESERR-----EDVPTVINRVPLPLVTRSTLEVVLPDYAVP 616
A + PS++ V + Q E+E ED+ T++ + L LVT V LPD V
Sbjct: 2 AMADPSEKETNYVENLLTQLENELNEDNLPEDINTLLRKCSLNLVTV----VSLPDMDVK 57
Query: 617 KLITKSKTLLT 627
L+ K LT
Sbjct: 58 PLLATIKRFLT 68
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein 1
Length = 92
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 22/33 (66%)
Query: 203 VGCLLGKGGKIIEQMRMETKTQIRILPRDHSLP 235
VG ++G+GG+ I +++ E+ +I+I P LP
Sbjct: 26 VGFIIGRGGEQISRIQQESGCKIQIAPDSGGLP 58
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 0.134 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,012,250
Number of Sequences: 62578
Number of extensions: 654682
Number of successful extensions: 1517
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1483
Number of HSP's gapped (non-prelim): 50
length of query: 650
length of database: 14,973,337
effective HSP length: 105
effective length of query: 545
effective length of database: 8,402,647
effective search space: 4579442615
effective search space used: 4579442615
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: 55 (25.8 bits)